Citrus Sinensis ID: 046221

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570--
Protein Sequence
PCIDPYNSSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGIIKIPGISFLNSTSRDFG
Secondary Structure (PSIPRED)
ccccccHHHHHHHHHHHcccHHHHHHHHcccccccccHHHHHHHHHHcccccHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHHccHHHHHccccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHHccccccEEEHHHHHHHHHHcccccHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHHccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHcHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHHcccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHccccHHHHHHHHHHHcHHcccccccccHHHHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEcccccc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHHHHcccHHHHHHHcccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEHHHHHHHHHHcHcHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEcccccc
Coil and Loop (DISEMBL)
pcidpynsskllsnYFKSGKIkeaenlfdeipeknvVSWSIVIHGYSINGFHEKSMKAFSHMmlsgllpnsfTMVGVLVAAAGLQNLELARSIHGLMVKFGLEsdlfeglknpylvSCNAIVAGFINNKLFQQAVLLFNFfrgsglvpnaVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYskcgdldssrsVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQektdsvdsITLVSILTASGELAALEICLQLHGiafeagfpryrSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYgygvnghgETALALYHKMtetgevpdsstYLSILNAcghagltndGLVIFNQMIeenkvkpsqehyGCVVDLLARagclsdasgLAGKLLEGMGPNIWRALLSGCVLHvgrfqdaealrsgsqkkgiikipgisflnstsrdfg
Flexible Loop (DISEMBL)
pcidpynsskllsnYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVGRFQDAEalrsgsqkkgiikipgisflnstsrdfg
Low Complexity Region (SEG)
PCIDPYNSSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGIIKIPGISFLNSTSRDFG
Disordered region (IsUnstruct)
***********LSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVGRFQDAEAL******KGIIKIPGISF*********
Disordered Region (DISOPRED)
PCIDPYNSSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGIIKIPGISFLNSTSRD**
Disordered Region (DISEMBL)
PCIDPYNSSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGIIKIPGISFLNSTSRDFG
Disordered Region (DISPRO)
*CIDPYNSSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGIIKIPGISFLNSTSR***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
PCIDPYNSSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGIIKIPGISFLNSTSRDFG
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	572	2.2.26 [Sep-21-2011]
Q9SVP7	1064	Pentatricopeptide repeat-	yes	no	0.935	0.502	0.328	1e-81
Q9SN39	871	Pentatricopeptide repeat-	no	no	0.931	0.611	0.314	5e-79
Q9SS60	882	Pentatricopeptide repeat-	no	no	0.972	0.630	0.306	3e-78
Q3E6Q1	809	Pentatricopeptide repeat-	no	no	0.919	0.650	0.316	2e-76
Q9SS97	660	Putative pentatricopeptid	no	no	0.912	0.790	0.310	1e-75
Q9SVA5	834	Pentatricopeptide repeat-	no	no	0.914	0.627	0.322	2e-74
Q9LYV3	822	Putative pentatricopeptid	no	no	0.910	0.633	0.310	9e-74
Q9S7F4	825	Putative pentatricopeptid	no	no	0.933	0.647	0.297	1e-73
O81767	823	Pentatricopeptide repeat-	no	no	0.956	0.664	0.299	1e-72
Q9M9E2	866	Pentatricopeptide repeat-	no	no	0.907	0.599	0.306	5e-72

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

 Score =  304 bits (778), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 185/563 (32%), Positives = 286/563 (50%), Gaps = 28/563 (4%)

Query: 4   DPYNSSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMM 63
           D Y  + L+S YF  G +  AE++F  + +++ V+++ +I+G S  G+ EK+M+ F  M 
Sbjct: 322 DTYVCNALVSLYFHLGNLISAEHIFSNMSQRDAVTYNTLINGLSQCGYGEKAMELFKRMH 381

Query: 64  LSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESD-LFEGLKNPYLVSCNAIV 122
           L GL P+S T+  ++VA +    L   + +H    K G  S+   EG        C  I 
Sbjct: 382 LDGLEPDSNTLASLVVACSADGTLFRGQQLHAYTTKLGFASNNKIEGALLNLYAKCADIE 441

Query: 123 AGF-------INNKLFQQAVLL-----------FNFFRG---SGLVPNAVTMLTVIRGCV 161
                     + N +    +L+           F  FR      +VPN  T  ++++ C+
Sbjct: 442 TALDYFLETEVENVVLWNVMLVAYGLLDDLRNSFRIFRQMQIEEIVPNQYTYPSILKTCI 501

Query: 162 ALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTR 221
            LG   L E IH   IK    L+  V + ++DMY+ L  LD A  I      KDV+SWT 
Sbjct: 502 RLGDLELGEQIHSQIIKTNFQLNAYVCSVLIDMYAKLGKLDTAWDILIRFAGKDVVSWTT 561

Query: 222 MMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGG 281
           M+  +  + +   AL  FR+M    I  D V L N +S  A L  LK G+Q+HAQ  + G
Sbjct: 562 MIAGYTQYNFDDKALTTFRQMLDRGIRSDEVGLTNAVSACAGLQALKEGQQIHAQACVSG 621

Query: 282 LQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFI 341
             S+L   N+++ +YS+CG ++ S   F Q      ++W A++SG+ Q+G   EAL  F+
Sbjct: 622 FSSDLPFQNALVTLYSRCGKIEESYLAFEQTEAGDNIAWNALVSGFQQSGNNEEALRVFV 681

Query: 342 KMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKC 401
           +M +E  D+ ++ T  S + A+ E A ++   Q+H +  + G+     V N LIS Y+KC
Sbjct: 682 RMNREGIDN-NNFTFGSAVKAASETANMKQGKQVHAVITKTGYDSETEVCNALISMYAKC 740

Query: 402 GNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSI 461
           G++  A   F E+   ++ VSWN II  Y  +G G  AL  + +M  +   P+  T + +
Sbjct: 741 GSISDAEKQFLEVS-TKNEVSWNAIINAYSKHGFGSEALDSFDQMIHSNVRPNHVTLVGV 799

Query: 462 LNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGM 521
           L+AC H GL + G+  F  M  E  + P  EHY CVVD+L RAG LS A     ++    
Sbjct: 800 LSACSHIGLVDKGIAYFESMNSEYGLSPKPEHYVCVVDMLTRAGLLSRAKEFIQEMPIKP 859

Query: 522 GPNIWRALLSGCVLH----VGRF 540
              +WR LLS CV+H    +G F
Sbjct: 860 DALVWRTLLSACVVHKNMEIGEF 882

Arabidopsis thaliana (taxid: 3702)

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

 Score =  295 bits (756), Expect = 5e-79,   Method: Compositional matrix adjust.
 Identities = 175/556 (31%), Positives = 301/556 (54%), Gaps = 23/556 (4%)

Query: 3   IDPYNSSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHM 62
           ID    SKL   Y   G +KEA  +FDE+  +  + W+I+++  + +G    S+  F  M
Sbjct: 127 IDSNLGSKLSLMYTNCGDLKEASRVFDEVKIEKALFWNILMNELAKSGDFSGSIGLFKKM 186

Query: 63  MLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGL-------------------- 102
           M SG+  +S+T   V  + + L+++     +HG ++K G                     
Sbjct: 187 MSSGVEMDSYTFSCVSKSFSSLRSVHGGEQLHGFILKSGFGERNSVGNSLVAFYLKNQRV 246

Query: 103 --ESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGC 160
                +F+ +    ++S N+I+ G+++N L ++ + +F     SG+  +  T+++V  GC
Sbjct: 247 DSARKVFDEMTERDVISWNSIINGYVSNGLAEKGLSVFVQMLVSGIEIDLATIVSVFAGC 306

Query: 161 VALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWT 220
                 +L   +H + +K     +    N++LDMYS   DLD+A  +FREM  + V+S+T
Sbjct: 307 ADSRLISLGRAVHSIGVKACFSREDRFCNTLLDMYSKCGDLDSAKAVFREMSDRSVVSYT 366

Query: 221 RMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLG 280
            M+  +     AG+A+K+F EM +  I  D   +  +++  A    L  GK++H  +   
Sbjct: 367 SMIAGYAREGLAGEAVKLFEEMEEEGISPDVYTVTAVLNCCARYRLLDEGKRVHEWIKEN 426

Query: 281 GLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQF 340
            L  ++ +SN+++ MY+KCG +  +  VF+++  K ++SW  II GY +N  A EAL+ F
Sbjct: 427 DLGFDIFVSNALMDMYAKCGSMQEAELVFSEMRVKDIISWNTIIGGYSKNCYANEALSLF 486

Query: 341 IKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSK 400
             + +EK  S D  T+  +L A   L+A +   ++HG     G+   R V N L+  Y+K
Sbjct: 487 NLLLEEKRFSPDERTVACVLPACASLSAFDKGREIHGYIMRNGYFSDRHVANSLVDMYAK 546

Query: 401 CGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLS 460
           CG + LA+++F+++   +D+VSW  +I GYG++G G+ A+AL+++M + G   D  +++S
Sbjct: 547 CGALLLAHMLFDDIA-SKDLVSWTVMIAGYGMHGFGKEAIALFNQMRQAGIEADEISFVS 605

Query: 461 ILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEG 520
           +L AC H+GL ++G   FN M  E K++P+ EHY C+VD+LAR G L  A      +   
Sbjct: 606 LLYACSHSGLVDEGWRFFNIMRHECKIEPTVEHYACIVDMLARTGDLIKAYRFIENMPIP 665

Query: 521 MGPNIWRALLSGCVLH 536
               IW ALL GC +H
Sbjct: 666 PDATIWGALLCGCRIH 681

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SS60|PP210_ARATH Pentatricopeptide repeat-containing protein At3g03580 OS=Arabidopsis thaliana GN=PCMP-H23 PE=2 SV=1

 Score =  293 bits (749), Expect = 3e-78,   Method: Compositional matrix adjust.
 Identities = 181/591 (30%), Positives = 311/591 (52%), Gaps = 35/591 (5%)

Query: 4   DPYNSSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMM 63
           D +  + L+  Y + G +  A  +FDE+P +++VSW+ +I GYS +G++E++++ +  + 
Sbjct: 140 DLFVGNALVDMYSRMGLLTRARQVFDEMPVRDLVSWNSLISGYSSHGYYEEALEIYHELK 199

Query: 64  LSGLLPNSFTMVGVLVAAAGLQNLELARSIHG-------------------LMVKFGLES 104
            S ++P+SFT+  VL A   L  ++  + +HG                   + +KF   +
Sbjct: 200 NSWIVPDSFTVSSVLPAFGNLLVVKQGQGLHGFALKSGVNSVVVVNNGLVAMYLKFRRPT 259

Query: 105 D---LFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCV 161
           D   +F+ +     VS N ++ G++  ++ +++V +F         P+ +T+ +V+R C 
Sbjct: 260 DARRVFDEMDVRDSVSYNTMICGYLKLEMVEESVRMF-LENLDQFKPDLLTVSSVLRACG 318

Query: 162 ALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTR 221
            L   +L + I+   +K G +L+ +V N ++D+Y+   D+  A  +F  MECKD +SW  
Sbjct: 319 HLRDLSLAKYIYNYMLKAGFVLESTVRNILIDVYAKCGDMITARDVFNSMECKDTVSWNS 378

Query: 222 MMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGG 281
           ++  ++      +A+K+F+ M       D +  L LISV+  L DLK GK LH+  +  G
Sbjct: 379 IISGYIQSGDLMEAMKLFKMMMIMEEQADHITYLMLISVSTRLADLKFGKGLHSNGIKSG 438

Query: 282 LQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFI 341
           +  +L +SN++I MY+KCG++  S  +F+ +     V+W  +IS  V+ G     L    
Sbjct: 439 ICIDLSVSNALIDMYAKCGEVGDSLKIFSSMGTGDTVTWNTVISACVRFGDFATGLQVTT 498

Query: 342 KMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKC 401
           +MR+ +    D  T +  L     LAA  +  ++H      G+     + N LI  YSKC
Sbjct: 499 QMRKSEV-VPDMATFLVTLPMCASLAAKRLGKEIHCCLLRFGYESELQIGNALIEMYSKC 557

Query: 402 GNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSI 461
           G ++ +  VFE M   RDVV+W  +IY YG+ G GE AL  +  M ++G VPDS  +++I
Sbjct: 558 GCLENSSRVFERMS-RRDVVTWTGMIYAYGMYGEGEKALETFADMEKSGIVPDSVVFIAI 616

Query: 462 LNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGM 521
           + AC H+GL ++GL  F +M    K+ P  EHY CVVDLL+R+  +S A      +    
Sbjct: 617 IYACSHSGLVDEGLACFEKMKTHYKIDPMIEHYACVVDLLSRSQKISKAEEFIQAMPIKP 676

Query: 522 GPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGIIKI----PGISFLNSTS 568
             +IW ++L  C    G  + AE +      + II++    PG S L S +
Sbjct: 677 DASIWASVLRACRTS-GDMETAERV-----SRRIIELNPDDPGYSILASNA 721

Arabidopsis thaliana (taxid: 3702)

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

 Score =  286 bits (733), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 174/550 (31%), Positives = 297/550 (54%), Gaps = 24/550 (4%)

Query: 9   SKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLL 68
           +KL+S + + G + EA  +F+ I  K  V +  ++ G++     +K+++ F  M    + 
Sbjct: 73  TKLVSLFCRYGSVDEAARVFEPIDSKLNVLYHTMLKGFAKVSDLDKALQFFVRMRYDDVE 132

Query: 69  PNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLF--EGLKNPY------------ 114
           P  +    +L        L + + IHGL+VK G   DLF   GL+N Y            
Sbjct: 133 PVVYNFTYLLKVCGDEAELRVGKEIHGLLVKSGFSLDLFAMTGLENMYAKCRQVNEARKV 192

Query: 115 --------LVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSR 166
                   LVS N IVAG+  N + + A+ +        L P+ +T+++V+    AL   
Sbjct: 193 FDRMPERDLVSWNTIVAGYSQNGMARMALEMVKSMCEENLKPSFITIVSVLPAVSALRLI 252

Query: 167 ALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLF 226
           ++ + IHG  ++ G    V+++ +++DMY+    L+ A Q+F  M  ++V+SW  M+  +
Sbjct: 253 SVGKEIHGYAMRSGFDSLVNISTALVDMYAKCGSLETARQLFDGMLERNVVSWNSMIDAY 312

Query: 227 VDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSEL 286
           V  E   +A+ IF++M    +    V+++  +   A LGDL+RG+ +H   V  GL   +
Sbjct: 313 VQNENPKEAMLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRFIHKLSVELGLDRNV 372

Query: 287 RLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQE 346
            + NS+I+MY KC ++D++ S+F ++  ++LVSW A+I G+ QNG   +ALN F +MR  
Sbjct: 373 SVVNSLISMYCKCKEVDTAASMFGKLQSRTLVSWNAMILGFAQNGRPIDALNYFSQMRS- 431

Query: 347 KTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDL 406
           +T   D+ T VS++TA  EL+       +HG+   +   +   V   L+  Y+KCG + +
Sbjct: 432 RTVKPDTFTYVSVITAIAELSITHHAKWIHGVVMRSCLDKNVFVTTALVDMYAKCGAIMI 491

Query: 407 AYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACG 466
           A ++F+ M   R V +WN +I GYG +G G+ AL L+ +M +    P+  T+LS+++AC 
Sbjct: 492 ARLIFDMMS-ERHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPNGVTFLSVISACS 550

Query: 467 HAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIW 526
           H+GL   GL  F  M E   ++ S +HYG +VDLL RAG L++A     ++      N++
Sbjct: 551 HSGLVEAGLKCFYMMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFIMQMPVKPAVNVY 610

Query: 527 RALLSGCVLH 536
            A+L  C +H
Sbjct: 611 GAMLGACQIH 620

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SS97|PP205_ARATH Putative pentatricopeptide repeat-containing protein At3g01580 OS=Arabidopsis thaliana GN=PCMP-E87 PE=3 SV=2

 Score =  284 bits (726), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 173/558 (31%), Positives = 291/558 (52%), Gaps = 36/558 (6%)

Query: 23  EAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAA 82
           +A  +F E+ ++++  W+ ++   S     E+ +  FSHM      P++FT+   L A  
Sbjct: 12  DARQMFGEMTKRSLYQWNTLLKSLSREKQWEEVLYHFSHMFRDEEKPDNFTLPVALKACG 71

Query: 83  GLQNLELARSIHGLMVK-FGLESDL----------------------FEGLKNPYLVSCN 119
            L+ +     IHG + K   L SDL                      F+ L+ P +V+ +
Sbjct: 72  ELREVNYGEMIHGFVKKDVTLGSDLYVGSSLIYMYIKCGRMIEALRMFDELEKPDIVTWS 131

Query: 120 AIVAGFINNKLFQQAVLLFNFFR----GSGLVPNAVTMLTVIRGCVALGSRALCELIHGL 175
           ++V+GF  N    QAV    FFR     S + P+ VT++T++  C  L +  L   +HG 
Sbjct: 132 SMVSGFEKNGSPYQAV---EFFRRMVMASDVTPDRVTLITLVSACTKLSNSRLGRCVHGF 188

Query: 176 TIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDA 235
            I+ G   D+S+ NS+L+ Y+       A+ +F+ +  KDVISW+ ++  +V    A +A
Sbjct: 189 VIRRGFSNDLSLVNSLLNCYAKSRAFKEAVNLFKMIAEKDVISWSTVIACYVQNGAAAEA 248

Query: 236 LKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAM 295
           L +F +M       +   +L ++   A   DL++G++ H   +  GL++E+++S +++ M
Sbjct: 249 LLVFNDMMDDGTEPNVATVLCVLQACAAAHDLEQGRKTHELAIRKGLETEVKVSTALVDM 308

Query: 296 YSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSIT 355
           Y KC   + + +VF++I  K +VSW A+ISG+  NG A  ++ +F  M  E     D+I 
Sbjct: 309 YMKCFSPEEAYAVFSRIPRKDVVSWVALISGFTLNGMAHRSIEEFSIMLLENNTRPDAIL 368

Query: 356 LVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMG 415
           +V +L +  EL  LE     H    + GF     +   L+  YS+CG++  A  VF  + 
Sbjct: 369 MVKVLGSCSELGFLEQAKCFHSYVIKYGFDSNPFIGASLVELYSRCGSLGNASKVFNGIA 428

Query: 416 FLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEV-PDSSTYLSILNACGHAGLTNDG 474
            L+D V W ++I GYG++G G  AL  ++ M ++ EV P+  T+LSIL+AC HAGL ++G
Sbjct: 429 -LKDTVVWTSLITGYGIHGKGTKALETFNHMVKSSEVKPNEVTFLSILSACSHAGLIHEG 487

Query: 475 LVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCV 534
           L IF  M+ + ++ P+ EHY  +VDLL R G L  A  +  ++     P I   LL  C 
Sbjct: 488 LRIFKLMVNDYRLAPNLEHYAVLVDLLGRVGDLDTAIEITKRMPFSPTPQILGTLLGACR 547

Query: 535 LHVGRFQDAEALRSGSQK 552
           +H    Q+ E   + ++K
Sbjct: 548 IH----QNGEMAETVAKK 561

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SVA5|PP357_ARATH Pentatricopeptide repeat-containing protein At4g39530 OS=Arabidopsis thaliana GN=PCMP-E52 PE=1 SV=1

 Score =  280 bits (717), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 180/559 (32%), Positives = 288/559 (51%), Gaps = 36/559 (6%)

Query: 4   DPYNSSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMM 63
           D Y  + L+  Y K G I  A  +FD +PEK+ V+W+ +I G    G    S++ F  +M
Sbjct: 182 DVYVGTLLIDFYLKDGNIDYARLVFDALPEKSTVTWTTMISGCVKMGRSYVSLQLFYQLM 241

Query: 64  LSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESD------------------ 105
              ++P+ + +  VL A + L  LE  + IH  ++++GLE D                  
Sbjct: 242 EDNVVPDGYILSTVLSACSILPFLEGGKQIHAHILRYGLEMDASLMNVLIDSYVKCGRVI 301

Query: 106 ----LFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCV 161
               LF G+ N  ++S   +++G+  N L ++A+ LF      GL P+     +++  C 
Sbjct: 302 AAHKLFNGMPNKNIISWTTLLSGYKQNALHKEAMELFTSMSKFGLKPDMYACSSILTSCA 361

Query: 162 ALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYS---CLMDLDAAIQIFREMECKDVIS 218
           +L +      +H  TIK  L  D  V NS++DMY+   CL D   A ++F      DV+ 
Sbjct: 362 SLHALGFGTQVHAYTIKANLGNDSYVTNSLIDMYAKCDCLTD---ARKVFDIFAAADVVL 418

Query: 219 WTRMM----GLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLH 274
           +  M+     L   +E   +AL IFR+MR   I    +  ++L+  +A L  L   KQ+H
Sbjct: 419 FNAMIEGYSRLGTQWELH-EALNIFRDMRFRLIRPSLLTFVSLLRASASLTSLGLSKQIH 477

Query: 275 AQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAR 334
             +   GL  ++   +++I +YS C  L  SR VF+++  K LV W ++ +GYVQ     
Sbjct: 478 GLMFKYGLNLDIFAGSALIDVYSNCYCLKDSRLVFDEMKVKDLVIWNSMFAGYVQQSENE 537

Query: 335 EALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCL 394
           EALN F+++ Q   +  D  T  +++TA+G LA++++  + H    + G      + N L
Sbjct: 538 EALNLFLEL-QLSRERPDEFTFANMVTAAGNLASVQLGQEFHCQLLKRGLECNPYITNAL 596

Query: 395 ISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD 454
           +  Y+KCG+ + A+  F+     RDVV WN++I  Y  +G G+ AL +  KM   G  P+
Sbjct: 597 LDMYAKCGSPEDAHKAFDSAAS-RDVVCWNSVISSYANHGEGKKALQMLEKMMSEGIEPN 655

Query: 455 SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLA 514
             T++ +L+AC HAGL  DGL  F  M+    ++P  EHY C+V LL RAG L+ A  L 
Sbjct: 656 YITFVGVLSACSHAGLVEDGLKQFELMLRFG-IEPETEHYVCMVSLLGRAGRLNKARELI 714

Query: 515 GKLLEGMGPNIWRALLSGC 533
            K+       +WR+LLSGC
Sbjct: 715 EKMPTKPAAIVWRSLLSGC 733

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LYV3|PP377_ARATH Putative pentatricopeptide repeat-containing protein At5g13230, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H89 PE=3 SV=1

 Score =  278 bits (711), Expect = 9e-74,   Method: Compositional matrix adjust.
 Identities = 173/557 (31%), Positives = 293/557 (52%), Gaps = 36/557 (6%)

Query: 2   CIDPYNSSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSH 61
           C+D + ++ LL+ Y K+G  K+A NLFDE+PE+N VS+  +  GY+     +  +  +S 
Sbjct: 81  CLDLFATNILLNAYVKAGFDKDALNLFDEMPERNNVSFVTLAQGYAC----QDPIGLYSR 136

Query: 62  MMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESD---------------- 105
           +   G   N       L     L   E+   +H  +VK G +S+                
Sbjct: 137 LHREGHELNPHVFTSFLKLFVSLDKAEICPWLHSPIVKLGYDSNAFVGAALINAYSVCGS 196

Query: 106 ------LFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRG 159
                 +FEG+    +V    IV+ ++ N  F+ ++ L +  R +G +PN  T  T ++ 
Sbjct: 197 VDSARTVFEGILCKDIVVWAGIVSCYVENGYFEDSLKLLSCMRMAGFMPNNYTFDTALKA 256

Query: 160 CVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISW 219
            + LG+    + +HG  +K   +LD  V   +L +Y+ L D+  A ++F EM   DV+ W
Sbjct: 257 SIGLGAFDFAKGVHGQILKTCYVLDPRVGVGLLQLYTQLGDMSDAFKVFNEMPKNDVVPW 316

Query: 220 TRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVL 279
           + M+  F    +  +A+ +F  MR++ ++ +   L ++++  AI      G+QLH  VV 
Sbjct: 317 SFMIARFCQNGFCNEAVDLFIRMREAFVVPNEFTLSSILNGCAIGKCSGLGEQLHGLVVK 376

Query: 280 GGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQ 339
            G   ++ +SN++I +Y+KC  +D++  +F +++ K+ VSW  +I GY   G   +A + 
Sbjct: 377 VGFDLDIYVSNALIDVYAKCEKMDTAVKLFAELSSKNEVSWNTVIVGYENLGEGGKAFSM 436

Query: 340 FIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYS 399
           F +  + +  SV  +T  S L A   LA++++ +Q+HG+A +    +  +V N LI  Y+
Sbjct: 437 FREALRNQV-SVTEVTFSSALGACASLASMDLGVQVHGLAIKTNNAKKVAVSNSLIDMYA 495

Query: 400 KCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYL 459
           KCG++  A  VF EM  + DV SWN +I GY  +G G  AL +   M +    P+  T+L
Sbjct: 496 KCGDIKFAQSVFNEMETI-DVASWNALISGYSTHGLGRQALRILDIMKDRDCKPNGLTFL 554

Query: 460 SILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE 519
            +L+ C +AGL + G   F  MI ++ ++P  EHY C+V LL R+G L  A     KL+E
Sbjct: 555 GVLSGCSNAGLIDQGQECFESMIRDHGIEPCLEHYTCMVRLLGRSGQLDKAM----KLIE 610

Query: 520 GMG--PN--IWRALLSG 532
           G+   P+  IWRA+LS 
Sbjct: 611 GIPYEPSVMIWRAMLSA 627

Arabidopsis thaliana (taxid: 3702)

>sp|Q9S7F4|PP206_ARATH Putative pentatricopeptide repeat-containing protein At2g01510 OS=Arabidopsis thaliana GN=PCMP-H36 PE=3 SV=1

 Score =  277 bits (709), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 167/562 (29%), Positives = 272/562 (48%), Gaps = 28/562 (4%)

Query: 1   PCIDPYNSSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFS 60
           P  +  +++ ++S + K+G +  A +LFD +P++ VV+W+I++  Y+ N   +++ K F 
Sbjct: 75  PHKNTVSTNTMISGHVKTGDVSSARDLFDAMPDRTVVTWTILMGWYARNSHFDEAFKLFR 134

Query: 61  HMMLSG--LLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESD------------- 105
            M  S    LP+  T   +L              +H   VK G +++             
Sbjct: 135 QMCRSSSCTLPDHVTFTTLLPGCNDAVPQNAVGQVHAFAVKLGFDTNPFLTVSNVLLKSY 194

Query: 106 -----------LFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTML 154
                      LFE +     V+ N ++ G+  + L+ +++ LF   R SG  P+  T  
Sbjct: 195 CEVRRLDLACVLFEEIPEKDSVTFNTLITGYEKDGLYTESIHLFLKMRQSGHQPSDFTFS 254

Query: 155 TVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECK 214
            V++  V L   AL + +H L++  G   D SV N +LD YS    +     +F EM   
Sbjct: 255 GVLKAVVGLHDFALGQQLHALSVTTGFSRDASVGNQILDFYSKHDRVLETRMLFDEMPEL 314

Query: 215 DVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLH 274
           D +S+  ++  +   +    +L  FREM+             ++S+ A L  L+ G+QLH
Sbjct: 315 DFVSYNVVISSYSQADQYEASLHFFREMQCMGFDRRNFPFATMLSIAANLSSLQMGRQLH 374

Query: 275 AQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAR 334
            Q +L    S L + NS++ MY+KC   + +  +F  + +++ VSWTA+ISGYVQ G   
Sbjct: 375 CQALLATADSILHVGNSLVDMYAKCEMFEEAELIFKSLPQRTTVSWTALISGYVQKGLHG 434

Query: 335 EALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCL 394
             L  F KMR       D  T  ++L AS   A+L +  QLH     +G        + L
Sbjct: 435 AGLKLFTKMRGSNL-RADQSTFATVLKASASFASLLLGKQLHAFIIRSGNLENVFSGSGL 493

Query: 395 ISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD 454
           +  Y+KCG++  A  VFEEM   R+ VSWN +I  +  NG GE A+  + KM E+G  PD
Sbjct: 494 VDMYAKCGSIKDAVQVFEEMP-DRNAVSWNALISAHADNGDGEAAIGAFAKMIESGLQPD 552

Query: 455 SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLA 514
           S + L +L AC H G    G   F  M     + P ++HY C++DLL R G  ++A  L 
Sbjct: 553 SVSILGVLTACSHCGFVEQGTEYFQAMSPIYGITPKKKHYACMLDLLGRNGRFAEAEKLM 612

Query: 515 GKLLEGMGPNIWRALLSGCVLH 536
            ++       +W ++L+ C +H
Sbjct: 613 DEMPFEPDEIMWSSVLNACRIH 634

Arabidopsis thaliana (taxid: 3702)

>sp|O81767|PP348_ARATH Pentatricopeptide repeat-containing protein At4g33990 OS=Arabidopsis thaliana GN=EMB2758 PE=3 SV=2

 Score =  275 bits (702), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 183/612 (29%), Positives = 307/612 (50%), Gaps = 65/612 (10%)

Query: 8   SSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLS-G 66
           S+KL++ Y   G +  A + FD I  ++V +W+++I GY   G   + ++ FS  MLS G
Sbjct: 89  SAKLVNLYCYLGNVALARHTFDHIQNRDVYAWNLMISGYGRAGNSSEVIRCFSLFMLSSG 148

Query: 67  LLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESD--------------------- 105
           L P+  T   VL A   + +      IH L +KFG   D                     
Sbjct: 149 LTPDYRTFPSVLKACRTVID---GNKIHCLALKFGFMWDVYVAASLIHLYSRYKAVGNAR 205

Query: 106 -LFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALG 164
            LF+ +    + S NA+++G+  +   ++A+ L N  R      ++VT+++++  C   G
Sbjct: 206 ILFDEMPVRDMGSWNAMISGYCQSGNAKEALTLSNGLRAM----DSVTVVSLLSACTEAG 261

Query: 165 SRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMG 224
                  IH  +IK GL  ++ V+N ++D+Y+    L    ++F  M  +D+ISW  ++ 
Sbjct: 262 DFNRGVTIHSYSIKHGLESELFVSNKLIDLYAEFGRLRDCQKVFDRMYVRDLISWNSIIK 321

Query: 225 LFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGG-LQ 283
            +   E    A+ +F+EMR SRI  D + L++L S+ + LGD++  + +    +  G   
Sbjct: 322 AYELNEQPLRAISLFQEMRLSRIQPDCLTLISLASILSQLGDIRACRSVQGFTLRKGWFL 381

Query: 284 SELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKM 343
            ++ + N+++ MY+K G +DS+R+VFN +    ++SW  IISGY QNG A EA+  +  M
Sbjct: 382 EDITIGNAVVVMYAKLGLVDSARAVFNWLPNTDVISWNTIISGYAQNGFASEAIEMYNIM 441

Query: 344 RQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGN 403
            +E   + +  T VS+L A  +  AL   ++LHG   + G      V   L   Y KCG 
Sbjct: 442 EEEGEIAANQGTWVSVLPACSQAGALRQGMKLHGRLLKNGLYLDVFVVTSLADMYGKCGR 501

Query: 404 VDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILN 463
           ++ A  +F ++  + + V WNT+I  +G +GHGE A+ L+ +M + G  PD  T++++L+
Sbjct: 502 LEDALSLFYQIPRV-NSVPWNTLIACHGFHGHGEKAVMLFKEMLDEGVKPDHITFVTLLS 560

Query: 464 ACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGP 523
           AC H+GL ++G   F  M  +  + PS +HYGC+VD+  RAG L  A      +      
Sbjct: 561 ACSHSGLVDEGQWCFEMMQTDYGITPSLKHYGCMVDMYGRAGQLETALKFIKSMSLQPDA 620

Query: 524 NIWRALLSGCVLH---------------------------------VGRFQDAEALRSGS 550
           +IW ALLS C +H                                  G+++  + +RS +
Sbjct: 621 SIWGALLSACRVHGNVDLGKIASEHLFEVEPEHVGYHVLLSNMYASAGKWEGVDEIRSIA 680

Query: 551 QKKGIIKIPGIS 562
             KG+ K PG S
Sbjct: 681 HGKGLRKTPGWS 692

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M9E2|PPR45_ARATH Pentatricopeptide repeat-containing protein At1g15510, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H73 PE=2 SV=1

 Score =  272 bits (696), Expect = 5e-72,   Method: Compositional matrix adjust.
 Identities = 169/551 (30%), Positives = 290/551 (52%), Gaps = 32/551 (5%)

Query: 11  LLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMM-LSGLLP 69
            L+ + + G + +A  +F ++ E+N+ SW++++ GY+  G+ +++M  +  M+ + G+ P
Sbjct: 135 FLAMFVRFGNLVDAWYVFGKMSERNLFSWNVLVGGYAKQGYFDEAMCLYHRMLWVGGVKP 194

Query: 70  NSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESD----------------------LF 107
           + +T   VL    G+ +L   + +H  +V++G E D                      LF
Sbjct: 195 DVYTFPCVLRTCGGIPDLARGKEVHVHVVRYGYELDIDVVNALITMYVKCGDVKSARLLF 254

Query: 108 EGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRA 167
           + +    ++S NA+++G+  N +  + + LF   RG  + P+ +T+ +VI  C  LG R 
Sbjct: 255 DRMPRRDIISWNAMISGYFENGMCHEGLELFFAMRGLSVDPDLMTLTSVISACELLGDRR 314

Query: 168 LCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFV 227
           L   IH   I  G  +D+SV NS+  MY        A ++F  ME KD++SWT M+  + 
Sbjct: 315 LGRDIHAYVITTGFAVDISVCNSLTQMYLNAGSWREAEKLFSRMERKDIVSWTTMISGY- 373

Query: 228 DFEYAGD-ALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSEL 286
           ++ +  D A+  +R M +  +  D + +  ++S  A LGDL  G +LH   +   L S +
Sbjct: 374 EYNFLPDKAIDTYRMMDQDSVKPDEITVAAVLSACATLGDLDTGVELHKLAIKARLISYV 433

Query: 287 RLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQE 346
            ++N++I MYSKC  +D +  +F+ I  K+++SWT+II+G   N    EAL   I +RQ 
Sbjct: 434 IVANNLINMYSKCKCIDKALDIFHNIPRKNVISWTSIIAGLRLNNRCFEAL---IFLRQM 490

Query: 347 K-TDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVD 405
           K T   ++ITL + L A   + AL    ++H      G      + N L+  Y +CG ++
Sbjct: 491 KMTLQPNAITLTAALAACARIGALMCGKEIHAHVLRTGVGLDDFLPNALLDMYVRCGRMN 550

Query: 406 LAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNAC 465
            A+  F      +DV SWN ++ GY   G G   + L+ +M ++   PD  T++S+L  C
Sbjct: 551 TAWSQFNSQK--KDVTSWNILLTGYSERGQGSMVVELFDRMVKSRVRPDEITFISLLCGC 608

Query: 466 GHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNI 525
             + +   GL+ F++M E+  V P+ +HY CVVDLL RAG L +A     K+     P +
Sbjct: 609 SKSQMVRQGLMYFSKM-EDYGVTPNLKHYACVVDLLGRAGELQEAHKFIQKMPVTPDPAV 667

Query: 526 WRALLSGCVLH 536
           W ALL+ C +H
Sbjct: 668 WGALLNACRIH 678

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	572
359474850	648	PREDICTED: pentatricopeptide repeat-cont	0.994	0.878	0.581	0.0
255587382	561	pentatricopeptide repeat-containing prot	0.879	0.896	0.541	1e-156
115441783	712	Os01g0913400 [Oryza sativa Japonica Grou	0.893	0.717	0.418	1e-116
125573080	597	hypothetical protein OsJ_04518 [Oryza sa	0.882	0.845	0.417	1e-114
449465002	926	PREDICTED: pentatricopeptide repeat-cont	0.916	0.565	0.34	3e-88
168044807	902	predicted protein [Physcomitrella patens	0.966	0.613	0.311	4e-88
328774753	1020	pentatricopeptide repeat protein 78 [Fun	0.965	0.541	0.302	3e-86
148909481	795	unknown [Picea sitchensis]	0.931	0.670	0.326	1e-85
359486639	1005	PREDICTED: pentatricopeptide repeat-cont	0.970	0.552	0.309	1e-83
224075493	820	predicted protein [Populus trichocarpa]	0.989	0.690	0.311	4e-83

>gi|359474850|ref|XP_002277741.2| PREDICTED: pentatricopeptide repeat-containing protein At4g13650-like [Vitis vinifera] gi|297744624|emb|CBI37886.3| unnamed protein product [Vitis vinifera]

 Score =  728 bits (1879), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 363/624 (58%), Positives = 452/624 (72%), Gaps = 55/624 (8%)

Query: 4   DPYNSSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMM 63
           DP N SKLLS Y KSG I  A  LF+EIP+++VVSWSI+IHGY+ NGF  KSM+ FS M 
Sbjct: 25  DPINYSKLLSCYLKSGDIINAGKLFEEIPKRDVVSWSIMIHGYNRNGFRRKSMELFSQMR 84

Query: 64  LSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESD------------------ 105
           +S L+P SFTMVGVLV+ AGL +  L + +HGL++K+GL+SD                  
Sbjct: 85  ISSLVPTSFTMVGVLVSIAGLGDPVLGQCVHGLILKYGLDSDFRVVTALLNAYAKCGNVV 144

Query: 106 ----LFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCV 161
               +FE L+NP LVSC+AIV+GF+ N+LF++AV+LFN FR  G+VPNA T+LT+IR CV
Sbjct: 145 DSYRVFEQLENPGLVSCSAIVSGFVYNELFEEAVVLFNQFRKLGMVPNAATVLTLIRACV 204

Query: 162 ALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTR 221
           AL SR LCE IHG+ +KL L+LDV+VNNSVLDMYS ++DLDAA ++F  MEC+DVISWT 
Sbjct: 205 ALESRRLCESIHGMVVKLSLVLDVAVNNSVLDMYSSMLDLDAATRVFEGMECRDVISWTT 264

Query: 222 MMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGG 281
           M+ L V  EYA DAL +FR+MR + I  D V ++NLIS  AILGDLKRG+++H Q ++ G
Sbjct: 265 MINLLVCLEYASDALMLFRQMRNTGICNDVVVVMNLISACAILGDLKRGREIHTQAIVCG 324

Query: 282 LQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFI 341
             SEL L+NSIIAMYSKCGDLDSSR+VF+Q T KSLVSWTA+I G VQNG  REAL   I
Sbjct: 325 FGSELPLTNSIIAMYSKCGDLDSSRTVFDQTTGKSLVSWTAMILGCVQNGYPREALKLLI 384

Query: 342 KMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKC 401
           KMR E++  +DSI L+ +L+ASGELA LE+C QLH  AFE+GFPRYR VQN LIS+YSKC
Sbjct: 385 KMRGEESFYLDSIMLIGVLSASGELALLELCQQLHCYAFESGFPRYRLVQNSLISAYSKC 444

Query: 402 GNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSI 461
           G+V+ AY VF +MG++RD+VSWN I+ GYG+NGHGE A+ALYH+M +  E PD++TYL +
Sbjct: 445 GDVEPAYNVFGQMGYIRDIVSWNAILNGYGINGHGEIAVALYHEMRKGRENPDAATYLCV 504

Query: 462 LNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGM 521
           L+AC H+GL +DGLVIFNQM+EE  ++PSQ+H GC+VDLLARAGC SDA     + +E M
Sbjct: 505 LSACSHSGLVDDGLVIFNQMVEERTIRPSQDHCGCIVDLLARAGCFSDAREFVSRYMEKM 564

Query: 522 GPNIWRALLSGCVLH---------------------------------VGRFQDAEALRS 548
           GPN WRALLSGC LH                                 VGRFQDAEALR+
Sbjct: 565 GPNAWRALLSGCQLHGNVGLAELAARRVCELDPEEPGQVVLLSNVYASVGRFQDAEALRA 624

Query: 549 GSQKKGIIKIPGISFLNSTSRDFG 572
             +KK +IK PGIS LN    D G
Sbjct: 625 SMKKKELIKNPGISLLNRIPYDVG 648

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255587382|ref|XP_002534254.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223525641|gb|EEF28132.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  556 bits (1434), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 305/563 (54%), Positives = 380/563 (67%), Gaps = 60/563 (10%)

Query: 65  SGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESD------------------- 105
           SGL PNSF++VG L++A GL +L LA SIHGL++K GL SD                   
Sbjct: 4   SGLAPNSFSVVGALLSAIGLCDLMLASSIHGLILKRGLVSDFIVGTAMLDAYAKCGNALE 63

Query: 106 ---LFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVA 162
              +F+ L N  L++CNA +AG I N L  +  +LF  FR  GLVPN  T+LT+I+GCVA
Sbjct: 64  SYKVFKELNNAGLITCNATLAGLIANGLCIEGFMLFKEFRKFGLVPNVATVLTLIKGCVA 123

Query: 163 LGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRM 222
           L  + LCE ++GL  K GL  DV+VNNSV++MYS   DL+AA ++F EM+ KDVISWT M
Sbjct: 124 LEIKMLCESVYGLIFKFGLSSDVNVNNSVVNMYSRFQDLNAAAKVFDEMKFKDVISWTTM 183

Query: 223 MGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGL 282
           M + +D E A DAL +  +M+ S +  D+V L++LIS  AILGDL +G+Q HAQ V+ G 
Sbjct: 184 MAVLIDLECASDALVLLSKMKDSMLDLDSVVLMHLISACAILGDLGKGRQCHAQAVIRGF 243

Query: 283 QSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIK 342
           +SEL L NSIIAMYSKCGDL  SR VF+Q TEKSLVSWTA++SG VQNGC+REAL+  IK
Sbjct: 244 KSELPLVNSIIAMYSKCGDLRFSRIVFDQTTEKSLVSWTAMVSGCVQNGCSREALDLAIK 303

Query: 343 MRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCG 402
            R E+  S DS+ LV+ LTAS EL   E C QLH    E GF +YR VQN LIS+YSKCG
Sbjct: 304 ARLEENYSFDSVMLVNALTASSELVDKEFCQQLHCYILETGFSQYRLVQNSLISAYSKCG 363

Query: 403 NVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSIL 462
           N+DLA+IVF+EM  L++VVSWN II GYG+NGHGE ALALYH+M + GE PDS+TY  IL
Sbjct: 364 NIDLAHIVFKEMDSLQNVVSWNAIINGYGINGHGEVALALYHEMRKGGEDPDSATYSCIL 423

Query: 463 NACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMG 522
           +AC HAGL  DGL+IFN+M+++NK++P Q+HYGCV+DLL RAGCLSD +    K LE   
Sbjct: 424 SACSHAGLIRDGLMIFNRMVKDNKIRPRQQHYGCVIDLLMRAGCLSDTNDW--KFLEDTC 481

Query: 523 PNIWRALLSGCVLH---------------------------------VGRFQDAEALRSG 549
           PN+W+ALLSGC LH                                 VGRFQDAE+LR  
Sbjct: 482 PNVWKALLSGCALHGNVELAELAAKYLLEKNPGESVVLVLLSNVYVSVGRFQDAESLR-- 539

Query: 550 SQKKGIIKIPGISFLNSTSRDFG 572
              KG +K PGIS+L  TS D G
Sbjct: 540 -LTKGFVKNPGISYLCGTSYDCG 561

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115441783|ref|NP_001045171.1| Os01g0913400 [Oryza sativa Japonica Group] gi|56784407|dbj|BAD82446.1| pentatricopeptide (PPR) repeat-containing protein-like [Oryza sativa Japonica Group] gi|113534702|dbj|BAF07085.1| Os01g0913400 [Oryza sativa Japonica Group]

 Score =  427 bits (1097), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 224/535 (41%), Positives = 336/535 (62%), Gaps = 24/535 (4%)

Query: 25  ENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGL 84
             +FDE+P +++V+ S  I+ ++ +G   ++++ F  MM  G+ PNSFT+VG L+AAAG+
Sbjct: 110 RQMFDEMPVRDLVACSAAIYRHAKSGLFGEAVRLFVGMMRVGVSPNSFTLVGALIAAAGM 169

Query: 85  QNLELARSIHGLMVKFGLESD----------------------LFEGLKNPYLVSCNAIV 122
            NL LA  IHG  +K  LES+                      LF  +++P +V+ NA++
Sbjct: 170 GNLVLAECIHGWAMKSLLESNPFVRTALLDSYAKCGRPTKAWALFGEMRDPGIVTWNALI 229

Query: 123 AGFINNKLFQQAVLLFNFFRGS-GLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGL 181
           +G ++N LF++A+L+F     S G V N VTM+++ +     G   LCE  H  ++K+GL
Sbjct: 230 SGLVHNDLFEEALLVFKRLLFSFGPVHNVVTMISIAQASAGCGDLGLCESAHAYSVKIGL 289

Query: 182 ILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFRE 241
             DVSV NS+L MY     L    +IF+++   DV+SWT MMG  ++   A + + +F +
Sbjct: 290 DSDVSVTNSILGMYLSFGSLAIGREIFKKIAVNDVVSWTMMMGFLLEEAQAIEVIHMFVQ 349

Query: 242 MRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGD 301
           MR S I+ D VAL+ +    A LGD + GK +H ++V+ G   EL   NS+I MYSKC D
Sbjct: 350 MRLSGIVPDRVALVTVAQACAHLGDGRIGKLVHNEIVICGFSGELPAVNSLITMYSKCED 409

Query: 302 LDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILT 361
           L S+R +F+   EKSLVSWTA++S Y++NG A E +  F KMR E +  +DS+TLV++L 
Sbjct: 410 LSSARLLFDGTMEKSLVSWTAMVSAYIENGYALEGMYLFAKMRHEGSFMIDSVTLVTLLL 469

Query: 362 ASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVV 421
           A  E+A  E+C+QLH   +++G   Y+ V N LI+ Y KCG   LA+ VF+EM   R+ V
Sbjct: 470 ACYEVAKFELCIQLHAYCYKSGLCLYKPVLNTLIAVYGKCGYATLAHKVFDEM-ISRNAV 528

Query: 422 SWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQM 481
           SWNT+I  YGVNG GE A++L+++M ++ E  DS TYL+ L AC H+GL +DG+++F +M
Sbjct: 529 SWNTMILSYGVNGQGEKAVSLFNEMEKSSEDQDSVTYLNTLLACSHSGLVDDGMLVFRRM 588

Query: 482 IEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLH 536
           + +  + P  EH GC+VD+LARAG L +A+G+A      +G N W+AL+ G  LH
Sbjct: 589 VNDKGIIPCPEHVGCIVDMLARAGRLEEAAGVASLTHNKLGANAWKALMGGGHLH 643

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125573080|gb|EAZ14595.1| hypothetical protein OsJ_04518 [Oryza sativa Japonica Group]

 Score =  418 bits (1075), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 221/529 (41%), Positives = 332/529 (62%), Gaps = 24/529 (4%)

Query: 31  IPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELA 90
           +P +++V+ S  I+ ++ +G   ++++ F  MM  G+ PNSFT+VG L+AAAG+ NL LA
Sbjct: 1   MPVRDLVACSAAIYRHAKSGLFGEAVRLFVGMMRVGVSPNSFTLVGALIAAAGMGNLVLA 60

Query: 91  RSIHGLMVKFGLESD----------------------LFEGLKNPYLVSCNAIVAGFINN 128
             IHG  +K  LES+                      LF  +++P +V+ NA+++G ++N
Sbjct: 61  ECIHGWAMKSLLESNPFVRTALLDSYAKCGRPTKAWALFGEMRDPGIVTWNALISGLVHN 120

Query: 129 KLFQQAVLLFNFFRGS-GLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSV 187
            LF++A+L+F     S G V N VTM+++ +     G   LCE  H  ++K+GL  DVSV
Sbjct: 121 DLFEEALLVFKRLLFSFGPVHNVVTMISIAQASAGCGDLGLCESAHAYSVKIGLDSDVSV 180

Query: 188 NNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRI 247
            NS+L MY     L    +IF+++   DV+SWT MMG  ++   A + + +F +MR S I
Sbjct: 181 TNSILGMYLSFGSLAIGREIFKKIAVNDVVSWTMMMGFLLEEAQAIEVIHMFVQMRLSGI 240

Query: 248 ICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRS 307
           + D VAL+ +    A LGD + GK +H ++V+ G   EL   NS+I MYSKC DL S+R 
Sbjct: 241 VPDRVALVTVAQACAHLGDGRIGKLVHNEIVICGFSGELPAVNSLITMYSKCEDLSSARL 300

Query: 308 VFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELA 367
           +F+   EKSLVSWTA++S Y++NG A E +  F KMR E +  +DS+TLV++L A  E+A
Sbjct: 301 LFDGTMEKSLVSWTAMVSAYIENGYALEGMYLFAKMRHEGSFMIDSVTLVTLLLACYEVA 360

Query: 368 ALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTII 427
             E+C+QLH   +++G   Y+ V N LI+ Y KCG   LA+ VF+EM   R+ VSWNT+I
Sbjct: 361 KFELCIQLHAYCYKSGLCLYKPVLNTLIAVYGKCGYATLAHKVFDEM-ISRNAVSWNTMI 419

Query: 428 YGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKV 487
             YGVNG GE A++L+++M ++ E  DS TYL+ L AC H+GL +DG+++F +M+ +  +
Sbjct: 420 LSYGVNGQGEKAVSLFNEMEKSSEDQDSVTYLNTLLACSHSGLVDDGMLVFRRMVNDKGI 479

Query: 488 KPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLH 536
            P  EH GC+VD+LARAG L +A+G+A      +G N W+AL+ G  LH
Sbjct: 480 IPCPEHVGCIVDMLARAGRLEEAAGVASLTHNKLGANAWKALMGGGHLH 528

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449465002|ref|XP_004150218.1| PREDICTED: pentatricopeptide repeat-containing protein At4g18750, chloroplastic-like [Cucumis sativus] gi|449500809|ref|XP_004161200.1| PREDICTED: pentatricopeptide repeat-containing protein At4g18750, chloroplastic-like [Cucumis sativus]

 Score =  332 bits (852), Expect = 3e-88,   Method: Compositional matrix adjust.
 Identities = 187/550 (34%), Positives = 308/550 (56%), Gaps = 26/550 (4%)

Query: 10  KLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLP 69
           KL+  Y K G +KE   +FD++ E  +  W+++I  YS +G + +S+  F  M+  G+ P
Sbjct: 190 KLVFMYVKCGDLKEGRMVFDKLSESKIFLWNLMISEYSGSGNYGESINLFKQMLELGIKP 249

Query: 70  NSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLES----------------------DLF 107
           NS+T   +L   A +  +E  R +HGL+ K G  S                       LF
Sbjct: 250 NSYTFSSILKCFAAVARVEEGRQVHGLICKLGFNSYNTVVNSLISFYFVGRKVRCAQKLF 309

Query: 108 EGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRA 167
           + L +  ++S N++++G++ N L  + + +F      G+  +  TM+ V   C  +G+  
Sbjct: 310 DELTDRDVISWNSMISGYVKNGLDDRGIEIFIKMLVFGVDIDLATMVNVFVACANIGTLL 369

Query: 168 LCELIHGLTIKLG-LILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLF 226
           L +++H  +IK   L  +V  NN++LDMYS   DL++AI++F  M+ K V+SWT M+  +
Sbjct: 370 LGKVLHSYSIKAATLDREVRFNNTLLDMYSKCGDLNSAIRVFERMDEKTVVSWTSMITGY 429

Query: 227 VDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSEL 286
           V    +  A+K+F EM+   ++ D  A+ ++++  AI G+LK GK +H  +    L++  
Sbjct: 430 VREGLSDGAIKLFDEMKSRGVVPDVYAVTSILNACAINGNLKSGKIVHDYIRENNLETNS 489

Query: 287 RLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQE 346
            +SN++  MY+KCG +  +  VF+ + +K ++SW  +I GY +N    EAL  F +M++E
Sbjct: 490 FVSNALTDMYAKCGSMKDAHDVFSHMKKKDVISWNTMIGGYTKNSLPNEALTLFAEMQRE 549

Query: 347 KTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDL 406
                D  T+  IL A   LAAL+   ++HG A   G+   + V N ++  Y KCG + L
Sbjct: 550 SKP--DGTTVACILPACASLAALDKGREIHGYALRNGYSEDKYVTNAVVDMYVKCGLLVL 607

Query: 407 AYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACG 466
           A  +F +M   +D+VSW  +I GYG++G+G  A+  +++M  TG  PD  +++SIL AC 
Sbjct: 608 ARSLF-DMIPNKDLVSWTVMIAGYGMHGYGSEAINTFNQMRMTGIEPDEVSFISILYACS 666

Query: 467 HAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIW 526
           H+GL ++G  IFN M +E +++P+ EHY C+VDLLAR G L  A      +       IW
Sbjct: 667 HSGLLDEGWKIFNIMKKECQIEPNLEHYACMVDLLARTGNLVKAHKFIKAMPIKPDATIW 726

Query: 527 RALLSGCVLH 536
            ALL GC +H
Sbjct: 727 GALLCGCRIH 736

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|168044807|ref|XP_001774871.1| predicted protein [Physcomitrella patens subsp. patens] gi|162673765|gb|EDQ60283.1| predicted protein [Physcomitrella patens subsp. patens]

 Score =  332 bits (850), Expect = 4e-88,   Method: Compositional matrix adjust.
 Identities = 190/610 (31%), Positives = 320/610 (52%), Gaps = 57/610 (9%)

Query: 11  LLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPN 70
           +L+ Y K G I+EA  +FD++ +K+VVSW+I I GY+  G  E + + F  M   G++PN
Sbjct: 167 ILNMYAKCGSIEEAREVFDKMEKKSVVSWTITIGGYADCGRSETAFEIFQKMEQEGVVPN 226

Query: 71  SFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESD----------------------LFE 108
             T + VL A +    L+  +++H  ++  G ESD                      +FE
Sbjct: 227 RITYISVLNAFSSPAALKWGKAVHSRILNAGHESDTAVGTALVKMYAKCGSYKDCRQVFE 286

Query: 109 GLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRAL 168
            L N  L++ N ++ G      +++A  ++N  +  G++PN +T + ++  CV   +   
Sbjct: 287 KLVNRDLIAWNTMIGGLAEGGYWEEASEVYNQMQREGVMPNKITYVILLNACVNSAALHW 346

Query: 169 CELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVD 228
            + IH    K G   D+ V N+++ MYS    +  A  +F +M  KDVISWT M+G    
Sbjct: 347 GKEIHSRVAKAGFTSDIGVQNALISMYSRCGSIKDARLVFDKMVRKDVISWTAMIGGLAK 406

Query: 229 FEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRL 288
             +  +AL +++EM+++ +  + V   ++++  +    L+ G+++H QVV  GL ++  +
Sbjct: 407 SGFGAEALTVYQEMQQAGVEPNRVTYTSILNACSSPAALEWGRRIHQQVVEAGLATDAHV 466

Query: 289 SNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKT 348
            N+++ MYS CG +  +R VF+++ ++ +V++ A+I GY  +   +EAL  F ++ QE+ 
Sbjct: 467 GNTLVNMYSMCGSVKDARQVFDRMIQRDIVAYNAMIGGYAAHNLGKEALKLFDRL-QEEG 525

Query: 349 DSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAY 408
              D +T +++L A     +LE   ++H +  + GF    SV N L+S+Y+KCG+   A 
Sbjct: 526 LKPDKVTYINMLNACANSGSLEWAREIHTLVRKGGFFSDTSVGNALVSTYAKCGSFSDAS 585

Query: 409 IVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHA 468
           IVFE+M   R+V+SWN II G   +G G+ AL L+ +M   G  PD  T++S+L+AC HA
Sbjct: 586 IVFEKMT-KRNVISWNAIIGGSAQHGRGQDALQLFERMKMEGVKPDIVTFVSLLSACSHA 644

Query: 469 GLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRA 528
           GL  +G   F  M ++  + P+ EHYGC+VDLL RAG L +A  L   +       IW A
Sbjct: 645 GLLEEGRRYFCSMSQDFAIIPTIEHYGCMVDLLGRAGQLDEAEALIKTMPFQANTRIWGA 704

Query: 529 LLSGCVLH---------------------------------VGRFQDAEALRSGSQKKGI 555
           LL  C +H                                  G +  A  LR   +++G+
Sbjct: 705 LLGACRIHGNVPVAERAAESSLKLDLDNAVVYVALSHMYAAAGMWDSAAKLRKLMEQRGV 764

Query: 556 IKIPGISFLN 565
            K PG S++ 
Sbjct: 765 TKEPGRSWIQ 774

Source: Physcomitrella patens subsp. patens

Species: Physcomitrella patens

Genus: Physcomitrella

Family: Funariaceae

Order: Funariales

Class: Bryopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|328774753|gb|AEB39776.1| pentatricopeptide repeat protein 78 [Funaria hygrometrica]

 Score =  325 bits (834), Expect = 3e-86,   Method: Compositional matrix adjust.
 Identities = 184/609 (30%), Positives = 319/609 (52%), Gaps = 57/609 (9%)

Query: 11  LLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPN 70
           +L+ Y K G I EA  +FD++  K+VVSW+I+I GY+  G  E + + F  M   G++PN
Sbjct: 285 ILNMYAKCGSIHEAREVFDKMETKSVVSWTIIIGGYADCGHSEIAFEIFQKMQQEGVVPN 344

Query: 71  SFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDL----------------------FE 108
             T + VL A +G   L+  +++H  ++  G ESDL                      FE
Sbjct: 345 RITYINVLNAFSGPAALKWGKTVHSHILNAGHESDLAVGTALVKMYAKCGSYKDCRQVFE 404

Query: 109 GLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRAL 168
            L N  L++ N ++ G      +++A  +++  +  G++PN +T + ++  CV   +   
Sbjct: 405 KLVNRDLIAWNTMIGGLAEGGNWEEASEIYHQMQREGMMPNKITYVILLNACVNPTALHW 464

Query: 169 CELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVD 228
              IH   +K G + D+SV N+++ MY+    +  A  +F +M  KD+ISWT M+G    
Sbjct: 465 GREIHSRVVKDGFMFDISVQNALISMYARCGSIKDARLLFNKMVRKDIISWTAMIGGLAK 524

Query: 229 FEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRL 288
                +AL +F++M+++ +  + V   ++++  +    L  G+++H QV+  GL ++  +
Sbjct: 525 SGLGAEALAVFQDMQQAGLKPNRVTYTSILNACSSPAALDWGRRIHQQVIEAGLATDAHV 584

Query: 289 SNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKT 348
           +N+++ MYS CG +  +R VF+++T++ +V++ A+I GY  +   +EAL  F ++ QE+ 
Sbjct: 585 ANTLVNMYSMCGSVKDARQVFDRMTQRDIVAYNAMIGGYAAHNLGKEALKLFDRL-QEEG 643

Query: 349 DSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAY 408
              D +T +++L A     +LE   ++H +  + G+    S+ N L+S+Y+KCG+   A 
Sbjct: 644 LKPDKVTYINMLNACANSGSLEWAKEIHSLVLKDGYLSDTSLGNALVSTYAKCGSFSDAL 703

Query: 409 IVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHA 468
           +VF++M   R+V+SWN II G   +G G+  L L+ +M   G  PD  T++S+L+AC HA
Sbjct: 704 LVFDKM-MKRNVISWNAIIGGCAQHGRGQDVLQLFERMKMEGIKPDIVTFVSLLSACSHA 762

Query: 469 GLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRA 528
           GL  +G   F  M  +  + P+ EHYGC+VDLL RAG L +   L   +       IW A
Sbjct: 763 GLLEEGRRYFCSMSRDFGITPTIEHYGCMVDLLGRAGQLDEVEALIKTMPFQANTRIWGA 822

Query: 529 LLSGCVLH---------------------------------VGRFQDAEALRSGSQKKGI 555
           LL  C +H                                  G +  A  LR   +++G+
Sbjct: 823 LLGACRIHGNVPVAERAAESSLKLDPDNAAVYVALSHMYAAAGMWDSAAKLRKLMEQRGV 882

Query: 556 IKIPGISFL 564
            K PG S++
Sbjct: 883 TKEPGRSWI 891

Source: Funaria hygrometrica

Species: Funaria hygrometrica

Genus: Funaria

Family: Funariaceae

Order: Funariales

Class: Bryopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  323 bits (829), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 193/591 (32%), Positives = 308/591 (52%), Gaps = 58/591 (9%)

Query: 35  NVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIH 94
           N V W   I GY  NGF  K+++ +  M  +G+ P+    + V+ A     +L+  R +H
Sbjct: 84  NAVVWKETIIGYVKNGFWNKALRLYYQMQRTGINPDKLVFLSVIKACGSQSDLQAGRKVH 143

Query: 95  GLMVKFGLESDL----------------------FEGLKNPYLVSCNAIVAGFINNKLFQ 132
             ++  G ESD+                      F+ +    +VS NAI+AG+  N    
Sbjct: 144 EDIIARGFESDVIVGTALASMYTKCGSLENARQVFDRMPKRDVVSWNAIIAGYSQNGQPY 203

Query: 133 QAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVL 192
           +A+ LF+  + +G+ PN+ T+++V+  C  L +    + IH   I+ G+  DV V N ++
Sbjct: 204 EALALFSEMQVNGIKPNSSTLVSVMPVCAHLLALEQGKQIHCYAIRSGIESDVLVVNGLV 263

Query: 193 DMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTV 252
           +MY+   +++ A ++F  M  +DV SW  ++G +       +AL  F  M+   I  +++
Sbjct: 264 NMYAKCGNVNTAHKLFERMPIRDVASWNAIIGGYSLNSQHHEALAFFNRMQVRGIKPNSI 323

Query: 253 ALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQI 312
            +++++   A L  L++G+Q+H   +  G +S   + N+++ MY+KCG+++S+  +F ++
Sbjct: 324 TMVSVLPACAHLFALEQGQQIHGYAIRSGFESNDVVGNALVNMYAKCGNVNSAYKLFERM 383

Query: 313 TEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEIC 372
            +K++V+W AIISGY Q+G   EAL  FI+M Q +    DS  +VS+L A     ALE  
Sbjct: 384 PKKNVVAWNAIISGYSQHGHPHEALALFIEM-QAQGIKPDSFAIVSVLPACAHFLALEQG 442

Query: 373 LQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGV 432
            Q+HG    +GF     V   L+  Y+KCGNV+ A  +FE M   +DVVSW T+I  YG+
Sbjct: 443 KQIHGYTIRSGFESNVVVGTGLVDIYAKCGNVNTAQKLFERMP-EQDVVSWTTMILAYGI 501

Query: 433 NGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQE 492
           +GHGE ALAL+ KM ETG   D   + +IL AC HAGL + GL  F  M  +  + P  E
Sbjct: 502 HGHGEDALALFSKMQETGTKLDHIAFTAILTACSHAGLVDQGLQYFQCMKSDYGLAPKLE 561

Query: 493 HYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVG-------------- 538
           HY C+VDLL RAG L +A+G+   +      N+W ALL  C +H                
Sbjct: 562 HYACLVDLLGRAGHLDEANGIIKNMSLEPDANVWGALLGACRIHCNIELGEQAAKHLFEL 621

Query: 539 -------------------RFQDAEALRSGSQKKGIIKIPGISFLNSTSRD 570
                              R++D   LR   ++KG+ K PG S + +  RD
Sbjct: 622 DPDNAGYYVLLSNIYAEAQRWEDVAKLRKMMKEKGVKKQPGCSVV-AVHRD 671

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486639|ref|XP_002284011.2| PREDICTED: pentatricopeptide repeat-containing protein At2g39620-like [Vitis vinifera]

 Score =  317 bits (812), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 190/613 (30%), Positives = 311/613 (50%), Gaps = 58/613 (9%)

Query: 8   SSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGL 67
           S+ L+  Y K G +  A  +FD++ +++ VSW  ++ GY+ NG   + ++ F  M L  +
Sbjct: 266 SNGLIDLYSKCGDVDVARRVFDQMVDQDDVSWGTMMAGYAHNGCFVEVLELFDKMKLGNV 325

Query: 68  LPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESD---------------------- 105
             N  + V   +AAA   +LE  + IHG  ++  ++SD                      
Sbjct: 326 RINKVSAVSAFLAAAETIDLEKGKEIHGCALQQRIDSDILVATPLMVMYAKCGETEKAKQ 385

Query: 106 LFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGS 165
           LF GL+   LV+ +AI+A  +     ++A+ LF   +   + PN VT+++++  C  L  
Sbjct: 386 LFWGLQGRDLVAWSAIIAALVQTGYPEEALSLFQEMQNQKMKPNRVTLMSILPACADLSL 445

Query: 166 RALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGL 225
             L + IH  T+K  +  D+S   +++ MY+      AA+  F  M  +D+++W  ++  
Sbjct: 446 LKLGKSIHCFTVKADMDSDLSTGTALVSMYAKCGFFTAALTTFNRMSSRDIVTWNSLING 505

Query: 226 FVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSE 285
           +       +A+ +F ++R S I  D   ++ ++   A+L DL +G  +H  +V  G +S+
Sbjct: 506 YAQIGDPYNAIDMFYKLRLSAINPDAGTMVGVVPACALLNDLDQGTCIHGLIVKLGFESD 565

Query: 286 LRLSNSIIAMYSKCGDLDSSRSVFNQIT-EKSLVSWTAIISGYVQNGCAREALNQFIKMR 344
             + N++I MY+KCG L S+  +FN+    K  V+W  II+ Y+QNG A+EA++ F +MR
Sbjct: 566 CHVKNALIDMYAKCGSLPSAEFLFNKTDFTKDEVTWNVIIAAYMQNGHAKEAISSFHQMR 625

Query: 345 QEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNV 404
            E     +S+T VS+L A+  LAA    +  H    + GF     V N LI  Y+KCG +
Sbjct: 626 LENFHP-NSVTFVSVLPAAAYLAAFREGMAFHACIIQMGFLSNTLVGNSLIDMYAKCGQL 684

Query: 405 DLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNA 464
           D +  +F EM   +D VSWN ++ GY V+GHG+ A+AL+  M E+    DS +++S+L+A
Sbjct: 685 DYSEKLFNEMDH-KDTVSWNAMLSGYAVHGHGDRAIALFSLMQESQVQIDSVSFVSVLSA 743

Query: 465 CGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPN 524
           C HAGL  +G  IF+ M ++  +KP  EHY C+VDLL RAG   +  G    +       
Sbjct: 744 CRHAGLVEEGRKIFHSMSDKYHIKPDLEHYACMVDLLGRAGLFDETLGFIKVMPVEPDAG 803

Query: 525 IWRALLSGCVLH---------------------------------VGRFQDAEALRSGSQ 551
           +W ALL  C +H                                  GR+ DA   RS   
Sbjct: 804 VWGALLGSCRMHSNVKLGEVALDHLVKLEPRNPAHFVVLSSIYAQSGRWADAGKARSKMN 863

Query: 552 KKGIIKIPGISFL 564
             G+ K PG S++
Sbjct: 864 DLGLKKTPGCSWV 876

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224075493|ref|XP_002304652.1| predicted protein [Populus trichocarpa] gi|222842084|gb|EEE79631.1| predicted protein [Populus trichocarpa]

 Score =  315 bits (807), Expect = 4e-83,   Method: Compositional matrix adjust.
 Identities = 194/623 (31%), Positives = 320/623 (51%), Gaps = 57/623 (9%)

Query: 2   CIDPYNSSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSH 61
           C+D + ++ LL+ Y K   + +A  LFDE+P++N VS+  +I GYS      +++  FS 
Sbjct: 76  CLDLFANNILLNFYVKYDSLPDAAKLFDEMPDRNTVSFVTLIQGYSQCLRFSEAIGLFSR 135

Query: 62  MMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESD---------------- 105
           +   G   N F    VL      +  +L  S+H  + K G +SD                
Sbjct: 136 LQGEGHELNPFVFSTVLKLLVSAEWAKLGFSVHACVYKLGFDSDAFVGTALIDCYSVCGY 195

Query: 106 ------LFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRG 159
                 +F+ ++   +VS   +VA ++ N+ F++++ LF+  R  G  PN  T  +V++ 
Sbjct: 196 AECARQVFDAIEYKDMVSWTGMVACYVENECFEESLKLFSRMRIVGFKPNNFTFASVLKA 255

Query: 160 CVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISW 219
           CV L    + + +HG   K   + ++ V   ++D+Y    D+D A+Q+F EM   DVI W
Sbjct: 256 CVGLEVFNVGKAVHGCAFKTSYLEELFVGVELIDLYIKSGDVDDALQVFEEMPKDDVIPW 315

Query: 220 TRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVL 279
           + M+  +   E + +A+++F  MR+  ++ +   L +L+   A L DL+ G Q+H  VV 
Sbjct: 316 SFMIARYAQSEQSEEAIEMFCRMRRGLVLPNQFTLASLLQACASLVDLQLGNQIHCHVVK 375

Query: 280 GGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQ 339
            GL   + +SN+++ MY+KCG +++S  +F++    + VSW  +I GYVQ G   +AL  
Sbjct: 376 VGLDMNVFVSNALMDMYAKCGRMENSLQLFSESPNCTDVSWNTVIVGYVQAGNGEKALIL 435

Query: 340 FIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYS 399
           F  M + +    + +T  S+L A   +AALE   Q+H ++ +  + +   V N LI  Y+
Sbjct: 436 FKDMLECQVQGTE-VTYSSVLRACAGIAALEPGSQIHSLSVKTIYDKNTVVGNALIDMYA 494

Query: 400 KCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYL 459
           KCGN+  A +VF +M    D VSWN +I GY V+G    AL  +  M ET   PD  T++
Sbjct: 495 KCGNIKDARLVF-DMLREHDQVSWNAMISGYSVHGLYGEALKTFESMLETECKPDKVTFV 553

Query: 460 SILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE 519
            IL+AC +AGL + G   F  M+EE  ++P  EHY C+V LL R+G L  A+ L  ++  
Sbjct: 554 GILSACSNAGLLDRGQAYFKSMVEEYDIEPCAEHYTCMVWLLGRSGHLDKAAKLVHEIPF 613

Query: 520 GMGPNIWRALLSGCVLH---------------------------------VGRFQDAEAL 546
                +WRALLS CV+H                                   R+ +  ++
Sbjct: 614 EPSVMVWRALLSACVIHNDVELGRISAQRVLEIEPEDEATHVLLSNIYANARRWGNVASI 673

Query: 547 RSGSQKKGIIKIPGISFLNSTSR 569
           R+  ++KGI K PG+S++ +  R
Sbjct: 674 RTSMKRKGIRKEPGLSWIENQGR 696

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	572
TAIR|locus:2119440	1064	AT4G13650 [Arabidopsis thalian	0.760	0.408	0.334	1.8e-77
TAIR|locus:2202074	809	CRR22 "CHLORORESPIRATORY REDUC	0.75	0.530	0.334	4.6e-76
TAIR|locus:2183931	822	AT5G13230 [Arabidopsis thalian	0.734	0.510	0.327	1.4e-74
TAIR|locus:2032840	937	AT1G16480 "AT1G16480" [Arabido	0.753	0.459	0.314	2.4e-74
TAIR|locus:2078653	825	AT3G02010 [Arabidopsis thalian	0.75	0.52	0.324	3.7e-72
TAIR|locus:2039817	836	AT2G39620 "AT2G39620" [Arabido	0.802	0.549	0.292	1.4e-70
TAIR|locus:2007116	787	AT1G69350 "AT1G69350" [Arabido	0.774	0.562	0.289	2.9e-70
TAIR|locus:2059687	736	AT2G17210 [Arabidopsis thalian	0.736	0.572	0.327	7.7e-70
TAIR|locus:2089333	654	AT3G16610 "AT3G16610" [Arabido	0.737	0.645	0.327	1.6e-69
TAIR|locus:2100392	706	AT3G47840 [Arabidopsis thalian	0.727	0.589	0.327	5.3e-69

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

 Score = 654 (235.3 bits), Expect = 1.8e-77, Sum P(2) = 1.8e-77
 Identities = 147/439 (33%), Positives = 232/439 (52%)

Query:    98 VKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVI 157
             ++  L+  L   ++N  L +   +  G +++   + +  +F   +   +VPN  T  +++
Sbjct:   440 IETALDYFLETEVENVVLWNVMLVAYGLLDD--LRNSFRIFRQMQIEEIVPNQYTYPSIL 497

Query:   158 RGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVI 217
             + C+ LG   L E IH   IK    L+  V + ++DMY+ L  LD A  I      KDV+
Sbjct:   498 KTCIRLGDLELGEQIHSQIIKTNFQLNAYVCSVLIDMYAKLGKLDTAWDILIRFAGKDVV 557

Query:   218 SWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQV 277
             SWT M+  +  + +   AL  FR+M    I  D V L N +S  A L  LK G+Q+HAQ 
Sbjct:   558 SWTTMIAGYTQYNFDDKALTTFRQMLDRGIRSDEVGLTNAVSACAGLQALKEGQQIHAQA 617

Query:   278 VLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREAL 337
              + G  S+L   N+++ +YS+CG ++ S   F Q      ++W A++SG+ Q+G   EAL
Sbjct:   618 CVSGFSSDLPFQNALVTLYSRCGKIEESYLAFEQTEAGDNIAWNALVSGFQQSGNNEEAL 677

Query:   338 NQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISS 397
               F++M +E  D+ ++ T  S + A+ E A ++   Q+H +  + G+     V N LIS 
Sbjct:   678 RVFVRMNREGIDN-NNFTFGSAVKAASETANMKQGKQVHAVITKTGYDSETEVCNALISM 736

Query:   398 YSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSST 457
             Y+KCG++  A   F E+   ++ VSWN II  Y  +G G  AL  + +M  +   P+  T
Sbjct:   737 YAKCGSISDAEKQFLEVS-TKNEVSWNAIINAYSKHGFGSEALDSFDQMIHSNVRPNHVT 795

Query:   458 YLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKL 517
              + +L+AC H GL + G+  F  M  E  + P  EHY CVVD+L RAG LS A     ++
Sbjct:   796 LVGVLSACSHIGLVDKGIAYFESMNSEYGLSPKPEHYVCVVDMLTRAGLLSRAKEFIQEM 855

Query:   518 LEGMGPNIWRALLSGCVLH 536
                    +WR LLS CV+H
Sbjct:   856 PIKPDALVWRTLLSACVVH 874

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 661 (237.7 bits), Expect = 4.6e-76, Sum P(2) = 4.6e-76
 Identities = 144/431 (33%), Positives = 247/431 (57%)

Query:   106 LFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGS 165
             +F+ +    LVS N IVAG+  N + + A+ +        L P+ +T+++V+    AL  
Sbjct:   192 VFDRMPERDLVSWNTIVAGYSQNGMARMALEMVKSMCEENLKPSFITIVSVLPAVSALRL 251

Query:   166 RALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGL 225
              ++ + IHG  ++ G    V+++ +++DMY+    L+ A Q+F  M  ++V+SW  M+  
Sbjct:   252 ISVGKEIHGYAMRSGFDSLVNISTALVDMYAKCGSLETARQLFDGMLERNVVSWNSMIDA 311

Query:   226 FVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSE 285
             +V  E   +A+ IF++M    +    V+++  +   A LGDL+RG+ +H   V  GL   
Sbjct:   312 YVQNENPKEAMLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRFIHKLSVELGLDRN 371

Query:   286 LRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQ 345
             + + NS+I+MY KC ++D++ S+F ++  ++LVSW A+I G+ QNG   +ALN F +MR 
Sbjct:   372 VSVVNSLISMYCKCKEVDTAASMFGKLQSRTLVSWNAMILGFAQNGRPIDALNYFSQMRS 431

Query:   346 EKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVD 405
              +T   D+ T VS++TA  EL+       +HG+   +   +   V   L+  Y+KCG + 
Sbjct:   432 -RTVKPDTFTYVSVITAIAELSITHHAKWIHGVVMRSCLDKNVFVTTALVDMYAKCGAIM 490

Query:   406 LAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNAC 465
             +A ++F+ M   R V +WN +I GYG +G G+ AL L+ +M +    P+  T+LS+++AC
Sbjct:   491 IARLIFDMMSE-RHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPNGVTFLSVISAC 549

Query:   466 GHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNI 525
              H+GL   GL  F  M E   ++ S +HYG +VDLL RAG L++A     ++      N+
Sbjct:   550 SHSGLVEAGLKCFYMMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFIMQMPVKPAVNV 609

Query:   526 WRALLSGCVLH 536
             + A+L  C +H
Sbjct:   610 YGAMLGACQIH 620

GO:0005739 "mitochondrion" evidence=ISM

GO:0004519 "endonuclease activity" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

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

TAIR|locus:2183931 AT5G13230 [Arabidopsis thaliana (taxid:3702)]

 Score = 627 (225.8 bits), Expect = 1.4e-74, Sum P(2) = 1.4e-74
 Identities = 141/430 (32%), Positives = 240/430 (55%)

Query:   106 LFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGS 165
             +FEG+    +V    IV+ ++ N  F+ ++ L +  R +G +PN  T  T ++  + LG+
Sbjct:   203 VFEGILCKDIVVWAGIVSCYVENGYFEDSLKLLSCMRMAGFMPNNYTFDTALKASIGLGA 262

Query:   166 RALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGL 225
                 + +HG  +K   +LD  V   +L +Y+ L D+  A ++F EM   DV+ W+ M+  
Sbjct:   263 FDFAKGVHGQILKTCYVLDPRVGVGLLQLYTQLGDMSDAFKVFNEMPKNDVVPWSFMIAR 322

Query:   226 FVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSE 285
             F    +  +A+ +F  MR++ ++ +   L ++++  AI      G+QLH  VV  G   +
Sbjct:   323 FCQNGFCNEAVDLFIRMREAFVVPNEFTLSSILNGCAIGKCSGLGEQLHGLVVKVGFDLD 382

Query:   286 LRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQ 345
             + +SN++I +Y+KC  +D++  +F +++ K+ VSW  +I GY   G   +A + F +  +
Sbjct:   383 IYVSNALIDVYAKCEKMDTAVKLFAELSSKNEVSWNTVIVGYENLGEGGKAFSMFREALR 442

Query:   346 EKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVD 405
              +  SV  +T  S L A   LA++++ +Q+HG+A +    +  +V N LI  Y+KCG++ 
Sbjct:   443 NQV-SVTEVTFSSALGACASLASMDLGVQVHGLAIKTNNAKKVAVSNSLIDMYAKCGDIK 501

Query:   406 LAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNAC 465
              A  VF EM  + DV SWN +I GY  +G G  AL +   M +    P+  T+L +L+ C
Sbjct:   502 FAQSVFNEMETI-DVASWNALISGYSTHGLGRQALRILDIMKDRDCKPNGLTFLGVLSGC 560

Query:   466 GHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMG--P 523
              +AGL + G   F  MI ++ ++P  EHY C+V LL R+G L  A     KL+EG+   P
Sbjct:   561 SNAGLIDQGQECFESMIRDHGIEPCLEHYTCMVRLLGRSGQLDKAM----KLIEGIPYEP 616

Query:   524 N--IWRALLS 531
             +  IWRA+LS
Sbjct:   617 SVMIWRAMLS 626

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2032840 AT1G16480 "AT1G16480" [Arabidopsis thaliana (taxid:3702)]

 Score = 631 (227.2 bits), Expect = 2.4e-74, Sum P(2) = 2.4e-74
 Identities = 138/439 (31%), Positives = 239/439 (54%)

Query:   102 LESDL-FEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGC 160
             +E++L F+ +    L+S N+++A F+N+     A+ L      SG   N VT  + +  C
Sbjct:   313 VEANLVFKQMPTKDLISWNSLMASFVNDGRSLDALGLLCSMISSGKSVNYVTFTSALAAC 372

Query:   161 VALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWT 220
                       ++HGL +  GL  +  + N+++ MY  + ++  + ++  +M  +DV++W 
Sbjct:   373 FTPDFFEKGRILHGLVVVSGLFYNQIIGNALVSMYGKIGEMSESRRVLLQMPRRDVVAWN 432

Query:   221 RMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDL-KRGKQLHAQVVL 279
              ++G + + E    AL  F+ MR   +  + + +++++S   + GDL +RGK LHA +V 
Sbjct:   433 ALIGGYAEDEDPDKALAAFQTMRVEGVSSNYITVVSVLSACLLPGDLLERGKPLHAYIVS 492

Query:   280 GGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQ 339
              G +S+  + NS+I MY+KCGDL SS+ +FN +  +++++W A+++    +G   E L  
Sbjct:   493 AGFESDEHVKNSLITMYAKCGDLSSSQDLFNGLDNRNIITWNAMLAANAHHGHGEEVLKL 552

Query:   340 FIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYS 399
               KMR     S+D  +    L+A+ +LA LE   QLHG+A + GF     + N     YS
Sbjct:   553 VSKMRSFGV-SLDQFSFSEGLSAAAKLAVLEEGQQLHGLAVKLGFEHDSFIFNAAADMYS 611

Query:   400 KCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYL 459
             KCG +    +        R + SWN +I   G +G+ E   A +H+M E G  P   T++
Sbjct:   612 KCGEIG-EVVKMLPPSVNRSLPSWNILISALGRHGYFEEVCATFHEMLEMGIKPGHVTFV 670

Query:   460 SILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE 519
             S+L AC H GL + GL  ++ +  +  ++P+ EH  CV+DLL R+G L++A     K+  
Sbjct:   671 SLLTACSHGGLVDKGLAYYDMIARDFGLEPAIEHCICVIDLLGRSGRLAEAETFISKM-- 728

Query:   520 GMGPN--IWRALLSGCVLH 536
              M PN  +WR+LL+ C +H
Sbjct:   729 PMKPNDLVWRSLLASCKIH 747

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2078653 AT3G02010 [Arabidopsis thaliana (taxid:3702)]

 Score = 605 (218.0 bits), Expect = 3.7e-72, Sum P(2) = 3.7e-72
 Identities = 140/431 (32%), Positives = 219/431 (50%)

Query:   106 LFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGS 165
             LFE +     V+ N ++ G+  + L+ +++ LF   R SG  P+  T   V++  V L  
Sbjct:   206 LFEEIPEKDSVTFNTLITGYEKDGLYTESIHLFLKMRQSGHQPSDFTFSGVLKAVVGLHD 265

Query:   166 RALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGL 225
              AL + +H L++  G   D SV N +LD YS    +     +F EM   D +S+  ++  
Sbjct:   266 FALGQQLHALSVTTGFSRDASVGNQILDFYSKHDRVLETRMLFDEMPELDFVSYNVVISS 325

Query:   226 FVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSE 285
             +   +    +L  FREM+             ++S+ A L  L+ G+QLH Q +L    S 
Sbjct:   326 YSQADQYEASLHFFREMQCMGFDRRNFPFATMLSIAANLSSLQMGRQLHCQALLATADSI 385

Query:   286 LRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQ 345
             L + NS++ MY+KC   + +  +F  + +++ VSWTA+ISGYVQ G     L  F KMR 
Sbjct:   386 LHVGNSLVDMYAKCEMFEEAELIFKSLPQRTTVSWTALISGYVQKGLHGAGLKLFTKMRG 445

Query:   346 EKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVD 405
                 + D  T  ++L AS   A+L +  QLH     +G        + L+  Y+KCG++ 
Sbjct:   446 SNLRA-DQSTFATVLKASASFASLLLGKQLHAFIIRSGNLENVFSGSGLVDMYAKCGSIK 504

Query:   406 LAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNAC 465
              A  VFEEM   R+ VSWN +I  +  NG GE A+  + KM E+G  PDS + L +L AC
Sbjct:   505 DAVQVFEEMPD-RNAVSWNALISAHADNGDGEAAIGAFAKMIESGLQPDSVSILGVLTAC 563

Query:   466 GHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNI 525
              H G    G   F  M     + P ++HY C++DLL R G  ++A  L  ++       +
Sbjct:   564 SHCGFVEQGTEYFQAMSPIYGITPKKKHYACMLDLLGRNGRFAEAEKLMDEMPFEPDEIM 623

Query:   526 WRALLSGCVLH 536
             W ++L+ C +H
Sbjct:   624 WSSVLNACRIH 634

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2039817 AT2G39620 "AT2G39620" [Arabidopsis thaliana (taxid:3702)]

 Score = 609 (219.4 bits), Expect = 1.4e-70, Sum P(2) = 1.4e-70
 Identities = 136/465 (29%), Positives = 251/465 (53%)

Query:    86 NLELARSIHGLMVKFG-LE--SDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFR 142
             ++ +A S+  +  K G LE    LF  +++  +VS +A++A +       +A+ LF    
Sbjct:   334 DVSVATSLMSMYSKCGELEIAEQLFINIEDRDVVSWSAMIASYEQAGQHDEAISLFRDMM 393

Query:   143 GSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLD 202
                + PNAVT+ +V++GC  + +  L + IH   IK  +  ++    +V+ MY+      
Sbjct:   394 RIHIKPNAVTLTSVLQGCAGVAASRLGKSIHCYAIKADIESELETATAVISMYAKCGRFS 453

Query:   203 AAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNA 262
              A++ F  +  KD +++  +   +     A  A  +++ M+   +  D+  ++ ++   A
Sbjct:   454 PALKAFERLPIKDAVAFNALAQGYTQIGDANKAFDVYKNMKLHGVCPDSRTMVGMLQTCA 513

Query:   263 ILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQIT-EKSLVSWT 321
                D  RG  ++ Q++  G  SE  +++++I M++KC  L ++  +F++   EKS VSW 
Sbjct:   514 FCSDYARGSCVYGQIIKHGFDSECHVAHALINMFTKCDALAAAIVLFDKCGFEKSTVSWN 573

Query:   322 AIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFE 381
              +++GY+ +G A EA+  F +M+ EK    +++T V+I+ A+ EL+AL + + +H    +
Sbjct:   574 IMMNGYLLHGQAEEAVATFRQMKVEKFQP-NAVTFVNIVRAAAELSALRVGMSVHSSLIQ 632

Query:   382 AGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALA 441
              GF     V N L+  Y+KCG ++ +   F E+   + +VSWNT++  Y  +G    A++
Sbjct:   633 CGFCSQTPVGNSLVDMYAKCGMIESSEKCFIEISN-KYIVSWNTMLSAYAAHGLASCAVS 691

Query:   442 LYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLL 501
             L+  M E    PDS ++LS+L+AC HAGL  +G  IF +M E +K++   EHY C+VDLL
Sbjct:   692 LFLSMQENELKPDSVSFLSVLSACRHAGLVEEGKRIFEEMGERHKIEAEVEHYACMVDLL 751

Query:   502 ARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVGRFQDAEAL 546
              +AG   +A  +  ++       +W ALL+   +H   +    AL
Sbjct:   752 GKAGLFGEAVEMMRRMRVKTSVGVWGALLNSSRMHCNLWLSNAAL 796

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2007116 AT1G69350 "AT1G69350" [Arabidopsis thaliana (taxid:3702)]

 Score = 569 (205.4 bits), Expect = 2.9e-70, Sum P(2) = 2.9e-70
 Identities = 131/452 (28%), Positives = 248/452 (54%)

Query:    89 LARSIHGLMVKFG--LESD-LFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSG 145
             L  S+  +  K G  L S+ +FE +     VS  A+++ +   +  ++A+  F+    SG
Sbjct:   239 LCNSLLTMYSKCGDLLSSERIFEKIAKKNAVSWTAMISSYNRGEFSEKALRSFSEMIKSG 298

Query:   146 LVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDV-SVNNSVLDMYSCLMDLDAA 204
             + PN VT+ +V+  C  +G     + +HG  ++  L  +  S++ +++++Y+    L   
Sbjct:   299 IEPNLVTLYSVLSSCGLIGLIREGKSVHGFAVRRELDPNYESLSLALVELYAECGKLSDC 358

Query:   205 IQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAIL 264
               + R +  +++++W  ++ L+        AL +FR+M   RI  D   L + IS     
Sbjct:   359 ETVLRVVSDRNIVAWNSLISLYAHRGMVIQALGLFRQMVTQRIKPDAFTLASSISACENA 418

Query:   265 GDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAII 324
             G +  GKQ+H  V+   +  E  + NS+I MYSK G +DS+ +VFNQI  +S+V+W +++
Sbjct:   419 GLVPLGKQIHGHVIRTDVSDEF-VQNSLIDMYSKSGSVDSASTVFNQIKHRSVVTWNSML 477

Query:   325 SGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGF 384
              G+ QNG + EA++ F  M     + ++ +T ++++ A   + +LE    +H     +G 
Sbjct:   478 CGFSQNGNSVEAISLFDYMYHSYLE-MNEVTFLAVIQACSSIGSLEKGKWVHHKLIISGL 536

Query:   385 PRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYH 444
              +       LI  Y+KCG+++ A  VF  M   R +VSW+++I  YG++G   +A++ ++
Sbjct:   537 -KDLFTDTALIDMYAKCGDLNAAETVFRAMSS-RSIVSWSSMINAYGMHGRIGSAISTFN 594

Query:   445 KMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARA 504
             +M E+G  P+   ++++L+ACGH+G   +G   FN M +   V P+ EH+ C +DLL+R+
Sbjct:   595 QMVESGTKPNEVVFMNVLSACGHSGSVEEGKYYFNLM-KSFGVSPNSEHFACFIDLLSRS 653

Query:   505 GCLSDASGLAGKLLEGMGPNIWRALLSGCVLH 536
             G L +A     ++      ++W +L++GC +H
Sbjct:   654 GDLKEAYRTIKEMPFLADASVWGSLVNGCRIH 685

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2059687 AT2G17210 [Arabidopsis thaliana (taxid:3702)]

 Score = 620 (223.3 bits), Expect = 7.7e-70, Sum P(2) = 7.7e-70
 Identities = 142/434 (32%), Positives = 244/434 (56%)

Query:   106 LFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFN-FFRGSGLVPNAVTMLTVIRGCVALG 164
             LF+ +    ++S + ++  ++ +K     + LF      +   P+ VT+ +V++ C  + 
Sbjct:   202 LFDEMSERDVISWSVVIRSYVQSKEPVVGLKLFKEMVHEAKTEPDCVTVTSVLKACTVME 261

Query:   165 SRALCELIHGLTIKLGLIL-DVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMM 223
                +   +HG +I+ G  L DV V NS++DMYS   D+D+A ++F E  C++++SW  ++
Sbjct:   262 DIDVGRSVHGFSIRRGFDLADVFVCNSLIDMYSKGFDVDSAFRVFDETTCRNIVSWNSIL 321

Query:   224 GLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQ 283
               FV  +   +AL++F  M +  +  D V +++L+ V          K +H  ++  G +
Sbjct:   322 AGFVHNQRYDEALEMFHLMVQEAVEVDEVTVVSLLRVCKFFEQPLPCKSIHGVIIRRGYE 381

Query:   284 S-ELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIK 342
             S E+ LS S+I  Y+ C  +D + +V + +T K +VS + +ISG    G + EA++ F  
Sbjct:   382 SNEVALS-SLIDAYTSCSLVDDAGTVLDSMTYKDVVSCSTMISGLAHAGRSDEAISIFCH 440

Query:   343 MRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFP-RYRSVQNCLISSYSKC 401
             MR    D+ ++IT++S+L A    A L      HGIA          SV   ++ +Y+KC
Sbjct:   441 MR----DTPNAITVISLLNACSVSADLRTSKWAHGIAIRRSLAINDISVGTSIVDAYAKC 496

Query:   402 GNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSI 461
             G +++A   F+++   ++++SW  II  Y +NG  + ALAL+ +M + G  P++ TYL+ 
Sbjct:   497 GAIEMARRTFDQITE-KNIISWTVIISAYAINGLPDKALALFDEMKQKGYTPNAVTYLAA 555

Query:   462 LNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGM 521
             L+AC H GL   GL+IF  M+EE+  KPS +HY C+VD+L+RAG +  A  L   L E +
Sbjct:   556 LSACNHGGLVKKGLMIFKSMVEEDH-KPSLQHYSCIVDMLSRAGEIDTAVELIKNLPEDV 614

Query:   522 --GPNIWRALLSGC 533
               G + W A+LSGC
Sbjct:   615 KAGASAWGAILSGC 628

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2089333 AT3G16610 "AT3G16610" [Arabidopsis thaliana (taxid:3702)]

 Score = 584 (210.6 bits), Expect = 1.6e-69, Sum P(2) = 1.6e-69
 Identities = 143/436 (32%), Positives = 237/436 (54%)

Query:   106 LFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLF-NFFRGSGLVPNAVTMLTVIRGCVALG 164
             +F+ +    +V+ NA+++GF  +      + LF +  R  GL PN  T++ +       G
Sbjct:   160 VFDEMPKRDMVAWNAMISGFSLHCCLTDVIGLFLDMRRIDGLSPNLSTIVGMFPALGRAG 219

Query:   165 SRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMG 224
             +    + +HG   ++G   D+ V   +LD+Y+    +  A ++F     K+ ++W+ M+G
Sbjct:   220 ALREGKAVHGYCTRMGFSNDLVVKTGILDVYAKSKCIIYARRVFDLDFKKNEVTWSAMIG 279

Query:   225 LFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAIL------GDLKRGKQLHAQVV 278
              +V+ E   +A ++F +M    ++ D VA++  +++  IL      GDL  G+ +H   V
Sbjct:   280 GYVENEMIKEAGEVFFQM----LVNDNVAMVTPVAIGLILMGCARFGDLSGGRCVHCYAV 335

Query:   279 LGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALN 338
               G   +L + N+II+ Y+K G L  +   F++I  K ++S+ ++I+G V N    E+  
Sbjct:   336 KAGFILDLTVQNTIISFYAKYGSLCDAFRQFSEIGLKDVISYNSLITGCVVNCRPEESFR 395

Query:   339 QFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSY 398
              F +MR       D  TL+ +LTA   LAAL      HG     G+    S+ N L+  Y
Sbjct:   396 LFHEMRTSGIRP-DITTLLGVLTACSHLAALGHGSSCHGYCVVHGYAVNTSICNALMDMY 454

Query:   399 SKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTY 458
             +KCG +D+A  VF+ M   RD+VSWNT+++G+G++G G+ AL+L++ M ETG  PD  T 
Sbjct:   455 TKCGKLDVAKRVFDTM-HKRDIVSWNTMLFGFGIHGLGKEALSLFNSMQETGVNPDEVTL 513

Query:   459 LSILNACGHAGLTNDGLVIFNQMIEEN-KVKPSQEHYGCVVDLLARAGCLSDASGLAGKL 517
             L+IL+AC H+GL ++G  +FN M   +  V P  +HY C+ DLLARAG L +A     K+
Sbjct:   514 LAILSACSHSGLVDEGKQLFNSMSRGDFNVIPRIDHYNCMTDLLARAGYLDEAYDFVNKM 573

Query:   518 LEGMGPNIWRALLSGC 533
                    +   LLS C
Sbjct:   574 PFEPDIRVLGTLLSAC 589

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0006302 "double-strand break repair" evidence=RCA

GO:0006312 "mitotic recombination" evidence=RCA

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0007129 "synapsis" evidence=RCA

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

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

GO:0045132 "meiotic chromosome segregation" evidence=RCA

TAIR|locus:2100392 AT3G47840 [Arabidopsis thaliana (taxid:3702)]

 Score = 605 (218.0 bits), Expect = 5.3e-69, Sum P(2) = 5.3e-69
 Identities = 137/418 (32%), Positives = 221/418 (52%)

Query:   116 VSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGL 175
             V+  AI+ G ++   +++ +  F+    S  + +  T    ++ C  L      + IH  
Sbjct:   175 VTWTAIITGLVHAGRYKEGLTYFSEMSRSEELSDTYTFAIALKACAGLRQVKYGKAIHTH 234

Query:   176 TIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDA 235
              I  G +  + V NS+  MY+   ++   + +F  M  +DV+SWT ++  +        A
Sbjct:   235 VIVRGFVTTLCVANSLATMYTECGEMQDGLCLFENMSERDVVSWTSLIVAYKRIGQEVKA 294

Query:   236 LKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAM 295
             ++ F +MR S++  +     ++ S  A L  L  G+QLH  V+  GL   L +SNS++ M
Sbjct:   295 VETFIKMRNSQVPPNEQTFASMFSACASLSRLVWGEQLHCNVLSLGLNDSLSVSNSMMKM 354

Query:   296 YSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSIT 355
             YS CG+L S+  +F  +  + ++SW+ II GY Q G   E    F  MRQ  T   D   
Sbjct:   355 YSTCGNLVSASVLFQGMRCRDIISWSTIIGGYCQAGFGEEGFKYFSWMRQSGTKPTD-FA 413

Query:   356 LVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMG 415
             L S+L+ SG +A +E   Q+H +A   G  +  +V++ LI+ YSKCG++  A ++F E  
Sbjct:   414 LASLLSVSGNMAVIEGGRQVHALALCFGLEQNSTVRSSLINMYSKCGSIKEASMIFGETD 473

Query:   416 FLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGL 475
                D+VS   +I GY  +G  + A+ L+ K  + G  PDS T++S+L AC H+G  + G 
Sbjct:   474 -RDDIVSLTAMINGYAEHGKSKEAIDLFEKSLKVGFRPDSVTFISVLTACTHSGQLDLGF 532

Query:   476 VIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGC 533
               FN M E   ++P++EHYGC+VDLL RAG LSDA  +  ++       +W  LL  C
Sbjct:   533 HYFNMMQETYNMRPAKEHYGCMVDLLCRAGRLSDAEKMINEMSWKKDDVVWTTLLIAC 590

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	572
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-106
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	9e-74
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-46
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	6e-36
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-26
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-22
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	6e-22
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-09
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-04
pfam01535	31	pfam01535, PPR, PPR repeat	0.003
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.004
pfam01535	31	pfam01535, PPR, PPR repeat	0.004

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

 Score =  338 bits (868), Expect = e-106
 Identities = 175/548 (31%), Positives = 294/548 (53%), Gaps = 26/548 (4%)

Query: 11  LLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPN 70
           +LS + + G++  A  +F ++PE+++ SW++++ GY+  G+ ++++  +  M+ +G+ P+
Sbjct: 127 MLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPD 186

Query: 71  SFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESD----------------------LFE 108
            +T   VL    G+ +L   R +H  +V+FG E D                      +F+
Sbjct: 187 VYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFD 246

Query: 109 GLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRAL 168
            +     +S NA+++G+  N    + + LF   R   + P+ +T+ +VI  C  LG   L
Sbjct: 247 RMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERL 306

Query: 169 CELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVD 228
              +HG  +K G  +DVSV NS++ MY  L     A ++F  ME KD +SWT M+  +  
Sbjct: 307 GREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEK 366

Query: 229 FEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRL 288
                 AL+ +  M +  +  D + + +++S  A LGDL  G +LH      GL S + +
Sbjct: 367 NGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVV 426

Query: 289 SNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKT 348
           +N++I MYSKC  +D +  VF+ I EK ++SWT+II+G   N    EAL  F +M    T
Sbjct: 427 ANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL--T 484

Query: 349 DSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAY 408
              +S+TL++ L+A   + AL    ++H      G      + N L+  Y +CG ++ A+
Sbjct: 485 LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAW 544

Query: 409 IVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHA 468
             F      +DVVSWN ++ GY  +G G  A+ L+++M E+G  PD  T++S+L AC  +
Sbjct: 545 NQFNSHE--KDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRS 602

Query: 469 GLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRA 528
           G+   GL  F+ M E+  + P+ +HY CVVDLL RAG L++A     K+     P +W A
Sbjct: 603 GMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGA 662

Query: 529 LLSGCVLH 536
           LL+ C +H
Sbjct: 663 LLNACRIH 670

Length = 857

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

 Score =  248 bits (635), Expect = 9e-74
 Identities = 134/430 (31%), Positives = 224/430 (52%), Gaps = 9/430 (2%)

Query: 131 FQQAVLLFNFFR-GSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNN 189
            ++A+ LF     G      A T   ++  C+AL S    + ++      G   D  + N
Sbjct: 103 HREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMN 162

Query: 190 SVLDMY-SCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRII 248
            VL M+  C M +DA  ++F EM  +++ SW  ++G  VD     +A  +FREM +    
Sbjct: 163 RVLLMHVKCGMLIDAR-RLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSD 221

Query: 249 CDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSV 308
            +    + ++  +A LG  + G+QLH  V+  G+  +  +S ++I MYSKCGD++ +R V
Sbjct: 222 AEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCV 281

Query: 309 FNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAA 368
           F+ + EK+ V+W ++++GY  +G + EAL  + +MR     S+D  T   ++     LA 
Sbjct: 282 FDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGV-SIDQFTFSIMIRIFSRLAL 340

Query: 369 LEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIY 428
           LE   Q H      GFP        L+  YSK G ++ A  VF+ M   ++++SWN +I 
Sbjct: 341 LEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP-RKNLISWNALIA 399

Query: 429 GYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVK 488
           GYG +G G  A+ ++ +M   G  P+  T+L++L+AC ++GL+  G  IF  M E +++K
Sbjct: 400 GYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIK 459

Query: 489 PSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLH----VGRFQDAE 544
           P   HY C+++LL R G L +A  +  +       N+W ALL+ C +H    +GR    +
Sbjct: 460 PRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEK 519

Query: 545 ALRSGSQKKG 554
               G +K  
Sbjct: 520 LYGMGPEKLN 529

Length = 697

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

 Score =  173 bits (441), Expect = 3e-46
 Identities = 108/362 (29%), Positives = 176/362 (48%), Gaps = 12/362 (3%)

Query: 119 NAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGC-----VALGSRALCELIH 173
           N+ +    ++   +QA+ L    +   +  +    + + R C     V  GSR  C    
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRV-CSRAL 113

Query: 174 GLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAG 233
                LG+ L     N++L M+    +L  A  +F +M  +D+ SW  ++G +    Y  
Sbjct: 114 SSHPSLGVRL----GNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFD 169

Query: 234 DALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSII 293
           +AL ++  M  + +  D      ++     + DL RG+++HA VV  G + ++ + N++I
Sbjct: 170 EALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALI 229

Query: 294 AMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDS 353
            MY KCGD+ S+R VF+++  +  +SW A+ISGY +NG   E L  F  MR+   D  D 
Sbjct: 230 TMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDP-DL 288

Query: 354 ITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEE 413
           +T+ S+++A   L    +  ++HG   + GF    SV N LI  Y   G+   A  VF  
Sbjct: 289 MTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSR 348

Query: 414 MGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTND 473
           M   +D VSW  +I GY  NG  + AL  Y  M +    PD  T  S+L+AC   G  + 
Sbjct: 349 MET-KDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDV 407

Query: 474 GL 475
           G+
Sbjct: 408 GV 409

Length = 857

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

 Score =  142 bits (360), Expect = 6e-36
 Identities = 81/309 (26%), Positives = 155/309 (50%), Gaps = 20/309 (6%)

Query: 57  KAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESD---LFEGLKNP 113
             + H+  SG  P+ + M  VL+                + VK G+  D   LF+ +   
Sbjct: 144 AVYWHVESSGFEPDQYMMNRVLL----------------MHVKCGMLIDARRLFDEMPER 187

Query: 114 YLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIH 173
            L S   I+ G ++   +++A  LF      G      T + ++R    LGS    + +H
Sbjct: 188 NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLH 247

Query: 174 GLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAG 233
              +K G++ D  V+ +++DMYS   D++ A  +F  M  K  ++W  M+  +    Y+ 
Sbjct: 248 CCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSE 307

Query: 234 DALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSII 293
           +AL ++ EMR S +  D      +I + + L  L+  KQ HA ++  G   ++  + +++
Sbjct: 308 EALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALV 367

Query: 294 AMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDS 353
            +YSK G ++ +R+VF+++  K+L+SW A+I+GY  +G   +A+  F +M  E   + + 
Sbjct: 368 DLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGV-APNH 426

Query: 354 ITLVSILTA 362
           +T +++L+A
Sbjct: 427 VTFLAVLSA 435

Length = 697

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

 Score =  114 bits (286), Expect = 2e-26
 Identities = 71/292 (24%), Positives = 135/292 (46%), Gaps = 22/292 (7%)

Query: 4   DPYNSSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMM 63
           D Y  +++L  + K G + +A  LFDE+PE+N+ SW  +I G    G + ++   F  M 
Sbjct: 157 DQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMW 216

Query: 64  LSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESD------------------ 105
             G      T V +L A+AGL +    + +H  ++K G+  D                  
Sbjct: 217 EDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIE 276

Query: 106 ----LFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCV 161
               +F+G+     V+ N+++AG+  +   ++A+ L+   R SG+  +  T   +IR   
Sbjct: 277 DARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFS 336

Query: 162 ALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTR 221
            L      +  H   I+ G  LD+  N +++D+YS    ++ A  +F  M  K++ISW  
Sbjct: 337 RLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNA 396

Query: 222 MMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQL 273
           ++  + +      A+++F  M    +  + V  L ++S     G  ++G ++
Sbjct: 397 LIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEI 448

Length = 697

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

 Score =  101 bits (252), Expect = 3e-22
 Identities = 85/313 (27%), Positives = 137/313 (43%), Gaps = 28/313 (8%)

Query: 234 DALKIFREMRKSRIICDTVALLNLISVNAILGDLKR----GKQLHAQVVLGGLQSELRLS 289
            ALK+   M++ R+  D  A + L      L + KR    G ++ ++ +       +RL 
Sbjct: 69  QALKLLESMQELRVPVDEDAYVALFR----LCEWKRAVEEGSRVCSRALSSHPSLGVRLG 124

Query: 290 NSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTD 349
           N++++M+ + G+L  +  VF ++ E+ L SW  ++ GY + G   EAL  + +M      
Sbjct: 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVR 184

Query: 350 SVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYI 409
             D  T   +L   G +  L    ++H      GF     V N LI+ Y KCG+V  A +
Sbjct: 185 P-DVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARL 243

Query: 410 VFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNAC---G 466
           VF+ M   RD +SWN +I GY  NG     L L+  M E    PD  T  S+++AC   G
Sbjct: 244 VFDRMP-RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLG 302

Query: 467 HAGLTND--GLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPN 524
              L  +  G V+      +  V         ++ +    G   +    A K+   M   
Sbjct: 303 DERLGREMHGYVVKTGFAVDVSV------CNSLIQMYLSLGSWGE----AEKVFSRMETK 352

Query: 525 ---IWRALLSGCV 534
               W A++SG  
Sbjct: 353 DAVSWTAMISGYE 365

Length = 857

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

 Score = 99.6 bits (248), Expect = 6e-22
 Identities = 50/181 (27%), Positives = 89/181 (49%), Gaps = 22/181 (12%)

Query: 2   CIDPYNSSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSH 61
             D + S  L+  Y K G I++A  +FD +PEK  V+W+ ++ GY+++G+ E+++  +  
Sbjct: 256 VGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYE 315

Query: 62  MMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDL--------------- 106
           M  SG+  + FT   ++   + L  LE A+  H  +++ G   D+               
Sbjct: 316 MRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGR 375

Query: 107 -------FEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRG 159
                  F+ +    L+S NA++AG+ N+    +AV +F      G+ PN VT L V+  
Sbjct: 376 MEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSA 435

Query: 160 C 160
           C
Sbjct: 436 C 436

Length = 697

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

 Score = 51.6 bits (125), Expect = 7e-09
 Identities = 18/47 (38%), Positives = 29/47 (61%)

Query: 419 DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNAC 465
           DVV++NT+I GY   G  E AL L+++M + G  P+  TY  +++  
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 51.0 bits (122), Expect = 1e-06
 Identities = 63/239 (26%), Positives = 108/239 (45%), Gaps = 18/239 (7%)

Query: 315 KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQ 374
           KS VS  + I   V  G  REAL  F  +      ++ + T  +++ A   L ++     
Sbjct: 85  KSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKA 144

Query: 375 LHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNG 434
           ++     +GF   + + N ++  + KCG +  A  +F+EM   R++ SW TII G    G
Sbjct: 145 VYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMP-ERNLASWGTIIGGLVDAG 203

Query: 435 HGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKP---SQ 491
           +   A AL+ +M E G   +  T++ +L A   AGL   G     Q +    +K      
Sbjct: 204 NYREAFALFREMWEDGSDAEPRTFVVMLRAS--AGL---GSARAGQQLHCCVLKTGVVGD 258

Query: 492 EHYGC-VVDLLARAGCLSDASGLAGKLLEGMGPNI---WRALLSGCVLHVGRFQDAEAL 546
               C ++D+ ++ G + DA      + +GM       W ++L+G  LH G  ++A  L
Sbjct: 259 TFVSCALIDMYSKCGDIEDAR----CVFDGMPEKTTVAWNSMLAGYALH-GYSEEALCL 312

Length = 697

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

 Score = 48.7 bits (116), Expect = 7e-06
 Identities = 32/116 (27%), Positives = 51/116 (43%), Gaps = 4/116 (3%)

Query: 394 LISSYSKCGNVDLAYIVFEEM---GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETG 450
           LIS+ +K G VD  + VF EM   G   +V ++  +I G    G    A   Y  M    
Sbjct: 478 LISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKN 537

Query: 451 EVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENK-VKPSQEHYGCVVDLLARAG 505
             PD   + ++++ACG +G  +    +  +M  E   + P     G ++   A AG
Sbjct: 538 VKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAG 593

Length = 1060

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

 Score = 42.8 bits (102), Expect = 8e-06
 Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 3/42 (7%)

Query: 392 NCLISSYSKCGNVDLAYIVFEEM---GFLRDVVSWNTIIYGY 430
           N LI  Y K G V+ A  +F EM   G   +V +++ +I G 
Sbjct: 7   NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 41.6 bits (99), Expect = 2e-05
 Identities = 14/40 (35%), Positives = 25/40 (62%)

Query: 34 KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFT 73
           +VV+++ +I GY   G  E+++K F+ M   G+ PN +T
Sbjct: 1  PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYT 40

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

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

 Score = 41.6 bits (99), Expect = 2e-05
 Identities = 19/50 (38%), Positives = 31/50 (62%), Gaps = 6/50 (12%)

Query: 1  PCIDPYNSSKLLSNYFKSGKIKEAENLFDEIPEK----NVVSWSIVIHGY 46
          P +  YN+  L+  Y K GK++EA  LF+E+ ++    NV ++SI+I G 
Sbjct: 1  PDVVTYNT--LIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 40.9 bits (97), Expect = 4e-05
 Identities = 13/45 (28%), Positives = 23/45 (51%)

Query: 116 VSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGC 160
           V+ N ++ G+      ++A+ LFN  +  G+ PN  T   +I G 
Sbjct: 4   VTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 40.1 bits (95), Expect = 4e-05
 Identities = 15/35 (42%), Positives = 20/35 (57%)

Query: 421 VSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS 455
           V++NT+I G    G  E AL L+ +M E G  PD 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 44.9 bits (106), Expect = 1e-04
 Identities = 54/248 (21%), Positives = 108/248 (43%), Gaps = 38/248 (15%)

Query: 257 LISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQIT--- 313
           L+SV A   D+    ++   V   GL+++ +L  ++I+  +K G +D+   VF+++    
Sbjct: 443 LMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAG 502

Query: 314 -EKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAAL--- 369
            E ++ ++ A+I G  + G   +A   +  MR +     D +   ++++A G+  A+   
Sbjct: 503 VEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKP-DRVVFNALISACGQSGAVDRA 561

Query: 370 -----EICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM------GFLR 418
                E+  + H I      P + +V   L+ + +  G VD A  V++ +      G   
Sbjct: 562 FDVLAEMKAETHPID-----PDHITV-GALMKACANAGQVDRAKEVYQMIHEYNIKGTPE 615

Query: 419 DVVSWNTIIYGYGVNGHGET-----ALALYHKMTETGEVPDSSTYLSILNACGHAGLTND 473
                   +Y   VN   +      AL++Y  M + G  PD   + ++++  GHAG  + 
Sbjct: 616 --------VYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDK 667

Query: 474 GLVIFNQM 481
              I    
Sbjct: 668 AFEILQDA 675

Length = 1060

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

 Score = 35.1 bits (82), Expect = 0.003
 Identities = 11/29 (37%), Positives = 20/29 (68%)

Query: 318 VSWTAIISGYVQNGCAREALNQFIKMRQE 346
           V++ ++ISGY + G   EAL  F +M+++
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEK 29

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

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

 Score = 34.7 bits (81), Expect = 0.004
 Identities = 9/35 (25%), Positives = 19/35 (54%)

Query: 37 VSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNS 71
          V+++ +I G    G  E++++ F  M   G+ P+ 
Sbjct: 1  VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 34.7 bits (81), Expect = 0.004
 Identities = 13/30 (43%), Positives = 19/30 (63%)

Query: 421 VSWNTIIYGYGVNGHGETALALYHKMTETG 450
           V++N++I GY   G  E AL L+ +M E G
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKG 30

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	572
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.97
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.95
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.94
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.92
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.91
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.9
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.89
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.88
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.87
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.86
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.86
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.86
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.86
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.84
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.84
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.84
PRK14574	822	hmsH outer membrane protein; Provisional	99.84
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.83
PRK14574	822	hmsH outer membrane protein; Provisional	99.81
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.81
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.77
KOG2003	840	consensus TPR repeat-containing protein [General f	99.74
KOG2076	895	consensus RNA polymerase III transcription factor	99.72
KOG2076	895	consensus RNA polymerase III transcription factor	99.72
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.7
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.7
KOG2003	840	consensus TPR repeat-containing protein [General f	99.68
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.65
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.63
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.62
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.6
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.58
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.58
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.58
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.58
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.57
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.56
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.56
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.55
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.55
KOG1126	638	consensus DNA-binding cell division cycle control	99.55
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.54
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.53
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.5
KOG1126	638	consensus DNA-binding cell division cycle control	99.48
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.47
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.45
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.44
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.42
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.41
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.41
PF13041	50	PPR_2: PPR repeat family	99.36
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.35
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.34
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.34
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.33
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.32
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.32
PF13041	50	PPR_2: PPR repeat family	99.32
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.32
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.32
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.28
PRK12370	553	invasion protein regulator; Provisional	99.26
KOG1129	478	consensus TPR repeat-containing protein [General f	99.25
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.23
PRK12370	553	invasion protein regulator; Provisional	99.22
KOG1129	478	consensus TPR repeat-containing protein [General f	99.2
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.2
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.18
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.18
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.16
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.13
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.11
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.1
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.09
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.07
PRK11189	296	lipoprotein NlpI; Provisional	99.05
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.04
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.03
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.98
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.97
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.96
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.95
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.94
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.93
PRK11189	296	lipoprotein NlpI; Provisional	98.92
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.92
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.89
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.87
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.86
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.8
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.77
KOG1125	579	consensus TPR repeat-containing protein [General f	98.72
PRK04841	903	transcriptional regulator MalT; Provisional	98.71
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.7
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.66
PF12854	34	PPR_1: PPR repeat	98.66
KOG1125	579	consensus TPR repeat-containing protein [General f	98.66
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.65
PRK04841	903	transcriptional regulator MalT; Provisional	98.64
PF12854	34	PPR_1: PPR repeat	98.63
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.61
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.56
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.56
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.53
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.51
PRK15359	144	type III secretion system chaperone protein SscB;	98.5
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.5
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.49
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.48
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.44
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.44
PRK15359	144	type III secretion system chaperone protein SscB;	98.43
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.42
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.42
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.4
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.38
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.38
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.37
PLN02789	320	farnesyltranstransferase	98.37
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	98.35
PLN02789	320	farnesyltranstransferase	98.33
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.31
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.23
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.22
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.22
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.19
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.19
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.18
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.18
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.16
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.16
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.16
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.14
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.11
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.1
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.05
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.04
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.99
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.99
KOG0553	304	consensus TPR repeat-containing protein [General f	97.96
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.89
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.86
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.84
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.83
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.83
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.83
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.82
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.81
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.81
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.8
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.78
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.77
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.76
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.76
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.75
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.74
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.73
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.69
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.67
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.64
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.63
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.59
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.59
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.59
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.54
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.53
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.51
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.5
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.5
PF12688	120	TPR_5: Tetratrico peptide repeat	97.46
KOG0553	304	consensus TPR repeat-containing protein [General f	97.43
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.43
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.41
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.4
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.39
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.35
PF12688	120	TPR_5: Tetratrico peptide repeat	97.34
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.32
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.32
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.3
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.26
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.2
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.18
PRK10803	263	tol-pal system protein YbgF; Provisional	97.17
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.15
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.15
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.1
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.04
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.97
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.97
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.95
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.95
PRK10803	263	tol-pal system protein YbgF; Provisional	96.93
PF13371	73	TPR_9: Tetratricopeptide repeat	96.93
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.92
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.88
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.88
PF13371	73	TPR_9: Tetratricopeptide repeat	96.79
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.77
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.76
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.71
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.68
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.54
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.53
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.52
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.46
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.45
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.37
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.36
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.31
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.25
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.17
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.13
PRK15331	165	chaperone protein SicA; Provisional	96.11
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.09
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.04
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.93
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.86
PRK15331	165	chaperone protein SicA; Provisional	95.85
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.84
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.82
KOG3941	406	consensus Intermediate in Toll signal transduction	95.8
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.73
KOG3941	406	consensus Intermediate in Toll signal transduction	95.71
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.67
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.67
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.59
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.53
PF13512	142	TPR_18: Tetratricopeptide repeat	95.53
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.49
KOG1585	308	consensus Protein required for fusion of vesicles	95.45
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.42
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.41
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.37
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.27
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.13
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.08
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.07
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.93
KOG4555	175	consensus TPR repeat-containing protein [Function	94.84
PRK11906	458	transcriptional regulator; Provisional	94.8
KOG4555	175	consensus TPR repeat-containing protein [Function	94.64
PF13428	44	TPR_14: Tetratricopeptide repeat	94.62
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.46
PF13512	142	TPR_18: Tetratricopeptide repeat	94.44
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.43
PF13428	44	TPR_14: Tetratricopeptide repeat	94.39
COG3898	531	Uncharacterized membrane-bound protein [Function u	94.19
KOG1258	577	consensus mRNA processing protein [RNA processing	94.07
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.99
PRK11906	458	transcriptional regulator; Provisional	93.83
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.68
KOG2610	491	consensus Uncharacterized conserved protein [Funct	93.53
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.44
COG4105	254	ComL DNA uptake lipoprotein [General function pred	93.08
smart00299	140	CLH Clathrin heavy chain repeat homology.	92.73
KOG1258	577	consensus mRNA processing protein [RNA processing	92.58
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	92.55
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	92.53
KOG1941	518	consensus Acetylcholine receptor-associated protei	92.5
KOG1586	288	consensus Protein required for fusion of vesicles	92.49
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	92.48
COG3629	280	DnrI DNA-binding transcriptional activator of the	92.45
COG3118	304	Thioredoxin domain-containing protein [Posttransla	92.4
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	92.36
COG3118	304	Thioredoxin domain-containing protein [Posttransla	92.33
KOG4570	418	consensus Uncharacterized conserved protein [Funct	92.33
COG3629	280	DnrI DNA-binding transcriptional activator of the	92.23
KOG1585	308	consensus Protein required for fusion of vesicles	92.22
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.18
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.15
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	92.1
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	92.1
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	92.0
PF13431	34	TPR_17: Tetratricopeptide repeat	91.95
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	91.92
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.88
PRK09687	280	putative lyase; Provisional	91.6
COG4105	254	ComL DNA uptake lipoprotein [General function pred	91.55
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	91.45
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.45
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.08
KOG4234	271	consensus TPR repeat-containing protein [General f	90.92
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	90.72
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	90.62
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	90.07
COG1747	711	Uncharacterized N-terminal domain of the transcrip	89.97
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	89.88
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	89.57
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	89.39
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	89.27
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	88.87
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	88.57
COG1747	711	Uncharacterized N-terminal domain of the transcrip	88.13
KOG4570	418	consensus Uncharacterized conserved protein [Funct	88.13
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	87.84
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	87.69
PF13431	34	TPR_17: Tetratricopeptide repeat	86.93
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	86.11
PRK11619	644	lytic murein transglycosylase; Provisional	86.07
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	86.0
PRK11619	644	lytic murein transglycosylase; Provisional	85.82
KOG4234	271	consensus TPR repeat-containing protein [General f	85.72
KOG4648	536	consensus Uncharacterized conserved protein, conta	85.55
KOG1550	552	consensus Extracellular protein SEL-1 and related	85.25
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	85.24
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	85.11
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	85.11
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	84.9
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	84.2
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	84.08
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	83.96
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	83.77
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	83.68
PF09670	379	Cas_Cas02710: CRISPR-associated protein (Cas_Cas02	83.55
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	83.38
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	83.31
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	83.28
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	83.26
PRK09687	280	putative lyase; Provisional	82.99
COG4455	273	ImpE Protein of avirulence locus involved in tempe	82.17
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	82.08
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	82.03
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	81.63
COG0457	291	NrfG FOG: TPR repeat [General function prediction	81.3
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	81.06
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	81.05
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	80.97
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	80.89
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	80.66
PHA02875	413	ankyrin repeat protein; Provisional	80.3
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	80.09
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	80.03

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.2e-87  Score=703.79  Aligned_cols=567  Identities=32%  Similarity=0.599  Sum_probs=553.2

Q ss_pred             CCCCCcchhhHHHHHhhcCChhhHHHHhccCCCCChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHH
Q 046221            1 PCIDPYNSSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVA   80 (572)
Q Consensus         1 p~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~   80 (572)
                      |.++..++|.|+..|++.|+++.|.++|++|++||..+||++|.+|++.|++++|+++|++|...|+.||..||+.++.+
T Consensus       117 ~~~~~~~~n~li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~  196 (857)
T PLN03077        117 PSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRT  196 (857)
T ss_pred             CCCCchHHHHHHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHH
Confidence            45788899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HcCCCChHHHHHHHHHHHHhcCCCCc----------------------ccCCCCCCceeHHHHHHHHHhCCChHHHHHHH
Q 046221           81 AAGLQNLELARSIHGLMVKFGLESDL----------------------FEGLKNPYLVSCNAIVAGFINNKLFQQAVLLF  138 (572)
Q Consensus        81 ~~~~g~~~~a~~~~~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  138 (572)
                      |+..++++.+.+++..+.+.|..++.                      |+.++.||+.+||++|.+|++.|++++|+++|
T Consensus       197 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf  276 (857)
T PLN03077        197 CGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELF  276 (857)
T ss_pred             hCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHH
Confidence            99999999999999999999988775                      88999999999999999999999999999999


Q ss_pred             HHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCccc
Q 046221          139 NFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVIS  218 (572)
Q Consensus       139 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  218 (572)
                      ++|.+.|+.||..||+.++.+|++.|+.+.+.+++..|.+.|+.||..+|++|+.+|++.|++++|.++|++|..||..+
T Consensus       277 ~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s  356 (857)
T PLN03077        277 FTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVS  356 (857)
T ss_pred             HHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeee
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHh
Q 046221          219 WTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSK  298 (572)
Q Consensus       219 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  298 (572)
                      |+.+|.+|.+.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.|+.|+..+++.|+.+|++
T Consensus       357 ~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k  436 (857)
T PLN03077        357 WTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSK  436 (857)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHH
Q 046221          299 CGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGI  378 (572)
Q Consensus       299 ~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  378 (572)
                      .|++++|.++|++|.++|+.+|+.+|.+|++.|+.++|+.+|++|. . +..||..||..++.+|++.|+++.+.+++..
T Consensus       437 ~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~-~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~  514 (857)
T PLN03077        437 CKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQML-L-TLKPNSVTLIAALSACARIGALMCGKEIHAH  514 (857)
T ss_pred             cCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHH-h-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHH
Confidence            9999999999999999999999999999999999999999999996 3 6999999999999999999999999999999


Q ss_pred             HHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHH
Q 046221          379 AFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTY  458 (572)
Q Consensus       379 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~  458 (572)
                      +.+.|+.++..++++++++|+++|++++|.++|+.+  .||..+||++|.+|++.|+.++|+++|++|.+.|+.||..||
T Consensus       515 ~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~--~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~  592 (857)
T PLN03077        515 VLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTF  592 (857)
T ss_pred             HHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc--CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccH
Confidence            999999999999999999999999999999999999  699999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccCCCChHHHHHHHHHHhhh--
Q 046221          459 LSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLH--  536 (572)
Q Consensus       459 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~--  536 (572)
                      +.++.+|++.|++++|.++|+.|.+..|+.|+..+|++++++|.+.|++++|.+++++|.-.|+..+|.+|+.+|..+  
T Consensus       593 ~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~  672 (857)
T PLN03077        593 ISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRH  672 (857)
T ss_pred             HHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Confidence            999999999999999999999998788999999999999999999999999999999997799999999999988643  


Q ss_pred             -------------------------------cCCHHHHHHHHHHHHhCCCCCCCceeEEEcCCccC
Q 046221          537 -------------------------------VGRFQDAEALRSGSQKKGIIKIPGISFLNSTSRDF  571 (572)
Q Consensus       537 -------------------------------~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~  571 (572)
                                                     .|+|++|.++.+.|.++|++++||+||+.+++.|+
T Consensus       673 ~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~  738 (857)
T PLN03077        673 VELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVH  738 (857)
T ss_pred             hHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEECCEEE
Confidence                                           69999999999999999999999999999998875

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3e-76  Score=618.03  Aligned_cols=543  Identities=27%  Similarity=0.393  Sum_probs=521.1

Q ss_pred             CCCCCcchhhHHHHHhhcCChhhHHHHhccCCC----CChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHH
Q 046221            1 PCIDPYNSSKLLSNYFKSGKIKEAENLFDEIPE----KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVG   76 (572)
Q Consensus         1 p~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~   76 (572)
                      |.|+..++|.++..|++.|++++|..+|+.+++    |+..+|..++.++.+.+.++.+..++..+.+.|..++...++.
T Consensus        47 ~~~~~~~~n~~i~~l~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~  126 (857)
T PLN03077         47 SSSSTHDSNSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNA  126 (857)
T ss_pred             cccchhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHH
Confidence            356788899999999999999999999999876    7888999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHH
Q 046221           77 VLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTV  156 (572)
Q Consensus        77 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  156 (572)
                      ++..|++.|+++.|.++|++|             ++||+.+||.+|.+|++.|++++|+++|++|...|+.||..||+.+
T Consensus       127 li~~~~~~g~~~~A~~~f~~m-------------~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~l  193 (857)
T PLN03077        127 MLSMFVRFGELVHAWYVFGKM-------------PERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCV  193 (857)
T ss_pred             HHHHHHhCCChHHHHHHHhcC-------------CCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHH
Confidence            999999999999999996655             4589999999999999999999999999999999999999999999


Q ss_pred             HHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHH
Q 046221          157 IRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDAL  236 (572)
Q Consensus       157 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  236 (572)
                      +++|+..+++..+.+++..+.+.|+.||..++++|+.+|++.|+++.|.++|++|..+|..+||.+|.+|++.|++++|+
T Consensus       194 l~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl  273 (857)
T PLN03077        194 LRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGL  273 (857)
T ss_pred             HHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCC
Q 046221          237 KIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKS  316 (572)
Q Consensus       237 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  316 (572)
                      ++|.+|...|+.||..||+.++.+|++.|+.+.+.+++..+.+.|+.||..+|+.++.+|++.|++++|.++|++|.++|
T Consensus       274 ~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d  353 (857)
T PLN03077        274 ELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKD  353 (857)
T ss_pred             HHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHH
Q 046221          317 LVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLIS  396 (572)
Q Consensus       317 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  396 (572)
                      ..+|+.++.+|++.|++++|+++|++|. ..+..||..||..++.+|++.|+++.|.++++.+.+.|+.|+..+|++++.
T Consensus       354 ~~s~n~li~~~~~~g~~~~A~~lf~~M~-~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~  432 (857)
T PLN03077        354 AVSWTAMISGYEKNGLPDKALETYALME-QDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIE  432 (857)
T ss_pred             eeeHHHHHHHHHhCCCHHHHHHHHHHHH-HhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHH
Confidence            9999999999999999999999999998 889999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHH
Q 046221          397 SYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLV  476 (572)
Q Consensus       397 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~  476 (572)
                      +|++.|++++|.++|++|.. +|..+|+.++.+|++.|+.++|+.+|++|.. ++.||..||..++.+|++.|+.+.+.+
T Consensus       433 ~y~k~g~~~~A~~vf~~m~~-~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~  510 (857)
T PLN03077        433 MYSKCKCIDKALEVFHNIPE-KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKE  510 (857)
T ss_pred             HHHHcCCHHHHHHHHHhCCC-CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHH
Confidence            99999999999999999965 7899999999999999999999999999986 599999999999999999999999999


Q ss_pred             HHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccCCCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          477 IFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                      ++..++ +.|+.+|..++++|+++|.++|++++|.++|+.+  .+|..+|+.++.+|..+ |+.++|+++|++|.+.|+.
T Consensus       511 i~~~~~-~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~--~~d~~s~n~lI~~~~~~-G~~~~A~~lf~~M~~~g~~  586 (857)
T PLN03077        511 IHAHVL-RTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAH-GKGSMAVELFNRMVESGVN  586 (857)
T ss_pred             HHHHHH-HhCCCccceechHHHHHHHHcCCHHHHHHHHHhc--CCChhhHHHHHHHHHHc-CCHHHHHHHHHHHHHcCCC
Confidence            999996 6789999999999999999999999999999998  78889999999999888 9999999999999999998


Q ss_pred             CCCceeE
Q 046221          557 KIPGISF  563 (572)
Q Consensus       557 ~~~~~~~  563 (572)
                      |+..+..
T Consensus       587 Pd~~T~~  593 (857)
T PLN03077        587 PDEVTFI  593 (857)
T ss_pred             CCcccHH
Confidence            8765543

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

Probab=100.00  E-value=1.5e-70  Score=561.39  Aligned_cols=483  Identities=22%  Similarity=0.366  Sum_probs=442.9

Q ss_pred             CCCcchhhHHHHHhhcCChhhHHHHhccCCC-----CChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHH
Q 046221            3 IDPYNSSKLLSNYFKSGKIKEAENLFDEIPE-----KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGV   77 (572)
Q Consensus         3 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   77 (572)
                      ++..+|+.++..|.+.|++++|+++|+.|..     ||..+|+.++.++.+.++++.|.+++..|.+.|+.||..+|+.+
T Consensus        85 ~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~L  164 (697)
T PLN03081         85 KSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRV  164 (697)
T ss_pred             CCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHH
Confidence            4556899999999999999999999998853     68899999999999999999999999999999999999999999


Q ss_pred             HHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHH
Q 046221           78 LVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVI  157 (572)
Q Consensus        78 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll  157 (572)
                      +..|++.|+++.|.++|++|             +.||..+||.++.+|++.|++++|+++|++|.+.|+.|+..||+.++
T Consensus       165 i~~y~k~g~~~~A~~lf~~m-------------~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll  231 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEM-------------PERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVML  231 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcC-------------CCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHH
Confidence            99999999999999996665             35899999999999999999999999999999999999999999999


Q ss_pred             HHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHH
Q 046221          158 RGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALK  237 (572)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  237 (572)
                      .+|+..|..+.+.+++..+.+.|+.||..+|++|+++|++.|++++|.++|++|..+|+.+||.+|.+|++.|++++|.+
T Consensus       232 ~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~  311 (697)
T PLN03081        232 RASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALC  311 (697)
T ss_pred             HHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCc
Q 046221          238 IFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSL  317 (572)
Q Consensus       238 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  317 (572)
                      +|++|.+.|+.||..||+.++.+|++.|+++.|.+++..|.+.|+.||..++++|+++|++.|++++|.++|++|.++|+
T Consensus       312 lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~  391 (697)
T PLN03081        312 LYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNL  391 (697)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCe
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHH
Q 046221          318 VSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISS  397 (572)
Q Consensus       318 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  397 (572)
                      .+||.+|.+|++.|+.++|+++|++|. ..|..                                               
T Consensus       392 ~t~n~lI~~y~~~G~~~~A~~lf~~M~-~~g~~-----------------------------------------------  423 (697)
T PLN03081        392 ISWNALIAGYGNHGRGTKAVEMFERMI-AEGVA-----------------------------------------------  423 (697)
T ss_pred             eeHHHHHHHHHHcCCHHHHHHHHHHHH-HhCCC-----------------------------------------------
Confidence            999999999999999999999999997 43333                                               


Q ss_pred             hhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHh-cCCCCCHHHHHHHHHHHhccCChHHHHH
Q 046221          398 YSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTE-TGEVPDSSTYLSILNACGHAGLTNDGLV  476 (572)
Q Consensus       398 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~g~~p~~~~~~~l~~~~~~~g~~~~a~~  476 (572)
                                          ||..||+.++.+|.+.|+.++|.++|+.|.+ .|+.|+..+|+.++.+|++.|++++|.+
T Consensus       424 --------------------Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~  483 (697)
T PLN03081        424 --------------------PNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYA  483 (697)
T ss_pred             --------------------CCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHH
Confidence                                6666666666777777777777777777765 4788888888888888888888888888


Q ss_pred             HHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CC-ChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCC
Q 046221          477 IFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GM-GPNIWRALLSGCVLHVGRFQDAEALRSGSQKKG  554 (572)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~  554 (572)
                      ++++|    ++.|+..+|++|+.+|...|+++.|..+++++.+ .| +..+|..|+..|... |+|++|.+++++|.++|
T Consensus       484 ~~~~~----~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~-G~~~~A~~v~~~m~~~g  558 (697)
T PLN03081        484 MIRRA----PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSS-GRQAEAAKVVETLKRKG  558 (697)
T ss_pred             HHHHC----CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhC-CCHHHHHHHHHHHHHcC
Confidence            77655    4678888888888888888888888888888776 44 466899999999888 99999999999999999


Q ss_pred             CCCCCceeEEEcCCccC
Q 046221          555 IIKIPGISFLNSTSRDF  571 (572)
Q Consensus       555 ~~~~~~~~~~~~~~~~~  571 (572)
                      +++.|++||+.+++.++
T Consensus       559 ~~k~~g~s~i~~~~~~~  575 (697)
T PLN03081        559 LSMHPACTWIEVKKQDH  575 (697)
T ss_pred             CccCCCeeEEEECCeEE
Confidence            99999999999998775

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.1e-69  Score=556.45  Aligned_cols=509  Identities=15%  Similarity=0.177  Sum_probs=448.0

Q ss_pred             CChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCC-CCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCC
Q 046221           34 KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGL-LPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKN  112 (572)
Q Consensus        34 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  112 (572)
                      ++...|..++..+++.|++++|+++|++|.+.|+ .++..+++.++..|.+.|..++|..+++.|.             .
T Consensus       368 ~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~-------------~  434 (1060)
T PLN03218        368 RKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIR-------------N  434 (1060)
T ss_pred             CCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcC-------------C
Confidence            5677888888888899999999999999988885 4667777888888888899999988876663             3


Q ss_pred             CCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHH
Q 046221          113 PYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVL  192 (572)
Q Consensus       113 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  192 (572)
                      ||..+|+.++.+|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++.|+++.|.++|++|.+.|+.||..+|+.+|
T Consensus       435 pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI  514 (1060)
T PLN03218        435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALI  514 (1060)
T ss_pred             CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            77889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhCCCHHHHHHHHhhcCC----CCcccHHHHHHHHHccCCHHHHHHHHHHHHh--CCCCCCccchHHHHHHhcccCC
Q 046221          193 DMYSCLMDLDAAIQIFREMEC----KDVISWTRMMGLFVDFEYAGDALKIFREMRK--SRIICDTVALLNLISVNAILGD  266 (572)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~p~~~~~~~ll~~~~~~~~  266 (572)
                      .+|++.|++++|.++|+.|.+    ||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|+
T Consensus       515 ~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~  594 (1060)
T PLN03218        515 DGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQ  594 (1060)
T ss_pred             HHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCC
Confidence            999999999999999988864    7888999999999999999999999999976  5688999999999999999999


Q ss_pred             hHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC----CCcchHHHHHHHHHHcCChHHHHHHHHH
Q 046221          267 LKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE----KSLVSWTAIISGYVQNGCAREALNQFIK  342 (572)
Q Consensus       267 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~  342 (572)
                      +++|.++|+.|.+.++.|+..+|+.++.+|++.|++++|.++|++|.+    ||..+|+.++.+|++.|++++|.+++++
T Consensus       595 ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~e  674 (1060)
T PLN03218        595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQD  674 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999998874    6778999999999999999999999999


Q ss_pred             HHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc---CCCCC
Q 046221          343 MRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM---GFLRD  419 (572)
Q Consensus       343 ~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~~~  419 (572)
                      |. ..|..||..+|+.++.+|++.|++++|.++|+.|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|   ++.||
T Consensus       675 M~-k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd  753 (1060)
T PLN03218        675 AR-KQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPN  753 (1060)
T ss_pred             HH-HcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            98 888999999999999999999999999999999998899999999999999999999999999999988   88899


Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc-----------------------cCChHHHHH
Q 046221          420 VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGH-----------------------AGLTNDGLV  476 (572)
Q Consensus       420 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~-----------------------~g~~~~a~~  476 (572)
                      ..+|+.++.+|++.|+++.|.+++++|.+.|+.||..+|+.++..|.+                       .+..+.|..
T Consensus       754 ~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~  833 (1060)
T PLN03218        754 TITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALM  833 (1060)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHH
Confidence            999999999999999999999999999999999999999988865432                       122467999


Q ss_pred             HHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC---CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhC
Q 046221          477 IFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE---GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKK  553 (572)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~  553 (572)
                      +|++|+ ..|+.||..+|+.++.++.+.+..+.+..+++.|..   .|+..+|+.|+.++..   ..++|..++++|.+.
T Consensus       834 lf~eM~-~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~---~~~~A~~l~~em~~~  909 (1060)
T PLN03218        834 VYRETI-SAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGE---YDPRAFSLLEEAASL  909 (1060)
T ss_pred             HHHHHH-HCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhcc---ChHHHHHHHHHHHHc
Confidence            999996 778999999999999999999999999999998865   6778899999998732   236899999999999


Q ss_pred             CCCCCCc
Q 046221          554 GIIKIPG  560 (572)
Q Consensus       554 ~~~~~~~  560 (572)
                      |+.|+..
T Consensus       910 Gi~p~~~  916 (1060)
T PLN03218        910 GVVPSVS  916 (1060)
T ss_pred             CCCCCcc
Confidence            9998765

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=4.3e-69  Score=551.96  Aligned_cols=500  Identities=14%  Similarity=0.146  Sum_probs=466.4

Q ss_pred             CCCcchhhHHHHHhhcCChhhHHHHhccCCCC-----ChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHH
Q 046221            3 IDPYNSSKLLSNYFKSGKIKEAENLFDEIPEK-----NVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGV   77 (572)
Q Consensus         3 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   77 (572)
                      ++...|..++..+++.|++++|+++|++|+++     +...++.++.+|.+.|.+++|+.+|+.|..    ||..+|+.+
T Consensus       368 ~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn~L  443 (1060)
T PLN03218        368 RKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNML  443 (1060)
T ss_pred             CCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHHHH
Confidence            56677888999999999999999999999874     445667788889999999999999999974    999999999


Q ss_pred             HHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHH
Q 046221           78 LVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVI  157 (572)
Q Consensus        78 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll  157 (572)
                      +.+|++.|+++.|.++++.|.+.|+.         ||..+|+.||.+|++.|++++|.++|++|.+.|+.||..||+.+|
T Consensus       444 L~a~~k~g~~e~A~~lf~~M~~~Gl~---------pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI  514 (1060)
T PLN03218        444 MSVCASSQDIDGALRVLRLVQEAGLK---------ADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALI  514 (1060)
T ss_pred             HHHHHhCcCHHHHHHHHHHHHHcCCC---------CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            99999999999999999999999984         889999999999999999999999999999999999999999999


Q ss_pred             HHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcC------CCCcccHHHHHHHHHccCC
Q 046221          158 RGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREME------CKDVISWTRMMGLFVDFEY  231 (572)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~------~~~~~~~~~li~~~~~~~~  231 (572)
                      .+|++.|++++|.++|+.|.+.|+.||..+|+.++.+|++.|++++|.++|++|.      .||..+|+.+|.+|++.|+
T Consensus       515 ~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~  594 (1060)
T PLN03218        515 DGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQ  594 (1060)
T ss_pred             HHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCC
Confidence            9999999999999999999999999999999999999999999999999999995      3789999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhc
Q 046221          232 AGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQ  311 (572)
Q Consensus       232 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  311 (572)
                      +++|.++|++|.+.|+.|+..+|+.+|.+|++.|++++|..+|++|.+.|+.||..+|+.++.+|++.|++++|.++|+.
T Consensus       595 ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~e  674 (1060)
T PLN03218        595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQD  674 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCC----CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCc
Q 046221          312 ITE----KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRY  387 (572)
Q Consensus       312 ~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  387 (572)
                      |.+    |+..+|+.+|.+|++.|++++|.++|++|. ..+..||..+|+.++.+|++.|++++|.++|+.|.+.|+.||
T Consensus       675 M~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~-~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd  753 (1060)
T PLN03218        675 ARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIK-SIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPN  753 (1060)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            974    688999999999999999999999999998 789999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHHc---CCCCCHhHHHHHHHHHHh----c-------------------CChHHHHH
Q 046221          388 RSVQNCLISSYSKCGNVDLAYIVFEEM---GFLRDVVSWNTIIYGYGV----N-------------------GHGETALA  441 (572)
Q Consensus       388 ~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~~l~~~~~~----~-------------------~~~~~A~~  441 (572)
                      ..+|+.++.+|++.|++++|.+++++|   ++.||..+|+.++..|.+    .                   +..+.|..
T Consensus       754 ~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~  833 (1060)
T PLN03218        754 TITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALM  833 (1060)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHH
Confidence            999999999999999999999999999   899999999999865432    1                   22467999


Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          442 LYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       442 ~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +|++|.+.|+.||..||+.++.++++.+..+.+..+++.|. ..+..|+..+|+++++++.+.  .++|..++++|..
T Consensus       834 lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~-~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~  908 (1060)
T PLN03218        834 VYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLG-ISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAAS  908 (1060)
T ss_pred             HHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhc-cCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHH
Confidence            99999999999999999999998889999999999998884 667889999999999998432  4689999999987

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

Probab=100.00  E-value=1.7e-65  Score=524.34  Aligned_cols=441  Identities=29%  Similarity=0.496  Sum_probs=429.4

Q ss_pred             CCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCC-CCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhH
Q 046221          112 NPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSG-LVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNS  190 (572)
Q Consensus       112 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  190 (572)
                      .++..+|+.+|.++.+.|++++|+++|+.|...+ ..||..+|+.++.+|++.++.+.+.+++..|.+.|+.||..+|+.
T Consensus        84 ~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~  163 (697)
T PLN03081         84 RKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNR  163 (697)
T ss_pred             CCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHH
Confidence            3567799999999999999999999999999864 789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHH
Q 046221          191 VLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRG  270 (572)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  270 (572)
                      ++.+|++.|+++.|.++|++|.+||..+||.++.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+..|+.+.+
T Consensus       164 Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~  243 (697)
T PLN03081        164 VLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAG  243 (697)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 046221          271 KQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDS  350 (572)
Q Consensus       271 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  350 (572)
                      .+++..+.+.|+.+|..++++|+.+|++.|++++|.++|++|.++|+++||.++.+|++.|++++|+++|++|. ..|..
T Consensus       244 ~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~-~~g~~  322 (697)
T PLN03081        244 QQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMR-DSGVS  322 (697)
T ss_pred             HHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHH-HcCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999998 89999


Q ss_pred             CCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHH
Q 046221          351 VDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGY  430 (572)
Q Consensus       351 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~  430 (572)
                      ||..||+.++.+|++.|+++.|.+++..|.+.|++|+..+|++++.+|+++|++++|.++|++|.. ||..+||.||.+|
T Consensus       323 pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~-~d~~t~n~lI~~y  401 (697)
T PLN03081        323 IDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR-KNLISWNALIAGY  401 (697)
T ss_pred             CCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC-CCeeeHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999965 8999999999999


Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHH
Q 046221          431 GVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDA  510 (572)
Q Consensus       431 ~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  510 (572)
                      ++.|+.++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|.+..|+.|+..+|+.++++|.+.|++++|
T Consensus       402 ~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA  481 (697)
T PLN03081        402 GNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEA  481 (697)
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHH
Confidence            99999999999999999999999999999999999999999999999999987789999999999999999999999999


Q ss_pred             HHHHHhccCCCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCC
Q 046221          511 SGLAGKLLEGMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGI  555 (572)
Q Consensus       511 ~~~~~~~~~~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~  555 (572)
                      .+++++|...|+..+|++|+.+|..+ |+++.|..+++++.+.++
T Consensus       482 ~~~~~~~~~~p~~~~~~~Ll~a~~~~-g~~~~a~~~~~~l~~~~p  525 (697)
T PLN03081        482 YAMIRRAPFKPTVNMWAALLTACRIH-KNLELGRLAAEKLYGMGP  525 (697)
T ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHc-CCcHHHHHHHHHHhCCCC
Confidence            99999998899999999999999998 999999999999976544

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

Probab=100.00  E-value=1.3e-33  Score=304.44  Aligned_cols=533  Identities=11%  Similarity=0.004  Sum_probs=263.2

Q ss_pred             CcchhhHHHHHhhcCChhhHHHHhccCCC---CChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHH
Q 046221            5 PYNSSKLLSNYFKSGKIKEAENLFDEIPE---KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAA   81 (572)
Q Consensus         5 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~   81 (572)
                      +..+..+...+.+.|++++|...++.+..   .+...+..+...+.+.|++++|.++|+++.+.. +.+...+..+...+
T Consensus       329 ~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  407 (899)
T TIGR02917       329 HQARRLLASIQLRLGRVDEAIATLSPALGLDPDDPAALSLLGEAYLALGDFEKAAEYLAKATELD-PENAAARTQLGISK  407 (899)
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            34455566667777777777777766554   345566666677777777777777777766543 22334455555566


Q ss_pred             cCCCChHHHHHHHHHHHHhcCCCCc------------------------ccCCCCCCceeHHHHHHHHHhCCChHHHHHH
Q 046221           82 AGLQNLELARSIHGLMVKFGLESDL------------------------FEGLKNPYLVSCNAIVAGFINNKLFQQAVLL  137 (572)
Q Consensus        82 ~~~g~~~~a~~~~~~~~~~~~~~~~------------------------~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  137 (572)
                      ...|++++|...++.+.+..+....                        ......++...|+.+...+...|++++|.+.
T Consensus       408 ~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  487 (899)
T TIGR02917       408 LSQGDPSEAIADLETAAQLDPELGRADLLLILSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREA  487 (899)
T ss_pred             HhCCChHHHHHHHHHHHhhCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHHHH
Confidence            6666666666666666655431100                        0000002233444444444444444444444


Q ss_pred             HHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCC---C
Q 046221          138 FNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMEC---K  214 (572)
Q Consensus       138 ~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~  214 (572)
                      |+++.+.. +.+...+..+...+...|++++|.+.++.+.+.+ +.+..++..+...+.+.|+.++|...++++..   .
T Consensus       488 ~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  565 (899)
T TIGR02917       488 FEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQ  565 (899)
T ss_pred             HHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            44444321 1122333344444444444444444444444432 23344444444444445555555555444432   1


Q ss_pred             CcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHH
Q 046221          215 DVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIA  294 (572)
Q Consensus       215 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  294 (572)
                      +...+..++..+...|++++|..+++.+.+. .+.+..++..+..++...|++++|...++.+.+.. +.+...+..+..
T Consensus       566 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  643 (899)
T TIGR02917       566 EIEPALALAQYYLGKGQLKKALAILNEAADA-APDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLAD  643 (899)
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            2333444445555555555555555554433 12333444444555555555555555555554433 223334444455


Q ss_pred             HHHhcCChhHHHHHHhccCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHH
Q 046221          295 MYSKCGDLDSSRSVFNQITE---KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEI  371 (572)
Q Consensus       295 ~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  371 (572)
                      ++.+.|++++|...|+++.+   .+..++..++..+...|++++|..+++.+. . ..+.+...+..+...+...|+++.
T Consensus       644 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~g~~~~  721 (899)
T TIGR02917       644 AYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQ-K-QHPKAALGFELEGDLYLRQKDYPA  721 (899)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-h-hCcCChHHHHHHHHHHHHCCCHHH
Confidence            55555555555555544432   123344445555555555555555555553 1 123334444444455555555555


Q ss_pred             HHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 046221          372 CLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTET  449 (572)
Q Consensus       372 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  449 (572)
                      |...++.+...+  |+..++..+..++.+.|++++|.+.++++  ..+.+...+..+...|...|++++|..+|+++.+.
T Consensus       722 A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  799 (899)
T TIGR02917       722 AIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKK  799 (899)
T ss_pred             HHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHh
Confidence            555555554433  22234444555555555555555555554  22233444555555555555555555555555553


Q ss_pred             CCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCChHHHH
Q 046221          450 GEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMGPNIWR  527 (572)
Q Consensus       450 g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~  527 (572)
                      . +++..++..+...+...|+ .+|+.+++++++..  +-+..++..+..++.+.|++++|.+.++++.+  +.++.++.
T Consensus       800 ~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~  875 (899)
T TIGR02917       800 A-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLA--PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRY  875 (899)
T ss_pred             C-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC--CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCChHHHH
Confidence            1 2234455555555555555 44555555554322  22333444555555555555555555555554  22444555


Q ss_pred             HHHHHHhhhcCCHHHHHHHHHHHH
Q 046221          528 ALLSGCVLHVGRFQDAEALRSGSQ  551 (572)
Q Consensus       528 ~l~~~~~~~~g~~~~A~~~~~~m~  551 (572)
                      .+...+... |++++|.+++++|.
T Consensus       876 ~l~~~~~~~-g~~~~A~~~~~~~~  898 (899)
T TIGR02917       876 HLALALLAT-GRKAEARKELDKLL  898 (899)
T ss_pred             HHHHHHHHc-CCHHHHHHHHHHHh
Confidence            555555444 55555555555553

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

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

Probab=100.00  E-value=4.2e-33  Score=300.49  Aligned_cols=526  Identities=11%  Similarity=0.018  Sum_probs=377.7

Q ss_pred             hhhHHHHHhhcCChhhHHHHhccCCC---CChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCC
Q 046221            8 SSKLLSNYFKSGKIKEAENLFDEIPE---KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGL   84 (572)
Q Consensus         8 ~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~   84 (572)
                      +..+...+...|++++|...|+++.+   .+...+..+...+.+.|++++|+..++.+.+.+ +.+...+..+...+.+.
T Consensus       298 ~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  376 (899)
T TIGR02917       298 LLLAGASEYQLGNLEQAYQYLNQILKYAPNSHQARRLLASIQLRLGRVDEAIATLSPALGLD-PDDPAALSLLGEAYLAL  376 (899)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHC
Confidence            34456678899999999999998764   355677888889999999999999999998765 55667888889999999


Q ss_pred             CChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCC----------------------------------C
Q 046221           85 QNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNK----------------------------------L  130 (572)
Q Consensus        85 g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------------------------~  130 (572)
                      |++++|..+++.+.+..+.          +...+..+...+...|                                  +
T Consensus       377 g~~~~A~~~~~~~~~~~~~----------~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~  446 (899)
T TIGR02917       377 GDFEKAAEYLAKATELDPE----------NAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGRADLLLILSYLRSGQ  446 (899)
T ss_pred             CCHHHHHHHHHHHHhcCCC----------CHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCcchhhHHHHHHHHHhcCC
Confidence            9999999999999876542          2233444444444444                                  4


Q ss_pred             hHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhh
Q 046221          131 FQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFRE  210 (572)
Q Consensus       131 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (572)
                      +++|.++++.+... .+++..++..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...|++
T Consensus       447 ~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~  524 (899)
T TIGR02917       447 FDKALAAAKKLEKK-QPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEK  524 (899)
T ss_pred             HHHHHHHHHHHHHh-CCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            44555554444432 22344555666666666666666666666665543 33444555566666666666666666666


Q ss_pred             cCC---CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcc
Q 046221          211 MEC---KDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELR  287 (572)
Q Consensus       211 ~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  287 (572)
                      +..   .+..++..+...+...|++++|...+.++...+ +.+...+..+...+...|+++.|..+++.+.+.. +.+..
T Consensus       525 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  602 (899)
T TIGR02917       525 VLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPE  602 (899)
T ss_pred             HHHhCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHH
Confidence            543   244556666666666777777777777765542 3344555666677777777777777777776543 44566


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHhccCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhc
Q 046221          288 LSNSIIAMYSKCGDLDSSRSVFNQITE---KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASG  364 (572)
Q Consensus       288 ~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~  364 (572)
                      .+..+..++.+.|++++|...|+.+.+   .+...+..+..++.+.|++++|...++++.  ...+.+..++..+...+.
T Consensus       603 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~~~l~~~~~  680 (899)
T TIGR02917       603 AWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRAL--ELKPDNTEAQIGLAQLLL  680 (899)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHH--hcCCCCHHHHHHHHHHHH
Confidence            777777777788888888877777653   244567777777777888888888887775  223445667777777778


Q ss_pred             ccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCHhHHHHHHHHHHhcCChHHHHHHH
Q 046221          365 ELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDVVSWNTIIYGYGVNGHGETALALY  443 (572)
Q Consensus       365 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  443 (572)
                      ..|+++.|..+++.+.+.. +.+...+..+...+.+.|++++|.+.++.+ ...|+..++..+..++.+.|++++|...+
T Consensus       681 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  759 (899)
T TIGR02917       681 AAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTL  759 (899)
T ss_pred             HcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHH
Confidence            8888888888888777665 556667777788888888888888888887 44566677777888888888888888888


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CC
Q 046221          444 HKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GM  521 (572)
Q Consensus       444 ~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~  521 (572)
                      +++.+. .+.+...+..+...|...|++++|.++|+++++..  +++...+..++..+...|+ .+|+.+++++..  +.
T Consensus       760 ~~~l~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~  835 (899)
T TIGR02917       760 EAWLKT-HPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA--PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPN  835 (899)
T ss_pred             HHHHHh-CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCC
Confidence            888875 23456778888888888899999999998887544  5667788888888888888 778888888876  44


Q ss_pred             ChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          522 GPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       522 ~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                      ++..+..+...+... |++++|.++++++.+.++.
T Consensus       836 ~~~~~~~~~~~~~~~-g~~~~A~~~~~~a~~~~~~  869 (899)
T TIGR02917       836 IPAILDTLGWLLVEK-GEADRALPLLRKAVNIAPE  869 (899)
T ss_pred             CcHHHHHHHHHHHHc-CCHHHHHHHHHHHHhhCCC
Confidence            555666666666666 9999999999999988764

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

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.97  E-value=1e-24  Score=235.02  Aligned_cols=524  Identities=11%  Similarity=0.022  Sum_probs=315.2

Q ss_pred             CCcchhhHHHHHhhcCChhhHHHHhccCCC--CChhhH-----------------HHHHHHHhhCCChHHHHHHHHHHHH
Q 046221            4 DPYNSSKLLSNYFKSGKIKEAENLFDEIPE--KNVVSW-----------------SIVIHGYSINGFHEKSMKAFSHMML   64 (572)
Q Consensus         4 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~-----------------~~li~~~~~~~~~~~a~~~~~~m~~   64 (572)
                      |+.++..++..+.+.|+.++|.+.++++.+  |+...+                 ......+...|++++|+..|+.+.+
T Consensus        61 ~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~  140 (1157)
T PRK11447         61 NPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPDSNAYRSSRTTMLLSTPEGRQALQQARLLATTGRTEEALASYDKLFN  140 (1157)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHhcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHcc
Confidence            566777888899999999999999998876  332221                 2223467888999999999999887


Q ss_pred             cCCCCCcch-HHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHh
Q 046221           65 SGLLPNSFT-MVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRG  143 (572)
Q Consensus        65 ~~~~~~~~~-~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  143 (572)
                      .+ +|+... ...........|+.++|...++.+.+..+          .+...+..+...+...|+.++|++.++++.+
T Consensus       141 ~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P----------~~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~  209 (1157)
T PRK11447        141 GA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYP----------GNTGLRNTLALLLFSSGRRDEGFAVLEQMAK  209 (1157)
T ss_pred             CC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHHccCCHHHHHHHHHHHhh
Confidence            53 444321 11112222356899999999999998875          3455788888999999999999999998765


Q ss_pred             CCC------------------C--------------CCHhhHH---------------------HHHHHHhccCChHHHH
Q 046221          144 SGL------------------V--------------PNAVTML---------------------TVIRGCVALGSRALCE  170 (572)
Q Consensus       144 ~~~------------------~--------------p~~~~~~---------------------~ll~~~~~~~~~~~a~  170 (572)
                      ...                  .              |+.....                     .....+...|++++|.
T Consensus       210 ~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~G~~~~~~g~~~~A~  289 (1157)
T PRK11447        210 SPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQGLAAVDSGQGGKAI  289 (1157)
T ss_pred             CCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHCCCHHHHH
Confidence            321                  0              1100000                     0122345567888888


Q ss_pred             HHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCC--CCc---ccHH------------HHHHHHHccCCHH
Q 046221          171 LIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMEC--KDV---ISWT------------RMMGLFVDFEYAG  233 (572)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~---~~~~------------~li~~~~~~~~~~  233 (572)
                      ..+++.++.. +.+...+..+..++.+.|+.++|+..|++..+  |+.   ..|.            .....+.+.|+++
T Consensus       290 ~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~  368 (1157)
T PRK11447        290 PELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLA  368 (1157)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHH
Confidence            8888877754 44667777777888888888888888877654  221   1121            1234566778888


Q ss_pred             HHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccC
Q 046221          234 DALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQIT  313 (572)
Q Consensus       234 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  313 (572)
                      +|...|++..+.. +.+...+..+...+...|++++|.+.|+++.+.. +.+...+..+...|. .++.++|..+++.+.
T Consensus       369 eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~-~~~~~~A~~~l~~l~  445 (1157)
T PRK11447        369 QAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYR-QQSPEKALAFIASLS  445 (1157)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-hcCHHHHHHHHHhCC
Confidence            8888888877753 2334455666677777888888888888877654 233334444444443 334555555555443


Q ss_pred             CCC------------cchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHH
Q 046221          314 EKS------------LVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFE  381 (572)
Q Consensus       314 ~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  381 (572)
                      ...            ...+..+...+...|++++|+..|++..+.  .+-+...+..+...+.+.|++++|...++.+.+
T Consensus       446 ~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~--~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~  523 (1157)
T PRK11447        446 ASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLAL--DPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQ  523 (1157)
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            211            112333444555667777777777766522  222344555566666677777777777766654


Q ss_pred             hcCCCchhHHHHHH--------------------------------------------HHhhhcCChHHHHHHHHHcCCC
Q 046221          382 AGFPRYRSVQNCLI--------------------------------------------SSYSKCGNVDLAYIVFEEMGFL  417 (572)
Q Consensus       382 ~~~~~~~~~~~~l~--------------------------------------------~~~~~~g~~~~A~~~~~~~~~~  417 (572)
                      .. +.+...+..+.                                            ..+...|+.++|.++++.-  +
T Consensus       524 ~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~--p  600 (1157)
T PRK11447        524 QK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQ--P  600 (1157)
T ss_pred             cC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhC--C
Confidence            32 22222222222                                            3334444555555444421  2


Q ss_pred             CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHH
Q 046221          418 RDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGC  496 (572)
Q Consensus       418 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  496 (572)
                      .+...+..+...+.+.|++++|+..|++..+.  .| +...+..++..+...|++++|++.++.+++..  +.+...+..
T Consensus       601 ~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~--p~~~~~~~~  676 (1157)
T PRK11447        601 PSTRIDLTLADWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIEVDIAQGDLAAARAQLAKLPATA--NDSLNTQRR  676 (1157)
T ss_pred             CCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC--CCChHHHHH
Confidence            23334455566666666677777766666663  34 34566666666666677777776666654322  223344555


Q ss_pred             HHHHHHhhCChhHHHHHHHhccC-CC-Ch------HHHHHHHHHHhhhcCCHHHHHHHHHHHHh
Q 046221          497 VVDLLARAGCLSDASGLAGKLLE-GM-GP------NIWRALLSGCVLHVGRFQDAEALRSGSQK  552 (572)
Q Consensus       497 l~~~~~~~g~~~~A~~~~~~~~~-~~-~~------~~~~~l~~~~~~~~g~~~~A~~~~~~m~~  552 (572)
                      +..++...|++++|.++++++.. .| ++      ..+..+...+... |++++|++.|++...
T Consensus       677 la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~-G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        677 VALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQT-GQPQQALETYKDAMV  739 (1157)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHc-CCHHHHHHHHHHHHh
Confidence            66666666777777776666654 11 11      1233334444444 777777777666654

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.95  E-value=4.4e-23  Score=222.43  Aligned_cols=498  Identities=11%  Similarity=-0.004  Sum_probs=327.9

Q ss_pred             hHHHHHhhcCChhhHHHHhccCCCCChhhHH----HHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCC
Q 046221           10 KLLSNYFKSGKIKEAENLFDEIPEKNVVSWS----IVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQ   85 (572)
Q Consensus        10 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g   85 (572)
                      .+...+.+.|++++|+..|+.+.+.++....    .........|+.++|++.|+++.+.. +-+...+..+...+...|
T Consensus       117 ~~A~ll~~~g~~~eA~~~~~~~l~~~p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~ll~~~g  195 (1157)
T PRK11447        117 QQARLLATTGRTEEALASYDKLFNGAPPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLALLLFSSG  195 (1157)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHccCCCCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHccC
Confidence            3455788999999999999998763222211    11111234589999999999999874 445556777888888999


Q ss_pred             ChHHHHHHHHHHHHhcCCCCc--------ccCCC---------------CCCce-------------------eH--HHH
Q 046221           86 NLELARSIHGLMVKFGLESDL--------FEGLK---------------NPYLV-------------------SC--NAI  121 (572)
Q Consensus        86 ~~~~a~~~~~~~~~~~~~~~~--------~~~~~---------------~~~~~-------------------~~--~~l  121 (572)
                      +.++|...++++.+.......        ....+               .|+..                   .+  ...
T Consensus       196 ~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~  275 (1157)
T PRK11447        196 RRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQ  275 (1157)
T ss_pred             CHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHH
Confidence            999999999988653211000        00000               01100                   01  122


Q ss_pred             HHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCC-ChhHH------------
Q 046221          122 VAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLIL-DVSVN------------  188 (572)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~------------  188 (572)
                      ...+...|++++|...|++..+.. +.+...+..+..++.+.|++++|...|++.++..... ....+            
T Consensus       276 G~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        276 GLAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHH
Confidence            455678899999999999998853 2367788889999999999999999999998865322 11112            


Q ss_pred             hHHHHHHHhCCCHHHHHHHHhhcCC---CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-ccchHHHHHHhccc
Q 046221          189 NSVLDMYSCLMDLDAAIQIFREMEC---KDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICD-TVALLNLISVNAIL  264 (572)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~  264 (572)
                      ......+.+.|++++|+..|++...   .+...+..+...+...|++++|.+.|++..+..  |+ ...+..+...+. .
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~--p~~~~a~~~L~~l~~-~  431 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD--PGNTNAVRGLANLYR-Q  431 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHH-h
Confidence            1224567789999999999998876   355677788999999999999999999998753  33 333333333332 2


Q ss_pred             CChHHHHHHHHHHHHhCC--------CCCcchHHHHHHHHHhcCChhHHHHHHhccCC--C-CcchHHHHHHHHHHcCCh
Q 046221          265 GDLKRGKQLHAQVVLGGL--------QSELRLSNSIIAMYSKCGDLDSSRSVFNQITE--K-SLVSWTAIISGYVQNGCA  333 (572)
Q Consensus       265 ~~~~~a~~~~~~~~~~~~--------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~  333 (572)
                      ++.++|..+++.+.....        ......+..+...+...|++++|.+.|++..+  | +...+..+...|.+.|++
T Consensus       432 ~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~  511 (1157)
T PRK11447        432 QSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQR  511 (1157)
T ss_pred             cCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            344445444433221100        00011222334444445555555555554432  1 222334444445555555


Q ss_pred             HHHHHHHHHHHhcCCCCC---------------------------------CHhH---------HHHHHHHhcccccHHH
Q 046221          334 REALNQFIKMRQEKTDSV---------------------------------DSIT---------LVSILTASGELAALEI  371 (572)
Q Consensus       334 ~~a~~~~~~~~~~~~~~~---------------------------------~~~~---------~~~ll~~~~~~~~~~~  371 (572)
                      ++|...++++....+..|                                 +...         +......+...|+.++
T Consensus       512 ~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~e  591 (1157)
T PRK11447        512 SQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAE  591 (1157)
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHH
Confidence            555555555432221111                                 1110         1122334555666666


Q ss_pred             HHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 046221          372 CLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTET  449 (572)
Q Consensus       372 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  449 (572)
                      |..+++     ..+.+...+..+...+.+.|++++|+..|++. ...| +...+..++..|...|++++|+..++...+ 
T Consensus       592 A~~~l~-----~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~-  665 (1157)
T PRK11447        592 AEALLR-----QQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPA-  665 (1157)
T ss_pred             HHHHHH-----hCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhc-
Confidence            666655     23556677788999999999999999999998 3334 578889999999999999999999998887 


Q ss_pred             CCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCC----ChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          450 GEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKP----SQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       450 g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                       ..|+ ..++..+..++...|++++|.++++++++...-.|    +...+..+...+...|++++|++.++++..
T Consensus       666 -~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        666 -TANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             -cCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence             4554 46677788899999999999999999975432222    224666778899999999999999999874

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.94  E-value=2e-21  Score=199.98  Aligned_cols=507  Identities=10%  Similarity=0.013  Sum_probs=308.4

Q ss_pred             hcCChhhHHHHhccCCC---CChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHH
Q 046221           17 KSGKIKEAENLFDEIPE---KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSI   93 (572)
Q Consensus        17 ~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~   93 (572)
                      ..|++++|+..|+...+   .++.++..+...|.+.|++++|+..+++..+.  .|+...|..++..+   ++.++|..+
T Consensus        56 ~~Gd~~~A~~~l~~Al~~dP~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~l--dP~n~~~~~~La~i---~~~~kA~~~  130 (987)
T PRK09782         56 KNNDEATAIREFEYIHQQVPDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKR--HPGDARLERSLAAI---PVEVKSVTT  130 (987)
T ss_pred             hCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHHHHHHHHh---ccChhHHHH
Confidence            44899999999998875   34677888889999999999999999998876  55555555555444   888899999


Q ss_pred             HHHHHHhcCCCCcccCCCCCCceeHHHHHHH--------HHhCCChHHHHHHHHHHHhCCCCCCHhhHHHH-HHHHhccC
Q 046221           94 HGLMVKFGLESDLFEGLKNPYLVSCNAIVAG--------FINNKLFQQAVLLFNFFRGSGLVPNAVTMLTV-IRGCVALG  164 (572)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~--------~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l-l~~~~~~~  164 (572)
                      ++++....+..          ...+..+...        |.+.   ++|.+.++ .+.....|+..+.... .+.|.+.|
T Consensus       131 ye~l~~~~P~n----------~~~~~~la~~~~~~~~l~y~q~---eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~  196 (987)
T PRK09782        131 VEELLAQQKAC----------DAVPTLRCRSEVGQNALRLAQL---PVARAQLN-DATFAASPEGKTLRTDLLQRAIYLK  196 (987)
T ss_pred             HHHHHHhCCCC----------hhHHHHHHHHhhccchhhhhhH---HHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHh
Confidence            99998887642          2333333333        3333   44444443 3333233334433333 66666677


Q ss_pred             ChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHh-CCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHH
Q 046221          165 SRALCELIHGLTIKLGLILDVSVNNSVLDMYSC-LMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMR  243 (572)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  243 (572)
                      +++.+..++.++.+.+ +.+......|..+|.. .++ +.+..+++.....++..+..++..|.+.|+.++|..+++++.
T Consensus       197 dw~~Ai~lL~~L~k~~-pl~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~  274 (987)
T PRK09782        197 QWSQADTLYNEARQQN-TLSAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIENK  274 (987)
T ss_pred             CHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            7777777777776665 3334444555555555 244 666666554333455666666666666666666666666654


Q ss_pred             hCCCC-CCccchHHH------------------------------HHHh-------------------------------
Q 046221          244 KSRII-CDTVALLNL------------------------------ISVN-------------------------------  261 (572)
Q Consensus       244 ~~~~~-p~~~~~~~l------------------------------l~~~-------------------------------  261 (572)
                      ..... |+..++.-+                              +..+                               
T Consensus       275 ~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~  354 (987)
T PRK09782        275 PLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVA  354 (987)
T ss_pred             ccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccc
Confidence            32111 111111100                              1111                               


Q ss_pred             --------------------------------cccCChHHHHHHHHHHHHh-C-CCCCcchHHHHHHHHHhcCC---hhH
Q 046221          262 --------------------------------AILGDLKRGKQLHAQVVLG-G-LQSELRLSNSIIAMYSKCGD---LDS  304 (572)
Q Consensus       262 --------------------------------~~~~~~~~a~~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~---~~~  304 (572)
                                                      ...|+.++|.++++..... + -..+.....-++..|.+.+.   ..+
T Consensus       355 ~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~  434 (987)
T PRK09782        355 TRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAK  434 (987)
T ss_pred             cCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHH
Confidence                                            1223333333333333321 0 01122233345555555544   222


Q ss_pred             HHHHHh-------------------------ccCC---C--CcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHh
Q 046221          305 SRSVFN-------------------------QITE---K--SLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSI  354 (572)
Q Consensus       305 a~~~~~-------------------------~~~~---~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  354 (572)
                      +..+-.                         ....   +  +...|..+..++.. ++.++|+..+.+.....   |+..
T Consensus       435 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~---Pd~~  510 (987)
T PRK09782        435 VAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ---PDAW  510 (987)
T ss_pred             HHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC---CchH
Confidence            222211                         1110   1  23345555555555 67777777666665232   4444


Q ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCC-HhHHHHHHHHHHh
Q 046221          355 TLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRD-VVSWNTIIYGYGV  432 (572)
Q Consensus       355 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~  432 (572)
                      ....+...+...|+++.|...++.+...  +|+...+..+..++.+.|++++|...+++. ...|+ ...+..+......
T Consensus       511 ~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~  588 (987)
T PRK09782        511 QHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYI  588 (987)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHh
Confidence            4444445556788888888888876443  344444556667778888888888888877 33333 2333333344455


Q ss_pred             cCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHH
Q 046221          433 NGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASG  512 (572)
Q Consensus       433 ~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  512 (572)
                      .|++++|...+++..+  +.|+...+..+..++.+.|++++|+..++++++..  +.+...+..+..++...|++++|++
T Consensus       589 ~Gr~~eAl~~~~~AL~--l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~--Pd~~~a~~nLG~aL~~~G~~eeAi~  664 (987)
T PRK09782        589 PGQPELALNDLTRSLN--IAPSANAYVARATIYRQRHNVPAAVSDLRAALELE--PNNSNYQAALGYALWDSGDIAQSRE  664 (987)
T ss_pred             CCCHHHHHHHHHHHHH--hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            6888888888888887  56777788888888888899999998888887543  4455577788888888889999988


Q ss_pred             HHHhccC--CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCC
Q 046221          513 LAGKLLE--GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGI  555 (572)
Q Consensus       513 ~~~~~~~--~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~  555 (572)
                      .++++.+  +.++..+..+...+... |++++|+..+++..+..+
T Consensus       665 ~l~~AL~l~P~~~~a~~nLA~al~~l-Gd~~eA~~~l~~Al~l~P  708 (987)
T PRK09782        665 MLERAHKGLPDDPALIRQLAYVNQRL-DDMAATQHYARLVIDDID  708 (987)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHC-CCHHHHHHHHHHHHhcCC
Confidence            8888877  44455677777777666 899999988888876554

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.92  E-value=8e-20  Score=188.27  Aligned_cols=524  Identities=11%  Similarity=-0.020  Sum_probs=356.7

Q ss_pred             CcchhhHHHHHhhcCChhhHHHHhccCCC--CChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHH-
Q 046221            5 PYNSSKLLSNYFKSGKIKEAENLFDEIPE--KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAA-   81 (572)
Q Consensus         5 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~-   81 (572)
                      +.++..|...|.+.|++++|+..+++..+  |+-..|..++..+   +++++|..+++++.+.. +-+...+..+.... 
T Consensus        78 ~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~n~~~~~~La~i---~~~~kA~~~ye~l~~~~-P~n~~~~~~la~~~~  153 (987)
T PRK09782         78 IPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPGDARLERSLAAI---PVEVKSVTTVEELLAQQ-KACDAVPTLRCRSEV  153 (987)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHh---ccChhHHHHHHHHHHhC-CCChhHHHHHHHHhh
Confidence            56778899999999999999999999886  3323333333333   89999999999999873 33344454444440 


Q ss_pred             ----cCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHH-HHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHH
Q 046221           82 ----AGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAI-VAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTV  156 (572)
Q Consensus        82 ----~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  156 (572)
                          ....+.++|.+.++ .....+         .|+..+.... ...|.+.|++++|+++++++.+.+.. +..-...+
T Consensus       154 ~~~~l~y~q~eqAl~AL~-lr~~~~---------~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~pl-~~~~~~~L  222 (987)
T PRK09782        154 GQNALRLAQLPVARAQLN-DATFAA---------SPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNTL-SAAERRQW  222 (987)
T ss_pred             ccchhhhhhHHHHHHHHH-HhhhCC---------CCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCCC-CHHHHHHH
Confidence                12234466666666 332222         2344444444 89999999999999999999998633 34445556


Q ss_pred             HHHHhc-cCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCC-----CCccc------------
Q 046221          157 IRGCVA-LGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMEC-----KDVIS------------  218 (572)
Q Consensus       157 l~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~------------  218 (572)
                      -.++.. .++ +.+..+++.    .+..+...+..+...|.+.|+.++|.++++++..     |+..+            
T Consensus       223 ~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~  297 (987)
T PRK09782        223 FDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANP  297 (987)
T ss_pred             HHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCch
Confidence            566666 355 666666442    3446788888999999999999999998888763     10000            


Q ss_pred             ------------------HHHHHHH-------------------------------------------------------
Q 046221          219 ------------------WTRMMGL-------------------------------------------------------  225 (572)
Q Consensus       219 ------------------~~~li~~-------------------------------------------------------  225 (572)
                                        .-.++..                                                       
T Consensus       298 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~  377 (987)
T PRK09782        298 VQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANLT  377 (987)
T ss_pred             hhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHH
Confidence                              0000111                                                       


Q ss_pred             --------HHccCCHHHHHHHHHHHHhC-C-CCCCccchHHHHHHhcccCC---hHHHHHH-------------------
Q 046221          226 --------FVDFEYAGDALKIFREMRKS-R-IICDTVALLNLISVNAILGD---LKRGKQL-------------------  273 (572)
Q Consensus       226 --------~~~~~~~~~a~~~~~~m~~~-~-~~p~~~~~~~ll~~~~~~~~---~~~a~~~-------------------  273 (572)
                              .++.|+.++|.++|+..... + -.++.....-++..+.+.+.   ..++..+                   
T Consensus       378 ~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  457 (987)
T PRK09782        378 RLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGI  457 (987)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhh
Confidence                    12344455555555555441 1 11122223355556655544   2222222                   


Q ss_pred             ---HHHHHHh-CC-CC--CcchHHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHH--HHHHHHcCChHHHHHHHHHHH
Q 046221          274 ---HAQVVLG-GL-QS--ELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAI--ISGYVQNGCAREALNQFIKMR  344 (572)
Q Consensus       274 ---~~~~~~~-~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l--~~~~~~~~~~~~a~~~~~~~~  344 (572)
                         +...... +. ++  +...+..+..++.. ++.++|...+.+.....+..+..+  ...+...|++++|...|+++.
T Consensus       458 ~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~  536 (987)
T PRK09782        458 ADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQPDAWQHRAVAYQAYQVEDYATALAAWQKIS  536 (987)
T ss_pred             hhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCCchHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence               2222211 11 23  55667777777776 888889997777654333344444  344468999999999999985


Q ss_pred             hcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCHhHH
Q 046221          345 QEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDVVSW  423 (572)
Q Consensus       345 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~  423 (572)
                       ..  +|+...+..+...+.+.|+.+.|...++...+.. +.....+..+.....+.|++++|...+++. ...|+...|
T Consensus       537 -~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~P~~~a~  612 (987)
T PRK09782        537 -LH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNIAPSANAY  612 (987)
T ss_pred             -cc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCHHHH
Confidence             32  3444455666778889999999999999998765 334444444444555669999999999998 666888899


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHH
Q 046221          424 NTIIYGYGVNGHGETALALYHKMTETGEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLA  502 (572)
Q Consensus       424 ~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  502 (572)
                      ..+...+.+.|++++|+..|++..+  ..|+ ...+..+..++...|++++|+..++++++..  |-+...+..+..++.
T Consensus       613 ~~LA~~l~~lG~~deA~~~l~~AL~--l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~--P~~~~a~~nLA~al~  688 (987)
T PRK09782        613 VARATIYRQRHNVPAAVSDLRAALE--LEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGL--PDDPALIRQLAYVNQ  688 (987)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHH
Confidence            9999999999999999999999999  5675 4778888889999999999999999998654  456678999999999


Q ss_pred             hhCChhHHHHHHHhccC-CCChHHHH-HHHHHHhhhcCCHHHHHHHHHHHHhCCCCCC
Q 046221          503 RAGCLSDASGLAGKLLE-GMGPNIWR-ALLSGCVLHVGRFQDAEALRSGSQKKGIIKI  558 (572)
Q Consensus       503 ~~g~~~~A~~~~~~~~~-~~~~~~~~-~l~~~~~~~~g~~~~A~~~~~~m~~~~~~~~  558 (572)
                      ..|++++|+..+++..+ .|+..... ......... .+++.|.+-+++...-++...
T Consensus       689 ~lGd~~eA~~~l~~Al~l~P~~a~i~~~~g~~~~~~-~~~~~a~~~~~r~~~~~~~~~  745 (987)
T PRK09782        689 RLDDMAATQHYARLVIDDIDNQALITPLTPEQNQQR-FNFRRLHEEVGRRWTFSFDSS  745 (987)
T ss_pred             HCCCHHHHHHHHHHHHhcCCCCchhhhhhhHHHHHH-HHHHHHHHHHHHHhhcCccch
Confidence            99999999999999987 66554333 233333333 778888888887766665543

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

Probab=99.91  E-value=3.3e-21  Score=176.53  Aligned_cols=380  Identities=14%  Similarity=0.119  Sum_probs=234.4

Q ss_pred             hhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCc--ccH-HHHHHHHH
Q 046221          151 VTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDV--ISW-TRMMGLFV  227 (572)
Q Consensus       151 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~-~~li~~~~  227 (572)
                      .+|..+.+.+-..|+++.|..+++.+++.. +.....|..+..++...|+.+.|.+.|.+..+-|+  ... +.+...+-
T Consensus       117 e~ysn~aN~~kerg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLlk  195 (966)
T KOG4626|consen  117 EAYSNLANILKERGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLLK  195 (966)
T ss_pred             HHHHHHHHHHHHhchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHHH
Confidence            344444444444444444444444444432 22334444444444444444444444444443222  111 11222223


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHH
Q 046221          228 DFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRS  307 (572)
Q Consensus       228 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  307 (572)
                      ..|+.++|...|.+..+.. +--...|+.|-..+-..|+...|++-|++.++.+ +.-...|-.|...|...+.++.|..
T Consensus       196 a~Grl~ea~~cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkld-P~f~dAYiNLGnV~ke~~~~d~Avs  273 (966)
T KOG4626|consen  196 AEGRLEEAKACYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLD-PNFLDAYINLGNVYKEARIFDRAVS  273 (966)
T ss_pred             hhcccchhHHHHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCC-CcchHHHhhHHHHHHHHhcchHHHH
Confidence            3455555555555444431 1112344444444555555555555555555433 1122344455556666666666666


Q ss_pred             HHhccCC--C-CcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcC
Q 046221          308 VFNQITE--K-SLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGF  384 (572)
Q Consensus       308 ~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  384 (572)
                      .|.+...  | ..+.+..+...|...|+.+-|+..+++..+..+.  =+..|+.+..++-..|++.+|.+.+....... 
T Consensus       274 ~Y~rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~--F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-  350 (966)
T KOG4626|consen  274 CYLRALNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPN--FPDAYNNLANALKDKGSVTEAVDCYNKALRLC-  350 (966)
T ss_pred             HHHHHHhcCCcchhhccceEEEEeccccHHHHHHHHHHHHhcCCC--chHHHhHHHHHHHhccchHHHHHHHHHHHHhC-
Confidence            6555432  2 2345555555566666666666666666422222  23456666666666666666666666666554 


Q ss_pred             CCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCC-HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHH
Q 046221          385 PRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRD-VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS-STYLSI  461 (572)
Q Consensus       385 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l  461 (572)
                      +......+.|...|...|.+++|.++|... .+.|. ...++.|...|.++|++++|+..|++.++  +.|+. ..|+.+
T Consensus       351 p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~Nm  428 (966)
T KOG4626|consen  351 PNHADAMNNLGNIYREQGKIEEATRLYLKALEVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNM  428 (966)
T ss_pred             CccHHHHHHHHHHHHHhccchHHHHHHHHHHhhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhc
Confidence            334556677899999999999999999988 55565 56789999999999999999999999998  89987 889999


Q ss_pred             HHHHhccCChHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhhCChhHHHHHHHhccC-CCC-hHHHHHHHHHHhhhcC
Q 046221          462 LNACGHAGLTNDGLVIFNQMIEENKVKPS-QEHYGCVVDLLARAGCLSDASGLAGKLLE-GMG-PNIWRALLSGCVLHVG  538 (572)
Q Consensus       462 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~-~~~~~~l~~~~~~~~g  538 (572)
                      ...|-..|+.+.|++.+.+++.-   .|. ...++.|...|...|++.+|++-+++... +|| +..|..++.....- .
T Consensus       429 Gnt~ke~g~v~~A~q~y~rAI~~---nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~v-c  504 (966)
T KOG4626|consen  429 GNTYKEMGDVSAAIQCYTRAIQI---NPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIV-C  504 (966)
T ss_pred             chHHHHhhhHHHHHHHHHHHHhc---CcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHH-h
Confidence            99999999999999999999853   344 45889999999999999999999999887 554 55677666654333 4


Q ss_pred             CHHH
Q 046221          539 RFQD  542 (572)
Q Consensus       539 ~~~~  542 (572)
                      +|.+
T Consensus       505 dw~D  508 (966)
T KOG4626|consen  505 DWTD  508 (966)
T ss_pred             cccc
Confidence            4443

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.90  E-value=7.4e-21  Score=183.39  Aligned_cols=304  Identities=15%  Similarity=0.124  Sum_probs=206.6

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCCh
Q 046221          223 MGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDL  302 (572)
Q Consensus       223 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  302 (572)
                      ...+...|++++|...|.++.+.+ +.+..++..+...+...|++++|..+++.+...+..++..               
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~---------------  105 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQ---------------  105 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHH---------------
Confidence            334455666666777766666542 1223345555555555566666665555555432111100               


Q ss_pred             hHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHh
Q 046221          303 DSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEA  382 (572)
Q Consensus       303 ~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  382 (572)
                                   ....+..+...|.+.|++++|..+|+++. . ..+.+..++..+...+...|++++|.+.++.+.+.
T Consensus       106 -------------~~~~~~~La~~~~~~g~~~~A~~~~~~~l-~-~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  170 (389)
T PRK11788        106 -------------RLLALQELGQDYLKAGLLDRAEELFLQLV-D-EGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKL  170 (389)
T ss_pred             -------------HHHHHHHHHHHHHHCCCHHHHHHHHHHHH-c-CCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHh
Confidence                         00123444455555555555555555553 1 12233445555555555555555555555555544


Q ss_pred             cCCCc----hhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--
Q 046221          383 GFPRY----RSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD--  454 (572)
Q Consensus       383 ~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~--  454 (572)
                      +..+.    ...+..+...+.+.|++++|...++++ ...| +...+..+...|.+.|++++|.++++++.+.  .|+  
T Consensus       171 ~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~p~~~  248 (389)
T PRK11788        171 GGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQ--DPEYL  248 (389)
T ss_pred             cCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--ChhhH
Confidence            32221    123455777888999999999999998 3334 4567788889999999999999999999985  444  


Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHHHHHHHHH
Q 046221          455 SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWRALLSGC  533 (572)
Q Consensus       455 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~  533 (572)
                      ..++..++.+|...|++++|...++++.+.   .|+...+..++..+.+.|++++|..+++++.. .|+...++.++...
T Consensus       249 ~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~  325 (389)
T PRK11788        249 SEVLPKLMECYQALGDEAEGLEFLRRALEE---YPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYH  325 (389)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHh
Confidence            366888999999999999999999999754   46777778899999999999999999999877 78888888887776


Q ss_pred             hh-h-cCCHHHHHHHHHHHHhCCCCCCCcee
Q 046221          534 VL-H-VGRFQDAEALRSGSQKKGIIKIPGIS  562 (572)
Q Consensus       534 ~~-~-~g~~~~A~~~~~~m~~~~~~~~~~~~  562 (572)
                      .. . .|+.++++.++++|.+++++++|.+.
T Consensus       326 ~~~~~~g~~~~a~~~~~~~~~~~~~~~p~~~  356 (389)
T PRK11788        326 LAEAEEGRAKESLLLLRDLVGEQLKRKPRYR  356 (389)
T ss_pred             hhccCCccchhHHHHHHHHHHHHHhCCCCEE
Confidence            53 2 26999999999999999999999854

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

Probab=99.89  E-value=2.6e-20  Score=170.77  Aligned_cols=424  Identities=13%  Similarity=0.087  Sum_probs=338.5

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhC
Q 046221          119 NAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCL  198 (572)
Q Consensus       119 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (572)
                      ..|..-..+.|++++|.+.-...-..+ ..+..+.-.+-..+.+..+.+...+.-....+.. +.-..+|..+.+.+-..
T Consensus        52 l~lah~~yq~gd~~~a~~h~nmv~~~d-~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~-~q~ae~ysn~aN~~ker  129 (966)
T KOG4626|consen   52 LELAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILKER  129 (966)
T ss_pred             HHHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHHHh
Confidence            345556678899999998877665542 1122233233334555556665544444434332 44567899999999999


Q ss_pred             CCHHHHHHHHhhcCC---CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHH-HHHHhcccCChHHHHHHH
Q 046221          199 MDLDAAIQIFREMEC---KDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLN-LISVNAILGDLKRGKQLH  274 (572)
Q Consensus       199 ~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-ll~~~~~~~~~~~a~~~~  274 (572)
                      |++++|+.+++.+.+   ..+..|..+..++...|+.+.|...|.+..+.  .|+.....+ +-..+...|++.+|...|
T Consensus       130 g~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~cY  207 (966)
T KOG4626|consen  130 GQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKACY  207 (966)
T ss_pred             chHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHHHH
Confidence            999999999999876   35688999999999999999999999998874  566554333 333445578999999999


Q ss_pred             HHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCc---chHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCC
Q 046221          275 AQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSL---VSWTAIISGYVQNGCAREALNQFIKMRQEKTDSV  351 (572)
Q Consensus       275 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  351 (572)
                      .+.+... +.-...|+.|...+-..|++..|+..|++...-|+   ..|-.|...|...+.+++|+..+.+..  .-.+-
T Consensus       208 lkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl--~lrpn  284 (966)
T KOG4626|consen  208 LKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRAL--NLRPN  284 (966)
T ss_pred             HHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHH--hcCCc
Confidence            8888765 34456788899899999999999999999886444   578889999999999999999999885  22333


Q ss_pred             CHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHH
Q 046221          352 DSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYG  429 (572)
Q Consensus       352 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~  429 (572)
                      ....+..+...|..+|.++.|+..+++..+.. +.-+..|+.|..++-..|++.+|+..+.+. ...| ...+.+.|...
T Consensus       285 ~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni  363 (966)
T KOG4626|consen  285 HAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNI  363 (966)
T ss_pred             chhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            45677788888899999999999999998764 445788999999999999999999999998 4444 47789999999


Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChh-HHHHHHHHHHhhCCh
Q 046221          430 YGVNGHGETALALYHKMTETGEVPDS-STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQE-HYGCVVDLLARAGCL  507 (572)
Q Consensus       430 ~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~  507 (572)
                      |...|.++.|..+|....+  +.|.. ..++.|...|-.+|++++|+..++++++   +.|+.. .|+.+...|-..|+.
T Consensus       364 ~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr---I~P~fAda~~NmGnt~ke~g~v  438 (966)
T KOG4626|consen  364 YREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR---IKPTFADALSNMGNTYKEMGDV  438 (966)
T ss_pred             HHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh---cCchHHHHHHhcchHHHHhhhH
Confidence            9999999999999999998  78876 7899999999999999999999999985   567754 899999999999999


Q ss_pred             hHHHHHHHhccC-CCC-hHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          508 SDASGLAGKLLE-GMG-PNIWRALLSGCVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       508 ~~A~~~~~~~~~-~~~-~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                      ..|.+.+.++.. .|. ....+.|...+... |+..+|++-++...+..+.
T Consensus       439 ~~A~q~y~rAI~~nPt~AeAhsNLasi~kDs-Gni~~AI~sY~~aLklkPD  488 (966)
T KOG4626|consen  439 SAAIQCYTRAIQINPTFAEAHSNLASIYKDS-GNIPEAIQSYRTALKLKPD  488 (966)
T ss_pred             HHHHHHHHHHHhcCcHHHHHHhhHHHHhhcc-CCcHHHHHHHHHHHccCCC
Confidence            999999999987 554 34577777777766 9999999999998776654

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

Probab=99.88  E-value=3.3e-18  Score=165.25  Aligned_cols=529  Identities=11%  Similarity=0.052  Sum_probs=351.0

Q ss_pred             HHHhhcCChhhHHHHhccCCCCChhhHHHHHHH------HhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCC
Q 046221           13 SNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHG------YSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQN   86 (572)
Q Consensus        13 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~------~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~   86 (572)
                      ..+.+.|+.+.|+..|++..+.|+.+-++++..      +.....+..++.++...-..+ +-++...+.|-.-|.-.|+
T Consensus       207 ~Cf~kl~~~~~a~~a~~ralqLdp~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~d  285 (1018)
T KOG2002|consen  207 HCFWKLGMSEKALLAFERALQLDPTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKEN-NENPVALNHLANHFYFKKD  285 (1018)
T ss_pred             hHHHhccchhhHHHHHHHHHhcChhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhhccc
Confidence            444566777777777777766555444444321      111234455566665554433 4556667777777778888


Q ss_pred             hHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCH--hhHHHHHHHHhccC
Q 046221           87 LELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNA--VTMLTVIRGCVALG  164 (572)
Q Consensus        87 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~  164 (572)
                      ++.+..+...+........       --..+|..+.++|-..|++++|...|.+-.+.  .|+.  ..+.-+.+.+.+.|
T Consensus       286 y~~v~~la~~ai~~t~~~~-------~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~--~~d~~~l~~~GlgQm~i~~~  356 (1018)
T KOG2002|consen  286 YERVWHLAEHAIKNTENKS-------IKAESFYQLGRSYHAQGDFEKAFKYYMESLKA--DNDNFVLPLVGLGQMYIKRG  356 (1018)
T ss_pred             HHHHHHHHHHHHHhhhhhH-------HHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc--CCCCccccccchhHHHHHhc
Confidence            8888888887776553111       11235777888888888888888888777664  3333  34455667788888


Q ss_pred             ChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCC----CHHHHHHHHhhcCCC---CcccHHHHHHHHHccCCHHHHHH
Q 046221          165 SRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLM----DLDAAIQIFREMECK---DVISWTRMMGLFVDFEYAGDALK  237 (572)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~  237 (572)
                      +++.+...|+...+.. +.+..+...|...|+..+    ..+.|..++.+...+   |...|-.+...+-... +..++.
T Consensus       357 dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laql~e~~d-~~~sL~  434 (1018)
T KOG2002|consen  357 DLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQLLEQTD-PWASLD  434 (1018)
T ss_pred             hHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHhcC-hHHHHH
Confidence            8888888888887764 455566666666666654    456677777666553   4556666665555443 333365


Q ss_pred             HHHHH----HhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHh---CCCCCcc------hHHHHHHHHHhcCChhH
Q 046221          238 IFREM----RKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLG---GLQSELR------LSNSIIAMYSKCGDLDS  304 (572)
Q Consensus       238 ~~~~m----~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~------~~~~l~~~~~~~~~~~~  304 (572)
                      .|...    ...+-.+.+...+.+...+...|++..|...+......   ...++..      +--.+..++-..++.+.
T Consensus       435 ~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~  514 (1018)
T KOG2002|consen  435 AYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEV  514 (1018)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhH
Confidence            55443    34454566777888888888888888888888887765   1223321      22335566666778888


Q ss_pred             HHHHHhccCCCCc---chHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHH
Q 046221          305 SRSVFNQITEKSL---VSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFE  381 (572)
Q Consensus       305 a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  381 (572)
                      |.+.|..+.+..+   ..|-.+.......+...+|...+..........|+..++.  ...+.....+..|..-|..+.+
T Consensus       515 A~e~Yk~Ilkehp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~--G~~~l~k~~~~~a~k~f~~i~~  592 (1018)
T KOG2002|consen  515 AEEMYKSILKEHPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLL--GNLHLKKSEWKPAKKKFETILK  592 (1018)
T ss_pred             HHHHHHHHHHHCchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHH--HHHHHhhhhhcccccHHHHHHh
Confidence            8888888875332   2333333222334677888888888865556666665543  3345555556666665555544


Q ss_pred             hcC-CCchhHHHHHHHHhhh------------cCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHH
Q 046221          382 AGF-PRYRSVQNCLISSYSK------------CGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKM  446 (572)
Q Consensus       382 ~~~-~~~~~~~~~l~~~~~~------------~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  446 (572)
                      ... .+|+...-+|.+.|..            .+..++|+++|.+.  ..+.+...-|.+.-.++..|++..|..+|.+.
T Consensus       593 ~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqV  672 (1018)
T KOG2002|consen  593 KTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEKGRFSEARDIFSQV  672 (1018)
T ss_pred             hhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcchhhhccchhhhhhhccCchHHHHHHHHH
Confidence            322 2455555555554432            24577888888877  44456777788888899999999999999999


Q ss_pred             HhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHH
Q 046221          447 TETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNI  525 (572)
Q Consensus       447 ~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~  525 (572)
                      ++.. .-...+|..+..+|...|++-.|++.|+..+++..-.-+..+...|..++.+.|.+.+|.+.+..+.. .|...+
T Consensus       673 rEa~-~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~  751 (1018)
T KOG2002|consen  673 REAT-SDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTS  751 (1018)
T ss_pred             HHHH-hhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccch
Confidence            9974 33556788899999999999999999999998887677888999999999999999999999888776 443332


Q ss_pred             --HHHHHHHHhhh-----------------cCCHHHHHHHHHHHHhCCCC
Q 046221          526 --WRALLSGCVLH-----------------VGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       526 --~~~l~~~~~~~-----------------~g~~~~A~~~~~~m~~~~~~  556 (572)
                        +|..+......                 .+..++|.++|..|...+-+
T Consensus       752 v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  752 VKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence              33322211100                 56778889999999887765

>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=99.87  E-value=6.5e-18  Score=171.36  Aligned_cols=421  Identities=11%  Similarity=-0.042  Sum_probs=221.7

Q ss_pred             HHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeH
Q 046221           39 WSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSC  118 (572)
Q Consensus        39 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (572)
                      +......+.+.|++++|+..|++..+.  .|+...|..+..++.+.|++++|...++..++..+          .+...|
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p----------~~~~a~  197 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDP----------DYSKAL  197 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCC----------CCHHHH
Confidence            445566777888888888888887754  56667777777778888888888888888777654          345577


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhC
Q 046221          119 NAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCL  198 (572)
Q Consensus       119 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (572)
                      ..+..++...|++++|+..|......+.. +......++.....    ..+........+.. +++...+..+.. +...
T Consensus       198 ~~~a~a~~~lg~~~eA~~~~~~~~~~~~~-~~~~~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~  270 (615)
T TIGR00990       198 NRRANAYDGLGKYADALLDLTASCIIDGF-RNEQSAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGN-YLQS  270 (615)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ccHHHHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHH
Confidence            77788888888888888777665543211 11111111111111    11122222222211 111122221111 1111


Q ss_pred             CCHHHHHHHHhhcCCCCc---ccHHHHHHHH---HccCCHHHHHHHHHHHHhCC-CCCCccchHHHHHHhcccCChHHHH
Q 046221          199 MDLDAAIQIFREMECKDV---ISWTRMMGLF---VDFEYAGDALKIFREMRKSR-IICDTVALLNLISVNAILGDLKRGK  271 (572)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~---~~~~~li~~~---~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~  271 (572)
                      ........-+....+.+.   ..+..+...+   ...+++++|.+.|+...+.+ ..|                      
T Consensus       271 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~----------------------  328 (615)
T TIGR00990       271 FRPKPRPAGLEDSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGE----------------------  328 (615)
T ss_pred             ccCCcchhhhhcccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCCh----------------------
Confidence            111111111111101000   0111111000   11234444555444444332 111                      


Q ss_pred             HHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC--CC-cchHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 046221          272 QLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE--KS-LVSWTAIISGYVQNGCAREALNQFIKMRQEKT  348 (572)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  348 (572)
                                  .....+..+...+...|++++|...|+...+  |+ ...|..+...+...|++++|...|++..+.  
T Consensus       329 ------------~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~--  394 (615)
T TIGR00990       329 ------------KEAIALNLRGTFKCLKGKHLEALADLSKSIELDPRVTQSYIKRASMNLELGDPDKAEEDFDKALKL--  394 (615)
T ss_pred             ------------hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--
Confidence                        1223344444555555555555555555443  21 234455555555666666666666655422  


Q ss_pred             CCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHH
Q 046221          349 DSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTI  426 (572)
Q Consensus       349 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l  426 (572)
                      .+.+...+..+...+...|+++.|...++...+.. +.+...+..+..++.+.|++++|+..|++. ...| +...|+.+
T Consensus       395 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~l  473 (615)
T TIGR00990       395 NSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNFPEAPDVYNYY  473 (615)
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHH
Confidence            22334455555555666666666666666655543 334455556666777777777777777766 3223 35667777


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCH--------HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHH
Q 046221          427 IYGYGVNGHGETALALYHKMTETGEVPDS--------STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVV  498 (572)
Q Consensus       427 ~~~~~~~~~~~~A~~~~~~~~~~g~~p~~--------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  498 (572)
                      ...+...|++++|+..|++..+.  .|+.        ..+......+...|++++|.++++++++..  +.+...+..++
T Consensus       474 g~~~~~~g~~~~A~~~~~~Al~l--~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~--p~~~~a~~~la  549 (615)
T TIGR00990       474 GELLLDQNKFDEAIEKFDTAIEL--EKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID--PECDIAVATMA  549 (615)
T ss_pred             HHHHHHccCHHHHHHHHHHHHhc--CCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC--CCcHHHHHHHH
Confidence            77777777777777777777663  3321        111112222334577777777777776432  22333566777


Q ss_pred             HHHHhhCChhHHHHHHHhccC
Q 046221          499 DLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       499 ~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .++.+.|++++|.++|+++.+
T Consensus       550 ~~~~~~g~~~eAi~~~e~A~~  570 (615)
T TIGR00990       550 QLLLQQGDVDEALKLFERAAE  570 (615)
T ss_pred             HHHHHccCHHHHHHHHHHHHH
Confidence            777777777777777777655

>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=99.86  E-value=1.7e-17  Score=168.34  Aligned_cols=420  Identities=12%  Similarity=-0.011  Sum_probs=290.4

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHh
Q 046221          118 CNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSC  197 (572)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  197 (572)
                      +......+.+.|++++|++.|++..+  +.|+...|..+..++...|++++|...+...++.. +.+...+..+..+|..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~--~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIE--CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh--cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            44567788899999999999999887  46788888888899999999999999999988864 4556788889999999


Q ss_pred             CCCHHHHHHHHhhcCCCC---cccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHH
Q 046221          198 LMDLDAAIQIFREMECKD---VISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLH  274 (572)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  274 (572)
                      .|++++|+..|......+   ......++..+..    ..+........+. .+++...+..+.. +...........-+
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~a~~~~~~~l~~-~~~~~~~~~~~~~-~~~~~~~~~~~~~~  280 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQSAQAVERLLK----KFAESKAKEILET-KPENLPSVTFVGN-YLQSFRPKPRPAGL  280 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHH----HHHHHHHHHHHhc-CCCCCCCHHHHHH-HHHHccCCcchhhh
Confidence            999999998876554311   1111111211111    1222223333222 1222222222221 21111111111111


Q ss_pred             HHHHHhCCCCCc-chHHHHHHH---HHhcCChhHHHHHHhccCCC------CcchHHHHHHHHHHcCChHHHHHHHHHHH
Q 046221          275 AQVVLGGLQSEL-RLSNSIIAM---YSKCGDLDSSRSVFNQITEK------SLVSWTAIISGYVQNGCAREALNQFIKMR  344 (572)
Q Consensus       275 ~~~~~~~~~~~~-~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  344 (572)
                      .....  ..+.. ..+..+...   ....+++++|.+.|+...+.      ....|..+...+...|++++|+..+++..
T Consensus       281 ~~~~~--~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal  358 (615)
T TIGR00990       281 EDSNE--LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSI  358 (615)
T ss_pred             hcccc--cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            11111  11111 111111111   12346899999999887642      23467788888999999999999999986


Q ss_pred             hcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhH
Q 046221          345 QEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVS  422 (572)
Q Consensus       345 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~  422 (572)
                      ..  .+-....+..+...+...|+++.|...++.+.+.. +.+...+..+...+...|++++|...|++. ...| +...
T Consensus       359 ~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~  435 (615)
T TIGR00990       359 EL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFS  435 (615)
T ss_pred             Hc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHH
Confidence            32  23345677888888899999999999999988764 556788899999999999999999999998 4445 4677


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCC-CC---Chh-HHHH
Q 046221          423 WNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKV-KP---SQE-HYGC  496 (572)
Q Consensus       423 ~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~---~~~-~~~~  496 (572)
                      +..+...+.+.|++++|+..|++..+.  .| +...+..+...+...|++++|+..|+++++...- .+   +.. .++.
T Consensus       436 ~~~la~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~  513 (615)
T TIGR00990       436 HIQLGVTQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINK  513 (615)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHH
Confidence            788888999999999999999999884  56 4588999999999999999999999998754311 01   111 2222


Q ss_pred             HHHHHHhhCChhHHHHHHHhccC-CCCh-HHHHHHHHHHhhhcCCHHHHHHHHHHHHhCC
Q 046221          497 VVDLLARAGCLSDASGLAGKLLE-GMGP-NIWRALLSGCVLHVGRFQDAEALRSGSQKKG  554 (572)
Q Consensus       497 l~~~~~~~g~~~~A~~~~~~~~~-~~~~-~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~  554 (572)
                      ....+...|++++|.++++++.. .|+. ..+..+...+... |++++|+..|++..+..
T Consensus       514 a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~-g~~~eAi~~~e~A~~l~  572 (615)
T TIGR00990       514 ALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQ-GDVDEALKLFERAAELA  572 (615)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHc-cCHHHHHHHHHHHHHHh
Confidence            33344457999999999999876 4444 4577777777776 99999999999986543

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.86  E-value=2e-19  Score=173.47  Aligned_cols=300  Identities=11%  Similarity=0.057  Sum_probs=150.3

Q ss_pred             HHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCC-C------cccHHHHHHHHHccCC
Q 046221          159 GCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECK-D------VISWTRMMGLFVDFEY  231 (572)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~------~~~~~~li~~~~~~~~  231 (572)
                      .+...|++++|...|+++.+.+ +.+..++..+...+...|++++|..+++.+... +      ...+..+...|...|+
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~  122 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGL  122 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCC
Confidence            3455566777777777776653 334455666666666666666666666655431 1      1234555566666666


Q ss_pred             HHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhc
Q 046221          232 AGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQ  311 (572)
Q Consensus       232 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  311 (572)
                      +++|..+|+++.+.. +++..++..++..+...|++++|...++.+.+.+..+.....                      
T Consensus       123 ~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~----------------------  179 (389)
T PRK11788        123 LDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEI----------------------  179 (389)
T ss_pred             HHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHH----------------------
Confidence            666666666665431 223444555555555555555555555555543321111000                      


Q ss_pred             cCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHH
Q 046221          312 ITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQ  391 (572)
Q Consensus       312 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  391 (572)
                           ...+..+...+.+.|++++|...|+++.+.  .+.+...+..+...+.+.|++++|.++++.+.+.+......++
T Consensus       180 -----~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  252 (389)
T PRK11788        180 -----AHFYCELAQQALARGDLDAARALLKKALAA--DPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVL  252 (389)
T ss_pred             -----HHHHHHHHHHHHhCCCHHHHHHHHHHHHhH--CcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHH
Confidence                 001223333444444455555555444311  1112223333333344444444444444444333211112344


Q ss_pred             HHHHHHhhhcCChHHHHHHHHHc-CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc---
Q 046221          392 NCLISSYSKCGNVDLAYIVFEEM-GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGH---  467 (572)
Q Consensus       392 ~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~---  467 (572)
                      +.++.+|.+.|++++|...++++ ...|+...+..++..+.+.|++++|..+++++.+.  .|+..++..++..+..   
T Consensus       253 ~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~  330 (389)
T PRK11788        253 PKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAE  330 (389)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccC
Confidence            55555666666666666666665 33355444555666666666666666666666552  4666556555554442   


Q ss_pred             cCChHHHHHHHHHhHHhcCCCCChh
Q 046221          468 AGLTNDGLVIFNQMIEENKVKPSQE  492 (572)
Q Consensus       468 ~g~~~~a~~~~~~~~~~~~~~~~~~  492 (572)
                      .|+.++++.+++++++ .++.|++.
T Consensus       331 ~g~~~~a~~~~~~~~~-~~~~~~p~  354 (389)
T PRK11788        331 EGRAKESLLLLRDLVG-EQLKRKPR  354 (389)
T ss_pred             CccchhHHHHHHHHHH-HHHhCCCC
Confidence            3456666666666653 22444443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.86  E-value=6.4e-18  Score=170.64  Aligned_cols=320  Identities=12%  Similarity=0.023  Sum_probs=205.6

Q ss_pred             HHHHHHHhCCCHHHHHHHHhhcCC---CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCC
Q 046221          190 SVLDMYSCLMDLDAAIQIFREMEC---KDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGD  266 (572)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  266 (572)
                      .++..+.+.|+.++|..+++....   .+...+..++.+....|++++|...++++.... +.+...+..+...+...|+
T Consensus        47 ~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~  125 (656)
T PRK15174         47 LFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQ  125 (656)
T ss_pred             HHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCC
Confidence            345566677777777777776654   234455556666667777777777777777642 2234455666666777777


Q ss_pred             hHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC--CCc-chHHHHHHHHHHcCChHHHHHHHHHH
Q 046221          267 LKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE--KSL-VSWTAIISGYVQNGCAREALNQFIKM  343 (572)
Q Consensus       267 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~  343 (572)
                      ++.|...++.+.+.. +.+...+..+...+...|++++|...++.+..  |+. ..+..+ ..+...|++++|...++.+
T Consensus       126 ~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~  203 (656)
T PRK15174        126 YATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPRGDMIATC-LSFLNKSRLPEDHDLARAL  203 (656)
T ss_pred             HHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCCHHHHHHH-HHHHHcCCHHHHHHHHHHH
Confidence            777777777777653 34455666677777777777777777766532  222 223222 3366677777777777776


Q ss_pred             HhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHH----HHHHHHHc-CCCC
Q 046221          344 RQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDL----AYIVFEEM-GFLR  418 (572)
Q Consensus       344 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~----A~~~~~~~-~~~~  418 (572)
                      . .....++......+...+...|++++|...++.+.+.. +.+...+..+...+...|++++    |...+++. ...|
T Consensus       204 l-~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P  281 (656)
T PRK15174        204 L-PFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNS  281 (656)
T ss_pred             H-hcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCC
Confidence            5 32222333344444556667777777777777777654 4455666667777777777764    67777766 3333


Q ss_pred             -CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChh-HHH
Q 046221          419 -DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQE-HYG  495 (572)
Q Consensus       419 -~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~  495 (572)
                       +...+..+...+...|++++|+..+++..+  ..|+ ...+..+..++.+.|++++|+..++++++..   |+.. .+.
T Consensus       282 ~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~--l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~---P~~~~~~~  356 (656)
T PRK15174        282 DNVRIVTLYADALIRTGQNEKAIPLLQQSLA--THPDLPYVRAMYARALRQVGQYTAASDEFVQLAREK---GVTSKWNR  356 (656)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---ccchHHHH
Confidence             355667777777777777777777777776  3454 3556666777777777777777777776533   3332 333


Q ss_pred             HHHHHHHhhCChhHHHHHHHhccC
Q 046221          496 CVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       496 ~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .+..++...|++++|...++++.+
T Consensus       357 ~~a~al~~~G~~deA~~~l~~al~  380 (656)
T PRK15174        357 YAAAALLQAGKTSEAESVFEHYIQ  380 (656)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH
Confidence            345667777777777777777665

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.86  E-value=6.4e-17  Score=167.09  Aligned_cols=152  Identities=7%  Similarity=-0.083  Sum_probs=75.9

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCC
Q 046221          120 AIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLM  199 (572)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  199 (572)
                      -.+......|+.++|++++.+..... ..+...+..+..++...|++++|..++++.++.. +.+...+..+...+...|
T Consensus        20 d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g   97 (765)
T PRK10049         20 DWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAG   97 (765)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCC
Confidence            34444555566666666666555421 2233345555555556666666666666555542 333444445555555555


Q ss_pred             CHHHHHHHHhhcCC--C-CcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCc-cchHHHHHHhcccCChHHHHHHHH
Q 046221          200 DLDAAIQIFREMEC--K-DVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDT-VALLNLISVNAILGDLKRGKQLHA  275 (572)
Q Consensus       200 ~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~  275 (572)
                      +.++|...+++...  | +.. +..+...+...|++++|+..++++.+.  .|+. ..+..+..++...+..+.|...++
T Consensus        98 ~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~--~P~~~~~~~~la~~l~~~~~~e~Al~~l~  174 (765)
T PRK10049         98 QYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPR--APQTQQYPTEYVQALRNNRLSAPALGAID  174 (765)
T ss_pred             CHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCChHHHHHHHH
Confidence            56655555555543  2 223 555555555555555555555555553  2222 222333334444455555554444


Q ss_pred             H
Q 046221          276 Q  276 (572)
Q Consensus       276 ~  276 (572)
                      .
T Consensus       175 ~  175 (765)
T PRK10049        175 D  175 (765)
T ss_pred             h
Confidence            3

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.84  E-value=1.1e-16  Score=165.27  Aligned_cols=408  Identities=8%  Similarity=-0.071  Sum_probs=232.8

Q ss_pred             ChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCC
Q 046221           35 NVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPY  114 (572)
Q Consensus        35 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  114 (572)
                      ++..-.-.+......|+.++|++++.+..... +.+...+..+...+...|++++|..+++..++..+          .+
T Consensus        14 ~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P----------~~   82 (765)
T PRK10049         14 SNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEP----------QN   82 (765)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----------CC
Confidence            33344445556667788888888888876522 34444577777777888888888888888777654          33


Q ss_pred             ceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHH
Q 046221          115 LVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDM  194 (572)
Q Consensus       115 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  194 (572)
                      ...+..++..+...|++++|+..+++..+.. +.+.. +..+..++...|+.++|...++++++.. +.+...+..+..+
T Consensus        83 ~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~  159 (765)
T PRK10049         83 DDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQA  159 (765)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            4456677777888888888888888887752 22344 6667777778888888888888888764 3445555666777


Q ss_pred             HHhCCCHHHHHHHHhhcCC-CCc------ccHHHHHHHHHc-----cCCH---HHHHHHHHHHHhC-CCCCCcc-chHH-
Q 046221          195 YSCLMDLDAAIQIFREMEC-KDV------ISWTRMMGLFVD-----FEYA---GDALKIFREMRKS-RIICDTV-ALLN-  256 (572)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~-~~~------~~~~~li~~~~~-----~~~~---~~a~~~~~~m~~~-~~~p~~~-~~~~-  256 (572)
                      +...+..+.|+..++.... |+.      .....++.....     .+++   ++|+..++.+.+. ...|+.. .+.. 
T Consensus       160 l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a  239 (765)
T PRK10049        160 LRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRA  239 (765)
T ss_pred             HHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHH
Confidence            7777888888888877665 110      011112222211     1223   5566666666543 1222221 1110 


Q ss_pred             ---HHHHhcccCChHHHHHHHHHHHHhCCC-CCcchHHHHHHHHHhcCChhHHHHHHhccCCCCc-------chHHHHHH
Q 046221          257 ---LISVNAILGDLKRGKQLHAQVVLGGLQ-SELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSL-------VSWTAIIS  325 (572)
Q Consensus       257 ---ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~l~~  325 (572)
                         .+.++...|++++|...|+.+.+.+.+ |+. ....+...|...|++++|...|+++.+.+.       .....+..
T Consensus       240 ~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~  318 (765)
T PRK10049        240 RIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFY  318 (765)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHH
Confidence               022334445666666666666554321 111 111234455555666666665555432111       12333344


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCc---hhHHHHHHHHhhhcC
Q 046221          326 GYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRY---RSVQNCLISSYSKCG  402 (572)
Q Consensus       326 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g  402 (572)
                      ++...|++++|...++.+...  .++....+...                       ...|+   ...+..+...+...|
T Consensus       319 a~~~~g~~~eA~~~l~~~~~~--~P~~~~~~~~~-----------------------~~~p~~~~~~a~~~~a~~l~~~g  373 (765)
T PRK10049        319 SLLESENYPGALTVTAHTINN--SPPFLRLYGSP-----------------------TSIPNDDWLQGQSLLSQVAKYSN  373 (765)
T ss_pred             HHHhcccHHHHHHHHHHHhhc--CCceEeecCCC-----------------------CCCCCchHHHHHHHHHHHHHHcC
Confidence            455555555555555555311  11111000000                       00122   123344555666777


Q ss_pred             ChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCChHHHHHHHH
Q 046221          403 NVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD-SSTYLSILNACGHAGLTNDGLVIFN  479 (572)
Q Consensus       403 ~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~  479 (572)
                      ++++|+++++++  ..+.+...+..+...+...|++++|++.+++..+  +.|+ ...+...+..+...|++++|..+++
T Consensus       374 ~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~--l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~  451 (765)
T PRK10049        374 DLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEV--LEPRNINLEVEQAWTALDLQEWRQMDVLTD  451 (765)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh--hCCCChHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            777777777776  3323355666667777777777777777777776  4564 3555555566677777777777777


Q ss_pred             HhHHh
Q 046221          480 QMIEE  484 (572)
Q Consensus       480 ~~~~~  484 (572)
                      ++++.
T Consensus       452 ~ll~~  456 (765)
T PRK10049        452 DVVAR  456 (765)
T ss_pred             HHHHh
Confidence            77653

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.84  E-value=3.6e-16  Score=137.57  Aligned_cols=463  Identities=12%  Similarity=0.054  Sum_probs=294.0

Q ss_pred             hhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHc--CCCChHHH-HHHHHHHHHhcCCCCc------
Q 046221           36 VVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAA--GLQNLELA-RSIHGLMVKFGLESDL------  106 (572)
Q Consensus        36 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~--~~g~~~~a-~~~~~~~~~~~~~~~~------  106 (572)
                      +.+=|.++. +..+|.+.++.-+|+.|+..|++.+...-..|+...+  ...++.-| .+.|-.|...|-....      
T Consensus       116 V~~E~nL~k-mIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~  194 (625)
T KOG4422|consen  116 VETENNLLK-MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGA  194 (625)
T ss_pred             hcchhHHHH-HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccccccc
Confidence            344555554 4667899999999999999998888877777766544  33333322 2334444444432221      


Q ss_pred             -----ccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcC
Q 046221          107 -----FEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGL  181 (572)
Q Consensus       107 -----~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  181 (572)
                           |+..| .+..+|..+|.++++.-..+.|.+++++-.....+.+..+||.+|.+-.-..    ..+++.+|....+
T Consensus       195 vAdL~~E~~P-KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm  269 (625)
T KOG4422|consen  195 VADLLFETLP-KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKM  269 (625)
T ss_pred             HHHHHHhhcC-CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhc
Confidence                 33333 3445778888888888888888888888877777778888888877643222    2667777887778


Q ss_pred             CCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHh
Q 046221          182 ILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVN  261 (572)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  261 (572)
                      .||..|+|+++.+..+.|+++.|.+                           .|.+++.+|++-|+.|...+|..+|..+
T Consensus       270 ~Pnl~TfNalL~c~akfg~F~~ar~---------------------------aalqil~EmKeiGVePsLsSyh~iik~f  322 (625)
T KOG4422|consen  270 TPNLFTFNALLSCAAKFGKFEDARK---------------------------AALQILGEMKEIGVEPSLSSYHLIIKNF  322 (625)
T ss_pred             CCchHhHHHHHHHHHHhcchHHHHH---------------------------HHHHHHHHHHHhCCCcchhhHHHHHHHh
Confidence            8888888888888887777776653                           4677888999999999999999999988


Q ss_pred             cccCChHH-HHHHHHHHHHh--C--C----CCCcchHHHHHHHHHhcCChhHHHHHHhccCC--------CCc---chHH
Q 046221          262 AILGDLKR-GKQLHAQVVLG--G--L----QSELRLSNSIIAMYSKCGDLDSSRSVFNQITE--------KSL---VSWT  321 (572)
Q Consensus       262 ~~~~~~~~-a~~~~~~~~~~--~--~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------~~~---~~~~  321 (572)
                      ++.++..+ +..++.++...  |  +    +.|...|...+..|.+..+.+-|.++-.-...        ++.   .-|.
T Consensus       323 ~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr  402 (625)
T KOG4422|consen  323 KRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYR  402 (625)
T ss_pred             cccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHH
Confidence            88887754 44555555432  1  2    22344566677778888888888777655442        111   2355


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhc
Q 046221          322 AIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKC  401 (572)
Q Consensus       322 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  401 (572)
                      .+....|+....+.-+..|+.|. -.-.-|+..+...++.+..-.+.++-.-+++..++..|.......-.-++..+++.
T Consensus       403 ~~~~licq~es~~~~~~~Y~~lV-P~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~  481 (625)
T KOG4422|consen  403 KFFDLICQMESIDVTLKWYEDLV-PSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARD  481 (625)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhc-cceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcC
Confidence            67778888888999999999998 77888999999999999999999999999999988877544333322222222222


Q ss_pred             CChHHHHHHHHHcCCCCCHh---HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHH
Q 046221          402 GNVDLAYIVFEEMGFLRDVV---SWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIF  478 (572)
Q Consensus       402 g~~~~A~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~  478 (572)
                                   ...|+..   -+.....-|+ ..-.+.....-.+|.+...  .....+.++-.+.+.|+.++|.+++
T Consensus       482 -------------k~hp~tp~r~Ql~~~~ak~a-ad~~e~~e~~~~R~r~~~~--~~t~l~~ia~Ll~R~G~~qkA~e~l  545 (625)
T KOG4422|consen  482 -------------KLHPLTPEREQLQVAFAKCA-ADIKEAYESQPIRQRAQDW--PATSLNCIAILLLRAGRTQKAWEML  545 (625)
T ss_pred             -------------CCCCCChHHHHHHHHHHHHH-HHHHHHHHhhHHHHHhccC--ChhHHHHHHHHHHHcchHHHHHHHH
Confidence                         1122211   2222211111 1111222223344554333  3344555555667888888888888


Q ss_pred             HHhHHhcCCCCChhHHH---HHHHHHHhhCChhHHHHHHHhccC--CCChH-HHHHHHHHHhhhcCCHHHHHHHHHH
Q 046221          479 NQMIEENKVKPSQEHYG---CVVDLLARAGCLSDASGLAGKLLE--GMGPN-IWRALLSGCVLHVGRFQDAEALRSG  549 (572)
Q Consensus       479 ~~~~~~~~~~~~~~~~~---~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~-~~~~l~~~~~~~~g~~~~A~~~~~~  549 (572)
                      ....+++.-.|-....+   -+++.-.+.++...|..+++-|..  .|... .-+.+...|... ....+|+.-|..
T Consensus       546 ~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n~~~~E~La~RI~e~f~iN-qeq~~~ls~l~~  621 (625)
T KOG4422|consen  546 GLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFNLPICEGLAQRIMEDFAIN-QEQKEALSNLTA  621 (625)
T ss_pred             HHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCchhhhHHHHHHHHhcCcC-HHHHHHHhhhhh
Confidence            87765544444444444   445555677778888888887765  22222 233444444433 333344444433

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.84  E-value=4.9e-17  Score=164.29  Aligned_cols=326  Identities=8%  Similarity=-0.030  Sum_probs=254.0

Q ss_pred             eHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHH
Q 046221          117 SCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYS  196 (572)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  196 (572)
                      -...++..+.+.|++++|..+++........+ ...+..++.+....|+++.|...++.+++.. +.+...+..+...+.
T Consensus        44 ~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~-~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~  121 (656)
T PRK15174         44 NIILFAIACLRKDETDVGLTLLSDRVLTAKNG-RDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLL  121 (656)
T ss_pred             CHHHHHHHHHhcCCcchhHHHhHHHHHhCCCc-hhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHH
Confidence            34566778889999999999999998874443 4445555567778999999999999999875 556677888889999


Q ss_pred             hCCCHHHHHHHHhhcCC--C-CcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHH
Q 046221          197 CLMDLDAAIQIFREMEC--K-DVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQL  273 (572)
Q Consensus       197 ~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  273 (572)
                      ..|+.++|...+++...  | +...+..+...+...|++++|...++.+....  |+.......+..+...|++++|...
T Consensus       122 ~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~--P~~~~a~~~~~~l~~~g~~~eA~~~  199 (656)
T PRK15174        122 KSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEV--PPRGDMIATCLSFLNKSRLPEDHDL  199 (656)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999998875  3 56678889999999999999999999887653  3333222223347788999999999


Q ss_pred             HHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC---CCcchHHHHHHHHHHcCChHH----HHHHHHHHHhc
Q 046221          274 HAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE---KSLVSWTAIISGYVQNGCARE----ALNQFIKMRQE  346 (572)
Q Consensus       274 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~  346 (572)
                      ++.+.+....++......+...+.+.|++++|...++....   .+...+..+...+...|++++    |...|++... 
T Consensus       200 ~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~-  278 (656)
T PRK15174        200 ARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQ-  278 (656)
T ss_pred             HHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHh-
Confidence            99987765444444555567788899999999999988764   244577778888999999885    7889988863 


Q ss_pred             CCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCHhH-HH
Q 046221          347 KTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDVVS-WN  424 (572)
Q Consensus       347 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~-~~  424 (572)
                       ..+.+...+..+...+...|+++.|...++...+.. +.+...+..+..++.+.|++++|...++++ ...|+... +.
T Consensus       279 -l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~  356 (656)
T PRK15174        279 -FNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWNR  356 (656)
T ss_pred             -hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHHH
Confidence             234466788888888999999999999999888764 445666777888999999999999999988 44455433 34


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhc
Q 046221          425 TIIYGYGVNGHGETALALYHKMTET  449 (572)
Q Consensus       425 ~l~~~~~~~~~~~~A~~~~~~~~~~  449 (572)
                      .+..++...|+.++|...|++..+.
T Consensus       357 ~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        357 YAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            4566788899999999999998874

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.84  E-value=5.1e-16  Score=157.17  Aligned_cols=425  Identities=9%  Similarity=-0.038  Sum_probs=313.2

Q ss_pred             HHHHHhCCChHHHHHHHHHHHhCCCCCCH--hhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCC
Q 046221          122 VAGFINNKLFQQAVLLFNFFRGSGLVPNA--VTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLM  199 (572)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  199 (572)
                      +-...+.|+++.|++.|++..+.  .|+.  ..+ .++..+...|+.++|...+++.+. ..+........+...+...|
T Consensus        41 aii~~r~Gd~~~Al~~L~qaL~~--~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~-p~n~~~~~llalA~ly~~~g  116 (822)
T PRK14574         41 LIIRARAGDTAPVLDYLQEESKA--GPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQS-SMNISSRGLASAARAYRNEK  116 (822)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhh--CccchhhHH-HHHHHHHHcCCcHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHcC
Confidence            34567899999999999999875  4554  234 788888888999999999999882 11222333333466888899


Q ss_pred             CHHHHHHHHhhcCC--C-CcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHH
Q 046221          200 DLDAAIQIFREMEC--K-DVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQ  276 (572)
Q Consensus       200 ~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  276 (572)
                      ++++|+++|+++.+  | +...+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|...+++
T Consensus       117 dyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ek  194 (822)
T PRK14574        117 RWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSE  194 (822)
T ss_pred             CHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHH
Confidence            99999999999986  3 4566778888999999999999999999875  56666665555555556677669999999


Q ss_pred             HHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCC-CcchH--------HHHHHHH-----HHcCC---hHHHHHH
Q 046221          277 VVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEK-SLVSW--------TAIISGY-----VQNGC---AREALNQ  339 (572)
Q Consensus       277 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~--------~~l~~~~-----~~~~~---~~~a~~~  339 (572)
                      +.+.. +.+...+..++.++.+.|-...|.++..+-+.- +...+        ...++.-     ....+   .+.|+.-
T Consensus       195 ll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~  273 (822)
T PRK14574        195 AVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALAD  273 (822)
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHH
Confidence            99886 566777788889999999999999888765421 00000        0111100     01122   3456666


Q ss_pred             HHHHHhcCCCCCCHh-----HHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc
Q 046221          340 FIKMRQEKTDSVDSI-----TLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM  414 (572)
Q Consensus       340 ~~~~~~~~~~~~~~~-----~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  414 (572)
                      ++.+...-+..|...     ...--+-++...++...+++.++.+...+.+....+-..+.++|...+++++|+.+++++
T Consensus       274 ~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~  353 (822)
T PRK14574        274 YQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSL  353 (822)
T ss_pred             HHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHH
Confidence            666653333334322     233455677888999999999999999887766778888999999999999999999988


Q ss_pred             -C-------CCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcC-------------CCCCH-HHHHHHHHHHhccCChH
Q 046221          415 -G-------FLRDVVSWNTIIYGYGVNGHGETALALYHKMTETG-------------EVPDS-STYLSILNACGHAGLTN  472 (572)
Q Consensus       415 -~-------~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g-------------~~p~~-~~~~~l~~~~~~~g~~~  472 (572)
                       .       ..++......|..+|...+++++|..+++++.+.-             ..||. ..+..++..+...|++.
T Consensus       354 ~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~  433 (822)
T PRK14574        354 YYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLP  433 (822)
T ss_pred             hhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHH
Confidence             1       12234445788999999999999999999998831             11233 33455677788999999


Q ss_pred             HHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCC-hHHHHHHHHHHhhhcCCHHHHHHHHHHH
Q 046221          473 DGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMG-PNIWRALLSGCVLHVGRFQDAEALRSGS  550 (572)
Q Consensus       473 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~-~~~~~~l~~~~~~~~g~~~~A~~~~~~m  550 (572)
                      +|++.++++....  |-|......+.+.+...|++.+|++.++.+.. .|+ ..+........... |+|.+|..+.+.+
T Consensus       434 ~Ae~~le~l~~~a--P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l-~e~~~A~~~~~~l  510 (822)
T PRK14574        434 TAQKKLEDLSSTA--PANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMAL-QEWHQMELLTDDV  510 (822)
T ss_pred             HHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhh-hhHHHHHHHHHHH
Confidence            9999999997654  77888999999999999999999999987766 454 44555566666555 9999999998887


Q ss_pred             HhCCCC
Q 046221          551 QKKGII  556 (572)
Q Consensus       551 ~~~~~~  556 (572)
                      .+..++
T Consensus       511 ~~~~Pe  516 (822)
T PRK14574        511 ISRSPE  516 (822)
T ss_pred             HhhCCC
Confidence            665544

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

Probab=99.83  E-value=2.9e-16  Score=152.06  Aligned_cols=433  Identities=15%  Similarity=0.043  Sum_probs=315.6

Q ss_pred             CCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCC--CCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhH
Q 046221          113 PYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLV--PNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNS  190 (572)
Q Consensus       113 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  190 (572)
                      .|....+.|...|.-.|+++.++.+...+......  .-...|..+.+++-..|++++|...|.+..+..-......+-.
T Consensus       268 ~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~G  347 (1018)
T KOG2002|consen  268 ENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVG  347 (1018)
T ss_pred             CCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccc
Confidence            56678888999999999999999999888775311  1234577888999999999999999988877542222344556


Q ss_pred             HHHHHHhCCCHHHHHHHHhhcCC--C-CcccHHHHHHHHHccC----CHHHHHHHHHHHHhCCCCCCccchHHHHHHhcc
Q 046221          191 VLDMYSCLMDLDAAIQIFREMEC--K-DVISWTRMMGLFVDFE----YAGDALKIFREMRKSRIICDTVALLNLISVNAI  263 (572)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~----~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  263 (572)
                      |...+.+.|+++.+...|+.+..  | +..+...|...|...+    ..+.|..++....+. .+.|...|..+...+-.
T Consensus       348 lgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~-~~~d~~a~l~laql~e~  426 (1018)
T KOG2002|consen  348 LGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQ-TPVDSEAWLELAQLLEQ  426 (1018)
T ss_pred             hhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhc-ccccHHHHHHHHHHHHh
Confidence            78899999999999999999876  3 3456666666666554    456677777666654 24455666666555544


Q ss_pred             cCChHHHHHHHHHHH----HhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCC-------Ccc------hHHHHHHH
Q 046221          264 LGDLKRGKQLHAQVV----LGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEK-------SLV------SWTAIISG  326 (572)
Q Consensus       264 ~~~~~~a~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~------~~~~l~~~  326 (572)
                       ++...+...+..+.    ..+..+.+...|.+...+...|++..|...|......       +..      +-..+...
T Consensus       427 -~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl  505 (1018)
T KOG2002|consen  427 -TDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARL  505 (1018)
T ss_pred             -cChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHH
Confidence             44444455555443    4555677888899999999999999999998876532       221      22234556


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCCCCHh-HHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChH
Q 046221          327 YVQNGCAREALNQFIKMRQEKTDSVDSI-TLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVD  405 (572)
Q Consensus       327 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  405 (572)
                      +-..++++.|.+.|..+....   |..+ .|..++......++..+|...+....... ..++..++.+...+.+...+.
T Consensus       506 ~E~l~~~~~A~e~Yk~Ilkeh---p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~  581 (1018)
T KOG2002|consen  506 LEELHDTEVAEEMYKSILKEH---PGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWK  581 (1018)
T ss_pred             HHhhhhhhHHHHHHHHHHHHC---chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhc
Confidence            666788999999999997432   3332 34444444445578888888888777654 556667777777888888888


Q ss_pred             HHHHHHHHc----CCCCCHhHHHHHHHHHHh------------cCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhcc
Q 046221          406 LAYIVFEEM----GFLRDVVSWNTIIYGYGV------------NGHGETALALYHKMTETGEVP-DSSTYLSILNACGHA  468 (572)
Q Consensus       406 ~A~~~~~~~----~~~~~~~~~~~l~~~~~~------------~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~  468 (572)
                      .|.+-|...    ...+|..+.-.|.+.|..            .+..++|+++|.+.++.  .| |...=+.+.-.++..
T Consensus       582 ~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~--dpkN~yAANGIgiVLA~k  659 (1018)
T KOG2002|consen  582 PAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRN--DPKNMYAANGIGIVLAEK  659 (1018)
T ss_pred             ccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhc--Ccchhhhccchhhhhhhc
Confidence            888866555    333666666666665543            23467899999998884  45 667778888889999


Q ss_pred             CChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC----CCChHHHHHHHHHHhhhcCCHHHHH
Q 046221          469 GLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE----GMGPNIWRALLSGCVLHVGRFQDAE  544 (572)
Q Consensus       469 g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~~l~~~~~~~~g~~~~A~  544 (572)
                      |++.+|..+|.+..+..  .-...+|-.+..+|..+|.+..|+++|+....    ..++.+...|..++... |++.+|.
T Consensus       660 g~~~~A~dIFsqVrEa~--~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~-~~~~eak  736 (1018)
T KOG2002|consen  660 GRFSEARDIFSQVREAT--SDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEA-GKLQEAK  736 (1018)
T ss_pred             cCchHHHHHHHHHHHHH--hhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHh-hhHHHHH
Confidence            99999999999997654  23556789999999999999999999998766    45677788888888888 9999999


Q ss_pred             HHHHHHHhCCCC
Q 046221          545 ALRSGSQKKGII  556 (572)
Q Consensus       545 ~~~~~m~~~~~~  556 (572)
                      +.+...+...+.
T Consensus       737 ~~ll~a~~~~p~  748 (1018)
T KOG2002|consen  737 EALLKARHLAPS  748 (1018)
T ss_pred             HHHHHHHHhCCc
Confidence            998887766654

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.81  E-value=3.6e-15  Score=151.05  Aligned_cols=329  Identities=8%  Similarity=-0.009  Sum_probs=165.7

Q ss_pred             HHhhcCChhhHHHHhccCCCCChh---hHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHH-HH--HHHHcCCCCh
Q 046221           14 NYFKSGKIKEAENLFDEIPEKNVV---SWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMV-GV--LVAAAGLQNL   87 (572)
Q Consensus        14 ~~~~~~~~~~A~~~~~~~~~~~~~---~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~-~l--l~~~~~~g~~   87 (572)
                      ...++|+++.|+..|+++.+.++.   ....++..+...|+.++|+..+++..    .|+...+. .+  ...+...|++
T Consensus        43 i~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~----~p~n~~~~~llalA~ly~~~gdy  118 (822)
T PRK14574         43 IRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQ----SSMNISSRGLASAARAYRNEKRW  118 (822)
T ss_pred             HHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhc----cCCCCCHHHHHHHHHHHHHcCCH
Confidence            344666667777777666542221   12255666666677777776666665    23222222 22  3345556677


Q ss_pred             HHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChH
Q 046221           88 ELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRA  167 (572)
Q Consensus        88 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  167 (572)
                      ++|..+++++.+..+          .+...+..++..+...++.++|++.++++...  .|+...+..++..+...++..
T Consensus       119 d~Aiely~kaL~~dP----------~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~  186 (822)
T PRK14574        119 DQALALWQSSLKKDP----------TNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNY  186 (822)
T ss_pred             HHHHHHHHHHHhhCC----------CCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHH
Confidence            777777777666654          22344455566666667777777766666654  444444433333333344444


Q ss_pred             HHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCC-CcccHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 046221          168 LCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECK-DVISWTRMMGLFVDFEYAGDALKIFREMRKSR  246 (572)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  246 (572)
                      +|.+.++++++.. +.+...+..+..++.+.|-...|.++..+-+.- +...+..|        ..+.+.+..+    .+
T Consensus       187 ~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l--------~~~~~a~~vr----~a  253 (822)
T PRK14574        187 DALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQL--------ERDAAAEQVR----MA  253 (822)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHH--------HHHHHHHHHh----hc
Confidence            4666666666654 445555566666666666666666666554320 00000000        0000000000    00


Q ss_pred             CCCCccchHHHHHHhcccCCh---HHHHHHHHHHHHh-CCCCCc-ch----HHHHHHHHHhcCChhHHHHHHhccCCCC-
Q 046221          247 IICDTVALLNLISVNAILGDL---KRGKQLHAQVVLG-GLQSEL-RL----SNSIIAMYSKCGDLDSSRSVFNQITEKS-  316 (572)
Q Consensus       247 ~~p~~~~~~~ll~~~~~~~~~---~~a~~~~~~~~~~-~~~~~~-~~----~~~l~~~~~~~~~~~~a~~~~~~~~~~~-  316 (572)
                      ..++.          ....++   +.|..-++.+... +..|.. ..    ..-.+-++...|+..++++.|+.+.... 
T Consensus       254 ~~~~~----------~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~  323 (822)
T PRK14574        254 VLPTR----------SETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGY  323 (822)
T ss_pred             ccccc----------cchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCC
Confidence            00000          001122   2233333333321 111211 11    1123345566667777777777766432 


Q ss_pred             -c--chHHHHHHHHHHcCChHHHHHHHHHHHhcCC----CCCCHhHHHHHHHHhcccccHHHHHHHHHHHHH
Q 046221          317 -L--VSWTAIISGYVQNGCAREALNQFIKMRQEKT----DSVDSITLVSILTASGELAALEICLQLHGIAFE  381 (572)
Q Consensus       317 -~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  381 (572)
                       +  .+-..+..+|...+++++|..+++.+....+    .+++......|.-++...+++++|..+++.+.+
T Consensus       324 ~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~  395 (822)
T PRK14574        324 KMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSE  395 (822)
T ss_pred             CCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHh
Confidence             1  2334456667777777777777777653332    123333346677777777777777777777765

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.81  E-value=1e-15  Score=134.77  Aligned_cols=363  Identities=13%  Similarity=0.118  Sum_probs=247.3

Q ss_pred             HHhccCCCCChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCC
Q 046221           26 NLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESD  105 (572)
Q Consensus        26 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~  105 (572)
                      -+|+..+ .+..+|..||.++++--..+.|.++|++......+.+..+||.+|.+-+-..+    ++++.+|.+....  
T Consensus       198 L~~E~~P-KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~--  270 (625)
T KOG4422|consen  198 LLFETLP-KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMT--  270 (625)
T ss_pred             HHHhhcC-CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcC--
Confidence            4444444 47789999999999999999999999999988889999999999977653322    7889999998884  


Q ss_pred             cccCCCCCCceeHHHHHHHHHhCCChHH----HHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHH-HHHHHHHHHHh-
Q 046221          106 LFEGLKNPYLVSCNAIVAGFINNKLFQQ----AVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRAL-CELIHGLTIKL-  179 (572)
Q Consensus       106 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~-a~~~~~~~~~~-  179 (572)
                             ||..++|+++++..+.|+++.    |++++.+|++-|+.|+..+|..+|..+++.++..+ +..++.++... 
T Consensus       271 -------Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~l  343 (625)
T KOG4422|consen  271 -------PNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSL  343 (625)
T ss_pred             -------CchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhh
Confidence                   889999999999999998764    56889999999999999999999999999888754 44444444432 


Q ss_pred             -c--C----CCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCC-----------CcccHHHHHHHHHccCCHHHHHHHHHH
Q 046221          180 -G--L----ILDVSVNNSVLDMYSCLMDLDAAIQIFREMECK-----------DVISWTRMMGLFVDFEYAGDALKIFRE  241 (572)
Q Consensus       180 -~--~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----------~~~~~~~li~~~~~~~~~~~a~~~~~~  241 (572)
                       |  +    +.|...|...+..|.+..+.+-|.++-.-+...           ...-|..+....++....+..+..|+.
T Consensus       344 tGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~  423 (625)
T KOG4422|consen  344 TGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYED  423 (625)
T ss_pred             ccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             1  2    234456777788888889999888877666541           123456677777888888889999999


Q ss_pred             HHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcchHH
Q 046221          242 MRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWT  321 (572)
Q Consensus       242 m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  321 (572)
                      |..+-+-|+..+...++++....+.++-..++|.++...|.........-++..+++..            ..|+...-.
T Consensus       424 lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k------------~hp~tp~r~  491 (625)
T KOG4422|consen  424 LVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDK------------LHPLTPERE  491 (625)
T ss_pred             hccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCC------------CCCCChHHH
Confidence            98888888889999999988888888888888888887663322222211111111111            011111000


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhc
Q 046221          322 AIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKC  401 (572)
Q Consensus       322 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  401 (572)
                      .+-....     +-|..+++..                             ...-.++.+  ...+....+.+...+.+.
T Consensus       492 Ql~~~~a-----k~aad~~e~~-----------------------------e~~~~R~r~--~~~~~t~l~~ia~Ll~R~  535 (625)
T KOG4422|consen  492 QLQVAFA-----KCAADIKEAY-----------------------------ESQPIRQRA--QDWPATSLNCIAILLLRA  535 (625)
T ss_pred             HHHHHHH-----HHHHHHHHHH-----------------------------HhhHHHHHh--ccCChhHHHHHHHHHHHc
Confidence            0000000     0011111111                             111122222  234445556677777888


Q ss_pred             CChHHHHHHHHHc-------CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 046221          402 GNVDLAYIVFEEM-------GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETG  450 (572)
Q Consensus       402 g~~~~A~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g  450 (572)
                      |+.++|.+++.-+       +..|......-++..-.+.++...|...++-|...+
T Consensus       536 G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n  591 (625)
T KOG4422|consen  536 GRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFN  591 (625)
T ss_pred             chHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Confidence            8888888887766       222444444455666677778888888888886653

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

Probab=99.77  E-value=4.4e-13  Score=124.68  Aligned_cols=491  Identities=11%  Similarity=0.030  Sum_probs=350.1

Q ss_pred             CChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCC
Q 046221           50 GFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNK  129 (572)
Q Consensus        50 ~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  129 (572)
                      ...+.|.-++.+..+. ++.+    .-|.-++++..-++.|.++++...+.-+          .+...|-+-...--.+|
T Consensus       390 E~~~darilL~rAvec-cp~s----~dLwlAlarLetYenAkkvLNkaRe~ip----------td~~IWitaa~LEE~ng  454 (913)
T KOG0495|consen  390 EEPEDARILLERAVEC-CPQS----MDLWLALARLETYENAKKVLNKAREIIP----------TDREIWITAAKLEEANG  454 (913)
T ss_pred             cChHHHHHHHHHHHHh-ccch----HHHHHHHHHHHHHHHHHHHHHHHHhhCC----------CChhHHHHHHHHHHhcC
Confidence            3444456666665553 1222    2344456666677788888887776654          34457777667777788


Q ss_pred             ChHHHHHHHHH----HHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC--hhHHhHHHHHHHhCCCHHH
Q 046221          130 LFQQAVLLFNF----FRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILD--VSVNNSVLDMYSCLMDLDA  203 (572)
Q Consensus       130 ~~~~a~~~~~~----m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~  203 (572)
                      +.+...+++++    +...|+..+...|..=...|-..|..-.+..+....+..|+.-.  ..+|..-...|.+.+.++-
T Consensus       455 n~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~c  534 (913)
T KOG0495|consen  455 NVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIEC  534 (913)
T ss_pred             CHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHH
Confidence            88877777654    45568888888888888888888888888888888887776433  4677777888888888888


Q ss_pred             HHHHHhhcCC---CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHh
Q 046221          204 AIQIFREMEC---KDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLG  280 (572)
Q Consensus       204 a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  280 (572)
                      |..+|....+   .+...|...+..--..|..++...++++.... ++-....+.......-..|++..|..++..+.+.
T Consensus       535 arAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~  613 (913)
T KOG0495|consen  535 ARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEA  613 (913)
T ss_pred             HHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHh
Confidence            8888877765   34566777777767778888888888888775 2323334444455556668888888888888776


Q ss_pred             CCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC--CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHH
Q 046221          281 GLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE--KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVS  358 (572)
Q Consensus       281 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  358 (572)
                      . +.+..++-+-+........++.|..+|.+...  ++...|..-+...--.+..++|.+++++..  ...+.-...|..
T Consensus       614 ~-pnseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rllEe~l--k~fp~f~Kl~lm  690 (913)
T KOG0495|consen  614 N-PNSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRLLEEAL--KSFPDFHKLWLM  690 (913)
T ss_pred             C-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHHHHHHH--HhCCchHHHHHH
Confidence            6 34667777778888888888888888887654  455566666666666777888888887775  233333446666


Q ss_pred             HHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCCh
Q 046221          359 ILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHG  436 (572)
Q Consensus       359 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~  436 (572)
                      +.+.+.+.++++.|...|..-.+. +|..+..|-.+...--+.|.+-.|..++++.  ..+.+...|-..|..-.+.|+.
T Consensus       691 lGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~  769 (913)
T KOG0495|consen  691 LGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNK  769 (913)
T ss_pred             HhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCH
Confidence            667777777777777776543332 3455667777777777888888888888887  4445677888888888888888


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHh
Q 046221          437 ETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGK  516 (572)
Q Consensus       437 ~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  516 (572)
                      +.|..+..+.++. .+.+...|.--|...-+.++-......+++.      ..|++....+...|....++++|.+.|.+
T Consensus       770 ~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks~DALkkc------e~dphVllaia~lfw~e~k~~kar~Wf~R  842 (913)
T KOG0495|consen  770 EQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKSIDALKKC------EHDPHVLLAIAKLFWSEKKIEKAREWFER  842 (913)
T ss_pred             HHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchHHHHHHHhc------cCCchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888887774 3334466777777766766655555555443      45777888899999999999999999999


Q ss_pred             ccC-C-CChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCCCCCceeEEEcCCcc
Q 046221          517 LLE-G-MGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGIIKIPGISFLNSTSRD  570 (572)
Q Consensus       517 ~~~-~-~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~  570 (572)
                      ... . ..-.+|..+.....++ |.-++-.+++.+-...  .|.-|..|..++..|
T Consensus       843 avk~d~d~GD~wa~fykfel~h-G~eed~kev~~~c~~~--EP~hG~~W~avSK~i  895 (913)
T KOG0495|consen  843 AVKKDPDNGDAWAWFYKFELRH-GTEEDQKEVLKKCETA--EPTHGELWQAVSKDI  895 (913)
T ss_pred             HHccCCccchHHHHHHHHHHHh-CCHHHHHHHHHHHhcc--CCCCCcHHHHHhhhH
Confidence            987 3 4455788888888888 9888888888876554  456788888776654

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

Probab=99.74  E-value=3.6e-15  Score=132.36  Aligned_cols=467  Identities=12%  Similarity=0.062  Sum_probs=287.8

Q ss_pred             HHHHHhhCCChHHHHHHHHHHHHcCCCCCcchH-HHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHH
Q 046221           42 VIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTM-VGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNA  120 (572)
Q Consensus        42 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~-~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (572)
                      +.+-|.....+.+|+..|+-+.+....|+.... ..+...+.+.+++.+|.+++...+..-++..-     .--+...|.
T Consensus       207 laqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink-----~~rikil~n  281 (840)
T KOG2003|consen  207 LAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINK-----DMRIKILNN  281 (840)
T ss_pred             HHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccch-----hhHHHHHhh
Confidence            344566677888999999999888878877644 23456677888999999999888766543220     112345666


Q ss_pred             HHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHH--------hHHH
Q 046221          121 IVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVN--------NSVL  192 (572)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--------~~l~  192 (572)
                      +...+.+.|+++.|+..|+...+.  .|+-.+-..|+-++...|+-++..+.|..|+.....+|..-|        ..|+
T Consensus       282 igvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll  359 (840)
T KOG2003|consen  282 IGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLL  359 (840)
T ss_pred             cCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHH
Confidence            667788999999999999988774  677776555566666678999999999999876544443211        1222


Q ss_pred             HHHHhCCC-----------HHHHHHHHhhcCCCCccc-HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-ccchHHHHH
Q 046221          193 DMYSCLMD-----------LDAAIQIFREMECKDVIS-WTRMMGLFVDFEYAGDALKIFREMRKSRIICD-TVALLNLIS  259 (572)
Q Consensus       193 ~~~~~~~~-----------~~~a~~~~~~~~~~~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~  259 (572)
                      .--.+...           .++++..--++..|-+.+ |.+            ...-.++.++.+...|- ...-..-..
T Consensus       360 ~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~------------g~dwcle~lk~s~~~~la~dlei~ka~  427 (840)
T KOG2003|consen  360 NEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAA------------GCDWCLESLKASQHAELAIDLEINKAG  427 (840)
T ss_pred             HHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhc------------ccHHHHHHHHHhhhhhhhhhhhhhHHH
Confidence            22221111           111111111111111000 000            00011111111100000 000001123


Q ss_pred             HhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHh--cCChhHHHHHHhccCCCCcchHHHH-----HHHHHHcCC
Q 046221          260 VNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSK--CGDLDSSRSVFNQITEKSLVSWTAI-----ISGYVQNGC  332 (572)
Q Consensus       260 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~l-----~~~~~~~~~  332 (572)
                      .+.+.|+++.|.++++.+.+..-.......+.|-..+.-  ..++.+|...-+.....|  -||.-     ...-..+|+
T Consensus       428 ~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d--ryn~~a~~nkgn~~f~ngd  505 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID--RYNAAALTNKGNIAFANGD  505 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc--ccCHHHhhcCCceeeecCc
Confidence            456778888888888877765433333333333322222  234556665555443322  12221     112234688


Q ss_pred             hHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHH
Q 046221          333 AREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFE  412 (572)
Q Consensus       333 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  412 (572)
                      +++|.+.+++.. .....-....|+ +.-.+...|++++|.+.|-.+... +..+..+.-.+...|....+...|++++.
T Consensus       506 ~dka~~~ykeal-~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~  582 (840)
T KOG2003|consen  506 LDKAAEFYKEAL-NNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLM  582 (840)
T ss_pred             HHHHHHHHHHHH-cCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHH
Confidence            999999998886 332222222333 333456778889988887665543 23455666667788888888999999888


Q ss_pred             Hc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC
Q 046221          413 EM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS  490 (572)
Q Consensus       413 ~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  490 (572)
                      +.  -++.|+.....|...|-+.|+-.+|.+.+-+--.- ++.+..|..-|..-|....-+++++.+|+++.   -++|+
T Consensus       583 q~~slip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaa---liqp~  658 (840)
T KOG2003|consen  583 QANSLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAA---LIQPN  658 (840)
T ss_pred             HhcccCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH---hcCcc
Confidence            88  45456788888889999999998888876655543 44477888888888888888899999998763   36888


Q ss_pred             hhHHHHHH-HHHHhhCChhHHHHHHHhccC--CCChHHHHHHHHHHhhh
Q 046221          491 QEHYGCVV-DLLARAGCLSDASGLAGKLLE--GMGPNIWRALLSGCVLH  536 (572)
Q Consensus       491 ~~~~~~l~-~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~  536 (572)
                      ..-|..++ .++.+.|++++|.++++....  +.+......|++.+..-
T Consensus       659 ~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dl  707 (840)
T KOG2003|consen  659 QSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDL  707 (840)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccc
Confidence            88888766 456778999999999988877  55666677777776544

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

Probab=99.72  E-value=1.1e-12  Score=126.94  Aligned_cols=530  Identities=13%  Similarity=0.056  Sum_probs=344.9

Q ss_pred             hhcCChhhHHHHhccCCC---CChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHH
Q 046221           16 FKSGKIKEAENLFDEIPE---KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARS   92 (572)
Q Consensus        16 ~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~   92 (572)
                      -..|++++|.+++.++.+   .+...|.+|...|-..|+.+++...+-..--.. +-|...|..+-......|++++|.-
T Consensus       150 farg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~~  228 (895)
T KOG2076|consen  150 FARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQARY  228 (895)
T ss_pred             HHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHHH
Confidence            344999999999999876   467899999999999999999987765443322 4455788888888889999999999


Q ss_pred             HHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHH----HHHHHhccCChHH
Q 046221           93 IHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLT----VIRGCVALGSRAL  168 (572)
Q Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~----ll~~~~~~~~~~~  168 (572)
                      ++.++++..+          ++....-.-+..|-+.|+...|.+.|.++.....+.|..-+..    +++.+...++.+.
T Consensus       229 cy~rAI~~~p----------~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~  298 (895)
T KOG2076|consen  229 CYSRAIQANP----------SNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERER  298 (895)
T ss_pred             HHHHHHhcCC----------cchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHH
Confidence            9999999886          4445555667888999999999999999998744333333333    3455666777788


Q ss_pred             HHHHHHHHHHh-cCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCC--------------------------CCcccHH-
Q 046221          169 CELIHGLTIKL-GLILDVSVNNSVLDMYSCLMDLDAAIQIFREMEC--------------------------KDVISWT-  220 (572)
Q Consensus       169 a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------------------------~~~~~~~-  220 (572)
                      |.+.++..... +-..+...++.++..+.+...++.|......+..                          ++..+|+ 
T Consensus       299 a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l  378 (895)
T KOG2076|consen  299 AAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDL  378 (895)
T ss_pred             HHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccc
Confidence            88888887763 2355667788888889888888888877655432                          1112222 


Q ss_pred             ---HHHHHHHccCCHHHHHHHHHHHHhCCCC--CCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHH
Q 046221          221 ---RMMGLFVDFEYAGDALKIFREMRKSRII--CDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAM  295 (572)
Q Consensus       221 ---~li~~~~~~~~~~~a~~~~~~m~~~~~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  295 (572)
                         .+.-++...+..+....+........+.  -+...|.-+..++...|.+..|..++..+.....-.+..+|-.+..+
T Consensus       379 ~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c  458 (895)
T KOG2076|consen  379 RVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARC  458 (895)
T ss_pred             hhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHH
Confidence               2223344444444555555555555533  34567888999999999999999999999988766678899999999


Q ss_pred             HHhcCChhHHHHHHhccCCCCcc---hHHHHHHHHHHcCChHHHHHHHHHHHh-------cCCCCCCHhHHHHHHHHhcc
Q 046221          296 YSKCGDLDSSRSVFNQITEKSLV---SWTAIISGYVQNGCAREALNQFIKMRQ-------EKTDSVDSITLVSILTASGE  365 (572)
Q Consensus       296 ~~~~~~~~~a~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~~ll~~~~~  365 (572)
                      |...|..+.|...|+.+..-.+.   .-..|...+.+.|+.++|++.+..+..       .....|+..........+..
T Consensus       459 ~~~l~e~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~  538 (895)
T KOG2076|consen  459 YMELGEYEEAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQ  538 (895)
T ss_pred             HHHHhhHHHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHH
Confidence            99999999999999998754333   444566678899999999999988641       22344555555556666777


Q ss_pred             cccHHHHHHHHHHHHHhcC----------------------CCchhHHHHHHHHhhhcCChHHHHHHHHHc---------
Q 046221          366 LAALEICLQLHGIAFEAGF----------------------PRYRSVQNCLISSYSKCGNVDLAYIVFEEM---------  414 (572)
Q Consensus       366 ~~~~~~a~~~~~~~~~~~~----------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---------  414 (572)
                      .|+.++-..+-..|+....                      +....+...++.+-.+.++.....+-...-         
T Consensus       539 ~gk~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~  618 (895)
T KOG2076|consen  539 VGKREEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELR  618 (895)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhc
Confidence            7877776655444433211                      111112222333333333322222111110         


Q ss_pred             CCCCCH--hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHH---H-HHHHHHHHhccCChHHHHHHHHHhHHhcCC
Q 046221          415 GFLRDV--VSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSS---T-YLSILNACGHAGLTNDGLVIFNQMIEENKV  487 (572)
Q Consensus       415 ~~~~~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~---~-~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  487 (572)
                      +...+.  ..+..++.++++.+++++|+.+...+....+-- +..   . -...+.++...+++..|...++.|+...+.
T Consensus       619 ~Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~  698 (895)
T KOG2076|consen  619 GLSIDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQF  698 (895)
T ss_pred             cCcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhh
Confidence            221111  234456677888899999999888887653211 222   2 233455667888999999999888866433


Q ss_pred             CCChh---HHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHHHHHHHH-HhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          488 KPSQE---HYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWRALLSG-CVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       488 ~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~-~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                      ..++.   .|+.....+.+.|+-.-=.+++..+.. +|+......++.+ .....+.+..|+..+-+.....+.
T Consensus       699 ~~~~~q~~l~n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~~pd  772 (895)
T KOG2076|consen  699 YLDVYQLNLWNLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQNPD  772 (895)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHHhCCC
Confidence            32322   455455555555554444444444433 3333222222221 111237788888877666555543

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

Probab=99.72  E-value=3.3e-12  Score=123.64  Aligned_cols=498  Identities=11%  Similarity=0.030  Sum_probs=340.2

Q ss_pred             HHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHH
Q 046221           44 HGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVA  123 (572)
Q Consensus        44 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  123 (572)
                      +.+.-.|+.++|.+++.+..+.. +.....|..|...+-..|+.+++...+-.+....+          .|...|-.+..
T Consensus       147 N~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p----------~d~e~W~~lad  215 (895)
T KOG2076|consen  147 NNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNP----------KDYELWKRLAD  215 (895)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCC----------CChHHHHHHHH
Confidence            34455599999999999999875 66778999999999999999999877655544443          45578999999


Q ss_pred             HHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHH----hHHHHHHHhCC
Q 046221          124 GFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVN----NSVLDMYSCLM  199 (572)
Q Consensus       124 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~  199 (572)
                      ...+.|++++|.-+|.+..+.. +++...+--=...|-+.|+...|...+.++.....+.|..-.    -..+..+...+
T Consensus       216 ls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~  294 (895)
T KOG2076|consen  216 LSEQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHN  294 (895)
T ss_pred             HHHhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999874 344445555567788999999999999999987543333222    23455666777


Q ss_pred             CHHHHHHHHhhcCC-----CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCC----------------------CCcc
Q 046221          200 DLDAAIQIFREMEC-----KDVISWTRMMGLFVDFEYAGDALKIFREMRKSRII----------------------CDTV  252 (572)
Q Consensus       200 ~~~~a~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~----------------------p~~~  252 (572)
                      +-+.|.+.++....     -+...++.++..+.+...++.+......+......                      |+..
T Consensus       295 ~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~  374 (895)
T KOG2076|consen  295 ERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKEL  374 (895)
T ss_pred             HHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCC
Confidence            77889888887765     25567899999999999999999998888762111                      1222


Q ss_pred             chH----HHHHHhcccCChHHHHHHHHHHHHhCC--CCCcchHHHHHHHHHhcCChhHHHHHHhccCCC----CcchHHH
Q 046221          253 ALL----NLISVNAILGDLKRGKQLHAQVVLGGL--QSELRLSNSIIAMYSKCGDLDSSRSVFNQITEK----SLVSWTA  322 (572)
Q Consensus       253 ~~~----~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~  322 (572)
                      .|.    .+.-++.+....+....+...+.....  ..+...|.-+..+|...|++..|..+|..+...    +...|-.
T Consensus       375 s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~  454 (895)
T KOG2076|consen  375 SYDLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYK  454 (895)
T ss_pred             CccchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHH
Confidence            221    233445566666667777777777763  445667888999999999999999999998853    4568999


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHH--------HHhcCCCchhHHHHH
Q 046221          323 IISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIA--------FEAGFPRYRSVQNCL  394 (572)
Q Consensus       323 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~--------~~~~~~~~~~~~~~l  394 (572)
                      +..+|...|.+++|...|+......+...|  .-.+|...+.+.|+.++|.+.+..+        ...+..|........
T Consensus       455 ~a~c~~~l~e~e~A~e~y~kvl~~~p~~~D--~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r  532 (895)
T KOG2076|consen  455 LARCYMELGEYEEAIEFYEKVLILAPDNLD--ARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHR  532 (895)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHhcCCCchh--hhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHH
Confidence            999999999999999999999744443333  4455666778899999999999874        334556666666677


Q ss_pred             HHHhhhcCChHHHHHHHHHc--------CCCC-----------------CHhHHHHHHHHHHhcCChHHHHHH------H
Q 046221          395 ISSYSKCGNVDLAYIVFEEM--------GFLR-----------------DVVSWNTIIYGYGVNGHGETALAL------Y  443 (572)
Q Consensus       395 ~~~~~~~g~~~~A~~~~~~~--------~~~~-----------------~~~~~~~l~~~~~~~~~~~~A~~~------~  443 (572)
                      ...+...|+.++=..+-..|        -+-|                 ........+.+-.+.++......-      +
T Consensus       533 ~d~l~~~gk~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~  612 (895)
T KOG2076|consen  533 CDILFQVGKREEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEF  612 (895)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhh
Confidence            78888899888755544444        1111                 111122222333333322111111      1


Q ss_pred             HHHHhcCCCCCH--HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChh----HHHHHHHHHHhhCChhHHHHHHHhc
Q 046221          444 HKMTETGEVPDS--STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQE----HYGCVVDLLARAGCLSDASGLAGKL  517 (572)
Q Consensus       444 ~~~~~~g~~p~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~  517 (572)
                      .--...|+.-+.  ..+.-++.++++.+++.+|..+...+++..-+.-+..    .-...+.+.+..+++..|.+.++.+
T Consensus       613 ~~~e~~~Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~  692 (895)
T KOG2076|consen  613 RAVELRGLSIDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSV  692 (895)
T ss_pred             hhhhhccCcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            111112222222  3456677788999999999999988876544433433    2234456677889999999999887


Q ss_pred             cC------CC-ChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          518 LE------GM-GPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       518 ~~------~~-~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                      ..      .| ....|+..+...... |+-.--.+.+..+......
T Consensus       693 i~~~~~~~~~~q~~l~n~~~s~~~~~-~q~v~~~R~~~~~~~~~~~  737 (895)
T KOG2076|consen  693 ITQFQFYLDVYQLNLWNLDFSYFSKY-GQRVCYLRLIMRLLVKNKD  737 (895)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhccCcc
Confidence            75      12 233466555544444 5544444444444444433

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

Probab=99.70  E-value=3.5e-12  Score=114.33  Aligned_cols=429  Identities=13%  Similarity=0.084  Sum_probs=319.7

Q ss_pred             CCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHh-hHHHHHHHHh
Q 046221           83 GLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAV-TMLTVIRGCV  161 (572)
Q Consensus        83 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~  161 (572)
                      .++++..|.++|+..+....          .++..|-..+..-.++.....|..++++....  -|.+. .|..-+..--
T Consensus        85 sq~e~~RARSv~ERALdvd~----------r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~ymEE  152 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVDY----------RNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIYMEE  152 (677)
T ss_pred             hHHHHHHHHHHHHHHHhccc----------ccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHHHHH
Confidence            55677788888888877653          66778888888888999999999999988764  34333 3444444555


Q ss_pred             ccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcC--CCCcccHHHHHHHHHccCCHHHHHHHH
Q 046221          162 ALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREME--CKDVISWTRMMGLFVDFEYAGDALKIF  239 (572)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~  239 (572)
                      ..|++..|.++|+...+  ..|+...|.+.|..-.+-..++.|..++++..  .|++.+|-...+.=.++|....+..+|
T Consensus       153 ~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~Vy  230 (677)
T KOG1915|consen  153 MLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVY  230 (677)
T ss_pred             HhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            67899999999988776  48999999999999999999999999999865  488888988888888999999999998


Q ss_pred             HHHHhCCCCCCcc----chHHHHHHhcccCChHHHHHHHHHHHHhCCCC-CcchHHHHHHHHHhcCChhHHHHH------
Q 046221          240 REMRKSRIICDTV----ALLNLISVNAILGDLKRGKQLHAQVVLGGLQS-ELRLSNSIIAMYSKCGDLDSSRSV------  308 (572)
Q Consensus       240 ~~m~~~~~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~------  308 (572)
                      ....+.  ..|..    .|.+....-.+...++.|.-+|+-.+.+-... ....|..+...--+-|+.....+.      
T Consensus       231 erAie~--~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk  308 (677)
T KOG1915|consen  231 ERAIEF--LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRK  308 (677)
T ss_pred             HHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhh
Confidence            887654  12222    23333333345567888888888887764222 134555555554555665443332      


Q ss_pred             --HhccCCCCc---chHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHh-------HHH---HHHHHhcccccHHHHH
Q 046221          309 --FNQITEKSL---VSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSI-------TLV---SILTASGELAALEICL  373 (572)
Q Consensus       309 --~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------~~~---~ll~~~~~~~~~~~a~  373 (572)
                        ++.+.+.|+   .+|--.+..-...|+.+...++|++..  .+++|-..       .|.   ..+-.-....+.+.+.
T Consensus       309 ~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAI--anvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr  386 (677)
T KOG1915|consen  309 FQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAI--ANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTR  386 (677)
T ss_pred             hHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHH--ccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence              233333444   466667777778899999999999994  55666331       111   1122224567999999


Q ss_pred             HHHHHHHHhcCCCchhHHHHHHHHh----hhcCChHHHHHHHHHc-CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 046221          374 QLHGIAFEAGFPRYRSVQNCLISSY----SKCGNVDLAYIVFEEM-GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTE  448 (572)
Q Consensus       374 ~~~~~~~~~~~~~~~~~~~~l~~~~----~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  448 (572)
                      ++++...+ -+|....+|.-+--+|    .++.++..|.+++... |..|-..+|...|..-.+.++++.+..+|++.++
T Consensus       387 ~vyq~~l~-lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle  465 (677)
T KOG1915|consen  387 QVYQACLD-LIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLE  465 (677)
T ss_pred             HHHHHHHh-hcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            99999988 3555666666554444    4678999999999988 8889999999999999999999999999999999


Q ss_pred             cCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHH
Q 046221          449 TGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIW  526 (572)
Q Consensus       449 ~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~  526 (572)
                        ..| |..+|......-...|+.++|..+|+-++....+......|.+.|+.=...|.++.|..+++++.+ .+-..+|
T Consensus       466 --~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~kvW  543 (677)
T KOG1915|consen  466 --FSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVKVW  543 (677)
T ss_pred             --cChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccchHH
Confidence              456 558898888888899999999999999987665555666888888888999999999999999988 5555577


Q ss_pred             HHHHHH
Q 046221          527 RALLSG  532 (572)
Q Consensus       527 ~~l~~~  532 (572)
                      -+...-
T Consensus       544 isFA~f  549 (677)
T KOG1915|consen  544 ISFAKF  549 (677)
T ss_pred             HhHHHH
Confidence            766543

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

Probab=99.70  E-value=2e-11  Score=114.02  Aligned_cols=472  Identities=15%  Similarity=0.087  Sum_probs=365.8

Q ss_pred             HHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHH
Q 046221           56 MKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAV  135 (572)
Q Consensus        56 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  135 (572)
                      .+++++.+++  -|+..   .|-.+.....+.+.|..++....+.-+.              -..|.-++.+..-++.|.
T Consensus       366 ~RVlRKALe~--iP~sv---~LWKaAVelE~~~darilL~rAveccp~--------------s~dLwlAlarLetYenAk  426 (913)
T KOG0495|consen  366 KRVLRKALEH--IPRSV---RLWKAAVELEEPEDARILLERAVECCPQ--------------SMDLWLALARLETYENAK  426 (913)
T ss_pred             HHHHHHHHHh--CCchH---HHHHHHHhccChHHHHHHHHHHHHhccc--------------hHHHHHHHHHHHHHHHHH
Confidence            3455555544  33332   2334444556667788888888776542              223455667778899999


Q ss_pred             HHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHH----HhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhc
Q 046221          136 LLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTI----KLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREM  211 (572)
Q Consensus       136 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (572)
                      .+++..++. ++.+...|.+....--..|+.+...++++.-+    ..|+..+...|-.=...+-+.|..-.+..+....
T Consensus       427 kvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~av  505 (913)
T KOG0495|consen  427 KVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAV  505 (913)
T ss_pred             HHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHH
Confidence            999999886 67788888888777788899999988877644    4678888888888888888888888888888776


Q ss_pred             CC------CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCC
Q 046221          212 EC------KDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSE  285 (572)
Q Consensus       212 ~~------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  285 (572)
                      ..      .-..+|+.-.+.|.+.+.++-|..+|....+- .+-+...|..+...--..|..+....+++++...- +..
T Consensus       506 igigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pka  583 (913)
T KOG0495|consen  506 IGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKA  583 (913)
T ss_pred             HhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-Ccc
Confidence            54      23468899999999999999999999988875 34455667777666677799999999999998775 455


Q ss_pred             cchHHHHHHHHHhcCChhHHHHHHhccCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHH
Q 046221          286 LRLSNSIIAMYSKCGDLDSSRSVFNQITE---KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTA  362 (572)
Q Consensus       286 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~  362 (572)
                      ...+-.....+-..|++..|..++...-+   .+...|-.-+.....+..++.|..+|.+..   ...|+...|..-+..
T Consensus       584 e~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar---~~sgTeRv~mKs~~~  660 (913)
T KOG0495|consen  584 EILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKAR---SISGTERVWMKSANL  660 (913)
T ss_pred             hhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHh---ccCCcchhhHHHhHH
Confidence            66677777778888999999999988764   244678888888899999999999999986   355667777776777


Q ss_pred             hcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCC-HhHHHHHHHHHHhcCChHHHH
Q 046221          363 SGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRD-VVSWNTIIYGYGVNGHGETAL  440 (572)
Q Consensus       363 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~~~~~~A~  440 (572)
                      .--+++.++|.++++...+. ++.-...|..+.+.+-+.++.+.|...|..- ..-|+ +..|-.|...--+.|.+-.|.
T Consensus       661 er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR  739 (913)
T KOG0495|consen  661 ERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRAR  739 (913)
T ss_pred             HHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHH
Confidence            77788999999999888775 4566778888999999999999999988876 33354 566777777777888999999


Q ss_pred             HHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          441 ALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       441 ~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .++++.+-.  .| +...|...|+.-.+.|..+.|..++.+++++.  +.+...|..-|...-+.++-..+.+.+++.. 
T Consensus       740 ~ildrarlk--NPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQec--p~sg~LWaEaI~le~~~~rkTks~DALkkce-  814 (913)
T KOG0495|consen  740 SILDRARLK--NPKNALLWLESIRMELRAGNKEQAELLMAKALQEC--PSSGLLWAEAIWLEPRPQRKTKSIDALKKCE-  814 (913)
T ss_pred             HHHHHHHhc--CCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CccchhHHHHHHhccCcccchHHHHHHHhcc-
Confidence            999998875  45 56889999999999999999999999998654  6666788888888888888778887777764 


Q ss_pred             CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCCCCCc
Q 046221          520 GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGIIKIPG  560 (572)
Q Consensus       520 ~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~  560 (572)
                       -|+.+.......+... .+++.|.+.|++..+.+......
T Consensus       815 -~dphVllaia~lfw~e-~k~~kar~Wf~Ravk~d~d~GD~  853 (913)
T KOG0495|consen  815 -HDPHVLLAIAKLFWSE-KKIEKAREWFERAVKKDPDNGDA  853 (913)
T ss_pred             -CCchhHHHHHHHHHHH-HHHHHHHHHHHHHHccCCccchH
Confidence             5566666666667766 89999999999988776654433

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

Probab=99.68  E-value=1.3e-13  Score=122.72  Aligned_cols=466  Identities=13%  Similarity=0.065  Sum_probs=277.8

Q ss_pred             hhhHHHHHhhcCChhhHHHHhccCCC----CChhhH-HHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcc----hHHHHH
Q 046221            8 SSKLLSNYFKSGKIKEAENLFDEIPE----KNVVSW-SIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSF----TMVGVL   78 (572)
Q Consensus         8 ~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~~~~-~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~ll   78 (572)
                      ...|.+.|.......+|+..++-+.+    ||.... -.+-+.+.+.+.+.+|++.|+-.+..-...+..    ..+.+.
T Consensus       204 l~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nig  283 (840)
T KOG2003|consen  204 LFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIG  283 (840)
T ss_pred             HHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcC
Confidence            34466677777778888888887765    443322 223456788889999999998877652112222    344445


Q ss_pred             HHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHh-------
Q 046221           79 VAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAV-------  151 (572)
Q Consensus        79 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-------  151 (572)
                      -.+.+.|.++.|..-|++.....           |+..+--.|+-++..-|+.++..+.|.+|..--..||..       
T Consensus       284 vtfiq~gqy~dainsfdh~m~~~-----------pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~d  352 (840)
T KOG2003|consen  284 VTFIQAGQYDDAINSFDHCMEEA-----------PNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKD  352 (840)
T ss_pred             eeEEecccchhhHhhHHHHHHhC-----------ccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcC
Confidence            56779999999999999988875           555444445556666799999999999998654333332       


Q ss_pred             -----hHHHHHHH-----HhccCChHHHHHHH---HHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCC-C-Cc
Q 046221          152 -----TMLTVIRG-----CVALGSRALCELIH---GLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMEC-K-DV  216 (572)
Q Consensus       152 -----~~~~ll~~-----~~~~~~~~~a~~~~---~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~-~~  216 (572)
                           ..+..|..     ..+.+ ...|++..   ..++.--+.|+-..            -.+-+++.++.-.. + -.
T Consensus       353 dp~~~ll~eai~nd~lk~~ek~~-ka~aek~i~ta~kiiapvi~~~fa~------------g~dwcle~lk~s~~~~la~  419 (840)
T KOG2003|consen  353 DPDDNLLNEAIKNDHLKNMEKEN-KADAEKAIITAAKIIAPVIAPDFAA------------GCDWCLESLKASQHAELAI  419 (840)
T ss_pred             CcchHHHHHHHhhHHHHHHHHhh-hhhHHHHHHHHHHHhccccccchhc------------ccHHHHHHHHHhhhhhhhh
Confidence                 22222211     11111 11111111   11111112222110            01111221111110 0 00


Q ss_pred             ccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchH--HHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHH
Q 046221          217 ISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALL--NLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIA  294 (572)
Q Consensus       217 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~--~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  294 (572)
                      ..--.-...+.++|+++.|.++++-+.+.+-+.-...-+  .++..+..-.++..|.+.-+..+... ..+......-.+
T Consensus       420 dlei~ka~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn  498 (840)
T KOG2003|consen  420 DLEINKAGELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGN  498 (840)
T ss_pred             hhhhhHHHHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCc
Confidence            000111234667788888888877776553222222222  22222222345666666655554433 122211111122


Q ss_pred             HHHhcCChhHHHHHHhccCCCCcchHHHHH---HHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHH
Q 046221          295 MYSKCGDLDSSRSVFNQITEKSLVSWTAII---SGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEI  371 (572)
Q Consensus       295 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~---~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  371 (572)
                      .-...|++++|...|.+....|..+-.+|.   -.+-..|+.++|++.|-++  ..-...+...+.-+...|....+...
T Consensus       499 ~~f~ngd~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~kl--h~il~nn~evl~qianiye~led~aq  576 (840)
T KOG2003|consen  499 IAFANGDLDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKL--HAILLNNAEVLVQIANIYELLEDPAQ  576 (840)
T ss_pred             eeeecCcHHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHH--HHHHHhhHHHHHHHHHHHHHhhCHHH
Confidence            233457888888888887776665443333   2355677888888888776  33334455566666677777778888


Q ss_pred             HHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 046221          372 CLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTET  449 (572)
Q Consensus       372 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  449 (572)
                      |++++.+.... ++.++.+.+.|...|-+.|+-..|.+..-+-  -++.+..+..-|..-|....-+++++.+|++..- 
T Consensus       577 aie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaal-  654 (840)
T KOG2003|consen  577 AIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL-  654 (840)
T ss_pred             HHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh-
Confidence            88877655432 4667788888888888888888888776555  3444566666677777777778888888888766 


Q ss_pred             CCCCCHHHHHHHHHHH-hccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhC
Q 046221          450 GEVPDSSTYLSILNAC-GHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAG  505 (572)
Q Consensus       450 g~~p~~~~~~~l~~~~-~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  505 (572)
                       +.|+..-|..++..| .+.|++.+|..+++..-+  .++.|...+..|+..+...|
T Consensus       655 -iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hr--kfpedldclkflvri~~dlg  708 (840)
T KOG2003|consen  655 -IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHR--KFPEDLDCLKFLVRIAGDLG  708 (840)
T ss_pred             -cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHH--hCccchHHHHHHHHHhcccc
Confidence             788888888777655 467888888888888743  35778888888888776666

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

Probab=99.65  E-value=1.9e-13  Score=131.41  Aligned_cols=496  Identities=10%  Similarity=0.001  Sum_probs=256.4

Q ss_pred             CCCCcchhhHHHHHhhcCChhhHHHHhccCCC----------------------------CChhhHHHHHHHHhhCCChH
Q 046221            2 CIDPYNSSKLLSNYFKSGKIKEAENLFDEIPE----------------------------KNVVSWSIVIHGYSINGFHE   53 (572)
Q Consensus         2 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----------------------------~~~~~~~~li~~~~~~~~~~   53 (572)
                      +|+.+||..+|.-||..|+.+.|- +|..|.-                            |.+.+|..+..+|..+|+..
T Consensus        22 ~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~Ll~ayr~hGDli  100 (1088)
T KOG4318|consen   22 LPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNLLKAYRIHGDLI  100 (1088)
T ss_pred             CCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHHHHHHHhccchH
Confidence            588999999999999999999998 7776642                            34567777777777777665


Q ss_pred             HHHHHHHH-H-------HHcCCCCCcchHHHHHHHH--------------cCCCChHHHHHHHHHH------------HH
Q 046221           54 KSMKAFSH-M-------MLSGLLPNSFTMVGVLVAA--------------AGLQNLELARSIHGLM------------VK   99 (572)
Q Consensus        54 ~a~~~~~~-m-------~~~~~~~~~~~~~~ll~~~--------------~~~g~~~~a~~~~~~~------------~~   99 (572)
                      . ++..++ |       ...|+......+-..+.++              .-.|-++.+.+++..+            ++
T Consensus       101 ~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvsa~~~p~~vfLr  179 (1088)
T KOG4318|consen  101 L-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVSAWNAPFQVFLR  179 (1088)
T ss_pred             H-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcccccchHHHHHH
Confidence            4 222222 2       1233322111111111111              1112222222222110            00


Q ss_pred             hcCCCC-c----------ccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHH
Q 046221          100 FGLESD-L----------FEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRAL  168 (572)
Q Consensus       100 ~~~~~~-~----------~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  168 (572)
                      ....+. .          +.+  .|+..+|..++..-..+|+.+.|..++.+|++.|+..+..-|..++-+   .++..-
T Consensus       180 qnv~~ntpvekLl~~cksl~e--~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~  254 (1088)
T KOG4318|consen  180 QNVVDNTPVEKLLNMCKSLVE--APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQV  254 (1088)
T ss_pred             HhccCCchHHHHHHHHHHhhc--CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchH
Confidence            000000 0          111  366667777777777777777777777777777777666666666554   666666


Q ss_pred             HHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHH---------
Q 046221          169 CELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIF---------  239 (572)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~---------  239 (572)
                      ++.+++.|.+.|+.|+..|+...+..+..+|....+.     -..+....+++-+..-.-.|  ..|.+.+         
T Consensus       255 ~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~-----e~sq~~hg~tAavrsaa~rg--~~a~k~l~~nl~~~v~  327 (1088)
T KOG4318|consen  255 FEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGE-----EGSQLAHGFTAAVRSAACRG--LLANKRLRQNLRKSVI  327 (1088)
T ss_pred             HHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcc-----cccchhhhhhHHHHHHHhcc--cHhHHHHHHHHHHHHH
Confidence            7777777777777777777766665555544321111     11122222222222222222  1111111         


Q ss_pred             ---HHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCC---CCcchHHHHHHHHHhcCChhHHHHHHhccC
Q 046221          240 ---REMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQ---SELRLSNSIIAMYSKCGDLDSSRSVFNQIT  313 (572)
Q Consensus       240 ---~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  313 (572)
                         .+..-.|+.-....|... .-....|.-+..+++...+..--..   .++..+..++.-            .|.++.
T Consensus       328 ~s~k~~fLlg~d~~~aiws~c-~~l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrq------------yFrr~e  394 (1088)
T KOG4318|consen  328 GSTKKLFLLGTDILEAIWSMC-EKLRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQ------------YFRRIE  394 (1088)
T ss_pred             HHhhHHHHhccccchHHHHHH-HHHHHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHH------------HHHHHH
Confidence               111111222122222211 1122245555555555444321111   111222222332            233322


Q ss_pred             CCCcc-hHHHHHHHHHH---cC------------ChHHHHHHHHHHHh---cCCCCC-------CHhHHHHHHHHhcccc
Q 046221          314 EKSLV-SWTAIISGYVQ---NG------------CAREALNQFIKMRQ---EKTDSV-------DSITLVSILTASGELA  367 (572)
Q Consensus       314 ~~~~~-~~~~l~~~~~~---~~------------~~~~a~~~~~~~~~---~~~~~~-------~~~~~~~ll~~~~~~~  367 (572)
                      .+... .++ .-.+...   ..            +...+.+-+.....   .....|       -...-+.++..|++.-
T Consensus       395 ~~~~~~i~~-~~qgls~~l~se~tp~vsell~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~  473 (1088)
T KOG4318|consen  395 RHICSRIYY-AGQGLSLNLNSEDTPRVSELLENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEY  473 (1088)
T ss_pred             hhHHHHHHH-HHHHHHhhhchhhhHHHHHHHHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHH
Confidence            22111 111 0011110   11            11111111111110   001111       1112233444455555


Q ss_pred             cHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-----CCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 046221          368 ALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-----GFLRDVVSWNTIIYGYGVNGHGETALAL  442 (572)
Q Consensus       368 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~A~~~  442 (572)
                      +..++...-+.....-++   ..|..|++.++.....+.|..+.++.     .+..|..-+..+.+.+.+.+....+..+
T Consensus       474 n~lK~l~~~ekye~~lf~---g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~ti  550 (1088)
T KOG4318|consen  474 NKLKILCDEEKYEDLLFA---GLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTI  550 (1088)
T ss_pred             HHHHHHHHHHHHHHHHhh---hHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHH
Confidence            555555433333332222   67889999999999999999999998     3335666788888999999999999999


Q ss_pred             HHHHHhcCC-CCCH-HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-
Q 046221          443 YHKMTETGE-VPDS-STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-  519 (572)
Q Consensus       443 ~~~~~~~g~-~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  519 (572)
                      ++++.+.-. .|+. .++..++......|+.+...++.+-+. ..|+..+    .-++....+.++...|.++.+.... 
T Consensus       551 L~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lv-slgl~et----gPl~~vhLrkdd~s~a~ea~e~~~qk  625 (1088)
T KOG4318|consen  551 LYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILV-SLGLSET----GPLWMVHLRKDDQSAAQEAPEPEEQK  625 (1088)
T ss_pred             HhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHH-Hhhhhhc----ccceEEEeeccchhhhhhcchHHHHH
Confidence            999987422 3333 566677778888899988888887764 5555442    3455566788899999888887665 


Q ss_pred             -CCChHHHHHHHHHH
Q 046221          520 -GMGPNIWRALLSGC  533 (572)
Q Consensus       520 -~~~~~~~~~l~~~~  533 (572)
                       +|.|.....+...+
T Consensus       626 yk~~P~~~e~lcrlv  640 (1088)
T KOG4318|consen  626 YKPYPKDLEGLCRLV  640 (1088)
T ss_pred             hcCChHHHHHHHHHH
Confidence             56665555444444

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

Probab=99.63  E-value=8.2e-11  Score=105.77  Aligned_cols=429  Identities=13%  Similarity=0.092  Sum_probs=290.1

Q ss_pred             HHHHhhcCChhhHHHHhccCCC---CChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcc-hHHHHHHHHcCCCCh
Q 046221           12 LSNYFKSGKIKEAENLFDEIPE---KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSF-TMVGVLVAAAGLQNL   87 (572)
Q Consensus        12 ~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~g~~   87 (572)
                      .+.=..++++..|+.+|++...   .++..|--.+..-.+...+..|..++++....  -|... .|--.+..=-..|++
T Consensus        80 aqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~ymEE~LgNi  157 (677)
T KOG1915|consen   80 AQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIYMEEMLGNI  157 (677)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHHHHHHhccc
Confidence            3334456788899999998876   56778888888889999999999999998764  33322 222233333356899


Q ss_pred             HHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChH
Q 046221           88 ELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRA  167 (572)
Q Consensus        88 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  167 (572)
                      ..|.++|+.-....           |+..+|++.|+.-.+.+.++.|..++++..-  +.|+..+|..-.+.-.+.|...
T Consensus       158 ~gaRqiferW~~w~-----------P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~  224 (677)
T KOG1915|consen  158 AGARQIFERWMEWE-----------PDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVA  224 (677)
T ss_pred             HHHHHHHHHHHcCC-----------CcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHH
Confidence            99999999887654           7788999999999999999999999999876  4699999999888888999999


Q ss_pred             HHHHHHHHHHHh-c-CCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCC--C---CcccHHHHHHHHHccCCHHHHHHH--
Q 046221          168 LCELIHGLTIKL-G-LILDVSVNNSVLDMYSCLMDLDAAIQIFREMEC--K---DVISWTRMMGLFVDFEYAGDALKI--  238 (572)
Q Consensus       168 ~a~~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~---~~~~~~~li~~~~~~~~~~~a~~~--  238 (572)
                      .+..++...++. | -..+...+.+....-.++..++.|.-+|+-..+  |   ....|..+...=-+.|+.....+.  
T Consensus       225 ~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv  304 (677)
T KOG1915|consen  225 LARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIV  304 (677)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHh
Confidence            999999888763 2 122334555555555666778888888765544  2   233444444444445555444433  


Q ss_pred             ------HHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcc-hHHHHHH--------HHHhcCChh
Q 046221          239 ------FREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELR-LSNSIIA--------MYSKCGDLD  303 (572)
Q Consensus       239 ------~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~--------~~~~~~~~~  303 (572)
                            |+.+...+ +.|-.++--.++.-...|+.+...++|+.....-.+.... .|.-.|-        .-....+++
T Consensus       305 ~KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~e  383 (677)
T KOG1915|consen  305 GKRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVE  383 (677)
T ss_pred             hhhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence                  33333332 3455666677777777889999999998887654322211 1222221        112456777


Q ss_pred             HHHHHHhccCC---CCcchHHHH----HHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHH
Q 046221          304 SSRSVFNQITE---KSLVSWTAI----ISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLH  376 (572)
Q Consensus       304 ~a~~~~~~~~~---~~~~~~~~l----~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  376 (572)
                      .+.++|+...+   ....|+..+    ..--.++.+...|.+++....   |..|...+|..-+..-.+.++++....++
T Consensus       384 rtr~vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI---G~cPK~KlFk~YIelElqL~efDRcRkLY  460 (677)
T KOG1915|consen  384 RTRQVYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI---GKCPKDKLFKGYIELELQLREFDRCRKLY  460 (677)
T ss_pred             HHHHHHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh---ccCCchhHHHHHHHHHHHHhhHHHHHHHH
Confidence            77777766553   233344333    333346677788888777764   66777778888888778888888888888


Q ss_pred             HHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHcCCCCC----HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 046221          377 GIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRD----VVSWNTIIYGYGVNGHGETALALYHKMTETGEV  452 (572)
Q Consensus       377 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~  452 (572)
                      +...+.+ |-+..+|......-...|+.+.|..+|+-.-.+|.    ...|.+.|..-...|.+++|..+|+++++.  .
T Consensus       461 Ekfle~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~r--t  537 (677)
T KOG1915|consen  461 EKFLEFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDR--T  537 (677)
T ss_pred             HHHHhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh--c
Confidence            8877765 55667777777777777888888888887722232    344555555556678888888888888774  3


Q ss_pred             CCHHHHHHHH
Q 046221          453 PDSSTYLSIL  462 (572)
Q Consensus       453 p~~~~~~~l~  462 (572)
                      +-...|.+..
T Consensus       538 ~h~kvWisFA  547 (677)
T KOG1915|consen  538 QHVKVWISFA  547 (677)
T ss_pred             ccchHHHhHH
Confidence            3333444433

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

Probab=99.62  E-value=1.6e-12  Score=125.28  Aligned_cols=242  Identities=12%  Similarity=0.090  Sum_probs=142.8

Q ss_pred             CChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCC
Q 046221           34 KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNP  113 (572)
Q Consensus        34 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  113 (572)
                      ||.++|..+|.-|+..|+.+.|- +|.-|.-...+-+...++.++.+....++.+.+.                    .|
T Consensus        23 PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk--------------------ep   81 (1088)
T KOG4318|consen   23 PNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK--------------------EP   81 (1088)
T ss_pred             CchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC--------------------CC
Confidence            45555555555555555555555 5555555444444455555555555554444332                    35


Q ss_pred             CceeHHHHHHHHHhCCChHHHHHHHHH-HH-------hCCCCCCHhhHHHHHHHHhccCChHH--------HHHHHHHHH
Q 046221          114 YLVSCNAIVAGFINNKLFQQAVLLFNF-FR-------GSGLVPNAVTMLTVIRGCVALGSRAL--------CELIHGLTI  177 (572)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a~~~~~~-m~-------~~~~~p~~~~~~~ll~~~~~~~~~~~--------a~~~~~~~~  177 (572)
                      -..+|..|..+|...||... ++..++ |.       ..|+..-..-+-..++++-. -..+.        -+.++...+
T Consensus        82 ~aDtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~-~lpda~n~illlv~eglwaqll  159 (1088)
T KOG4318|consen   82 LADTYTNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPH-SLPDAENAILLLVLEGLWAQLL  159 (1088)
T ss_pred             chhHHHHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcc-cchhHHHHHHHHHHHHHHHHHH
Confidence            56688888888888888765 222222 22       12322222222222222211 11111        112223333


Q ss_pred             HhcC-CCChhHHhH---HHHHHHh-CCCHHHHHHHHhhcCC-CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCc
Q 046221          178 KLGL-ILDVSVNNS---VLDMYSC-LMDLDAAIQIFREMEC-KDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDT  251 (572)
Q Consensus       178 ~~~~-~~~~~~~~~---l~~~~~~-~~~~~~a~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  251 (572)
                      +.+. .|...-++.   ++.-... ...+++-..+.....+ +++.+|..++.+-..+|+.+.|..++.+|++.|++.+.
T Consensus       160 kll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~  239 (1088)
T KOG4318|consen  160 KLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRA  239 (1088)
T ss_pred             HHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCccc
Confidence            3321 121111111   1222221 2234444444444444 88999999999999999999999999999999999999


Q ss_pred             cchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCC
Q 046221          252 VALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGD  301 (572)
Q Consensus       252 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  301 (572)
                      .-|-.++-+   .++...++.+++-|...|+.|+..|+...+-.+.+.|.
T Consensus       240 HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  240 HYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             ccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            888888765   88899999999999999999999999888777777554

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

Probab=99.60  E-value=1.1e-11  Score=111.81  Aligned_cols=403  Identities=10%  Similarity=-0.016  Sum_probs=235.8

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-hhHHhHHHHHH
Q 046221          118 CNAIVAGFINNKLFQQAVLLFNFFRGSGLVPN-AVTMLTVIRGCVALGSRALCELIHGLTIKLGLILD-VSVNNSVLDMY  195 (572)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~  195 (572)
                      +-....-|.++|.+++|++.|.+..+.  .|| ...|....-+|...|+++++.+--...++.  .|+ +..+..-..++
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl--~P~Y~KAl~RRA~A~  193 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALEL--NPDYVKALLRRASAH  193 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhc--CcHHHHHHHHHHHHH
Confidence            334556688999999999999999884  778 677788888889999999988877776664  343 34555666777


Q ss_pred             HhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHH--------HHHh-CC--CCCCccchHHHHHHhccc
Q 046221          196 SCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFR--------EMRK-SR--IICDTVALLNLISVNAIL  264 (572)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~--------~m~~-~~--~~p~~~~~~~ll~~~~~~  264 (572)
                      -..|++++|+.-.         +-.++...+....-.--+.+++.        +-.+ .+  +.|+.....+....+-..
T Consensus       194 E~lg~~~eal~D~---------tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~  264 (606)
T KOG0547|consen  194 EQLGKFDEALFDV---------TVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHAD  264 (606)
T ss_pred             HhhccHHHHHHhh---------hHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcccc
Confidence            7888888776322         12222222222222222222222        2122 11  234333333333222110


Q ss_pred             CChHHHHHHHHHHHHhCCCCCcchHHHHHHH----HHhc-CChhHHHHHHhccC--------CC--Cc------chHHHH
Q 046221          265 GDLKRGKQLHAQVVLGGLQSELRLSNSIIAM----YSKC-GDLDSSRSVFNQIT--------EK--SL------VSWTAI  323 (572)
Q Consensus       265 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~----~~~~-~~~~~a~~~~~~~~--------~~--~~------~~~~~l  323 (572)
                      -            ......+.......+..+    +... ..++.|...+.+-.        ..  |.      .+....
T Consensus       265 ~------------~~~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~  332 (606)
T KOG0547|consen  265 P------------KPLFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLR  332 (606)
T ss_pred             c------------cccccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHh
Confidence            0            000000000011111111    1110 12222222222111        01  10      011111


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCC
Q 046221          324 ISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGN  403 (572)
Q Consensus       324 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  403 (572)
                      ..-+.-.|+.-.|..-|+.......-.++  .|..+...|....+.++....|+...+.+ +-++.+|..-.+++.-.++
T Consensus       333 gtF~fL~g~~~~a~~d~~~~I~l~~~~~~--lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q  409 (606)
T KOG0547|consen  333 GTFHFLKGDSLGAQEDFDAAIKLDPAFNS--LYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQ  409 (606)
T ss_pred             hhhhhhcCCchhhhhhHHHHHhcCcccch--HHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHH
Confidence            11233457777788888777622222222  26666677888888888888888887765 5567777777788888888


Q ss_pred             hHHHHHHHHHc-CCCCC-HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHh
Q 046221          404 VDLAYIVFEEM-GFLRD-VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQM  481 (572)
Q Consensus       404 ~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  481 (572)
                      +++|..-|++. .+.|. ...|--+..+..+.+++++++..|++.++. ++--+..|+.....+...++++.|.+.|+.+
T Consensus       410 ~e~A~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~a  488 (606)
T KOG0547|consen  410 YEEAIADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKA  488 (606)
T ss_pred             HHHHHHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHH
Confidence            88888888887 55443 555666666666778888888888888875 4444588888888888888888888888888


Q ss_pred             HHhcCC------CCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChH-HHHHHHHHHhhhcCCHHHHHHHHHHHH
Q 046221          482 IEENKV------KPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPN-IWRALLSGCVLHVGRFQDAEALRSGSQ  551 (572)
Q Consensus       482 ~~~~~~------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~-~~~~l~~~~~~~~g~~~~A~~~~~~m~  551 (572)
                      ++-...      .+.+.+...++..-.+ +++..|..+++++.+ +|... .|..|...-.+. |+.++|+++|++..
T Consensus       489 i~LE~~~~~~~v~~~plV~Ka~l~~qwk-~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~-~~i~eAielFEksa  564 (606)
T KOG0547|consen  489 IELEPREHLIIVNAAPLVHKALLVLQWK-EDINQAENLLRKAIELDPKCEQAYETLAQFELQR-GKIDEAIELFEKSA  564 (606)
T ss_pred             HhhccccccccccchhhhhhhHhhhchh-hhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHH-hhHHHHHHHHHHHH
Confidence            753211      1112222233333233 788888888888887 44433 566777666666 88888888888753

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

Probab=99.58  E-value=2.2e-14  Score=130.78  Aligned_cols=256  Identities=15%  Similarity=0.126  Sum_probs=76.1

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCCccchHH-HHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCC
Q 046221          223 MGLFVDFEYAGDALKIFREMRKSRIICDTVALLN-LISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGD  301 (572)
Q Consensus       223 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  301 (572)
                      ...+.+.|++++|++++++......+|+...|.. +...+-..++.+.|...++.+...+.. ++..+..++.. ...++
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~   92 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGD   92 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccccc
Confidence            4445555666666666644333321233333332 222333445556666666555554321 33344444444 45555


Q ss_pred             hhHHHHHHhccCC--CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHH
Q 046221          302 LDSSRSVFNQITE--KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIA  379 (572)
Q Consensus       302 ~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  379 (572)
                      +++|.+++...-+  ++...+..++..+.+.++++++..+++.+......                              
T Consensus        93 ~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~------------------------------  142 (280)
T PF13429_consen   93 PEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAA------------------------------  142 (280)
T ss_dssp             -------------------------H-HHHTT-HHHHHHHHHHHHH-T--------------------------------
T ss_pred             ccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCC------------------------------
Confidence            5555555544322  23334444555555555555555555555422222                              


Q ss_pred             HHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHH
Q 046221          380 FEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSST  457 (572)
Q Consensus       380 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~  457 (572)
                           +.+...|..+...+.+.|+.++|++.+++. ...| +......++..+...|+.+++..+++...+.. +.|...
T Consensus       143 -----~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~  216 (280)
T PF13429_consen  143 -----PDSARFWLALAEIYEQLGDPDKALRDYRKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDL  216 (280)
T ss_dssp             ------T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCH
T ss_pred             -----CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHH
Confidence                 334445555555666666666666666665 3334 35556666666666666666666666655542 334455


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhcc
Q 046221          458 YLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       458 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                      +..+..++...|+.++|+.+|++..+.+  +.|+.....+.+++...|+.++|.++.+++.
T Consensus       217 ~~~la~~~~~lg~~~~Al~~~~~~~~~~--p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  217 WDALAAAYLQLGRYEEALEYLEKALKLN--PDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             CHHHHHHHHHHT-HHHHHHHHHHHHHHS--TT-HHHHHHHHHHHT----------------
T ss_pred             HHHHHHHhcccccccccccccccccccc--ccccccccccccccccccccccccccccccc
Confidence            5566666666677777777776665433  4456666666666777777777766665543

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

Probab=99.58  E-value=1.6e-14  Score=131.66  Aligned_cols=251  Identities=16%  Similarity=0.168  Sum_probs=109.1

Q ss_pred             HHHHHHhcCChhHHHHHHhcc-CC----CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhccc
Q 046221          292 IIAMYSKCGDLDSSRSVFNQI-TE----KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGEL  366 (572)
Q Consensus       292 l~~~~~~~~~~~~a~~~~~~~-~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  366 (572)
                      +...+.+.|++++|.+++.+. ..    .+..-|..+.......++++.|...++++. ..+ +-+...+..++.. ...
T Consensus        14 ~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~-~~~-~~~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   14 LARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLL-ASD-KANPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccc-ccccccccccccc-ccc
Confidence            344555556666666666322 11    123334444444555666666666666665 221 1133344444444 566


Q ss_pred             ccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc----CCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 046221          367 AALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM----GFLRDVVSWNTIIYGYGVNGHGETALAL  442 (572)
Q Consensus       367 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~A~~~  442 (572)
                      ++++.|..++....+.  .+++..+..++..+.+.++++++.++++.+    ..+.+...|..+...+.+.|+.++|++.
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            6666666666554443  245566677888889999999999999986    3446778888999999999999999999


Q ss_pred             HHHHHhcCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-C
Q 046221          443 YHKMTETGEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-G  520 (572)
Q Consensus       443 ~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~  520 (572)
                      +++..+  ..|+ ......++..+...|+.+++.++++...+..  +.|+..+..+..+|...|++++|..++++... .
T Consensus       169 ~~~al~--~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~--~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~  244 (280)
T PF13429_consen  169 YRKALE--LDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA--PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN  244 (280)
T ss_dssp             HHHHHH--H-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH---HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHH--cCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC--cCHHHHHHHHHHHhcccccccccccccccccccc
Confidence            999999  4675 6788899999999999999999999886543  56777888999999999999999999999887 5


Q ss_pred             C-ChHHHHHHHHHHhhhcCCHHHHHHHHHHHHh
Q 046221          521 M-GPNIWRALLSGCVLHVGRFQDAEALRSGSQK  552 (572)
Q Consensus       521 ~-~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~  552 (572)
                      | |+.....+..++... |+.++|.++.++..+
T Consensus       245 p~d~~~~~~~a~~l~~~-g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  245 PDDPLWLLAYADALEQA-GRKDEALRLRRQALR  276 (280)
T ss_dssp             TT-HHHHHHHHHHHT------------------
T ss_pred             ccccccccccccccccc-ccccccccccccccc
Confidence            5 566666666666666 999999999887654

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.58  E-value=1.3e-11  Score=117.78  Aligned_cols=284  Identities=11%  Similarity=0.000  Sum_probs=161.4

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHH--HHHHHHHhcCChhHHH
Q 046221          229 FEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSN--SIIAMYSKCGDLDSSR  306 (572)
Q Consensus       229 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~  306 (572)
                      .|+++.|.+.+....+..-.| ...|.....+....|+++.+...+.++.+.  .|+.....  .....+...|+++.|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p-~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQP-VVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccch-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            688888887777654432111 122333344446778888888888887654  33433222  3356677777888777


Q ss_pred             HHHhccCCC---CcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhc
Q 046221          307 SVFNQITEK---SLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAG  383 (572)
Q Consensus       307 ~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  383 (572)
                      ..++.+.+.   ++.....+...|.+.|++++|.+++..+.+.....+..  ...+-                       
T Consensus       174 ~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~--~~~l~-----------------------  228 (398)
T PRK10747        174 HGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEH--RAMLE-----------------------  228 (398)
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHH--HHHHH-----------------------
Confidence            777776642   34456667777777777777777777776322222111  11000                       


Q ss_pred             CCCchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHH
Q 046221          384 FPRYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSI  461 (572)
Q Consensus       384 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l  461 (572)
                          ...|..++.......+.+...++++.+  ..+.++.....+...+...|+.++|.+++++..+.  .|+....  +
T Consensus       229 ----~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~  300 (398)
T PRK10747        229 ----QQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--L  300 (398)
T ss_pred             ----HHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--H
Confidence                001111222222333445555555555  23335556666666667777777777777666662  4444221  2


Q ss_pred             HHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHHHHHHHHHhhhcCCH
Q 046221          462 LNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWRALLSGCVLHVGRF  540 (572)
Q Consensus       462 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~~g~~  540 (572)
                      +.+....++.+++++..+...+.+  +-|...+..+...+.+.|++++|.+.|+++.+ .|+...+..+...+... |+.
T Consensus       301 l~~~l~~~~~~~al~~~e~~lk~~--P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~-g~~  377 (398)
T PRK10747        301 LIPRLKTNNPEQLEKVLRQQIKQH--GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRL-HKP  377 (398)
T ss_pred             HHhhccCCChHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHc-CCH
Confidence            233334466677777776665443  34444566666777777777777777777666 56666666555555544 777


Q ss_pred             HHHHHHHHHHH
Q 046221          541 QDAEALRSGSQ  551 (572)
Q Consensus       541 ~~A~~~~~~m~  551 (572)
                      ++|.+++++-.
T Consensus       378 ~~A~~~~~~~l  388 (398)
T PRK10747        378 EEAAAMRRDGL  388 (398)
T ss_pred             HHHHHHHHHHH
Confidence            77776666553

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

Probab=99.58  E-value=9.5e-11  Score=105.14  Aligned_cols=286  Identities=11%  Similarity=0.087  Sum_probs=144.5

Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCC--CCCcchHHHHHHHHHhcCChh
Q 046221          226 FVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGL--QSELRLSNSIIAMYSKCGDLD  303 (572)
Q Consensus       226 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~  303 (572)
                      +-...+.+++..-.......|.+-+...-+....+.-...|+++|+.+|+++.+...  -.|..+|..++-.--...++.
T Consensus       237 ~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs  316 (559)
T KOG1155|consen  237 YQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLS  316 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHH
Confidence            333344555555555555555443333333333344455666666666666665532  123344444332211111111


Q ss_pred             H-HHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHh
Q 046221          304 S-SRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEA  382 (572)
Q Consensus       304 ~-a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  382 (572)
                      - |..++ .+.+--+.|...+.+-|.-.++.++|...|++..+.  .+-....++.+.+-|...++...|.+-++..++.
T Consensus       317 ~LA~~v~-~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkL--Np~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi  393 (559)
T KOG1155|consen  317 YLAQNVS-NIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKL--NPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDI  393 (559)
T ss_pred             HHHHHHH-HhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhc--CcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhc
Confidence            1 11111 111222344455555555666666666666666411  1222334445555566666666666666666654


Q ss_pred             cCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHH
Q 046221          383 GFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLS  460 (572)
Q Consensus       383 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~  460 (572)
                      . |.|-..|-.|.++|.-.+...-|+-.|++. ..+| |...|.+|..+|.+.++.++|++.|......| ..+...+..
T Consensus       394 ~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~  471 (559)
T KOG1155|consen  394 N-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVR  471 (559)
T ss_pred             C-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHH
Confidence            4 445556666666666666666666666666 3333 46666666666666666666666666666543 224456666


Q ss_pred             HHHHHhccCChHHHHHHHHHhHHhc---C-CCC-ChhHHHHHHHHHHhhCChhHHHHHHHh
Q 046221          461 ILNACGHAGLTNDGLVIFNQMIEEN---K-VKP-SQEHYGCVVDLLARAGCLSDASGLAGK  516 (572)
Q Consensus       461 l~~~~~~~g~~~~a~~~~~~~~~~~---~-~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~  516 (572)
                      |...|-+.++..+|.+.|++.++..   | +.| ....-.-|...+.+.+++++|..+...
T Consensus       472 LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~  532 (559)
T KOG1155|consen  472 LAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATL  532 (559)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHH
Confidence            6666666666666666666555421   1 111 111222244445555566655544433

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

Probab=99.57  E-value=5.4e-10  Score=104.41  Aligned_cols=516  Identities=13%  Similarity=0.114  Sum_probs=312.7

Q ss_pred             CcchhhHHHHHhhcCChhhHHHHhccCCC-----CChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHH
Q 046221            5 PYNSSKLLSNYFKSGKIKEAENLFDEIPE-----KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLV   79 (572)
Q Consensus         5 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~   79 (572)
                      +..|-.-+..+.++|++...+..|++...     .....|...+......+-++-++.+|++-++-    ++..-.-.+.
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie  177 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIE  177 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHH
Confidence            34566667888899999999999987654     24457899999999999999999999998853    3344677788


Q ss_pred             HHcCCCChHHHHHHHHHHHHhcCCCCcccCC-CCCCceeHHHHHHHHHhCCChHHH---HHHHHHHHhCCCCCCHh--hH
Q 046221           80 AAAGLQNLELARSIHGLMVKFGLESDLFEGL-KNPYLVSCNAIVAGFINNKLFQQA---VLLFNFFRGSGLVPNAV--TM  153 (572)
Q Consensus        80 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a---~~~~~~m~~~~~~p~~~--~~  153 (572)
                      .+++.+++++|.+.+..++....    |.+. .+.+...|+.+-...+++-+.-..   ..+++.+...  -+|..  .|
T Consensus       178 ~L~~~d~~~eaa~~la~vln~d~----f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw  251 (835)
T KOG2047|consen  178 YLAKSDRLDEAAQRLATVLNQDE----FVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLW  251 (835)
T ss_pred             HHHhccchHHHHHHHHHhcCchh----hhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHH
Confidence            88999999999999887764322    1111 123344566666655555433222   2333333322  33433  46


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhC----------------C------CHHHHHHHHhhc
Q 046221          154 LTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCL----------------M------DLDAAIQIFREM  211 (572)
Q Consensus       154 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------------~------~~~~a~~~~~~~  211 (572)
                      +.|..-|.+.|.+++|..++++.+..  ..+..-|+.+.++|+.-                +      +++-...-|+.+
T Consensus       252 ~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~l  329 (835)
T KOG2047|consen  252 CSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESL  329 (835)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHH
Confidence            67777778888888888888776664  23333344444444321                1      122233333333


Q ss_pred             CCC---------------CcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCc------cchHHHHHHhcccCChHHH
Q 046221          212 ECK---------------DVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDT------VALLNLISVNAILGDLKRG  270 (572)
Q Consensus       212 ~~~---------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~------~~~~~ll~~~~~~~~~~~a  270 (572)
                      ...               ++..|..-+.  +..|+..+-...|.+..+. +.|..      ..+..+.+.|-..|+++.|
T Consensus       330 m~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~a  406 (835)
T KOG2047|consen  330 MNRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDA  406 (835)
T ss_pred             HhccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHH
Confidence            221               2223332222  3356677777778777665 34422      2456677778888999999


Q ss_pred             HHHHHHHHHhCCCCC---cchHHHHHHHHHhcCChhHHHHHHhccCC-C--------------------CcchHHHHHHH
Q 046221          271 KQLHAQVVLGGLQSE---LRLSNSIIAMYSKCGDLDSSRSVFNQITE-K--------------------SLVSWTAIISG  326 (572)
Q Consensus       271 ~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~--------------------~~~~~~~l~~~  326 (572)
                      ..+|+...+...+.-   ..+|..-..+=.+..+++.|.++.+.... |                    +...|...+..
T Consensus       407 Rvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~Dl  486 (835)
T KOG2047|consen  407 RVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADL  486 (835)
T ss_pred             HHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHH
Confidence            999998887654322   23455555555667788888888877642 1                    22356666666


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCc-hhHHHHHHHHhhh---cC
Q 046221          327 YVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRY-RSVQNCLISSYSK---CG  402 (572)
Q Consensus       327 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~---~g  402 (572)
                      --..|-++....+++++.+..-..|....-  ....+....-++++.+++++-+..=-.|+ ..+|+..+.-+.+   ..
T Consensus       487 eEs~gtfestk~vYdriidLriaTPqii~N--yAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~  564 (835)
T KOG2047|consen  487 EESLGTFESTKAVYDRIIDLRIATPQIIIN--YAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGT  564 (835)
T ss_pred             HHHhccHHHHHHHHHHHHHHhcCCHHHHHH--HHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCC
Confidence            666778888888888887555455443321  11223344556777777654333222233 3456666655543   24


Q ss_pred             ChHHHHHHHHHc--CCCCCHhHHHHHHHH--HHhcCChHHHHHHHHHHHhcCCCCCH--HHHHHHHHHHhccCChHHHHH
Q 046221          403 NVDLAYIVFEEM--GFLRDVVSWNTIIYG--YGVNGHGETALALYHKMTETGEVPDS--STYLSILNACGHAGLTNDGLV  476 (572)
Q Consensus       403 ~~~~A~~~~~~~--~~~~~~~~~~~l~~~--~~~~~~~~~A~~~~~~~~~~g~~p~~--~~~~~l~~~~~~~g~~~~a~~  476 (572)
                      .++.|..+|++.  +.+|...-+-.|+.+  --+.|-...|+.+|++.... +.+..  ..|++.|.-....=-+.....
T Consensus       565 klEraRdLFEqaL~~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~-v~~a~~l~myni~I~kaae~yGv~~TR~  643 (835)
T KOG2047|consen  565 KLERARDLFEQALDGCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSA-VKEAQRLDMYNIYIKKAAEIYGVPRTRE  643 (835)
T ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHHhCCcccHH
Confidence            688999999988  665442222222222  22357778888999887664 55543  678887765444444556778


Q ss_pred             HHHHhHHhcCCCCChhHHH---HHHHHHHhhCChhHHHHHHHhccC--CCChH--HHHHHHHHHhhhcCCHHH
Q 046221          477 IFNQMIEENKVKPSQEHYG---CVVDLLARAGCLSDASGLAGKLLE--GMGPN--IWRALLSGCVLHVGRFQD  542 (572)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~---~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~--~~~~l~~~~~~~~g~~~~  542 (572)
                      +|+++++..   |+...-.   -..+.=.+.|.++.|..++....+  +|...  .|..-=.--.+| |+-+-
T Consensus       644 iYekaIe~L---p~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrH-GnedT  712 (835)
T KOG2047|consen  644 IYEKAIESL---PDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRH-GNEDT  712 (835)
T ss_pred             HHHHHHHhC---ChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhc-CCHHH
Confidence            888888653   5554333   333455688999999999887766  44433  355443333455 77433

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.56  E-value=3.3e-12  Score=121.87  Aligned_cols=277  Identities=9%  Similarity=-0.055  Sum_probs=201.4

Q ss_pred             CCChHHHHHHHHHHHHcCCCCCcch-HHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHH--HHHHHH
Q 046221           49 NGFHEKSMKAFSHMMLSGLLPNSFT-MVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCN--AIVAGF  125 (572)
Q Consensus        49 ~~~~~~a~~~~~~m~~~~~~~~~~~-~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~l~~~~  125 (572)
                      .|+++.|.+.+....+..  +++.. |.....+..+.|+++.|...+.++.+..+           +.....  .....+
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~-----------~~~~~~~l~~a~l~  163 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAELAD-----------NDQLPVEITRVRIQ  163 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-----------cchHHHHHHHHHHH
Confidence            588888887777655432  12222 22223333578888888888888876542           222222  335677


Q ss_pred             HhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCh-------hHHhHHHHHHHhC
Q 046221          126 INNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDV-------SVNNSVLDMYSCL  198 (572)
Q Consensus       126 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~  198 (572)
                      ...|+++.|...++++.+.. +-+...+..+...+.+.|+++.+..++..+.+.+..++.       .+|..++......
T Consensus       164 l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~  242 (398)
T PRK10747        164 LARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMAD  242 (398)
T ss_pred             HHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence            78888888888888887764 225566777778888888888888888888877644322       2344455555555


Q ss_pred             CCHHHHHHHHhhcCC---CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHH
Q 046221          199 MDLDAAIQIFREMEC---KDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHA  275 (572)
Q Consensus       199 ~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  275 (572)
                      .+.+...++++.++.   .++.....+...+...|+.++|.+.+.+..+.  +||..  ..++.+....++.+.+.+..+
T Consensus       243 ~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~--l~~l~~~l~~~~~~~al~~~e  318 (398)
T PRK10747        243 QGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDER--LVLLIPRLKTNNPEQLEKVLR  318 (398)
T ss_pred             cCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHH--HHHHHhhccCCChHHHHHHHH
Confidence            667788888888765   47778888999999999999999999988874  44442  223444455689999999999


Q ss_pred             HHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC--CCcchHHHHHHHHHHcCChHHHHHHHHHHH
Q 046221          276 QVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE--KSLVSWTAIISGYVQNGCAREALNQFIKMR  344 (572)
Q Consensus       276 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  344 (572)
                      ...+.. +.|......+...+.+.+++++|.+.|+...+  |+...+..+...+.+.|+.++|.+++++-.
T Consensus       319 ~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l  388 (398)
T PRK10747        319 QQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAAMRRDGL  388 (398)
T ss_pred             HHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            888765 56667788899999999999999999999874  677778889999999999999999998875

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

Probab=99.56  E-value=1.3e-11  Score=105.46  Aligned_cols=300  Identities=15%  Similarity=0.121  Sum_probs=194.3

Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCC---cchHHHHHHHHHhcCChhH
Q 046221          228 DFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSE---LRLSNSIIAMYSKCGDLDS  304 (572)
Q Consensus       228 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~  304 (572)
                      -++++++|.++|-+|.+.+ +-+..+-.+|-+.+.+.|..+.|+++...+.++.--+.   ....-.|..-|...|-+|.
T Consensus        47 Ls~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            3567788888888887631 12223334555566666777777777766665321111   1122334445555666666


Q ss_pred             HHHHHhccCCCCc---chHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHH
Q 046221          305 SRSVFNQITEKSL---VSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFE  381 (572)
Q Consensus       305 a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  381 (572)
                      |+.+|..+.+.+.   .....|+..|....++++|++.-+++.                                    +
T Consensus       126 AE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~------------------------------------k  169 (389)
T COG2956         126 AEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLV------------------------------------K  169 (389)
T ss_pred             HHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHH------------------------------------H
Confidence            6666666554222   234445555556666666666555554                                    3


Q ss_pred             hcCCCc----hhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCC-HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH
Q 046221          382 AGFPRY----RSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRD-VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS  455 (572)
Q Consensus       382 ~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~  455 (572)
                      .+-.+.    ...|--+...+....+++.|..++.+. ...|. +..--.+...+...|++++|.+.|+...+.+..--+
T Consensus       170 ~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~  249 (389)
T COG2956         170 LGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLS  249 (389)
T ss_pred             cCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHH
Confidence            322221    123344555566677888899998888 33344 334445667788999999999999999996433334


Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHh-ccCCCChHHHHHHHHHHh
Q 046221          456 STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGK-LLEGMGPNIWRALLSGCV  534 (572)
Q Consensus       456 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~l~~~~~  534 (572)
                      .+...|..+|...|+.++....+..+++..   +.......+.+.-....-.+.|...+.+ +..+|+...+..++..-.
T Consensus       250 evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~---~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l  326 (389)
T COG2956         250 EVLEMLYECYAQLGKPAEGLNFLRRAMETN---TGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHL  326 (389)
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHcc---CCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhh
Confidence            778899999999999999999999998543   5555555565555555556666655554 555999999999888654


Q ss_pred             hh--cCCHHHHHHHHHHHHhCCCCCCCceeEEEcC
Q 046221          535 LH--VGRFQDAEALRSGSQKKGIIKIPGISFLNST  567 (572)
Q Consensus       535 ~~--~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~  567 (572)
                      ..  .|++++.+..+..|....++..|.|.--+-+
T Consensus       327 ~daeeg~~k~sL~~lr~mvge~l~~~~~YRC~~CG  361 (389)
T COG2956         327 ADAEEGRAKESLDLLRDMVGEQLRRKPRYRCQNCG  361 (389)
T ss_pred             ccccccchhhhHHHHHHHHHHHHhhcCCceecccC
Confidence            32  5779999999999999998888876544433

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

Probab=99.55  E-value=3.4e-11  Score=107.94  Aligned_cols=354  Identities=16%  Similarity=0.137  Sum_probs=250.6

Q ss_pred             CCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchH--HHHH
Q 046221          182 ILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALL--NLIS  259 (572)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~--~ll~  259 (572)
                      ..|...+-.....+.+.|..+.|+..|......-+..|.+-+....-..+.+.+..+..     |.+.|...+.  .+..
T Consensus       161 ~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~~l~~-----~l~~~~h~M~~~F~~~  235 (559)
T KOG1155|consen  161 EKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILSILVV-----GLPSDMHWMKKFFLKK  235 (559)
T ss_pred             cchhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHHHHHh-----cCcccchHHHHHHHHH
Confidence            44444444444556677888888888887766444444444433332223332222211     2222222221  2334


Q ss_pred             HhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCc------chHHHHHHHHHHcCCh
Q 046221          260 VNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSL------VSWTAIISGYVQNGCA  333 (572)
Q Consensus       260 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~l~~~~~~~~~~  333 (572)
                      ++-.....+++.+-.......|++.+...-+....+.-...++|+|+.+|+++.+.|+      .+|+.++  |.++.+.
T Consensus       236 a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~L--Yv~~~~s  313 (559)
T KOG1155|consen  236 AYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVL--YVKNDKS  313 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHH--HHHhhhH
Confidence            5556667888888888888889888887777777788888999999999999987654      4666655  3333221


Q ss_pred             HHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHH
Q 046221          334 REALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEE  413 (572)
Q Consensus       334 ~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  413 (572)
                        .+..+-+-. ..-.+-.+.|...+..-|+-.++.++|..+|++..+.+ +.....|+.+.+-|....+...|.+-++.
T Consensus       314 --kLs~LA~~v-~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRr  389 (559)
T KOG1155|consen  314 --KLSYLAQNV-SNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRR  389 (559)
T ss_pred             --HHHHHHHHH-HHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHH
Confidence              222222221 22233445577778888888999999999999999876 55677889999999999999999999999


Q ss_pred             c-CCC-CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC
Q 046221          414 M-GFL-RDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS  490 (572)
Q Consensus       414 ~-~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  490 (572)
                      . .+. .|-..|-.|.++|.-.+-+.-|+-.|++..+  ++| |+..|..|..+|.+.++.++|++.|..++.-+  ..+
T Consensus       390 Avdi~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~--dte  465 (559)
T KOG1155|consen  390 AVDINPRDYRAWYGLGQAYEIMKMHFYALYYFQKALE--LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG--DTE  465 (559)
T ss_pred             HHhcCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHh--cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc--ccc
Confidence            8 443 5789999999999999999999999999999  567 77999999999999999999999999998544  345


Q ss_pred             hhHHHHHHHHHHhhCChhHHHHHHHhccC------CCChHHHHH--HHHHHhhhcCCHHHHHHHHHHH
Q 046221          491 QEHYGCVVDLLARAGCLSDASGLAGKLLE------GMGPNIWRA--LLSGCVLHVGRFQDAEALRSGS  550 (572)
Q Consensus       491 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------~~~~~~~~~--l~~~~~~~~g~~~~A~~~~~~m  550 (572)
                      ...+..|.+.|-+.++.++|...+++..+      ..++.+..+  .+..+....+++++|.....+.
T Consensus       466 ~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~  533 (559)
T KOG1155|consen  466 GSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLV  533 (559)
T ss_pred             hHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            57899999999999999999999988665      234433332  2333333347787776655444

>TIGR00540 hemY_coli hemY protein

Probab=99.55  E-value=1.3e-11  Score=118.45  Aligned_cols=291  Identities=11%  Similarity=0.029  Sum_probs=153.8

Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCccc-hHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHH
Q 046221          227 VDFEYAGDALKIFREMRKSRIICDTVA-LLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSS  305 (572)
Q Consensus       227 ~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  305 (572)
                      ...|+++.|.+.+.+..+.  .|++.. +.....+....|+.+.+...+....+....+...+.......+...|+++.|
T Consensus        95 ~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHH
Confidence            3567888888887776554  344332 2333455566677777777777765543222222223345556666666666


Q ss_pred             HHHHhccCCC---CcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHh
Q 046221          306 RSVFNQITEK---SLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEA  382 (572)
Q Consensus       306 ~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  382 (572)
                      ...++.+.+.   +...+..+...+.+.|++++|.+.+..+. +.+.. +...+..+-.                     
T Consensus       173 l~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~-k~~~~-~~~~~~~l~~---------------------  229 (409)
T TIGR00540       173 RHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMA-KAGLF-DDEEFADLEQ---------------------  229 (409)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH-HcCCC-CHHHHHHHHH---------------------
Confidence            6666666532   33455556666666666666666666665 32221 1111110000                     


Q ss_pred             cCCCchhHHHHHHHHhhhcCChHHHHHHHHHcC--CCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHH---
Q 046221          383 GFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMG--FLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSST---  457 (572)
Q Consensus       383 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~---  457 (572)
                            ..+..++..-......+...+.++..+  .+.+...+..+...+...|+.++|.+++++..+.  .||...   
T Consensus       230 ------~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~  301 (409)
T TIGR00540       230 ------KAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISL  301 (409)
T ss_pred             ------HHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchh
Confidence                  000000100011111222333333331  1135566666667777777777777777777763  344331   


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHh--ccC-CCChHHHHHHHHHHh
Q 046221          458 YLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGK--LLE-GMGPNIWRALLSGCV  534 (572)
Q Consensus       458 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~--~~~-~~~~~~~~~l~~~~~  534 (572)
                      ...........++.+.+.+.++...+...-.|+.....++...+.+.|++++|.+.|++  ..+ .|++..+..+...+.
T Consensus       302 ~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~  381 (409)
T TIGR00540       302 PLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFD  381 (409)
T ss_pred             HHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHH
Confidence            11111222344666677777776665442222214555677777777777777777773  433 667666666666665


Q ss_pred             hhcCCHHHHHHHHHHHH
Q 046221          535 LHVGRFQDAEALRSGSQ  551 (572)
Q Consensus       535 ~~~g~~~~A~~~~~~m~  551 (572)
                      .. |+.++|.+++++-.
T Consensus       382 ~~-g~~~~A~~~~~~~l  397 (409)
T TIGR00540       382 QA-GDKAEAAAMRQDSL  397 (409)
T ss_pred             Hc-CCHHHHHHHHHHHH
Confidence            55 77777777777643

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.

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

Probab=99.55  E-value=1.3e-12  Score=122.38  Aligned_cols=279  Identities=13%  Similarity=0.038  Sum_probs=213.1

Q ss_pred             ChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCC------CcchHHHHHHHHHHcCChHHHHHH
Q 046221          266 DLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEK------SLVSWTAIISGYVQNGCAREALNQ  339 (572)
Q Consensus       266 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~  339 (572)
                      +..+|...|..+..+ ...+..+...+..+|...+++++|.++|+.+.+.      +...|.+.+--+.+    +-++..
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~  408 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSY  408 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHH
Confidence            456777777774333 3444467778889999999999999999988753      45677776654432    223333


Q ss_pred             HHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC
Q 046221          340 FIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR  418 (572)
Q Consensus       340 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~  418 (572)
                      +.+-. ....+-.+.+|.++..+++-+++.+.|+..|++..... +....+|+.+..-+.....+|.|...|+.. ++.|
T Consensus       409 Laq~L-i~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~  486 (638)
T KOG1126|consen  409 LAQDL-IDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDP  486 (638)
T ss_pred             HHHHH-HhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCc
Confidence            33332 34455677899999999999999999999999887654 336788888888888899999999999988 5434


Q ss_pred             C-HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHH
Q 046221          419 D-VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGC  496 (572)
Q Consensus       419 ~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  496 (572)
                      . ...|-.+...|.+.++++.|+-.|+++.+  +.|. .+....+...+.+.|+.|+|++++++++...  +-|+..-..
T Consensus       487 rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~--INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld--~kn~l~~~~  562 (638)
T KOG1126|consen  487 RHYNAWYGLGTVYLKQEKLEFAEFHFQKAVE--INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLD--PKNPLCKYH  562 (638)
T ss_pred             hhhHHHHhhhhheeccchhhHHHHHHHhhhc--CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC--CCCchhHHH
Confidence            3 45566677889999999999999999998  7784 4778888888999999999999999997433  344445555


Q ss_pred             HHHHHHhhCChhHHHHHHHhccC-CCC-hHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          497 VVDLLARAGCLSDASGLAGKLLE-GMG-PNIWRALLSGCVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       497 l~~~~~~~g~~~~A~~~~~~~~~-~~~-~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                      -+..+...+++++|+..++++++ -|+ ..++..+...|.+- |+.+.|+..|.=+.+-.++
T Consensus       563 ~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~-~~~~~Al~~f~~A~~ldpk  623 (638)
T KOG1126|consen  563 RASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRL-GNTDLALLHFSWALDLDPK  623 (638)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHH-ccchHHHHhhHHHhcCCCc
Confidence            66778889999999999999988 454 45566677777666 9999999999888877665

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.54  E-value=4.9e-11  Score=103.17  Aligned_cols=449  Identities=9%  Similarity=0.010  Sum_probs=207.2

Q ss_pred             HHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHH
Q 046221           44 HGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVA  123 (572)
Q Consensus        44 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  123 (572)
                      .-+...+++..|+.+++--...+-.....+-.-+..++...|++++|...+..+.+..-          ++...+-.|.-
T Consensus        30 edfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~----------~~~el~vnLAc   99 (557)
T KOG3785|consen   30 EDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDD----------APAELGVNLAC   99 (557)
T ss_pred             HHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCC----------CCcccchhHHH
Confidence            34445556666666666544322111111112223334466777777666666555321          44555555655


Q ss_pred             HHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHH
Q 046221          124 GFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDA  203 (572)
Q Consensus       124 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  203 (572)
                      .+.-.|.+.+|..+-....+     +.---..+++..-+.++-++...+.+.+...     ...--+|.......-.+.+
T Consensus       100 c~FyLg~Y~eA~~~~~ka~k-----~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQe  169 (557)
T KOG3785|consen  100 CKFYLGQYIEAKSIAEKAPK-----TPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQE  169 (557)
T ss_pred             HHHHHHHHHHHHHHHhhCCC-----ChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHH
Confidence            55566666666655544221     1222223333334455555444444433321     1111223333223335677


Q ss_pred             HHHHHhhcCC--CCcccHHH-HHHHHHccCCHHHHHHHHHHHHhCCCCCCc-cchHHHHHHhcccCChHHHHHHHHHHHH
Q 046221          204 AIQIFREMEC--KDVISWTR-MMGLFVDFEYAGDALKIFREMRKSRIICDT-VALLNLISVNAILGDLKRGKQLHAQVVL  279 (572)
Q Consensus       204 a~~~~~~~~~--~~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~  279 (572)
                      |++++.++..  |+-...|. +.-+|.+..-++-+.+++.-..+.  .||+ ...+.......+.=+-..|+.-.+.+.+
T Consensus       170 AIdvYkrvL~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q--~pdStiA~NLkacn~fRl~ngr~ae~E~k~lad  247 (557)
T KOG3785|consen  170 AIDVYKRVLQDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ--FPDSTIAKNLKACNLFRLINGRTAEDEKKELAD  247 (557)
T ss_pred             HHHHHHHHHhcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh--CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHh
Confidence            7777777765  33334443 334556666677677776666554  2333 2333322222333222233333333333


Q ss_pred             hCCCCCcchHHHHHHHHHhc-----CChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHh
Q 046221          280 GGLQSELRLSNSIIAMYSKC-----GDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSI  354 (572)
Q Consensus       280 ~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  354 (572)
                      .+-..     -..+.-+++.     .+-+.|.+++-.+.+.=+.+--.++--|.+.++.++|..+.+++.   +..|-..
T Consensus       248 N~~~~-----~~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~---PttP~Ey  319 (557)
T KOG3785|consen  248 NIDQE-----YPFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLD---PTTPYEY  319 (557)
T ss_pred             ccccc-----chhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcC---CCChHHH
Confidence            22110     0112222222     123444444443332222222333444566666666666655542   3333333


Q ss_pred             HHHHHHHH-----hcccccHHHHHHHHHHHHHhcCCCch-hHHHHHHHHhhhcCChHHHHHHHHHc---CCCCCHhHHHH
Q 046221          355 TLVSILTA-----SGELAALEICLQLHGIAFEAGFPRYR-SVQNCLISSYSKCGNVDLAYIVFEEM---GFLRDVVSWNT  425 (572)
Q Consensus       355 ~~~~ll~~-----~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~~  425 (572)
                      ....+..+     .........|.+.|+..-+.+..-|. .--.++...+.-..++++.+-.++.+   -...|...+ .
T Consensus       320 ilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N  398 (557)
T KOG3785|consen  320 ILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-N  398 (557)
T ss_pred             HHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-H
Confidence            33332222     12223445555555555444433221 12233444455555666666666655   111222222 3


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHH-HHHHHHHHhh
Q 046221          426 IIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHY-GCVVDLLARA  504 (572)
Q Consensus       426 l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~  504 (572)
                      +.++++..|++.+|+++|-++....++.+..-...|.++|.+.+++.-|+.++-.+ +   -+.+..+. ..+..-|.++
T Consensus       399 ~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~-~---t~~e~fsLLqlIAn~CYk~  474 (557)
T KOG3785|consen  399 LAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKT-N---TPSERFSLLQLIANDCYKA  474 (557)
T ss_pred             HHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhc-C---CchhHHHHHHHHHHHHHHH
Confidence            55666666777777777655554333323333334455666777777666655433 1   12222222 2333455666


Q ss_pred             CChhHHHHHHHhccC-CCChHHHH
Q 046221          505 GCLSDASGLAGKLLE-GMGPNIWR  527 (572)
Q Consensus       505 g~~~~A~~~~~~~~~-~~~~~~~~  527 (572)
                      +.+--|-+.|+.+.. +|++.-|.
T Consensus       475 ~eFyyaaKAFd~lE~lDP~pEnWe  498 (557)
T KOG3785|consen  475 NEFYYAAKAFDELEILDPTPENWE  498 (557)
T ss_pred             HHHHHHHHhhhHHHccCCCccccC
Confidence            666666666666554 66666555

>TIGR00540 hemY_coli hemY protein

Probab=99.53  E-value=1.6e-11  Score=117.82  Aligned_cols=285  Identities=10%  Similarity=0.047  Sum_probs=196.3

Q ss_pred             HHhCCCHHHHHHHHhhcCC--CCc-ccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCcc--chHHHHHHhcccCChHH
Q 046221          195 YSCLMDLDAAIQIFREMEC--KDV-ISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTV--ALLNLISVNAILGDLKR  269 (572)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~--~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~--~~~~ll~~~~~~~~~~~  269 (572)
                      ....|+++.|.+.+.+..+  |+. ..+-.......+.|+++.|.+.+.+..+.  .|+..  ........+...|+++.
T Consensus        94 a~~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~--~p~~~l~~~~~~a~l~l~~~~~~~  171 (409)
T TIGR00540        94 KLAEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAEL--AGNDNILVEIARTRILLAQNELHA  171 (409)
T ss_pred             HHhCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcCchHHHHHHHHHHHHCCCHHH
Confidence            3567999999999988765  333 23444567788889999999999998765  35554  23334677788999999


Q ss_pred             HHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCc---chHHHHH-HH---HHHcCChHHHHHHHHH
Q 046221          270 GKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSL---VSWTAII-SG---YVQNGCAREALNQFIK  342 (572)
Q Consensus       270 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~l~-~~---~~~~~~~~~a~~~~~~  342 (572)
                      |...++.+.+.. +.+..+...+...+...|++++|.+.+..+.+..+   ..+..+- .+   ....+..++..+.+..
T Consensus       172 Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~  250 (409)
T TIGR00540       172 ARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLN  250 (409)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            999999999987 55667888999999999999999999998875432   1221111 11   1111111111112222


Q ss_pred             HHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCHh
Q 046221          343 MRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDVV  421 (572)
Q Consensus       343 ~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~  421 (572)
                      +.                                +...+ ..+.++..+..+...+...|+.++|.+++++. ...|+..
T Consensus       251 ~~--------------------------------~~~p~-~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~  297 (409)
T TIGR00540       251 WW--------------------------------KNQPR-HRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDR  297 (409)
T ss_pred             HH--------------------------------HHCCH-HHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcc
Confidence            21                                11100 01236667777888888888888888888888 4445543


Q ss_pred             H---HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH---HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHH
Q 046221          422 S---WNTIIYGYGVNGHGETALALYHKMTETGEVPDS---STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYG  495 (572)
Q Consensus       422 ~---~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  495 (572)
                      .   ...........++.+.+.+.+++..+.  .|+.   ....++...|.+.|++++|.+.|+.+. .....|+...+.
T Consensus       298 ~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~-a~~~~p~~~~~~  374 (409)
T TIGR00540       298 AISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVA-ACKEQLDANDLA  374 (409)
T ss_pred             cchhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhH-HhhcCCCHHHHH
Confidence            2   122222334457788888888888874  5544   456688888999999999999999532 223468888888


Q ss_pred             HHHHHHHhhCChhHHHHHHHhcc
Q 046221          496 CVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       496 ~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                      .+...+.+.|+.++|.+++++..
T Consensus       375 ~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       375 MAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHH
Confidence            99999999999999999998754

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.

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

Probab=99.50  E-value=1.1e-10  Score=105.56  Aligned_cols=213  Identities=15%  Similarity=0.103  Sum_probs=145.6

Q ss_pred             hcCChhHHHHHHhccCCC---CcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHH
Q 046221          298 KCGDLDSSRSVFNQITEK---SLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQ  374 (572)
Q Consensus       298 ~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  374 (572)
                      -.|+.-.|..-|+.....   +...|-.+...|....+.++.++.|.+..+..+..||  +|..-.....-.++++.|..
T Consensus       338 L~g~~~~a~~d~~~~I~l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~d--vYyHRgQm~flL~q~e~A~a  415 (606)
T KOG0547|consen  338 LKGDSLGAQEDFDAAIKLDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPD--VYYHRGQMRFLLQQYEEAIA  415 (606)
T ss_pred             hcCCchhhhhhHHHHHhcCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCc--hhHhHHHHHHHHHHHHHHHH
Confidence            346666666666665532   2223666666777788888888888877533333333  44444444455567777777


Q ss_pred             HHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 046221          375 LHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEV  452 (572)
Q Consensus       375 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~  452 (572)
                      =|+..+... +-+...|..+.-+..+.++++++...|++.  .++..+..|+.....+..++++++|.+.|+..++  +.
T Consensus       416 DF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~--LE  492 (606)
T KOG0547|consen  416 DFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKKFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE--LE  492 (606)
T ss_pred             HHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh--hc
Confidence            777776644 344556666666777888999999999988  6645577888888889999999999999998887  45


Q ss_pred             CC-------HH--HHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChh-HHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          453 PD-------SS--TYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQE-HYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       453 p~-------~~--~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      |+       ..  ....++..-.+ +++.+|+++++++++   +.|... .|..|...-.++|+.++|+++|++...
T Consensus       493 ~~~~~~~v~~~plV~Ka~l~~qwk-~d~~~a~~Ll~KA~e---~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  493 PREHLIIVNAAPLVHKALLVLQWK-EDINQAENLLRKAIE---LDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             cccccccccchhhhhhhHhhhchh-hhHHHHHHHHHHHHc---cCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            54       11  11222222233 788899999998875   344443 788888888999999999999998653

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

Probab=99.48  E-value=1e-11  Score=116.54  Aligned_cols=279  Identities=14%  Similarity=0.045  Sum_probs=208.1

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCC--CCCcchHHHHHHHHHhcCChhHHHH
Q 046221          230 EYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGL--QSELRLSNSIIAMYSKCGDLDSSRS  307 (572)
Q Consensus       230 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~  307 (572)
                      -+..+|...|...... +.-+......+-++|...+++++++++|+.+.+...  ..+..+|.+.+..+-+.=...---+
T Consensus       333 y~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq  411 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQ  411 (638)
T ss_pred             HHHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHH
Confidence            4467888888884443 333345556677889999999999999999887642  3456677776655443322222222


Q ss_pred             HHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCc
Q 046221          308 VFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRY  387 (572)
Q Consensus       308 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  387 (572)
                      -+-.+....+.+|.++..+|.-.++.+.|++.|++..  .-.+-...+|+.+..-+.....+|.|...|+..+    ..+
T Consensus       412 ~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAi--Qldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al----~~~  485 (638)
T KOG1126|consen  412 DLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAI--QLDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL----GVD  485 (638)
T ss_pred             HHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhh--ccCCccchhhhhcCChhhhhHHHHhHHHHHHhhh----cCC
Confidence            2222334467899999999999999999999999885  2223366788888788888889999999887665    456


Q ss_pred             hhHHHH---HHHHhhhcCChHHHHHHHHHc-CCCCC-HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHH
Q 046221          388 RSVQNC---LISSYSKCGNVDLAYIVFEEM-GFLRD-VVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSI  461 (572)
Q Consensus       388 ~~~~~~---l~~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l  461 (572)
                      +.+||+   +...|.+.++++.|+-.|++. .+.|. .+....+...+-+.|+.++|+.+++++..  +.| |+.+-...
T Consensus       486 ~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~--ld~kn~l~~~~~  563 (638)
T KOG1126|consen  486 PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIH--LDPKNPLCKYHR  563 (638)
T ss_pred             chhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHh--cCCCCchhHHHH
Confidence            666665   566789999999999999998 66664 56667777888899999999999999998  455 55665666


Q ss_pred             HHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          462 LNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       462 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +..+...+++++|+..++++.+ . ++-+...+..++..|.+.|+.+.|+.=|.-+.+
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~-~-vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~  619 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKE-L-VPQESSVFALLGKIYKRLGNTDLALLHFSWALD  619 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHH-h-CcchHHHHHHHHHHHHHHccchHHHHhhHHHhc
Confidence            7778889999999999999953 2 344455788888999999999999988887775

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

Probab=99.47  E-value=2.4e-10  Score=100.97  Aligned_cols=286  Identities=13%  Similarity=0.040  Sum_probs=172.8

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHH
Q 046221          229 FEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSV  308 (572)
Q Consensus       229 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  308 (572)
                      .|++.+|+++..+-.+.+-.| ...|.....+.-..|+.+.+...+.++.+..-.++....-.........|+++.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            577888888877766654322 3345555666677788888888888777664455555666667777778888877776


Q ss_pred             HhccC---CCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCC
Q 046221          309 FNQIT---EKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFP  385 (572)
Q Consensus       309 ~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  385 (572)
                      .+++.   ..++........+|.+.|++.....++..+. +.+.-.++..-                 +           
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~-ka~~l~~~e~~-----------------~-----------  226 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLR-KAGLLSDEEAA-----------------R-----------  226 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHH-HccCCChHHHH-----------------H-----------
Confidence            66554   3455677777888888888888888888887 55544333210                 0           


Q ss_pred             CchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 046221          386 RYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILN  463 (572)
Q Consensus       386 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~  463 (572)
                      ....+|+.+++-....+..+.-...|+..  ..+.++..-.+++.-+.+.|+.++|.++..+..+.+..|+    -...-
T Consensus       227 le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~  302 (400)
T COG3071         227 LEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLI  302 (400)
T ss_pred             HHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHH
Confidence            01112333344333444444444445544  2333444455555666666666666666666666554444    11222


Q ss_pred             HHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHHHHHHHHHhhhcCCHHH
Q 046221          464 ACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWRALLSGCVLHVGRFQD  542 (572)
Q Consensus       464 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~~g~~~~  542 (572)
                      .+.+-++...-++..++.++.++..|  ..+.+|...|.+.+.+.+|.+.|+.... .|+..+|+.+..++-.. |+..+
T Consensus       303 ~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~-g~~~~  379 (400)
T COG3071         303 PRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQL-GEPEE  379 (400)
T ss_pred             hhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHc-CChHH
Confidence            34556666666666666655543333  5566666666666666666666666655 66666666666666555 66666


Q ss_pred             HHHHHHHHH
Q 046221          543 AEALRSGSQ  551 (572)
Q Consensus       543 A~~~~~~m~  551 (572)
                      |.+++++-.
T Consensus       380 A~~~r~e~L  388 (400)
T COG3071         380 AEQVRREAL  388 (400)
T ss_pred             HHHHHHHHH
Confidence            666666654

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

Probab=99.45  E-value=4.3e-10  Score=103.65  Aligned_cols=273  Identities=14%  Similarity=0.043  Sum_probs=192.9

Q ss_pred             HHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC---CCcchHHHHHHHHHHcC
Q 046221          255 LNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE---KSLVSWTAIISGYVQNG  331 (572)
Q Consensus       255 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~  331 (572)
                      ..-..-|...+++.+..++.+.+.+.. ++....+..-|.++.+.|+..+-.-+=.++.+   ....+|-++.--|...|
T Consensus       248 ~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~~a~sW~aVg~YYl~i~  326 (611)
T KOG1173|consen  248 AEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPSKALSWFAVGCYYLMIG  326 (611)
T ss_pred             HHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCCCCcchhhHHHHHHHhc
Confidence            333445566678888888888887765 55555556666677888877766666556654   24578888888888888


Q ss_pred             ChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCC-CchhHHHHHHHHhhhcCChHHHHHH
Q 046221          332 CAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFP-RYRSVQNCLISSYSKCGNVDLAYIV  410 (572)
Q Consensus       332 ~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~  410 (572)
                      +..+|.+.|.+....  .+.=...|..+...++-.+..|+|...+....+.-.. .-+..|  +.--|.+.++++-|.++
T Consensus       327 k~seARry~SKat~l--D~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LY--lgmey~~t~n~kLAe~F  402 (611)
T KOG1173|consen  327 KYSEARRYFSKATTL--DPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLY--LGMEYMRTNNLKLAEKF  402 (611)
T ss_pred             CcHHHHHHHHHHhhc--CccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHH--HHHHHHHhccHHHHHHH
Confidence            899999988877411  1112346777788888888888888887666553111 111222  33457778888999998


Q ss_pred             HHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhc--CCCCC----HHHHHHHHHHHhccCChHHHHHHHHHhH
Q 046221          411 FEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTET--GEVPD----SSTYLSILNACGHAGLTNDGLVIFNQMI  482 (572)
Q Consensus       411 ~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--g~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~  482 (572)
                      |.+. ++.| |+...+-+.......+.+.+|..+|+..+..  .+.+.    ..+++.|..+|.+.+++++|+..+++++
T Consensus       403 f~~A~ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL  482 (611)
T KOG1173|consen  403 FKQALAIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKAL  482 (611)
T ss_pred             HHHHHhcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHH
Confidence            8887 5545 5677777777777778888999888887632  11111    2457788888889999999999999887


Q ss_pred             HhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHHHHHHHHHh
Q 046221          483 EENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWRALLSGCV  534 (572)
Q Consensus       483 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~  534 (572)
                      ...  +-+..++.++.-.|...|+++.|.+.|.+... +|+..+...++..+.
T Consensus       483 ~l~--~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  483 LLS--PKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLAI  533 (611)
T ss_pred             HcC--CCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHHH
Confidence            544  66777888888888889999999999998877 788777776666543

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

Probab=99.44  E-value=5.8e-08  Score=91.28  Aligned_cols=493  Identities=13%  Similarity=0.127  Sum_probs=304.7

Q ss_pred             hhhHHHHHHHHhhCCChHHHHHHHHHHHHc-CCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCC
Q 046221           36 VVSWSIVIHGYSINGFHEKSMKAFSHMMLS-GLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPY  114 (572)
Q Consensus        36 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  114 (572)
                      +..|-..+..+.++|+.-.....|+..+.. .+.--...|...+.-....|-++.+.+++...++..+.           
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~-----------  170 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPE-----------  170 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHH-----------
Confidence            457788888889999999999999886653 34444457888888888888899999999999887652           


Q ss_pred             ceeHHHHHHHHHhCCChHHHHHHHHHHHhCC------CCCCHhhHHHHHHHHhccCChHH---HHHHHHHHHHhcCCCC-
Q 046221          115 LVSCNAIVAGFINNKLFQQAVLLFNFFRGSG------LVPNAVTMLTVIRGCVALGSRAL---CELIHGLTIKLGLILD-  184 (572)
Q Consensus       115 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~------~~p~~~~~~~ll~~~~~~~~~~~---a~~~~~~~~~~~~~~~-  184 (572)
                        .-+.-|..+++.+++++|.+.+.......      .+.+...|..+-...++..+.-.   ...+++.++..  -+| 
T Consensus       171 --~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq  246 (835)
T KOG2047|consen  171 --AREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQ  246 (835)
T ss_pred             --HHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHH
Confidence              46778889999999999999998876431      23344455555454444433222   22333333322  233 


Q ss_pred             -hhHHhHHHHHHHhCCCHHHHHHHHhhcCC--CCcccHHHHHHHHHcc----------------CC------HHHHHHHH
Q 046221          185 -VSVNNSVLDMYSCLMDLDAAIQIFREMEC--KDVISWTRMMGLFVDF----------------EY------AGDALKIF  239 (572)
Q Consensus       185 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~----------------~~------~~~a~~~~  239 (572)
                       ...|++|.+-|.+.|.++.|..+|++...  -.+.-|..+.++|++-                ++      ++-.+.-|
T Consensus       247 ~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~  326 (835)
T KOG2047|consen  247 LGFLWCSLADYYIRSGLFEKARDVYEEAIQTVMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARF  326 (835)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhheehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHH
Confidence             36899999999999999999999988765  2333344444444321                11      12223334


Q ss_pred             HHHHhCC-CC---------C-CccchHHHHHHhcccCChHHHHHHHHHHHHhCCCC------CcchHHHHHHHHHhcCCh
Q 046221          240 REMRKSR-II---------C-DTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQS------ELRLSNSIIAMYSKCGDL  302 (572)
Q Consensus       240 ~~m~~~~-~~---------p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~  302 (572)
                      +.+...+ +-         | +..++..-  .-...|+..+....+.++.+.- .|      -...|..+...|-..|++
T Consensus       327 e~lm~rr~~~lNsVlLRQn~~nV~eW~kR--V~l~e~~~~~~i~tyteAv~~v-dP~ka~Gs~~~Lw~~faklYe~~~~l  403 (835)
T KOG2047|consen  327 ESLMNRRPLLLNSVLLRQNPHNVEEWHKR--VKLYEGNAAEQINTYTEAVKTV-DPKKAVGSPGTLWVEFAKLYENNGDL  403 (835)
T ss_pred             HHHHhccchHHHHHHHhcCCccHHHHHhh--hhhhcCChHHHHHHHHHHHHcc-CcccCCCChhhHHHHHHHHHHhcCcH
Confidence            4333321 00         1 11111111  1223456667777777776542 11      124677888999999999


Q ss_pred             hHHHHHHhccCCCCcc-------hHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCC-----------H------hHHHH
Q 046221          303 DSSRSVFNQITEKSLV-------SWTAIISGYVQNGCAREALNQFIKMRQEKTDSVD-----------S------ITLVS  358 (572)
Q Consensus       303 ~~a~~~~~~~~~~~~~-------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~------~~~~~  358 (572)
                      +.|..+|++..+-+-.       +|..-...-.++.+++.|+++.+... .-+..|.           .      ..|..
T Consensus       404 ~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~-~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~  482 (835)
T KOG2047|consen  404 DDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRAT-HVPTNPELEYYDNSEPVQARLHRSLKIWSM  482 (835)
T ss_pred             HHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhh-cCCCchhhhhhcCCCcHHHHHHHhHHHHHH
Confidence            9999999998874433       34444444556778889998888765 3222211           1      12333


Q ss_pred             HHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc----CCCCC-HhHHHHHHHHHHh-
Q 046221          359 ILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM----GFLRD-VVSWNTIIYGYGV-  432 (572)
Q Consensus       359 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~-~~~~~~l~~~~~~-  432 (572)
                      .+......|-++....+++.+.+..+.....+.| ....+-...-++++.+++++-    .- |+ ...|+..+.-+.+ 
T Consensus       483 y~DleEs~gtfestk~vYdriidLriaTPqii~N-yAmfLEeh~yfeesFk~YErgI~LFk~-p~v~diW~tYLtkfi~r  560 (835)
T KOG2047|consen  483 YADLEESLGTFESTKAVYDRIIDLRIATPQIIIN-YAMFLEEHKYFEESFKAYERGISLFKW-PNVYDIWNTYLTKFIKR  560 (835)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHH-HHHHHHhhHHHHHHHHHHHcCCccCCC-ccHHHHHHHHHHHHHHH
Confidence            3334445567788888888888877543333322 333445566789999999876    22 33 3567766655544 


Q ss_pred             --cCChHHHHHHHHHHHhcCCCCCHHHHHHHH--HHHhccCChHHHHHHHHHhHHhcCCCCCh--hHHHHHHHHHHhhCC
Q 046221          433 --NGHGETALALYHKMTETGEVPDSSTYLSIL--NACGHAGLTNDGLVIFNQMIEENKVKPSQ--EHYGCVVDLLARAGC  506 (572)
Q Consensus       433 --~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~--~~~~~~g~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~  506 (572)
                        ...++.|..+|++.++ |.+|...-+-.|+  ..=-+.|....|..+++++..  ++++..  ..|+.+|.-....=-
T Consensus       561 ygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~--~v~~a~~l~myni~I~kaae~yG  637 (835)
T KOG2047|consen  561 YGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS--AVKEAQRLDMYNIYIKKAAEIYG  637 (835)
T ss_pred             hcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHHhC
Confidence              2468999999999999 6777553222222  223456888899999999843  344443  367777754443333


Q ss_pred             hhHHHHHHHhccC-CCChHHHHHHH--HHHhhhcCCHHHHHHHHHHHHh
Q 046221          507 LSDASGLAGKLLE-GMGPNIWRALL--SGCVLHVGRFQDAEALRSGSQK  552 (572)
Q Consensus       507 ~~~A~~~~~~~~~-~~~~~~~~~l~--~~~~~~~g~~~~A~~~~~~m~~  552 (572)
                      ...-.++++++.+ -|+..+-...+  .-.-...|..+.|..++.--.+
T Consensus       638 v~~TR~iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq  686 (835)
T KOG2047|consen  638 VPRTREIYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQ  686 (835)
T ss_pred             CcccHHHHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhh
Confidence            4455667777666 45544422222  2222235888999888765433

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

Probab=99.42  E-value=9.3e-10  Score=97.35  Aligned_cols=284  Identities=13%  Similarity=0.056  Sum_probs=159.8

Q ss_pred             CCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHH
Q 046221          128 NKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQI  207 (572)
Q Consensus       128 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  207 (572)
                      .|+|..|.++..+-.+.+-.| ...|..-.++.-+.|+.+.+..++.+.-+..-.++...+-+........|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            577777777777766655332 3345555666667777777777777776654355555556666666666766666665


Q ss_pred             HhhcCC---CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCC
Q 046221          208 FREMEC---KDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQS  284 (572)
Q Consensus       208 ~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  284 (572)
                      ..++.+   .++.......++|.+.|++.....++..+.+.|+--|+..                 .++           
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~-----------------~~l-----------  227 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEA-----------------ARL-----------  227 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHH-----------------HHH-----------
Confidence            555443   4556666666677777777777777666666654322210                 000           


Q ss_pred             CcchHHHHHHHHHhcCChhHHHHHHhccCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHH
Q 046221          285 ELRLSNSIIAMYSKCGDLDSSRSVFNQITE---KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILT  361 (572)
Q Consensus       285 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~  361 (572)
                      ...++..+++-....+..+.-...++..+.   .++..-..++.-+.+.|+.++|.++..+..                 
T Consensus       228 e~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~L-----------------  290 (400)
T COG3071         228 EQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDAL-----------------  290 (400)
T ss_pred             HHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHH-----------------
Confidence            011223333333333333333333443331   233444444445555555555555555554                 


Q ss_pred             HhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHH
Q 046221          362 ASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETA  439 (572)
Q Consensus       362 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A  439 (572)
                                         +.+..|+..    ..-.+.+.++.+.-++..++.  ..+.++..+.+|...|.+++.+.+|
T Consensus       291 -------------------k~~~D~~L~----~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~tLG~L~~k~~~w~kA  347 (400)
T COG3071         291 -------------------KRQWDPRLC----RLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLSTLGRLALKNKLWGKA  347 (400)
T ss_pred             -------------------HhccChhHH----HHHhhcCCCCchHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhHHHHH
Confidence                               333333311    111223444444444444433  2222335666777777777777777


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhH
Q 046221          440 LALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMI  482 (572)
Q Consensus       440 ~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  482 (572)
                      ...|+...+  ..|+..+|..+..++.+.|+..+|.+..++.+
T Consensus       348 ~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         348 SEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             HHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            777776666  46777777777777777777777777777765

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.41  E-value=1.6e-08  Score=87.95  Aligned_cols=445  Identities=13%  Similarity=0.059  Sum_probs=273.5

Q ss_pred             HHHHhhcCChhhHHHHhccCCC------CChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCC
Q 046221           12 LSNYFKSGKIKEAENLFDEIPE------KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQ   85 (572)
Q Consensus        12 ~~~~~~~~~~~~A~~~~~~~~~------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g   85 (572)
                      +.-+....++..|+.+++--..      .+...|  +...+.+.|++++|+..|.-+.... .++...+..|..+..-.|
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lW--ia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg  105 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLW--IAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLG  105 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHH--HHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHH
Confidence            3445566789999999885543      122333  3346778999999999999988755 666666777777777788


Q ss_pred             ChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHH-HHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccC
Q 046221           86 NLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIV-AGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALG  164 (572)
Q Consensus        86 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~-~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  164 (572)
                      .+.+|..+....               |+....+.|+ ....+.|+-++-...-+.+...     ...-.++....-..-
T Consensus       106 ~Y~eA~~~~~ka---------------~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~  165 (557)
T KOG3785|consen  106 QYIEAKSIAEKA---------------PKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRM  165 (557)
T ss_pred             HHHHHHHHHhhC---------------CCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHH
Confidence            888888875543               4445555554 4455667776666555555431     122223333333334


Q ss_pred             ChHHHHHHHHHHHHhcCCCChhHHhHH-HHHHHhCCCHHHHHHHHhhcCC--CC-cccHHHHHHHHHccCCHHHHHHHHH
Q 046221          165 SRALCELIHGLTIKLGLILDVSVNNSV-LDMYSCLMDLDAAIQIFREMEC--KD-VISWTRMMGLFVDFEYAGDALKIFR  240 (572)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~--~~-~~~~~~li~~~~~~~~~~~a~~~~~  240 (572)
                      .+.+|.+++...+..+  |+-...|.- .-+|.+..-++-+.+++.--.+  || +.+.|.......+.-.-..|.+-..
T Consensus       166 HYQeAIdvYkrvL~dn--~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~pdStiA~NLkacn~fRl~ngr~ae~E~k  243 (557)
T KOG3785|consen  166 HYQEAIDVYKRVLQDN--PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPDSTIAKNLKACNLFRLINGRTAEDEKK  243 (557)
T ss_pred             HHHHHHHHHHHHHhcC--hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCCcHHHHHHHHHHHhhhhccchhHHHHH
Confidence            5788999998887643  343334433 3356777777777776665443  33 3444444444433322223444444


Q ss_pred             HHHhCCCCCCccchH-HHH-HHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcc
Q 046221          241 EMRKSRIICDTVALL-NLI-SVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLV  318 (572)
Q Consensus       241 ~m~~~~~~p~~~~~~-~ll-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  318 (572)
                      .+.+.+-..  ..+. -++ +.+....+-+.|.+++-.+.+.  .|...  -.|+-.|.+.+++++|..+...+...++.
T Consensus       244 ~ladN~~~~--~~f~~~l~rHNLVvFrngEgALqVLP~L~~~--IPEAR--lNL~iYyL~q~dVqeA~~L~Kdl~PttP~  317 (557)
T KOG3785|consen  244 ELADNIDQE--YPFIEYLCRHNLVVFRNGEGALQVLPSLMKH--IPEAR--LNLIIYYLNQNDVQEAISLCKDLDPTTPY  317 (557)
T ss_pred             HHHhccccc--chhHHHHHHcCeEEEeCCccHHHhchHHHhh--ChHhh--hhheeeecccccHHHHHHHHhhcCCCChH
Confidence            444432111  1111 111 1223345667888887777654  23222  24556788999999999999988765554


Q ss_pred             hHHHHHHHHHHcC-------ChHHHHHHHHHHHhcCCCCCCHh-HHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhH
Q 046221          319 SWTAIISGYVQNG-------CAREALNQFIKMRQEKTDSVDSI-TLVSILTASGELAALEICLQLHGIAFEAGFPRYRSV  390 (572)
Q Consensus       319 ~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  390 (572)
                      -|-.-.-.+...|       ...-|...|+-.- ..+..-|.. .-.++.+++.-...++.+.-++..+...-...|...
T Consensus       318 EyilKgvv~aalGQe~gSreHlKiAqqffqlVG-~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn  396 (557)
T KOG3785|consen  318 EYILKGVVFAALGQETGSREHLKIAQQFFQLVG-ESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFN  396 (557)
T ss_pred             HHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhc-ccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhh
Confidence            4432222233333       2445556665554 444333332 233444455556678888888888777666666666


Q ss_pred             HHHHHHHhhhcCChHHHHHHHHHc-CCC-CCHhHHHH-HHHHHHhcCChHHHHHHHHHHHhcCCCCCHHH-HHHHHHHHh
Q 046221          391 QNCLISSYSKCGNVDLAYIVFEEM-GFL-RDVVSWNT-IIYGYGVNGHGETALALYHKMTETGEVPDSST-YLSILNACG  466 (572)
Q Consensus       391 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~-l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~-~~~l~~~~~  466 (572)
                      +| +.++++..|.+.+|+++|-.+ +.. .+..+|.. |.++|.+.+.++.|+.++-++-.   +.+..+ ...+..-|.
T Consensus       397 ~N-~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t---~~e~fsLLqlIAn~CY  472 (557)
T KOG3785|consen  397 LN-LAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNT---PSERFSLLQLIANDCY  472 (557)
T ss_pred             hH-HHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCC---chhHHHHHHHHHHHHH
Confidence            66 889999999999999999988 221 45566654 56889999999998877655432   334444 444556788


Q ss_pred             ccCChHHHHHHHHHhHHhcCCCCChhHHH
Q 046221          467 HAGLTNDGLVIFNQMIEENKVKPSQEHYG  495 (572)
Q Consensus       467 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  495 (572)
                      +.+.+=-|.+.|+.+ +.  ..|+++.|.
T Consensus       473 k~~eFyyaaKAFd~l-E~--lDP~pEnWe  498 (557)
T KOG3785|consen  473 KANEFYYAAKAFDEL-EI--LDPTPENWE  498 (557)
T ss_pred             HHHHHHHHHHhhhHH-Hc--cCCCccccC
Confidence            999988888888877 44  478887774

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

Probab=99.41  E-value=2.3e-09  Score=98.95  Aligned_cols=477  Identities=12%  Similarity=-0.000  Sum_probs=298.2

Q ss_pred             hhhHHHHHhhcCChhhHHHHhccCCC--CChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCC
Q 046221            8 SSKLLSNYFKSGKIKEAENLFDEIPE--KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQ   85 (572)
Q Consensus         8 ~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g   85 (572)
                      |..+++-+..+.++.-|.-+-+++-.  .|+..---+.+++.-.|++.+|..+...-.-.  ..|..+......++.+..
T Consensus        19 ~~~~~r~~l~q~~y~~a~f~adkV~~l~~dp~d~~~~aq~l~~~~~y~ra~~lit~~~le--~~d~~cryL~~~~l~~lk   96 (611)
T KOG1173|consen   19 YRRLVRDALMQHRYKTALFWADKVAGLTNDPADIYWLAQVLYLGRQYERAAHLITTYKLE--KRDIACRYLAAKCLVKLK   96 (611)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHhccCChHHHHHHHHHHHhhhHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHH
Confidence            44455555556666666666665532  45555555667777778888887776653221  445556666667777888


Q ss_pred             ChHHHHHHHHHHHHhc--CCCCccc--CCCCCCc-----------eeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCH
Q 046221           86 NLELARSIHGLMVKFG--LESDLFE--GLKNPYL-----------VSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNA  150 (572)
Q Consensus        86 ~~~~a~~~~~~~~~~~--~~~~~~~--~~~~~~~-----------~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  150 (572)
                      ++++|..++.......  +..+.-.  ..-.+|.           ..+-.-...|....+.++|...|.+....    |.
T Consensus        97 ~~~~al~vl~~~~~~~~~f~yy~~~~~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~~----D~  172 (611)
T KOG1173|consen   97 EWDQALLVLGRGHVETNPFSYYEKDAANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEALLA----DA  172 (611)
T ss_pred             HHHHHHHHhcccchhhcchhhcchhhhceeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHHhc----ch
Confidence            8888888877321110  0000000  0000111           11111123344445566666666655433    33


Q ss_pred             hhHHH---HHHHHhccCChHHHHHHHHHHHHh-cCCCChhHHhHHHHHH-HhCCCHHHHHHHH--hhcC--CCCcccHHH
Q 046221          151 VTMLT---VIRGCVALGSRALCELIHGLTIKL-GLILDVSVNNSVLDMY-SCLMDLDAAIQIF--REME--CKDVISWTR  221 (572)
Q Consensus       151 ~~~~~---ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~-~~~~~~~~a~~~~--~~~~--~~~~~~~~~  221 (572)
                      .-|..   ++.+..-..  .+-..++...--. -...+......+.... ++..+ +.....-  +.+.  +.++.....
T Consensus       173 ~c~Ea~~~lvs~~mlt~--~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n-~~~~~r~~~~sl~~l~~~~dll~~  249 (611)
T KOG1173|consen  173 KCFEAFEKLVSAHMLTA--QEEFELLESLDLAMLTKEDVERLEILYELKLCKNRN-EESLTRNEDESLIGLAENLDLLAE  249 (611)
T ss_pred             hhHHHHHHHHHHHhcch--hHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhcc-ccccccCchhhhhhhhhcHHHHHH
Confidence            33322   222211110  0111111100000 0001111111111111 00000 0000000  0000  134445555


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCC
Q 046221          222 MMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGD  301 (572)
Q Consensus       222 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  301 (572)
                      ..+-+...+++.+..++.....+. .++....+..-|.++...|+..+-..+=..+++.- +..+.+|-++.--|.-.|+
T Consensus       250 ~ad~~y~~c~f~~c~kit~~lle~-dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~k  327 (611)
T KOG1173|consen  250 KADRLYYGCRFKECLKITEELLEK-DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIGK  327 (611)
T ss_pred             HHHHHHHcChHHHHHHHhHHHHhh-CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHhcC
Confidence            666777889999999999999876 45666777777778888888877777767776654 6677888888888888999


Q ss_pred             hhHHHHHHhccCCCCc---chHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHH
Q 046221          302 LDSSRSVFNQITEKSL---VSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGI  378 (572)
Q Consensus       302 ~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  378 (572)
                      .++|.+.|.+...-|.   ..|-...+.|+-.|..++|+..+...-  +-.+-....+.-+..-|.+.++.+.|.++|..
T Consensus       328 ~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAa--rl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~  405 (611)
T KOG1173|consen  328 YSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAA--RLMPGCHLPSLYLGMEYMRTNNLKLAEKFFKQ  405 (611)
T ss_pred             cHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHH--HhccCCcchHHHHHHHHHHhccHHHHHHHHHH
Confidence            9999999998765433   589999999999999999999988774  22222333344455678889999999999988


Q ss_pred             HHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-----CC---CC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 046221          379 AFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-----GF---LR-DVVSWNTIIYGYGVNGHGETALALYHKMTET  449 (572)
Q Consensus       379 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-----~~---~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  449 (572)
                      ..... |.|+.+.+-+.-.....+.+.+|..+|+..     ..   .+ -..+++.|..+|.+.+.+++|+..+++.+..
T Consensus       406 A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l  484 (611)
T KOG1173|consen  406 ALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLL  484 (611)
T ss_pred             HHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHc
Confidence            87654 667888888888888899999999999877     11   11 2445788889999999999999999999984


Q ss_pred             CCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHH
Q 046221          450 GEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLA  502 (572)
Q Consensus       450 g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  502 (572)
                       .+-+..++.++.-.|...|+++.|+..|.+.+   .+.|+..+...++..+.
T Consensus       485 -~~k~~~~~asig~iy~llgnld~Aid~fhKaL---~l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  485 -SPKDASTHASIGYIYHLLGNLDKAIDHFHKAL---ALKPDNIFISELLKLAI  533 (611)
T ss_pred             -CCCchhHHHHHHHHHHHhcChHHHHHHHHHHH---hcCCccHHHHHHHHHHH
Confidence             23477999999999999999999999999876   46788877666665443

>PF13041 PPR_2: PPR repeat family

Probab=99.36  E-value=1.7e-12  Score=82.28  Aligned_cols=50  Identities=26%  Similarity=0.539  Sum_probs=43.9

Q ss_pred             CCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhc
Q 046221          113 PYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVA  162 (572)
Q Consensus       113 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  162 (572)
                      ||+.+||++|.+|++.|++++|+++|++|.+.|+.||..||+.+|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            67888999999999999999999999999999999999999998888864

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

Probab=99.35  E-value=2.5e-08  Score=92.83  Aligned_cols=211  Identities=13%  Similarity=0.044  Sum_probs=132.0

Q ss_pred             HHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCH
Q 046221          122 VAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDL  201 (572)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (572)
                      +.-+..+|++++|.+...++...+ +-+...+..-+-+..+.+.+++|..+.+.-..  ...+...+---..+..+.+..
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~--~~~~~~~~fEKAYc~Yrlnk~   95 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGA--LLVINSFFFEKAYCEYRLNKL   95 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch--hhhcchhhHHHHHHHHHcccH
Confidence            455677899999999999999865 44556677777888899999999855443111  011111111113344578999


Q ss_pred             HHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC-CccchHHHHHHhcccCChHHHHHHHHHHHHh
Q 046221          202 DAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIIC-DTVALLNLISVNAILGDLKRGKQLHAQVVLG  280 (572)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  280 (572)
                      |+|...++.....+..+...-.+.+.+.+++++|+++|+.+.+++..- +...-..++.+-..       ... ..+...
T Consensus        96 Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~-------l~~-~~~q~v  167 (652)
T KOG2376|consen   96 DEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAA-------LQV-QLLQSV  167 (652)
T ss_pred             HHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHh-------hhH-HHHHhc
Confidence            999999996665666677777788999999999999999998775322 11111122211110       000 112222


Q ss_pred             CCCCCcchHHHH---HHHHHhcCChhHHHHHHhccC--------CCCc----------chHHHHHHHHHHcCChHHHHHH
Q 046221          281 GLQSELRLSNSI---IAMYSKCGDLDSSRSVFNQIT--------EKSL----------VSWTAIISGYVQNGCAREALNQ  339 (572)
Q Consensus       281 ~~~~~~~~~~~l---~~~~~~~~~~~~a~~~~~~~~--------~~~~----------~~~~~l~~~~~~~~~~~~a~~~  339 (572)
                      ...| ..+|..+   .-.+...|++.+|+++++...        +.|.          ..--.+.-.+...|+..+|..+
T Consensus       168 ~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~i  246 (652)
T KOG2376|consen  168 PEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSI  246 (652)
T ss_pred             cCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHH
Confidence            2222 3334333   334667899999999988772        1111          1223345566788999999999


Q ss_pred             HHHHH
Q 046221          340 FIKMR  344 (572)
Q Consensus       340 ~~~~~  344 (572)
                      +....
T Consensus       247 y~~~i  251 (652)
T KOG2376|consen  247 YVDII  251 (652)
T ss_pred             HHHHH
Confidence            98885

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.34  E-value=6.7e-10  Score=98.99  Aligned_cols=162  Identities=14%  Similarity=0.030  Sum_probs=98.9

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHHc-C-CCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHH
Q 046221          388 RSVQNCLISSYSKCGNVDLAYIVFEEM-G-FLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNA  464 (572)
Q Consensus       388 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~  464 (572)
                      ...+..+...+...|++++|.+.+++. . .+.+...+..+...+...|++++|...+++..+....| ....+..+..+
T Consensus        65 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  144 (234)
T TIGR02521        65 YLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLC  144 (234)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHH
Confidence            344455566666666777776666665 2 22334556666666777777777777777776532222 23455556666


Q ss_pred             HhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCChHHHHHHHHHHhhhcCCHHH
Q 046221          465 CGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMGPNIWRALLSGCVLHVGRFQD  542 (572)
Q Consensus       465 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~~g~~~~  542 (572)
                      +...|++++|...++++++..  +.+...+..+...+...|++++|.+.+++...  +.++..+..+...+... |+.++
T Consensus       145 ~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~  221 (234)
T TIGR02521       145 ALKAGDFDKAEKYLTRALQID--PQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARAL-GDVAA  221 (234)
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH-hhHHH
Confidence            777777777777777776433  23345666677777777777777777777655  33334444444444444 77777


Q ss_pred             HHHHHHHHHh
Q 046221          543 AEALRSGSQK  552 (572)
Q Consensus       543 A~~~~~~m~~  552 (572)
                      |..+.+.+.+
T Consensus       222 a~~~~~~~~~  231 (234)
T TIGR02521       222 AQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHh
Confidence            7777666654

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=3.3e-09  Score=91.09  Aligned_cols=211  Identities=15%  Similarity=0.128  Sum_probs=138.0

Q ss_pred             CCCHHHHHHHHhhcCCCCcccH---HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCcc------chHHHHHHhcccCChH
Q 046221          198 LMDLDAAIQIFREMECKDVISW---TRMMGLFVDFEYAGDALKIFREMRKSRIICDTV------ALLNLISVNAILGDLK  268 (572)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~~~~---~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~------~~~~ll~~~~~~~~~~  268 (572)
                      +.+.++|.+.|-+|.+.|..++   -+|...|.+.|..+.|+++-+.+.++   ||..      ..-.|..-|...|-++
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~D  124 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLLD  124 (389)
T ss_pred             hcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhhh
Confidence            4689999999999998666555   46788999999999999999999875   4432      2234556677889999


Q ss_pred             HHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcchHH--------HHHHHHHHcCChHHHHHHH
Q 046221          269 RGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWT--------AIISGYVQNGCAREALNQF  340 (572)
Q Consensus       269 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------~l~~~~~~~~~~~~a~~~~  340 (572)
                      .|+.+|..+.+.+ .--......|+..|-...+|++|+++-+++.+-+...++        -+...+....+.+.|..++
T Consensus       125 RAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l  203 (389)
T COG2956         125 RAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELL  203 (389)
T ss_pred             HHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            9999999998755 334456678899999999999999998887765444443        3444444566777778777


Q ss_pred             HHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc
Q 046221          341 IKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM  414 (572)
Q Consensus       341 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  414 (572)
                      .+..+..  +.....-..+.......|+++.|.+.++.+.+.+..--..+...|..+|...|+.++...++.++
T Consensus       204 ~kAlqa~--~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~  275 (389)
T COG2956         204 KKALQAD--KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRA  275 (389)
T ss_pred             HHHHhhC--ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            7775221  11122222233344444555555555555554443333344444444455555554444444444

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

Probab=99.33  E-value=9.1e-08  Score=90.19  Aligned_cols=459  Identities=14%  Similarity=0.084  Sum_probs=258.8

Q ss_pred             hhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCc
Q 046221           36 VVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYL  115 (572)
Q Consensus        36 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  115 (572)
                      ...|..++..| ..+++...++..+.+++ +.+--..|.....-.+...|+.++|........+..+          .+.
T Consensus         8 ~~lF~~~lk~y-E~kQYkkgLK~~~~iL~-k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~----------~S~   75 (700)
T KOG1156|consen    8 NALFRRALKCY-ETKQYKKGLKLIKQILK-KFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDL----------KSH   75 (700)
T ss_pred             HHHHHHHHHHH-HHHHHHhHHHHHHHHHH-hCCccchhHHhccchhhcccchHHHHHHHHHHhccCc----------ccc
Confidence            34455555554 45678888888888777 3344445655555556678888999888776666544          566


Q ss_pred             eeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHH
Q 046221          116 VSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMY  195 (572)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  195 (572)
                      ++|+.+.-.+....++++|++.|......+ +-|...+.-+.-.-++.|+++.......+..+.. +.            
T Consensus        76 vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~------------  141 (700)
T KOG1156|consen   76 VCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PS------------  141 (700)
T ss_pred             hhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hh------------
Confidence            789888888888899999999998887753 2234444444333445555555444444443321 11            


Q ss_pred             HhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCC-CCCCccchHHHHH------HhcccCChH
Q 046221          196 SCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSR-IICDTVALLNLIS------VNAILGDLK  268 (572)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~------~~~~~~~~~  268 (572)
                                         .-..|..+..++.-.|++..|..++++..+.. -.|+...|.....      .....|..+
T Consensus       142 -------------------~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q  202 (700)
T KOG1156|consen  142 -------------------QRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQ  202 (700)
T ss_pred             -------------------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHH
Confidence                               12334444455555555555555555554443 1344333332211      223345555


Q ss_pred             HHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCc--chHHH-HHHHHHHcCChHHHH-HHHHHHH
Q 046221          269 RGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSL--VSWTA-IISGYVQNGCAREAL-NQFIKMR  344 (572)
Q Consensus       269 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~-l~~~~~~~~~~~~a~-~~~~~~~  344 (572)
                      .|.+.+......- ......-..-...+.+.+++++|..++..+..+++  ..|.. +..++.+-.+.-+++ .+|....
T Consensus       203 ~ale~L~~~e~~i-~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls  281 (700)
T KOG1156|consen  203 KALEHLLDNEKQI-VDKLAFEETKADLLMKLGQLEEAVKVYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILS  281 (700)
T ss_pred             HHHHHHHhhhhHH-HHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHh
Confidence            5554444332211 11111122334566777888888888887775433  33333 333443333333444 5555543


Q ss_pred             hcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHH----HHHHHHc-C----
Q 046221          345 QEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLA----YIVFEEM-G----  415 (572)
Q Consensus       345 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A----~~~~~~~-~----  415 (572)
                        ...+........-+.......-.+..-.++....+.|+++-.....   ..|-.....+-.    ..+...+ +    
T Consensus       282 --~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~---SLyk~p~k~~~le~Lvt~y~~~L~~~~~f  356 (700)
T KOG1156|consen  282 --EKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLR---SLYKDPEKVAFLEKLVTSYQHSLSGTGMF  356 (700)
T ss_pred             --hcCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhH---HHHhchhHhHHHHHHHHHHHhhcccccCC
Confidence              1111111111111222222333344445566666777655433322   222222211111    1111111 1    


Q ss_pred             --------CCCCHhHHHH--HHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHhHHh
Q 046221          416 --------FLRDVVSWNT--IIYGYGVNGHGETALALYHKMTETGEVPDS-STYLSILNACGHAGLTNDGLVIFNQMIEE  484 (572)
Q Consensus       416 --------~~~~~~~~~~--l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  484 (572)
                              .+|....|+.  ++..|-+.|+++.|..+++....+  .|+. .-|..=.+.+...|++++|..+++++.+-
T Consensus       357 ~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~el  434 (700)
T KOG1156|consen  357 NFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQEL  434 (700)
T ss_pred             CcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Confidence                    2466666654  567788999999999999999884  7776 66666678889999999999999988643


Q ss_pred             cCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccCCC-ChH--------HHHHH--HHHHhhhcCCHHHHHHHHHHH
Q 046221          485 NKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGM-GPN--------IWRAL--LSGCVLHVGRFQDAEALRSGS  550 (572)
Q Consensus       485 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~--------~~~~l--~~~~~~~~g~~~~A~~~~~~m  550 (572)
                      .  .||..+-..-+.-..+.++.++|.++........ +..        .|..+  ..++.+. |++..|++-|...
T Consensus       435 D--~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~-~k~g~ALKkfh~i  508 (700)
T KOG1156|consen  435 D--TADRAINSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQ-NKLGLALKKFHEI  508 (700)
T ss_pred             c--chhHHHHHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHH-HHHHHHHHHHhhH
Confidence            3  5777666678888889999999999988877622 111        24433  2334445 7777776655543

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

Probab=99.32  E-value=8e-08  Score=89.54  Aligned_cols=148  Identities=13%  Similarity=0.010  Sum_probs=86.0

Q ss_pred             HHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHH--------Hc-CCCCCHhHHHHHHHHHHhcCChHHH
Q 046221          369 LEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFE--------EM-GFLRDVVSWNTIIYGYGVNGHGETA  439 (572)
Q Consensus       369 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~--------~~-~~~~~~~~~~~l~~~~~~~~~~~~A  439 (572)
                      ...+.+++....+....-...+.-.+++.....|+++.|.+++.        .+ .+...+.+...+...+.+.++.+.|
T Consensus       357 ~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~a  436 (652)
T KOG2376|consen  357 HKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPGTVGAIVALYYKIKDNDSA  436 (652)
T ss_pred             HhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChhHHHHHHHHHHhccCCccH
Confidence            44555555444443222223444555666677788888887777        33 2222333445555666666666666


Q ss_pred             HHHHHHHHhc--CCCCCHH----HHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHH
Q 046221          440 LALYHKMTET--GEVPDSS----TYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGL  513 (572)
Q Consensus       440 ~~~~~~~~~~--g~~p~~~----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  513 (572)
                      ..++.+....  .-.+...    ++.-+..--.+.|+.++|..+++++++.+  ++|..+...++.+|++ =+.+.|..+
T Consensus       437 ~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n--~~d~~~l~~lV~a~~~-~d~eka~~l  513 (652)
T KOG2376|consen  437 SAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFN--PNDTDLLVQLVTAYAR-LDPEKAESL  513 (652)
T ss_pred             HHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC--CchHHHHHHHHHHHHh-cCHHHHHHH
Confidence            6666655431  0112222    23333333456688888888888887544  6777788888887765 457777777


Q ss_pred             HHhccC
Q 046221          514 AGKLLE  519 (572)
Q Consensus       514 ~~~~~~  519 (572)
                      -.++..
T Consensus       514 ~k~L~p  519 (652)
T KOG2376|consen  514 SKKLPP  519 (652)
T ss_pred             hhcCCC
Confidence            776643

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

Probab=99.32  E-value=1.3e-07  Score=89.24  Aligned_cols=458  Identities=12%  Similarity=0.019  Sum_probs=261.0

Q ss_pred             CChhhHHHHhccCCCCC---hhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHH
Q 046221           19 GKIKEAENLFDEIPEKN---VVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHG   95 (572)
Q Consensus        19 ~~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~   95 (572)
                      +.+..-+++.+.+.+..   ..+.....-.+...|+.++|.+....-.+.+ .-+.+.|+.+.-..-...++++|.+.+.
T Consensus        21 kQYkkgLK~~~~iL~k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~dK~Y~eaiKcy~   99 (700)
T KOG1156|consen   21 KQYKKGLKLIKQILKKFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDKKYDEAIKCYR   99 (700)
T ss_pred             HHHHhHHHHHHHHHHhCCccchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhhhHHHHHHHHH
Confidence            45555555555544322   2333333334667799999999998877654 4456678877777778899999999999


Q ss_pred             HHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCChHHHHHHHH
Q 046221           96 LMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVP-NAVTMLTVIRGCVALGSRALCELIHG  174 (572)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~  174 (572)
                      .+...+.          .|...|..+.-.-++.|+++...+.-..+.+.  .| ....|..+..+.--.|+...|..+++
T Consensus       100 nAl~~~~----------dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql--~~~~ra~w~~~Avs~~L~g~y~~A~~il~  167 (700)
T KOG1156|consen  100 NALKIEK----------DNLQILRDLSLLQIQMRDYEGYLETRNQLLQL--RPSQRASWIGFAVAQHLLGEYKMALEILE  167 (700)
T ss_pred             HHHhcCC----------CcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh--hhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999886          56678888887888889999999998888875  34 45567888888888999999999999


Q ss_pred             HHHHhc-CCCChhHHhHHH------HHHHhCCCHHHHHHHHhhcCCC--Cccc-HHHHHHHHHccCCHHHHHHHHHHHHh
Q 046221          175 LTIKLG-LILDVSVNNSVL------DMYSCLMDLDAAIQIFREMECK--DVIS-WTRMMGLFVDFEYAGDALKIFREMRK  244 (572)
Q Consensus       175 ~~~~~~-~~~~~~~~~~l~------~~~~~~~~~~~a~~~~~~~~~~--~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~  244 (572)
                      ...+.. -.|+...+....      ....+.|..+.|.+.+......  |... -..-...+.+.+++++|..++..+..
T Consensus       168 ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~  247 (700)
T KOG1156|consen  168 EFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRRLLE  247 (700)
T ss_pred             HHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHh
Confidence            998865 356665554332      2345677788888777766542  2222 23445667788888888888888887


Q ss_pred             CCCCCCccchHHHHHHhc--ccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCCh-hHHHHHHhccCCCCc-chH
Q 046221          245 SRIICDTVALLNLISVNA--ILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDL-DSSRSVFNQITEKSL-VSW  320 (572)
Q Consensus       245 ~~~~p~~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~-~~~  320 (572)
                      .  .||..-|...+..+.  -.+..+....+|....+.-......... =++ .....++ +....++..+.+.++ ..+
T Consensus       248 r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rl-pls-vl~~eel~~~vdkyL~~~l~Kg~p~vf  323 (700)
T KOG1156|consen  248 R--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRL-PLS-VLNGEELKEIVDKYLRPLLSKGVPSVF  323 (700)
T ss_pred             h--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhc-cHH-HhCcchhHHHHHHHHHHHhhcCCCchh
Confidence            5  466666655444332  2222333334444443321110000000 000 0000111 112222222222222 233


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHH--HHHHHh
Q 046221          321 TAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQN--CLISSY  398 (572)
Q Consensus       321 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~  398 (572)
                      ..+...|-.....+-..++...+.             ..+.....-.-.+.         ...-+|+...|.  .++..+
T Consensus       324 ~dl~SLyk~p~k~~~le~Lvt~y~-------------~~L~~~~~f~~~D~---------~~~E~PttllWt~y~laqh~  381 (700)
T KOG1156|consen  324 KDLRSLYKDPEKVAFLEKLVTSYQ-------------HSLSGTGMFNFLDD---------GKQEPPTTLLWTLYFLAQHY  381 (700)
T ss_pred             hhhHHHHhchhHhHHHHHHHHHHH-------------hhcccccCCCcccc---------cccCCchHHHHHHHHHHHHH
Confidence            333333322111111111111111             00000000000000         000144444443  456667


Q ss_pred             hhcCChHHHHHHHHHc-CCCCCH-hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHH
Q 046221          399 SKCGNVDLAYIVFEEM-GFLRDV-VSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLV  476 (572)
Q Consensus       399 ~~~g~~~~A~~~~~~~-~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~  476 (572)
                      -+.|+++.|..+++.. +..|+. ..|-.-.+.+...|+++.|..++++..+.. .||...=.--..-..++++.++|.+
T Consensus       382 D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn~i~eA~~  460 (700)
T KOG1156|consen  382 DKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRANEIEEAEE  460 (700)
T ss_pred             HHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHccccHHHHH
Confidence            7888888888888877 666763 345555667778888888888888888753 3444333344555567788888888


Q ss_pred             HHHHhHHhcCC--CCChh----HHHHH--HHHHHhhCChhHHHHHHHhc
Q 046221          477 IFNQMIEENKV--KPSQE----HYGCV--VDLLARAGCLSDASGLAGKL  517 (572)
Q Consensus       477 ~~~~~~~~~~~--~~~~~----~~~~l--~~~~~~~g~~~~A~~~~~~~  517 (572)
                      +..... +.|.  --+..    +|-.+  ..+|.++|++..|+.-|..+
T Consensus       461 ~~skFT-r~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i  508 (700)
T KOG1156|consen  461 VLSKFT-REGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEI  508 (700)
T ss_pred             HHHHhh-hcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhH
Confidence            877774 3332  11110    12222  35677777777776655543

>PF13041 PPR_2: PPR repeat family

Probab=99.32  E-value=5.9e-12  Score=79.83  Aligned_cols=50  Identities=42%  Similarity=0.620  Sum_probs=44.0

Q ss_pred             CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc
Q 046221          418 RDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGH  467 (572)
Q Consensus       418 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~  467 (572)
                      ||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            78888999999999999999999999999988899999999998888874

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

Probab=99.32  E-value=5.3e-08  Score=86.60  Aligned_cols=286  Identities=13%  Similarity=0.055  Sum_probs=175.5

Q ss_pred             ccCCHHHHHHHHHHHHhCC-CCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHH
Q 046221          228 DFEYAGDALKIFREMRKSR-IICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSR  306 (572)
Q Consensus       228 ~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  306 (572)
                      ..++...+...+-.+.... ++-|......+.+++...|+.+.+...|+.....+ +.+........-.+.+.|+.++..
T Consensus       208 ~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~d-py~i~~MD~Ya~LL~~eg~~e~~~  286 (564)
T KOG1174|consen  208 FNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCAN-PDNVEAMDLYAVLLGQEGGCEQDS  286 (564)
T ss_pred             HhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCC-hhhhhhHHHHHHHHHhccCHhhHH
Confidence            3444444444444443333 33344455566666666677777766666655433 111111122223344556666555


Q ss_pred             HHHhccCCC---CcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhc
Q 046221          307 SVFNQITEK---SLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAG  383 (572)
Q Consensus       307 ~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  383 (572)
                      .+...+-..   ....|..-.......+++..|+.+-++..+  ..+-+...+..-...+...++.+.|.--|+......
T Consensus       287 ~L~~~Lf~~~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~--~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La  364 (564)
T KOG1174|consen  287 ALMDYLFAKVKYTASHWFVHAQLLYDEKKFERALNFVEKCID--SEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLA  364 (564)
T ss_pred             HHHHHHHhhhhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhc--cCcccchHHHhccHHHHhccchHHHHHHHHHHHhcc
Confidence            554444322   223344444444556667777776666541  112222333333345566677777776676665443


Q ss_pred             CCCchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHH-HHHH-hcCChHHHHHHHHHHHhcCCCCCH-HHH
Q 046221          384 FPRYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTII-YGYG-VNGHGETALALYHKMTETGEVPDS-STY  458 (572)
Q Consensus       384 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~-~~~~-~~~~~~~A~~~~~~~~~~g~~p~~-~~~  458 (572)
                       |-+...|.-|+.+|...|++.+|.-.-+..  ..+.+..+.+.+. ..+. ...--++|.+++++.+.  +.|+. ...
T Consensus       365 -p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~--~~P~Y~~AV  441 (564)
T KOG1174|consen  365 -PYRLEIYRGLFHSYLAQKRFKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK--INPIYTPAV  441 (564)
T ss_pred             -hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc--cCCccHHHH
Confidence             456778888899999999988887766554  3333444544442 2222 22334788889988887  67876 667


Q ss_pred             HHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCC
Q 046221          459 LSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMG  522 (572)
Q Consensus       459 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~  522 (572)
                      +.+...|...|..++++.++++.+.   ..||....+.|.+.+...+.+++|++.|..+.. +|.
T Consensus       442 ~~~AEL~~~Eg~~~D~i~LLe~~L~---~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~  503 (564)
T KOG1174|consen  442 NLIAELCQVEGPTKDIIKLLEKHLI---IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPK  503 (564)
T ss_pred             HHHHHHHHhhCccchHHHHHHHHHh---hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCcc
Confidence            7788889999999999999998874   358999999999999999999999999998876 443

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

Probab=99.32  E-value=4.8e-08  Score=93.87  Aligned_cols=481  Identities=15%  Similarity=0.086  Sum_probs=268.6

Q ss_pred             hhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHc---CCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHH
Q 046221           47 SINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAA---GLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVA  123 (572)
Q Consensus        47 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~---~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  123 (572)
                      ...++..+++.-+.....++.+.+..++..+...+.   ..++.+++  ++-..+....                     
T Consensus       238 ~~~~~~~~~i~s~~~~l~~~w~~~~l~ka~l~~~~~~f~~~~~~Ee~--~Lllli~es~---------------------  294 (799)
T KOG4162|consen  238 KKLSGPKEAIKSYRRALLRSWSLDPLTKARLYKGFALFLPKSGQEEV--ILLLLIEESL---------------------  294 (799)
T ss_pred             cCCCCchHHHHhhhHHhhcccccchhHHHHHhhcccccCCCCcHHHH--HHHHHHHhhc---------------------
Confidence            345566777777777777666777777666654443   45555555  2222222211                     


Q ss_pred             HHHhCCChHHHH----HHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCC
Q 046221          124 GFINNKLFQQAV----LLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLM  199 (572)
Q Consensus       124 ~~~~~~~~~~a~----~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  199 (572)
                        +-..+.+++.    -.+.+++...+.-|...|..+.-+....|+++.+-+.|++....- -.....|..+...|...|
T Consensus       295 --i~Re~~~d~ilslm~~~~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag  371 (799)
T KOG4162|consen  295 --IPRENIEDAILSLMLLLRKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAG  371 (799)
T ss_pred             --cccccHHHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhc
Confidence              1112222221    122333333445566667777777777777777777777665432 333455666666677777


Q ss_pred             CHHHHHHHHhhcCC----C-CcccHHHHHHHHHc-cCCHHHHHHHHHHHHhC--CC--CCCccchHHHHHHhccc---C-
Q 046221          200 DLDAAIQIFREMEC----K-DVISWTRMMGLFVD-FEYAGDALKIFREMRKS--RI--ICDTVALLNLISVNAIL---G-  265 (572)
Q Consensus       200 ~~~~a~~~~~~~~~----~-~~~~~~~li~~~~~-~~~~~~a~~~~~~m~~~--~~--~p~~~~~~~ll~~~~~~---~-  265 (572)
                      .-..|..+++.-..    | |+..+-..-+.|.. -+..++++++..+....  +.  ...+..|..+--+|...   . 
T Consensus       372 ~~s~Av~ll~~~~~~~~~ps~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~  451 (799)
T KOG4162|consen  372 SDSKAVNLLRESLKKSEQPSDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQAN  451 (799)
T ss_pred             cchHHHHHHHhhcccccCCCcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCC
Confidence            77777777765543    2 22223323333333 35566666655555441  11  11222233222222111   0 


Q ss_pred             -------ChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC----CCcchHHHHHHHHHHcCChH
Q 046221          266 -------DLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE----KSLVSWTAIISGYVQNGCAR  334 (572)
Q Consensus       266 -------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~  334 (572)
                             ...++.+.+++..+.+. .|+.+.-.+.--|+..++++.|.....+..+    .+...|..+.-.+...+++.
T Consensus       452 ~~seR~~~h~kslqale~av~~d~-~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~  530 (799)
T KOG4162|consen  452 LKSERDALHKKSLQALEEAVQFDP-TDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLK  530 (799)
T ss_pred             ChHHHHHHHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhH
Confidence                   12346666777666552 2333333344456667777777776665543    34567777777777777777


Q ss_pred             HHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHH---------------------hcC-------CC
Q 046221          335 EALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFE---------------------AGF-------PR  386 (572)
Q Consensus       335 ~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---------------------~~~-------~~  386 (572)
                      +|+.+.+....+.|..  ......-+..-...++.+++......+..                     .|+       ..
T Consensus       531 ~Al~vvd~al~E~~~N--~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~  608 (799)
T KOG4162|consen  531 EALDVVDAALEEFGDN--HVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTD  608 (799)
T ss_pred             HHHHHHHHHHHHhhhh--hhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccc
Confidence            7777777665443331  11111111111113333333332221111                     010       11


Q ss_pred             chhHHHHHHHHhhhc---CChHHHHHHHHHcCCC--CC------HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-C
Q 046221          387 YRSVQNCLISSYSKC---GNVDLAYIVFEEMGFL--RD------VVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-D  454 (572)
Q Consensus       387 ~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~--~~------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~  454 (572)
                      ...++..+.......   -..+..   +......  |+      ...|......+.+.++.++|...+.+...  +.| .
T Consensus       609 a~s~sr~ls~l~a~~~~~~~se~~---Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~  683 (799)
T KOG4162|consen  609 AISTSRYLSSLVASQLKSAGSELK---LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLS  683 (799)
T ss_pred             cchhhHHHHHHHHhhhhhcccccc---cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhh
Confidence            122222222211111   111111   1111111  22      23455666778889999999988888887  455 4


Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhhCChhHHHH--HHHhccC--CCChHHHHHH
Q 046221          455 SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS-QEHYGCVVDLLARAGCLSDASG--LAGKLLE--GMGPNIWRAL  529 (572)
Q Consensus       455 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~--~~~~~~~--~~~~~~~~~l  529 (572)
                      ...|......+...|++.+|.+.|..++.   +.|+ +....++..++.+.|+..-|..  ++..+.+  +.++..|..+
T Consensus       684 ~~~~~~~G~~~~~~~~~~EA~~af~~Al~---ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~L  760 (799)
T KOG4162|consen  684 ASVYYLRGLLLEVKGQLEEAKEAFLVALA---LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYL  760 (799)
T ss_pred             HHHHHHhhHHHHHHHhhHHHHHHHHHHHh---cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHH
Confidence            47787888888999999999999998874   3454 4588899999999999888888  9998887  6678889999


Q ss_pred             HHHHhhhcCCHHHHHHHHHHHHhCCCCCCCceeEEEc
Q 046221          530 LSGCVLHVGRFQDAEALRSGSQKKGIIKIPGISFLNS  566 (572)
Q Consensus       530 ~~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~  566 (572)
                      ....... |+.+.|.+.|+...+-.. ..|--.|+.+
T Consensus       761 G~v~k~~-Gd~~~Aaecf~aa~qLe~-S~PV~pFs~i  795 (799)
T KOG4162|consen  761 GEVFKKL-GDSKQAAECFQAALQLEE-SNPVLPFSNI  795 (799)
T ss_pred             HHHHHHc-cchHHHHHHHHHHHhhcc-CCCccccccc
Confidence            8888777 999999999998766543 2444444443

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.28  E-value=1.9e-09  Score=96.02  Aligned_cols=193  Identities=15%  Similarity=0.127  Sum_probs=135.9

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHh
Q 046221          319 SWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSY  398 (572)
Q Consensus       319 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  398 (572)
                      .+..+...+...|++++|...+++..+.  .+.+...+..+...+...|+++.|...++...+.. +.+...+..+...+
T Consensus        33 ~~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~  109 (234)
T TIGR02521        33 IRVQLALGYLEQGDLEVAKENLDKALEH--DPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            4445555666666666666666665422  22334455556666666677777777766666553 33445666677778


Q ss_pred             hhcCChHHHHHHHHHc-C---CCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHH
Q 046221          399 SKCGNVDLAYIVFEEM-G---FLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTND  473 (572)
Q Consensus       399 ~~~g~~~~A~~~~~~~-~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~  473 (572)
                      ...|++++|.+.+++. .   .......+..+...+...|++++|...+++..+.  .| +...+..+...+...|++++
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQI--DPQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCChHHHHHHHHHHHHcCCHHH
Confidence            8888888888888887 2   1223456667778888899999999999988874  44 45677888888889999999


Q ss_pred             HHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhcc
Q 046221          474 GLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       474 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                      |...++++++.  .+.+...+..++..+...|+.++|..+.+.+.
T Consensus       188 A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  230 (234)
T TIGR02521       188 ARAYLERYQQT--YNQTAESLWLGIRIARALGDVAAAQRYGAQLQ  230 (234)
T ss_pred             HHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            99999988754  24556667777888888999999988877764

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

>PRK12370 invasion protein regulator; Provisional

Probab=99.26  E-value=2e-09  Score=107.55  Aligned_cols=241  Identities=11%  Similarity=-0.007  Sum_probs=163.5

Q ss_pred             hhHHHHHHhccCCCCc---chHHHHHHHHH---------HcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccH
Q 046221          302 LDSSRSVFNQITEKSL---VSWTAIISGYV---------QNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAAL  369 (572)
Q Consensus       302 ~~~a~~~~~~~~~~~~---~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  369 (572)
                      +++|...|++..+.++   ..|..+..++.         ..+++++|...+++..+.  .+-+...+..+...+...|++
T Consensus       277 ~~~A~~~~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~l--dP~~~~a~~~lg~~~~~~g~~  354 (553)
T PRK12370        277 LQQALKLLTQCVNMSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATEL--DHNNPQALGLLGLINTIHSEY  354 (553)
T ss_pred             HHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHccCH
Confidence            4566666666654322   23444433332         224477888888887522  344556666677777788888


Q ss_pred             HHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCHh-HHHHHHHHHHhcCChHHHHHHHHHHH
Q 046221          370 EICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDVV-SWNTIIYGYGVNGHGETALALYHKMT  447 (572)
Q Consensus       370 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~  447 (572)
                      ++|...+++..+.+ +.+...+..+..++...|++++|...+++. ...|+.. .+..++..+...|++++|+..++++.
T Consensus       355 ~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l  433 (553)
T PRK12370        355 IVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAGITKLWITYYHTGIDDAIRLGDELR  433 (553)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            88888888888775 555667788888999999999999999998 5555532 33344445666889999999999988


Q ss_pred             hcCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhhCChhHHHHHHHhccC----CC
Q 046221          448 ETGEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS-QEHYGCVVDLLARAGCLSDASGLAGKLLE----GM  521 (572)
Q Consensus       448 ~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~  521 (572)
                      +.. .|+ ...+..+..++...|+.++|...++++...   .|+ ....+.+...|...|  ++|...++++.+    .+
T Consensus       434 ~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~  507 (553)
T PRK12370        434 SQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ---EITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRID  507 (553)
T ss_pred             Hhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc---cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhh
Confidence            752 454 455777888888999999999999887533   344 334555666777777  477777777665    45


Q ss_pred             ChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCC
Q 046221          522 GPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGI  555 (572)
Q Consensus       522 ~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~  555 (572)
                      ....+..++.+.+   |+-+.+..+ +++.+.+-
T Consensus       508 ~~~~~~~~~~~~~---g~~~~~~~~-~~~~~~~~  537 (553)
T PRK12370        508 NNPGLLPLVLVAH---GEAIAEKMW-NKFKNEDN  537 (553)
T ss_pred             cCchHHHHHHHHH---hhhHHHHHH-HHhhccch
Confidence            4455555555554   777666666 77776653

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

Probab=99.25  E-value=5.5e-10  Score=95.75  Aligned_cols=228  Identities=13%  Similarity=0.059  Sum_probs=134.3

Q ss_pred             HHHHHHHHhcCChhHHHHHHhccCC--CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccc
Q 046221          290 NSIIAMYSKCGDLDSSRSVFNQITE--KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELA  367 (572)
Q Consensus       290 ~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  367 (572)
                      +.+..+|.+.|.+.+|.+.|+...+  +-+.+|-.|-++|.+..++..|+.++.+-.                       
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gl-----------------------  283 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGL-----------------------  283 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhh-----------------------
Confidence            3455556666666666665555432  344555555566666666666666665543                       


Q ss_pred             cHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHH
Q 046221          368 ALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHK  445 (572)
Q Consensus       368 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  445 (572)
                                   +. ++-++....-+.+.+...++.++|.++++..  ..+.++....++...|.-.++++.|+.+|.+
T Consensus       284 -------------d~-fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRR  349 (478)
T KOG1129|consen  284 -------------DS-FPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRR  349 (478)
T ss_pred             -------------hc-CCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHH
Confidence                         21 1222222333445555666667777777666  2223445555556666667777777777777


Q ss_pred             HHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC--hhHHHHHHHHHHhhCChhHHHHHHHhccC-CCC
Q 046221          446 MTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS--QEHYGCVVDLLARAGCLSDASGLAGKLLE-GMG  522 (572)
Q Consensus       446 ~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~  522 (572)
                      +++.|+. +...|+.+.-+|...+++|-++..|++++... -.|+  ..+|..+.......||+.-|.+.|+-... +++
T Consensus       350 iLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~RAlsta-t~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~  427 (478)
T KOG1129|consen  350 ILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQRALSTA-TQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ  427 (478)
T ss_pred             HHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHHHHHhhc-cCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc
Confidence            7777643 45666666667777777777777777665332 2233  23677777777777777777777776655 333


Q ss_pred             -hHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCCC
Q 046221          523 -PNIWRALLSGCVLHVGRFQDAEALRSGSQKKGIIK  557 (572)
Q Consensus       523 -~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~~  557 (572)
                       ...++.|.-.-.+. |+.++|..++....+..+.-
T Consensus       428 h~ealnNLavL~~r~-G~i~~Arsll~~A~s~~P~m  462 (478)
T KOG1129|consen  428 HGEALNNLAVLAARS-GDILGARSLLNAAKSVMPDM  462 (478)
T ss_pred             hHHHHHhHHHHHhhc-CchHHHHHHHHHhhhhCccc
Confidence             33555554444444 77777777777766655443

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

Probab=99.23  E-value=7.2e-08  Score=92.72  Aligned_cols=435  Identities=12%  Similarity=-0.004  Sum_probs=222.1

Q ss_pred             HHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHH
Q 046221           62 MMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFF  141 (572)
Q Consensus        62 m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m  141 (572)
                      ++...+.-|...|..+--++...|+++.+.+.|++....-+          .....|+.+...+...|.-..|..++++-
T Consensus       314 ~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~----------~~~e~w~~~als~saag~~s~Av~ll~~~  383 (799)
T KOG4162|consen  314 LRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSF----------GEHERWYQLALSYSAAGSDSKAVNLLRES  383 (799)
T ss_pred             HHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh----------hhHHHHHHHHHHHHHhccchHHHHHHHhh
Confidence            33344555666677776677777777777777777665543          22346777777777777777777777665


Q ss_pred             HhCCCCCCHhh-HHHHHHHHh-ccCChHHHHHHHHHHHHhc--C--CCChhHHhHHHHHHHhC-----------CCHHHH
Q 046221          142 RGSGLVPNAVT-MLTVIRGCV-ALGSRALCELIHGLTIKLG--L--ILDVSVNNSVLDMYSCL-----------MDLDAA  204 (572)
Q Consensus       142 ~~~~~~p~~~~-~~~ll~~~~-~~~~~~~a~~~~~~~~~~~--~--~~~~~~~~~l~~~~~~~-----------~~~~~a  204 (572)
                      ......|+..+ +-..-+.|. +.+..+++..+-.+.+...  .  ......|-.+.-+|...           ....++
T Consensus       384 ~~~~~~ps~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~ks  463 (799)
T KOG4162|consen  384 LKKSEQPSDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKS  463 (799)
T ss_pred             cccccCCCcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHH
Confidence            54332343333 222223332 3345555555555554411  0  11222333333333211           112233


Q ss_pred             HHHHhhcCC---CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhC
Q 046221          205 IQIFREMEC---KDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGG  281 (572)
Q Consensus       205 ~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  281 (572)
                      ++.+++..+   .|+...-.+.--|+..++.+.|++..++..+-+-.-+...+..+.-.+...+++.+|+.+.+.....-
T Consensus       464 lqale~av~~d~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~  543 (799)
T KOG4162|consen  464 LQALEEAVQFDPTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEF  543 (799)
T ss_pred             HHHHHHHHhcCCCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHh
Confidence            444444322   12222222333344445555555555555554334444445444445555555555555554443311


Q ss_pred             CCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCH-hHHHHHH
Q 046221          282 LQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDS-ITLVSIL  360 (572)
Q Consensus       282 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~ll  360 (572)
                       ..|-.....-+..-...++.+++......+..    .|... ....+.++-...+++...+.-..+.+.+. .++..+.
T Consensus       544 -~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~----~we~~-~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls  617 (799)
T KOG4162|consen  544 -GDNHVLMDGKIHIELTFNDREEALDTCIHKLA----LWEAE-YGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLS  617 (799)
T ss_pred             -hhhhhhchhhhhhhhhcccHHHHHHHHHHHHH----HHHhh-hhHhhhhhhhhhhhhhcccccCcccccccchhhHHHH
Confidence             00000000011111112333333222221110    00000 00011111112222222221011111111 1222221


Q ss_pred             HHhcccccHHHHHHHHHHHHHhcCCCch--------hHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHH
Q 046221          361 TASGELAALEICLQLHGIAFEAGFPRYR--------SVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGY  430 (572)
Q Consensus       361 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~  430 (572)
                      .-....  .+.+..-.. +......|..        ..|......+.+.+..++|...+.+. ++.| ....|......+
T Consensus       618 ~l~a~~--~~~~~se~~-Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~~l~~~~~~~~G~~~  694 (799)
T KOG4162|consen  618 SLVASQ--LKSAGSELK-LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKIDPLSASVYYLRGLLL  694 (799)
T ss_pred             HHHHhh--hhhcccccc-cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcchhhHHHHHHhhHHH
Confidence            111100  000000000 1111112222        23445667788889999999888887 3333 455666666778


Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCChHHHHH--HHHHhHHhcCCCCChhHHHHHHHHHHhhCCh
Q 046221          431 GVNGHGETALALYHKMTETGEVPDS-STYLSILNACGHAGLTNDGLV--IFNQMIEENKVKPSQEHYGCVVDLLARAGCL  507 (572)
Q Consensus       431 ~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~--~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  507 (572)
                      ...|..++|...|.....  +.|+. .+...+...+.+.|+..-|..  ++.++++-.  +.+...|..+...+.+.|+.
T Consensus       695 ~~~~~~~EA~~af~~Al~--ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d--p~n~eaW~~LG~v~k~~Gd~  770 (799)
T KOG4162|consen  695 EVKGQLEEAKEAFLVALA--LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD--PLNHEAWYYLGEVFKKLGDS  770 (799)
T ss_pred             HHHHhhHHHHHHHHHHHh--cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHccch
Confidence            889999999999999888  78876 788899999999998887877  999998654  55677999999999999999


Q ss_pred             hHHHHHHHhccC
Q 046221          508 SDASGLAGKLLE  519 (572)
Q Consensus       508 ~~A~~~~~~~~~  519 (572)
                      +.|.+.|+...+
T Consensus       771 ~~Aaecf~aa~q  782 (799)
T KOG4162|consen  771 KQAAECFQAALQ  782 (799)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998776

>PRK12370 invasion protein regulator; Provisional

Probab=99.22  E-value=2.9e-09  Score=106.49  Aligned_cols=261  Identities=10%  Similarity=-0.039  Sum_probs=169.5

Q ss_pred             CChhhHHHHHHHHhh-----CCChHHHHHHHHHHHHcCCCCCc-chHHHHHHHHc---------CCCChHHHHHHHHHHH
Q 046221           34 KNVVSWSIVIHGYSI-----NGFHEKSMKAFSHMMLSGLLPNS-FTMVGVLVAAA---------GLQNLELARSIHGLMV   98 (572)
Q Consensus        34 ~~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~---------~~g~~~~a~~~~~~~~   98 (572)
                      .+...|...+.+...     .+.+++|+..|++..+.  .|+. ..|..+..++.         ..+++++|...+++++
T Consensus       254 ~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al  331 (553)
T PRK12370        254 NSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKAT  331 (553)
T ss_pred             CChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence            456666666665322     23467888888888865  4443 34444433322         3345788888888888


Q ss_pred             HhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHH
Q 046221           99 KFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIK  178 (572)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  178 (572)
                      +..+          .+...+..+...+...|++++|...|++..+.+ +.+...+..+...+...|++++|...++..++
T Consensus       332 ~ldP----------~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~  400 (553)
T PRK12370        332 ELDH----------NNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLK  400 (553)
T ss_pred             hcCC----------CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            8765          345677788888888899999999999888763 22455677777888888999999999999888


Q ss_pred             hcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCC---C-CcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccch
Q 046221          179 LGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMEC---K-DVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVAL  254 (572)
Q Consensus       179 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  254 (572)
                      .... +...+..++..+...|++++|...+++...   | +...+..+..++...|++++|...+.++...  .|+..+.
T Consensus       401 l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~  477 (553)
T PRK12370        401 LDPT-RAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIA  477 (553)
T ss_pred             cCCC-ChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHH
Confidence            6522 223333344456667888999988887643   3 3445677778888899999999998887554  3443333


Q ss_pred             -HHHHHHhcccCChHHHHHHHHHHHHhCC-CCCcchHHHHHHHHHhcCChhHHHHHHhccCCC
Q 046221          255 -LNLISVNAILGDLKRGKQLHAQVVLGGL-QSELRLSNSIIAMYSKCGDLDSSRSVFNQITEK  315 (572)
Q Consensus       255 -~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  315 (572)
                       +.+...+...|  +.+...++.+.+..- .+.....  +-..|.-.|+-+.+... +++.+.
T Consensus       478 ~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~  535 (553)
T PRK12370        478 VNLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNE  535 (553)
T ss_pred             HHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhcc
Confidence             33444556666  477776766665321 2222222  33445555666666655 666543

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

Probab=99.20  E-value=2e-09  Score=92.40  Aligned_cols=192  Identities=16%  Similarity=0.058  Sum_probs=150.3

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhh
Q 046221          321 TAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSK  400 (572)
Q Consensus       321 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  400 (572)
                      +.+.++|.+.|.+.+|.+.|+.-. .                                     -.|-+.+|-.|..+|.+
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL-~-------------------------------------q~~~~dTfllLskvY~r  268 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSL-T-------------------------------------QFPHPDTFLLLSKVYQR  268 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHh-h-------------------------------------cCCchhHHHHHHHHHHH
Confidence            456677777777777777776654 1                                     14556677778889999


Q ss_pred             cCChHHHHHHHHHc-CCCCCHhHH-HHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHH
Q 046221          401 CGNVDLAYIVFEEM-GFLRDVVSW-NTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVI  477 (572)
Q Consensus       401 ~g~~~~A~~~~~~~-~~~~~~~~~-~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~  477 (572)
                      ..+++.|+.++.+- ...|..+|| ..+...+-..++.++|.++|+...+.  .| +......+...|.-.++++-|+.+
T Consensus       269 idQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~--~~~nvEaiAcia~~yfY~~~PE~Alry  346 (478)
T KOG1129|consen  269 IDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKL--HPINVEAIACIAVGYFYDNNPEMALRY  346 (478)
T ss_pred             hccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhc--CCccceeeeeeeeccccCCChHHHHHH
Confidence            99999999999987 444655555 45667788889999999999999985  44 567788888889999999999999


Q ss_pred             HHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC---CCCh--HHHHHHHHHHhhhcCCHHHHHHHHHHHHh
Q 046221          478 FNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE---GMGP--NIWRALLSGCVLHVGRFQDAEALRSGSQK  552 (572)
Q Consensus       478 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~--~~~~~l~~~~~~~~g~~~~A~~~~~~m~~  552 (572)
                      ++++++. |+ -++..|..+.-+|.-.+.++-++.-|+++..   .|+.  .+|..+-...... |++.-|.+.|+-...
T Consensus       347 YRRiLqm-G~-~speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~i-GD~nlA~rcfrlaL~  423 (478)
T KOG1129|consen  347 YRRILQM-GA-QSPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTI-GDFNLAKRCFRLALT  423 (478)
T ss_pred             HHHHHHh-cC-CChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEec-cchHHHHHHHHHHhc
Confidence            9999854 44 5778999999999999999999999998876   3443  3688887766656 999999888887655


Q ss_pred             CCC
Q 046221          553 KGI  555 (572)
Q Consensus       553 ~~~  555 (572)
                      .+.
T Consensus       424 ~d~  426 (478)
T KOG1129|consen  424 SDA  426 (478)
T ss_pred             cCc
Confidence            443

>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=99.20  E-value=2.1e-07  Score=89.94  Aligned_cols=298  Identities=12%  Similarity=0.058  Sum_probs=153.9

Q ss_pred             HHHHHhhcCChhhHHHHhccCCC--CC-hhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHH-HHHc----
Q 046221           11 LLSNYFKSGKIKEAENLFDEIPE--KN-VVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVL-VAAA----   82 (572)
Q Consensus        11 l~~~~~~~~~~~~A~~~~~~~~~--~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll-~~~~----   82 (572)
                      ....+..+|++++|++.++....  .| ..........+.+.|+.++|..+|..+.+.  .|+...|...+ .++.    
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~r--NPdn~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDR--NPDNYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHhhhcc
Confidence            45677888999999999987654  34 445566677888999999999999999987  45555554444 4442    


Q ss_pred             -CCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChH-HHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 046221           83 -GLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQ-QAVLLFNFFRGSGLVPNAVTMLTVIRGC  160 (572)
Q Consensus        83 -~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~m~~~~~~p~~~~~~~ll~~~  160 (572)
                       ...+.+....+++.+...-+..+           +...+.-.+.....+. .+...+..+...|+++   +|+.+-..|
T Consensus        88 ~~~~~~~~~~~~y~~l~~~yp~s~-----------~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly  153 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKYPRSD-----------APRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLY  153 (517)
T ss_pred             cccccHHHHHHHHHHHHHhCcccc-----------chhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHH
Confidence             12356677777777766553211           2222221222222232 3445556666667543   444444444


Q ss_pred             hccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCc--ccHHHHHHHHHccCCHHHHHHH
Q 046221          161 VALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDV--ISWTRMMGLFVDFEYAGDALKI  238 (572)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~li~~~~~~~~~~~a~~~  238 (572)
                      .......-..+++.......-               ..+.+....  -..-..|..  .++..+...|...|++++|+++
T Consensus       154 ~d~~K~~~i~~l~~~~~~~l~---------------~~~~~~~~~--~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~  216 (517)
T PF12569_consen  154 KDPEKAAIIESLVEEYVNSLE---------------SNGSFSNGD--DEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEY  216 (517)
T ss_pred             cChhHHHHHHHHHHHHHHhhc---------------ccCCCCCcc--ccccCCchHHHHHHHHHHHHHHHhCCHHHHHHH
Confidence            433333334444444332210               000000000  000001222  1223344455555555555555


Q ss_pred             HHHHHhCCCCCC-ccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCc
Q 046221          239 FREMRKSRIICD-TVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSL  317 (572)
Q Consensus       239 ~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  317 (572)
                      +++.++.  .|+ +..|..-.+.+-+.|++.+|...++.....+ ..|..+-+..+..+.+.|++++|.+++.....++.
T Consensus       217 Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~  293 (517)
T PF12569_consen  217 IDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDV  293 (517)
T ss_pred             HHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCC
Confidence            5555543  233 3344444555555566666655555555544 33444444455555566666666665555544331


Q ss_pred             c----------hH--HHHHHHHHHcCChHHHHHHHHHHH
Q 046221          318 V----------SW--TAIISGYVQNGCAREALNQFIKMR  344 (572)
Q Consensus       318 ~----------~~--~~l~~~~~~~~~~~~a~~~~~~~~  344 (572)
                      .          .|  .....+|.+.|++..|++.|..+.
T Consensus       294 ~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~  332 (517)
T PF12569_consen  294 DPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVL  332 (517)
T ss_pred             CcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            1          12  223455666666666666555443

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.18  E-value=9.5e-09  Score=97.82  Aligned_cols=128  Identities=14%  Similarity=0.073  Sum_probs=77.3

Q ss_pred             HHHHHHHhhhcCChHHHHHHHHHc------CCCC----CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcC------CCCC
Q 046221          391 QNCLISSYSKCGNVDLAYIVFEEM------GFLR----DVVSWNTIIYGYGVNGHGETALALYHKMTETG------EVPD  454 (572)
Q Consensus       391 ~~~l~~~~~~~g~~~~A~~~~~~~------~~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g------~~p~  454 (572)
                      ++.+...++..+++++|..+++..      -..+    -..+++.|...|.+.|++++|.+++++++...      ..+.
T Consensus       328 l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~  407 (508)
T KOG1840|consen  328 LSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYG  407 (508)
T ss_pred             HHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChh
Confidence            344556666677777777766655      0111    13556777777777777777777777765421      1222


Q ss_pred             -HHHHHHHHHHHhccCChHHHHHHHHHhHH---hcCC-CCC-hhHHHHHHHHHHhhCChhHHHHHHHhcc
Q 046221          455 -SSTYLSILNACGHAGLTNDGLVIFNQMIE---ENKV-KPS-QEHYGCVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       455 -~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~-~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                       ...++.+...|.+.+++.+|.++|.+...   ..|. .|+ ..+|..|...|.+.|++++|.++.+...
T Consensus       408 ~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  408 VGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             hhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence             24566677777777777777777665421   1111 122 2367777777777777777777766654

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

Probab=99.18  E-value=2.8e-07  Score=82.14  Aligned_cols=303  Identities=11%  Similarity=-0.046  Sum_probs=216.7

Q ss_pred             CCCCCccchHHHHHHhcc--cCChHHHHHHHHHHHH-hCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcchH--
Q 046221          246 RIICDTVALLNLISVNAI--LGDLKRGKQLHAQVVL-GGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSW--  320 (572)
Q Consensus       246 ~~~p~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--  320 (572)
                      .++|...+...-+.+++.  .++-..+.+.+-.+.. .-++.+......+..++...|+.++|+..|++...-|+.+.  
T Consensus       189 ~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~  268 (564)
T KOG1174|consen  189 TVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEA  268 (564)
T ss_pred             ecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhh
Confidence            344555555555555433  3444444444444433 33577788889999999999999999999998876554433  


Q ss_pred             -HHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhh
Q 046221          321 -TAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYS  399 (572)
Q Consensus       321 -~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  399 (572)
                       ......+.+.|+.++...+...+. . ...-....|..-+...-..++++.|..+-++.++.. +.+...+-.-...+.
T Consensus       269 MD~Ya~LL~~eg~~e~~~~L~~~Lf-~-~~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~  345 (564)
T KOG1174|consen  269 MDLYAVLLGQEGGCEQDSALMDYLF-A-KVKYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLI  345 (564)
T ss_pred             HHHHHHHHHhccCHhhHHHHHHHHH-h-hhhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHH
Confidence             233445678889988888888875 2 122223333334444556778889998888877654 344555555567788


Q ss_pred             hcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHH-HHH-hccCChHHHH
Q 046221          400 KCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSIL-NAC-GHAGLTNDGL  475 (572)
Q Consensus       400 ~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~-~~~-~~~g~~~~a~  475 (572)
                      ..|+.++|.-.|+.. ...| +...|..|+.+|...|++.+|.-+-++..+. +..+..+.+.+. ..| ....--++|.
T Consensus       346 ~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAK  424 (564)
T KOG1174|consen  346 ALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAK  424 (564)
T ss_pred             hccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHH
Confidence            899999999999988 5544 6889999999999999999999888877664 344556766663 333 3334467899


Q ss_pred             HHHHHhHHhcCCCCC-hhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhC
Q 046221          476 VIFNQMIEENKVKPS-QEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKK  553 (572)
Q Consensus       476 ~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~  553 (572)
                      ++++..++   +.|+ ......+.+.+.+.|..+++..++++... .||.+.-+.|...+... +.+.+|.+.|....+.
T Consensus       425 kf~ek~L~---~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~-Ne~Q~am~~y~~ALr~  500 (564)
T KOG1174|consen  425 KFAEKSLK---INPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQ-NEPQKAMEYYYKALRQ  500 (564)
T ss_pred             HHHHhhhc---cCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHh-hhHHHHHHHHHHHHhc
Confidence            99998764   3455 34677888999999999999999999877 88888888887777766 9999999999888766


Q ss_pred             CCC
Q 046221          554 GII  556 (572)
Q Consensus       554 ~~~  556 (572)
                      +++
T Consensus       501 dP~  503 (564)
T KOG1174|consen  501 DPK  503 (564)
T ss_pred             Ccc
Confidence            654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.16  E-value=3.5e-09  Score=100.74  Aligned_cols=191  Identities=16%  Similarity=0.122  Sum_probs=135.3

Q ss_pred             HHhcccccHHHHHHHHHHHHHh-----c--CCCchhHHHHHHHHhhhcCChHHHHHHHHHc--------CC-CCCH-hHH
Q 046221          361 TASGELAALEICLQLHGIAFEA-----G--FPRYRSVQNCLISSYSKCGNVDLAYIVFEEM--------GF-LRDV-VSW  423 (572)
Q Consensus       361 ~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--------~~-~~~~-~~~  423 (572)
                      ..|...+++++|..+|+.+...     |  .+.-..+++.|..+|.+.|++++|...+++.        +. .|.+ ..+
T Consensus       249 ~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l  328 (508)
T KOG1840|consen  249 LVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQL  328 (508)
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHH
Confidence            3444444444444444444332     1  1222455677778889999998888887766        22 1232 335


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhc---CCCCC----HHHHHHHHHHHhccCChHHHHHHHHHhHHhc----C-CCCC-
Q 046221          424 NTIIYGYGVNGHGETALALYHKMTET---GEVPD----SSTYLSILNACGHAGLTNDGLVIFNQMIEEN----K-VKPS-  490 (572)
Q Consensus       424 ~~l~~~~~~~~~~~~A~~~~~~~~~~---g~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----~-~~~~-  490 (572)
                      +.+...|...+++++|..++++..+.   -..++    ..++..|...|...|++++|.+++++++...    | ..+. 
T Consensus       329 ~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~  408 (508)
T KOG1840|consen  329 SELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGV  408 (508)
T ss_pred             HHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhh
Confidence            66777889999999999999876652   11222    2679999999999999999999999987653    1 1222 


Q ss_pred             hhHHHHHHHHHHhhCChhHHHHHHHhccC-----CCCh----HHHHHHHHHHhhhcCCHHHHHHHHHHHHh
Q 046221          491 QEHYGCVVDLLARAGCLSDASGLAGKLLE-----GMGP----NIWRALLSGCVLHVGRFQDAEALRSGSQK  552 (572)
Q Consensus       491 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~----~~~~~l~~~~~~~~g~~~~A~~~~~~m~~  552 (572)
                      ...++.+...|.+.+++.+|.++|.+...     .|+.    .+|..|...|... |++++|.++.+....
T Consensus       409 ~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~-g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  409 GKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQ-GNYEAAEELEEKVLN  478 (508)
T ss_pred             hHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHc-ccHHHHHHHHHHHHH
Confidence            34688899999999999999999998654     3332    3588899999877 999999999998863

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.13  E-value=9e-07  Score=84.79  Aligned_cols=285  Identities=15%  Similarity=0.122  Sum_probs=131.7

Q ss_pred             HHHHHHHhCCCHHHHHHHHhhcC--CCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCCh
Q 046221          190 SVLDMYSCLMDLDAAIQIFREME--CKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDL  267 (572)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  267 (572)
                      +.|..|.+.|..-.|.+....-.  ..|......+..++.+..-+++|-++|+++..         +...+.++.+-.-+
T Consensus       620 aaiqlyika~~p~~a~~~a~n~~~l~~de~il~~ia~alik~elydkagdlfeki~d---------~dkale~fkkgdaf  690 (1636)
T KOG3616|consen  620 AAIQLYIKAGKPAKAARAALNDEELLADEEILEHIAAALIKGELYDKAGDLFEKIHD---------FDKALECFKKGDAF  690 (1636)
T ss_pred             HHHHHHHHcCCchHHHHhhcCHHHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhC---------HHHHHHHHHcccHH
Confidence            34666777777666655442221  24555555566666666666666666665532         11222222222223


Q ss_pred             HHHHHHHHHHHHhCCCCCcchH-HHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 046221          268 KRGKQLHAQVVLGGLQSELRLS-NSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQE  346 (572)
Q Consensus       268 ~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  346 (572)
                      .+|.++-+-.    ++...+.. ..-...+...|+++.|...|-+..     ..-..+.+-.....+.+|+.+++.+. .
T Consensus       691 ~kaielarfa----fp~evv~lee~wg~hl~~~~q~daainhfiea~-----~~~kaieaai~akew~kai~ildniq-d  760 (1636)
T KOG3616|consen  691 GKAIELARFA----FPEEVVKLEEAWGDHLEQIGQLDAAINHFIEAN-----CLIKAIEAAIGAKEWKKAISILDNIQ-D  760 (1636)
T ss_pred             HHHHHHHHhh----CcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhh-----hHHHHHHHHhhhhhhhhhHhHHHHhh-h
Confidence            3333322211    11111100 111222333444555544443221     11222334444555666666666554 2


Q ss_pred             CCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCHhHHHH
Q 046221          347 KTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDVVSWNT  425 (572)
Q Consensus       347 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~  425 (572)
                      .  +.....|..+...|+..|+++.|.++|-+.         ..++--|.+|.+.|++++|.++-.+. +-......|-+
T Consensus       761 q--k~~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~kla~e~~~~e~t~~~yia  829 (1636)
T KOG3616|consen  761 Q--KTASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAFKLAEECHGPEATISLYIA  829 (1636)
T ss_pred             h--ccccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHHHHHHHHhcCchhHHHHHHH
Confidence            1  122234555556666666666666665322         12233456666666666666666655 33333444444


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhC
Q 046221          426 IIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAG  505 (572)
Q Consensus       426 l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  505 (572)
                      -..-+-++|++.+|.++|-.+.    .|+.     .|..|-+.|..++.+++.++-   +| ..-..|...+..-|...|
T Consensus       830 kaedldehgkf~eaeqlyiti~----~p~~-----aiqmydk~~~~ddmirlv~k~---h~-d~l~dt~~~f~~e~e~~g  896 (1636)
T KOG3616|consen  830 KAEDLDEHGKFAEAEQLYITIG----EPDK-----AIQMYDKHGLDDDMIRLVEKH---HG-DHLHDTHKHFAKELEAEG  896 (1636)
T ss_pred             hHHhHHhhcchhhhhheeEEcc----CchH-----HHHHHHhhCcchHHHHHHHHh---Ch-hhhhHHHHHHHHHHHhcc
Confidence            4444555666666655553322    2332     234455555555555555422   10 111224444455555555


Q ss_pred             ChhHHHHHHHhc
Q 046221          506 CLSDASGLAGKL  517 (572)
Q Consensus       506 ~~~~A~~~~~~~  517 (572)
                      +...|++-|-++
T Consensus       897 ~lkaae~~flea  908 (1636)
T KOG3616|consen  897 DLKAAEEHFLEA  908 (1636)
T ss_pred             ChhHHHHHHHhh
Confidence            555555544443

>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=99.11  E-value=2.6e-07  Score=89.39  Aligned_cols=285  Identities=11%  Similarity=0.031  Sum_probs=198.0

Q ss_pred             HHHHHhCCChHHHHHHHHHHHhCCCCCCHh-hHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhC--
Q 046221          122 VAGFINNKLFQQAVLLFNFFRGSGLVPNAV-TMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCL--  198 (572)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--  198 (572)
                      ...+...|++++|++.++.-...  .+|.. .+......+.+.|+.++|..++..+++.+ +.+...|..+..+..-.  
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~--I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQ--ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhh--CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhcc
Confidence            35567889999999999875543  44554 45566677899999999999999999987 56666677777766332  


Q ss_pred             ---CCHHHHHHHHhhcCC--CCcccHHHHHHHHHccCCHH-HHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHH
Q 046221          199 ---MDLDAAIQIFREMEC--KDVISWTRMMGLFVDFEYAG-DALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQ  272 (572)
Q Consensus       199 ---~~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~-~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  272 (572)
                         .+.+....+++++..  |...+...+.-.+.....+. .+..++..+...|+++   +|+.+-..|......+-...
T Consensus        88 ~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~  164 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIES  164 (517)
T ss_pred             cccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHH
Confidence               256777788887765  33232222322222222232 3556677777888654   56666666665555555666


Q ss_pred             HHHHHHHhC--------------CCCCcc--hHHHHHHHHHhcCChhHHHHHHhccCCCCc---chHHHHHHHHHHcCCh
Q 046221          273 LHAQVVLGG--------------LQSELR--LSNSIIAMYSKCGDLDSSRSVFNQITEKSL---VSWTAIISGYVQNGCA  333 (572)
Q Consensus       273 ~~~~~~~~~--------------~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~  333 (572)
                      ++......-              -+|+..  ++.-+...|-..|++++|..++++..+.++   ..|..-...+-..|++
T Consensus       165 l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~  244 (517)
T PF12569_consen  165 LVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDL  244 (517)
T ss_pred             HHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCH
Confidence            666554321              123332  335567778899999999999998876433   4677778889999999


Q ss_pred             HHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHH--------HHHHHHhhhcCChH
Q 046221          334 REALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQ--------NCLISSYSKCGNVD  405 (572)
Q Consensus       334 ~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--------~~l~~~~~~~g~~~  405 (572)
                      .+|.+.++...  .-..-|...-+.....+.+.|+++.|.+++....+.+..|....+        .....+|.+.|++.
T Consensus       245 ~~Aa~~~~~Ar--~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~  322 (517)
T PF12569_consen  245 KEAAEAMDEAR--ELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYG  322 (517)
T ss_pred             HHHHHHHHHHH--hCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            99999999984  445557777777888889999999999999988877754433322        34567888999999


Q ss_pred             HHHHHHHHc
Q 046221          406 LAYIVFEEM  414 (572)
Q Consensus       406 ~A~~~~~~~  414 (572)
                      .|++.|..+
T Consensus       323 ~ALk~~~~v  331 (517)
T PF12569_consen  323 LALKRFHAV  331 (517)
T ss_pred             HHHHHHHHH
Confidence            888776655

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 [], [].

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.10  E-value=1.1e-06  Score=84.34  Aligned_cols=49  Identities=12%  Similarity=-0.018  Sum_probs=25.7

Q ss_pred             HHHHHHHHHhhCChhHHHHHHHhccCCCChHHHHHHHHHHhhhcCCHHHHHHHHHH
Q 046221          494 YGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVGRFQDAEALRSG  549 (572)
Q Consensus       494 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~  549 (572)
                      +..-.+.....|++.+|+-++-++. +|+..     +..+... +-|.+|+++.+.
T Consensus      1082 ~tgqar~aiee~d~~kae~fllran-kp~i~-----l~yf~e~-~lw~dalri~kd 1130 (1636)
T KOG3616|consen 1082 LTGQARGAIEEGDFLKAEGFLLRAN-KPDIA-----LNYFIEA-ELWPDALRIAKD 1130 (1636)
T ss_pred             HhhhhhccccccchhhhhhheeecC-CCchH-----HHHHHHh-ccChHHHHHHHh
Confidence            3333444456667777766665554 45532     1222223 677777666543

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.09  E-value=2.4e-07  Score=78.88  Aligned_cols=195  Identities=8%  Similarity=0.034  Sum_probs=89.0

Q ss_pred             HHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeH
Q 046221           39 WSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSC  118 (572)
Q Consensus        39 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (572)
                      +++++..+.+..++.+|++++..-.++. +.+....+.+..+|....++..|...++++.+..+.           ..-|
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~-----------~~qY   80 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPE-----------LEQY   80 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChH-----------HHHH
Confidence            4555555555666666666665555442 223444445555555555666666666555544321           1122


Q ss_pred             H-HHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHh
Q 046221          119 N-AIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSC  197 (572)
Q Consensus       119 ~-~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  197 (572)
                      . --...+.+.+.+..|+++...|...   |+...-..-+.+.                                 ....
T Consensus        81 rlY~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaA---------------------------------IkYs  124 (459)
T KOG4340|consen   81 RLYQAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAA---------------------------------IKYS  124 (459)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHH---------------------------------Hhcc
Confidence            2 1123444555555555555555431   1111111111111                                 1122


Q ss_pred             CCCHHHHHHHHhhcCC-CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHH
Q 046221          198 LMDLDAAIQIFREMEC-KDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQ  276 (572)
Q Consensus       198 ~~~~~~a~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  276 (572)
                      .+++..+..+.++.+. .+..+.+.......+.|+++.|.+-|+...+-+---....|+..+ +..+.|+.+.|.+...+
T Consensus       125 e~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSE  203 (459)
T KOG4340|consen  125 EGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISE  203 (459)
T ss_pred             cccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHH
Confidence            3455555555555542 333444444444445555555555555554433222233343332 33344555555555555


Q ss_pred             HHHhCC
Q 046221          277 VVLGGL  282 (572)
Q Consensus       277 ~~~~~~  282 (572)
                      +.++|+
T Consensus       204 IieRG~  209 (459)
T KOG4340|consen  204 IIERGI  209 (459)
T ss_pred             HHHhhh
Confidence            555554

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

Probab=99.07  E-value=1.5e-08  Score=91.09  Aligned_cols=222  Identities=11%  Similarity=0.056  Sum_probs=139.1

Q ss_pred             HHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC-CCHhHHHHHHHHhccccc
Q 046221          290 NSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDS-VDSITLVSILTASGELAA  368 (572)
Q Consensus       290 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~  368 (572)
                      ..+.+++...|+.+.+..-...-..|.......+...+...++-+.++.-+++.. ..... .+..........+...|+
T Consensus        39 ~~~~Rs~iAlg~~~~vl~ei~~~~~~~l~av~~la~y~~~~~~~e~~l~~l~~~~-~~~~~~~~~~~~~~~A~i~~~~~~  117 (290)
T PF04733_consen   39 FYQYRSYIALGQYDSVLSEIKKSSSPELQAVRLLAEYLSSPSDKESALEELKELL-ADQAGESNEIVQLLAATILFHEGD  117 (290)
T ss_dssp             HHHHHHHHHTT-HHHHHHHS-TTSSCCCHHHHHHHHHHCTSTTHHCHHHHHHHCC-CTS---CHHHHHHHHHHHHCCCCH
T ss_pred             HHHHHHHHHcCChhHHHHHhccCCChhHHHHHHHHHHHhCccchHHHHHHHHHHH-HhccccccHHHHHHHHHHHHHcCC
Confidence            3456667777777766555544444555555444443333344455555555443 22222 333333334455667788


Q ss_pred             HHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCHhHHHHHHHHHH----hcCChHHHHHHH
Q 046221          369 LEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDVVSWNTIIYGYG----VNGHGETALALY  443 (572)
Q Consensus       369 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~----~~~~~~~A~~~~  443 (572)
                      ++.|.+++...      .+.......+.+|.+.++++.|.+.++.| ....|. +...+..++.    -.+.+.+|..+|
T Consensus       118 ~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~eD~-~l~qLa~awv~l~~g~e~~~~A~y~f  190 (290)
T PF04733_consen  118 YEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQIDEDS-ILTQLAEAWVNLATGGEKYQDAFYIF  190 (290)
T ss_dssp             HHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCSCCH-HHHHHHHHHHHHHHTTTCCCHHHHHH
T ss_pred             HHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcH-HHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            88888877532      34566667788888999999999999888 444443 3333444433    234688999999


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCCh-hHHHHHHHhccC-CC
Q 046221          444 HKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCL-SDASGLAGKLLE-GM  521 (572)
Q Consensus       444 ~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~-~~  521 (572)
                      +++.+. ..++..+.+.+..++...|++++|.++++++++..  +-+..++..++.+....|+. +.+.+++.++.. .|
T Consensus       191 ~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~--~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p  267 (290)
T PF04733_consen  191 EELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD--PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQSNP  267 (290)
T ss_dssp             HHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC---CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTT
T ss_pred             HHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc--cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhCC
Confidence            998765 56777888888888899999999999998886543  44566777788887888877 667788888876 55


Q ss_pred             C
Q 046221          522 G  522 (572)
Q Consensus       522 ~  522 (572)
                      +
T Consensus       268 ~  268 (290)
T PF04733_consen  268 N  268 (290)
T ss_dssp             T
T ss_pred             C
Confidence            4

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.

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.05  E-value=1.7e-07  Score=85.71  Aligned_cols=221  Identities=12%  Similarity=-0.032  Sum_probs=136.7

Q ss_pred             cCChhHHHHHHhccCCC---C----cchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHH
Q 046221          299 CGDLDSSRSVFNQITEK---S----LVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEI  371 (572)
Q Consensus       299 ~~~~~~a~~~~~~~~~~---~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  371 (572)
                      .+..+.++.-+.++...   +    ...|..+...+...|+.++|...|++..+  ..+.+...+..+...+...|+++.
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~--l~P~~~~a~~~lg~~~~~~g~~~~  116 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALA--LRPDMADAYNYLGIYLTQAGNFDA  116 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--cCCCCHHHHHHHHHHHHHCCCHHH
Confidence            35556666666665531   1    23566777778888888888888888752  234456777788888888888888


Q ss_pred             HHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 046221          372 CLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETG  450 (572)
Q Consensus       372 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g  450 (572)
                      |...++...+.. +.+...+..+..++...|++++|.+.|+.. ...|+..........+...+++++|...+.+.... 
T Consensus       117 A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~-  194 (296)
T PRK11189        117 AYEAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPNDPYRALWLYLAESKLDPKQAKENLKQRYEK-  194 (296)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh-
Confidence            888888887654 334566666777788888888888888877 44454322222222234466788888888665543 


Q ss_pred             CCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCC-----CChhHHHHHHHHHHhhCChhHHHHHHHhccC-C-CCh
Q 046221          451 EVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVK-----PSQEHYGCVVDLLARAGCLSDASGLAGKLLE-G-MGP  523 (572)
Q Consensus       451 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-~~~  523 (572)
                      ..|+...+ .+.  ....|+...+ +.++.+.+.....     .....|..+...+.+.|++++|...|+++.. . |+.
T Consensus       195 ~~~~~~~~-~~~--~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~  270 (296)
T PRK11189        195 LDKEQWGW-NIV--EFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNF  270 (296)
T ss_pred             CCccccHH-HHH--HHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchH
Confidence            23333222 222  2334554443 3444443211111     1234677788888888888888888888776 3 344


Q ss_pred             HHHH
Q 046221          524 NIWR  527 (572)
Q Consensus       524 ~~~~  527 (572)
                      .-+.
T Consensus       271 ~e~~  274 (296)
T PRK11189        271 VEHR  274 (296)
T ss_pred             HHHH
Confidence            4444

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.04  E-value=3.2e-07  Score=90.78  Aligned_cols=160  Identities=13%  Similarity=-0.008  Sum_probs=102.8

Q ss_pred             chhhHHHHHhhcCChhhHHHHhccCCC---CChhhHHHHHHHHhhCCChHHHHHHHHHHHHcC-CCCCcchHHHHHHHHc
Q 046221            7 NSSKLLSNYFKSGKIKEAENLFDEIPE---KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSG-LLPNSFTMVGVLVAAA   82 (572)
Q Consensus         7 ~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~ll~~~~   82 (572)
                      .|..|...|+...+...|.+.|+..-+   .+..++......|+...+++.|..+.-..-+.. ...-...|..+.-.+-
T Consensus       494 af~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyL  573 (1238)
T KOG1127|consen  494 AFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYL  573 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcccccc
Confidence            456677777777777777777776655   345567777777777778887777732222211 0011112223333344


Q ss_pred             CCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH--H
Q 046221           83 GLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRG--C  160 (572)
Q Consensus        83 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~--~  160 (572)
                      +.++...+..-|+...+..+          .|..+|..++.+|.+.|++..|+++|.+....  .|+. +|...-.+  -
T Consensus       574 ea~n~h~aV~~fQsALR~dP----------kD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s-~y~~fk~A~~e  640 (1238)
T KOG1127|consen  574 EAHNLHGAVCEFQSALRTDP----------KDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLS-KYGRFKEAVME  640 (1238)
T ss_pred             CccchhhHHHHHHHHhcCCc----------hhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHh-HHHHHHHHHHH
Confidence            66777777777777776665          66778889999999999999999999887653  4443 33322222  3


Q ss_pred             hccCChHHHHHHHHHHHHh
Q 046221          161 VALGSRALCELIHGLTIKL  179 (572)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~  179 (572)
                      +..|.+.++...+...+..
T Consensus       641 cd~GkYkeald~l~~ii~~  659 (1238)
T KOG1127|consen  641 CDNGKYKEALDALGLIIYA  659 (1238)
T ss_pred             HHhhhHHHHHHHHHHHHHH
Confidence            5678888888888777653

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

Probab=99.03  E-value=1.5e-07  Score=77.30  Aligned_cols=200  Identities=14%  Similarity=0.056  Sum_probs=134.6

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhh
Q 046221          320 WTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYS  399 (572)
Q Consensus       320 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  399 (572)
                      ...+.-+|.+.|+...|.+-+++..  ...+-+..++..+...|.+.|..+.|.+.|+...... +-+..+.|.....+|
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL--~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC  114 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKAL--EHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHH--HhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            3345556666666666666666664  2233344455555556666666666666666655543 445566677777788


Q ss_pred             hcCChHHHHHHHHHc----CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCChHHH
Q 046221          400 KCGNVDLAYIVFEEM----GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS-STYLSILNACGHAGLTNDG  474 (572)
Q Consensus       400 ~~g~~~~A~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a  474 (572)
                      ..|++++|...|++.    ....-..+|..+.-+..+.|+.+.|...|++.++  ..|+. .+...+.....+.|++..|
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~--~dp~~~~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALE--LDPQFPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHH--hCcCCChHHHHHHHHHHhcccchHH
Confidence            888888888888877    1212346777777777888888888888888888  45644 6777788888888888888


Q ss_pred             HHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHH
Q 046221          475 LVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIW  526 (572)
Q Consensus       475 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~  526 (572)
                      ..+++... .. ..++....-..|+.-.+.|+.+.|-++=..+.. .|...-+
T Consensus       193 r~~~~~~~-~~-~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s~e~  243 (250)
T COG3063         193 RLYLERYQ-QR-GGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYSEEY  243 (250)
T ss_pred             HHHHHHHH-hc-ccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHH
Confidence            88888774 33 237777777777777788888877776655554 4444433

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

Probab=98.98  E-value=4.1e-07  Score=74.82  Aligned_cols=193  Identities=14%  Similarity=0.049  Sum_probs=146.7

Q ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHh
Q 046221          355 TLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGV  432 (572)
Q Consensus       355 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~  432 (572)
                      +..-+.-.|...|+...|..-+++..++. +.+..++..+...|-+.|+.+.|.+.|++. ...| +-...|....-+|.
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~  115 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHh
Confidence            44556667888999999999999988876 566778888889999999999999999987 4444 45677777778888


Q ss_pred             cCChHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHH
Q 046221          433 NGHGETALALYHKMTETGEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDAS  511 (572)
Q Consensus       433 ~~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  511 (572)
                      .|++++|...|++....-.-|. ..||..+.-+..+.|+.+.|...|++.++..  +-.......+.....+.|++-.|.
T Consensus       116 qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d--p~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD--PQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC--cCCChHHHHHHHHHHhcccchHHH
Confidence            9999999999999887533333 3788888888889999999999999988644  334456777888888999999999


Q ss_pred             HHHHhccC--CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHH
Q 046221          512 GLAGKLLE--GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQ  551 (572)
Q Consensus       512 ~~~~~~~~--~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~  551 (572)
                      .++++...  .+...+....+..-... |+-+.|-+.=..+.
T Consensus       194 ~~~~~~~~~~~~~A~sL~L~iriak~~-gd~~~a~~Y~~qL~  234 (250)
T COG3063         194 LYLERYQQRGGAQAESLLLGIRIAKRL-GDRAAAQRYQAQLQ  234 (250)
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHh-ccHHHHHHHHHHHH
Confidence            99998876  55555555445544444 88766665544443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.97  E-value=3.5e-05  Score=75.29  Aligned_cols=230  Identities=14%  Similarity=0.046  Sum_probs=127.4

Q ss_pred             HHhhcCChhhHHHHhccCCCCChhhHHHHHHHHhhCCChHHHHHHHHHHHHc-C--------CCCCcchHHHHHHHHcCC
Q 046221           14 NYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLS-G--------LLPNSFTMVGVLVAAAGL   84 (572)
Q Consensus        14 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~--------~~~~~~~~~~ll~~~~~~   84 (572)
                      .|..-|+.+.|.+-.+.+.  +-..|..|.+.+.+.++.+-|.-.+..|... |        -.|+ .+-..+.-.....
T Consensus       737 fyvtiG~MD~AfksI~~Ik--S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieL  813 (1416)
T KOG3617|consen  737 FYVTIGSMDAAFKSIQFIK--SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIEL  813 (1416)
T ss_pred             EEEEeccHHHHHHHHHHHh--hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHH
Confidence            3555677777777665554  3457888888888888888777776666431 1        1222 2222222233467


Q ss_pred             CChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccC
Q 046221           85 QNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALG  164 (572)
Q Consensus        85 g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  164 (572)
                      |.+++|+.++.+.++..                  .|=+.|-..|.|++|+++-+.=-+-.+   ..||..-..-+...+
T Consensus       814 gMlEeA~~lYr~ckR~D------------------LlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~  872 (1416)
T KOG3617|consen  814 GMLEEALILYRQCKRYD------------------LLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARR  872 (1416)
T ss_pred             hhHHHHHHHHHHHHHHH------------------HHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhc
Confidence            88888888887776643                  334556667888888877654322111   234444445555566


Q ss_pred             ChHHHHHHHHHHHHh----------c---------CCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCcccHHHHHHH
Q 046221          165 SRALCELIHGLTIKL----------G---------LILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGL  225 (572)
Q Consensus       165 ~~~~a~~~~~~~~~~----------~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~  225 (572)
                      +.+.|.+.|+..-.+          .         -..|...|.-....+-..|+.+.|+.+|...+     -|-++++.
T Consensus       873 Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~-----D~fs~VrI  947 (1416)
T KOG3617|consen  873 DIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAK-----DYFSMVRI  947 (1416)
T ss_pred             cHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhh-----hhhhheee
Confidence            677776666542111          0         01222333333333344566666666665542     24445555


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHH
Q 046221          226 FVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVV  278 (572)
Q Consensus       226 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  278 (572)
                      .+-.|+.++|-++-++-      -|....-.+.+.|-..|++.+|..+|....
T Consensus       948 ~C~qGk~~kAa~iA~es------gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  948 KCIQGKTDKAARIAEES------GDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             EeeccCchHHHHHHHhc------ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            55556666665555442      234444455666666666666666665544

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.96  E-value=2.2e-05  Score=78.38  Aligned_cols=331  Identities=15%  Similarity=0.124  Sum_probs=188.6

Q ss_pred             hhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCc
Q 046221           36 VVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYL  115 (572)
Q Consensus        36 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  115 (572)
                      +..|..+..+-.+.|...+|++-|-+      .-|+..|..++....+.|.+++-.+.+....+..-.         |  
T Consensus      1104 p~vWsqlakAQL~~~~v~dAieSyik------adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E---------~-- 1166 (1666)
T KOG0985|consen 1104 PAVWSQLAKAQLQGGLVKDAIESYIK------ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVRE---------P-- 1166 (1666)
T ss_pred             hHHHHHHHHHHHhcCchHHHHHHHHh------cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcC---------c--
Confidence            45566677776777777777666554      345566777777777777777777666655554432         2  


Q ss_pred             eeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHH
Q 046221          116 VSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMY  195 (572)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  195 (572)
                      ..=..||-+|++.++..+..+.+       .-|+......+-.-|...+.++.|.-++..         ++-|..|...+
T Consensus      1167 ~id~eLi~AyAkt~rl~elE~fi-------~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~La~TL 1230 (1666)
T KOG0985|consen 1167 YIDSELIFAYAKTNRLTELEEFI-------AGPNVANIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKLASTL 1230 (1666)
T ss_pred             cchHHHHHHHHHhchHHHHHHHh-------cCCCchhHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHHHHHH
Confidence            23456677777777666544332       246666666666667777777766666543         33455666666


Q ss_pred             HhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHH
Q 046221          196 SCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHA  275 (572)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  275 (572)
                      +..|++..|...-++.  .+..+|-.+-.+|...+.+.-|     +|.-.++.....-...++..|-..|-+++...+++
T Consensus      1231 V~LgeyQ~AVD~aRKA--ns~ktWK~VcfaCvd~~EFrlA-----QiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~E 1303 (1666)
T KOG0985|consen 1231 VYLGEYQGAVDAARKA--NSTKTWKEVCFACVDKEEFRLA-----QICGLNIIVHADELEELIEYYQDRGYFEELISLLE 1303 (1666)
T ss_pred             HHHHHHHHHHHHhhhc--cchhHHHHHHHHHhchhhhhHH-----HhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHH
Confidence            6777777766655443  4556777777777766554433     22222233344455567777777777777777776


Q ss_pred             HHHHhCCCCCcchHHHHHHHHHhcCChhHHHHH---H-hccCCC-------CcchHHHHHHHHHHcCChHHHHHHHHHHH
Q 046221          276 QVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSV---F-NQITEK-------SLVSWTAIISGYVQNGCAREALNQFIKMR  344 (572)
Q Consensus       276 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~---~-~~~~~~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  344 (572)
                      ..+... ......|+-|.-.|++-. +++..+.   | .++.-|       ....|+-+...|.+-..++.|.-..  |.
T Consensus      1304 a~LGLE-RAHMgmfTELaiLYskyk-p~km~EHl~LFwsRvNipKviRA~eqahlW~ElvfLY~~y~eyDNAa~tm--m~ 1379 (1666)
T KOG0985|consen 1304 AGLGLE-RAHMGMFTELAILYSKYK-PEKMMEHLKLFWSRVNIPKVIRAAEQAHLWSELVFLYDKYEEYDNAALTM--ME 1379 (1666)
T ss_pred             hhhchh-HHHHHHHHHHHHHHHhcC-HHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHH--Hh
Confidence            544221 223445666666666532 3333222   2 222111       1246777777777777776664322  22


Q ss_pred             hcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHcCCCC
Q 046221          345 QEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLR  418 (572)
Q Consensus       345 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  418 (572)
                       ......+...|.-++.-.+...-+-+|.+++-       .-.+...+-++..+.-.=+...+..+|.+.+..|
T Consensus      1380 -h~teaw~~~~FKdii~kVaNvElyYkAi~FYl-------~~~P~llnDlL~vL~pRlDh~r~v~~f~K~~~lp 1445 (1666)
T KOG0985|consen 1380 -HPTEAWDHGQFKDIITKVANVELYYKAIQFYL-------DFHPLLLNDLLTVLSPRLDHTRTVSIFSKAGQLP 1445 (1666)
T ss_pred             -CChhhhhhhhHHHHHHHHhhHHHHHHHHHHHH-------HhChHHHHHHHHhcccccCchHHHHHHHhcCCCc
Confidence             22333344455555555555444555555442       2223445566666666667777777777774434

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.95  E-value=7.3e-06  Score=76.14  Aligned_cols=212  Identities=16%  Similarity=0.074  Sum_probs=95.4

Q ss_pred             HHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcc----------hHHHHHH
Q 046221          256 NLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLV----------SWTAIIS  325 (572)
Q Consensus       256 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----------~~~~l~~  325 (572)
                      .+..+.-+..+++.+.+-+.......  .+...++....+|...|.+..+...-....+.+..          +...+..
T Consensus       229 ~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~  306 (539)
T KOG0548|consen  229 ELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGN  306 (539)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhh
Confidence            34444445555555665555555544  34444455555666666655555444433322111          1111223


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChH
Q 046221          326 GYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVD  405 (572)
Q Consensus       326 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  405 (572)
                      +|.+.++++.++..|.+.. .....|+..         .+....+++........-.+... ..-...-...+.+.|++.
T Consensus       307 a~~k~~~~~~ai~~~~kaL-te~Rt~~~l---------s~lk~~Ek~~k~~e~~a~~~pe~-A~e~r~kGne~Fk~gdy~  375 (539)
T KOG0548|consen  307 AYTKREDYEGAIKYYQKAL-TEHRTPDLL---------SKLKEAEKALKEAERKAYINPEK-AEEEREKGNEAFKKGDYP  375 (539)
T ss_pred             hhhhHHhHHHHHHHHHHHh-hhhcCHHHH---------HHHHHHHHHHHHHHHHHhhChhH-HHHHHHHHHHHHhccCHH
Confidence            4444555566666665544 222222211         11112222222222111111000 000111134455556666


Q ss_pred             HHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHhH
Q 046221          406 LAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS-STYLSILNACGHAGLTNDGLVIFNQMI  482 (572)
Q Consensus       406 ~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~  482 (572)
                      .|.+.+.++  ..+-|...|....-+|.+.|.+..|++-.+..++  +.|+. ..|..=..++....+++.|.+.|.+.+
T Consensus       376 ~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ie--L~p~~~kgy~RKg~al~~mk~ydkAleay~eal  453 (539)
T KOG0548|consen  376 EAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIE--LDPNFIKAYLRKGAALRAMKEYDKALEAYQEAL  453 (539)
T ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHh--cCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666655  3333455566666666666666666665555555  24433 334444444445555666666666554

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.94  E-value=2.1e-05  Score=76.78  Aligned_cols=269  Identities=12%  Similarity=0.091  Sum_probs=158.0

Q ss_pred             CChhhHHHHHH--HHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCC
Q 046221           34 KNVVSWSIVIH--GYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLK  111 (572)
Q Consensus        34 ~~~~~~~~li~--~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  111 (572)
                      =|..+-.++++  .|..-|+.+.|.+-.+-+..      ...|..+.+.|.+.++++-|+-.+..|.........-...+
T Consensus       724 Cd~~TRkaml~FSfyvtiG~MD~AfksI~~IkS------~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q  797 (1416)
T KOG3617|consen  724 CDESTRKAMLDFSFYVTIGSMDAAFKSIQFIKS------DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQ  797 (1416)
T ss_pred             cCHHHHHhhhceeEEEEeccHHHHHHHHHHHhh------hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHh
Confidence            46777788876  47888999999988877653      35689999999999999999999888865432111111111


Q ss_pred             CCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHH
Q 046221          112 NPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSV  191 (572)
Q Consensus       112 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  191 (572)
                      .++ ..=..+.......|..++|..+|.+-++.         ..+=+.|-..|.+++|.++-+.--+..+.   .||-..
T Consensus       798 ~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiHLr---~Tyy~y  864 (1416)
T KOG3617|consen  798 NGE-EDEAKVAVLAIELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDRIHLR---NTYYNY  864 (1416)
T ss_pred             CCc-chhhHHHHHHHHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccceehh---hhHHHH
Confidence            232 22222333445678888888888877643         33445566778888888876543222222   344444


Q ss_pred             HHHHHhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHH
Q 046221          192 LDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGK  271 (572)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  271 (572)
                      ..-+-..++++.|++.|++...+--..+..|.      .++.....+.+.+.      |...|.---..+-..|+.+.|.
T Consensus       865 A~~Lear~Di~~AleyyEK~~~hafev~rmL~------e~p~~~e~Yv~~~~------d~~L~~WWgqYlES~GemdaAl  932 (1416)
T KOG3617|consen  865 AKYLEARRDIEAALEYYEKAGVHAFEVFRMLK------EYPKQIEQYVRRKR------DESLYSWWGQYLESVGEMDAAL  932 (1416)
T ss_pred             HHHHHhhccHHHHHHHHHhcCChHHHHHHHHH------hChHHHHHHHHhcc------chHHHHHHHHHHhcccchHHHH
Confidence            55555677888888888876443222111111      11122222222221      2233333334445567777777


Q ss_pred             HHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHH
Q 046221          272 QLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMR  344 (572)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  344 (572)
                      .+|.....         |-++++..|-.|+.++|-++-++-  .|......+.+.|-..|++.+|..+|.+..
T Consensus       933 ~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~es--gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  933 SFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEES--GDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             HHHHHhhh---------hhhheeeEeeccCchHHHHHHHhc--ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            77665543         234555556667777666665542  233455556666666677777776666654

>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=98.93  E-value=1.6e-07  Score=84.38  Aligned_cols=247  Identities=13%  Similarity=0.049  Sum_probs=161.4

Q ss_pred             HHHHhcCChhHHHHHHhccCCCC----cchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccH
Q 046221          294 AMYSKCGDLDSSRSVFNQITEKS----LVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAAL  369 (572)
Q Consensus       294 ~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  369 (572)
                      +-+.-.|++..++.-.+ ....+    ......+.+++...|+++.++   .++.  .+..|.......+...+....+.
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-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIK--KSSSPELQAVRLLAEYLSSPSDK   82 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS---TTSSCCCHHHHHHHHHHCTSTTH
T ss_pred             HHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhc--cCCChhHHHHHHHHHHHhCccch
Confidence            44555688888876554 22221    234455677888888877544   4443  33377777776676666655555


Q ss_pred             HHHHHHHHHHHHhcCC-CchhHHHHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 046221          370 EICLQLHGIAFEAGFP-RYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTE  448 (572)
Q Consensus       370 ~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  448 (572)
                      +.+..-++........ .+....-.....+...|++++|++++...   .+.......+..|.+.++++.|.+.++.|.+
T Consensus        83 e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~---~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~  159 (290)
T PF04733_consen   83 ESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG---GSLELLALAVQILLKMNRPDLAEKELKNMQQ  159 (290)
T ss_dssp             HCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT---TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc---CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5555555443333323 23333334445677889999999988765   4556667788999999999999999999998


Q ss_pred             cCCCCCHHHHHHHHHHH----hccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCC
Q 046221          449 TGEVPDSSTYLSILNAC----GHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMG  522 (572)
Q Consensus       449 ~g~~p~~~~~~~l~~~~----~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~  522 (572)
                        +..|. +...+..++    ...+.+.+|..+|+++.+.  .++++.+.+.+..+....|++++|.+++.+...  +-+
T Consensus       160 --~~eD~-~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~--~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~  234 (290)
T PF04733_consen  160 --IDEDS-ILTQLAEAWVNLATGGEKYQDAFYIFEELSDK--FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPND  234 (290)
T ss_dssp             --CSCCH-HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC--S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCH
T ss_pred             --cCCcH-HHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc--cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCC
Confidence              45554 333344443    2334799999999998543  568888999999999999999999999999887  445


Q ss_pred             hHHHHHHHHHHhhhcCCH-HHHHHHHHHHHhCCC
Q 046221          523 PNIWRALLSGCVLHVGRF-QDAEALRSGSQKKGI  555 (572)
Q Consensus       523 ~~~~~~l~~~~~~~~g~~-~~A~~~~~~m~~~~~  555 (572)
                      +.+...++...... |+. +.+.+.+.++.+..+
T Consensus       235 ~d~LaNliv~~~~~-gk~~~~~~~~l~qL~~~~p  267 (290)
T PF04733_consen  235 PDTLANLIVCSLHL-GKPTEAAERYLSQLKQSNP  267 (290)
T ss_dssp             HHHHHHHHHHHHHT-T-TCHHHHHHHHHCHHHTT
T ss_pred             HHHHHHHHHHHHHh-CCChhHHHHHHHHHHHhCC
Confidence            55666665554444 777 667788888776543

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.

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.92  E-value=2.3e-07  Score=84.80  Aligned_cols=94  Identities=10%  Similarity=-0.064  Sum_probs=44.3

Q ss_pred             HHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeH
Q 046221           39 WSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSC  118 (572)
Q Consensus        39 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (572)
                      |..+...+...|+.++|...|++..+.. +.+...|+.+...+...|++++|...++..++..+          .+..+|
T Consensus        67 ~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P----------~~~~a~  135 (296)
T PRK11189         67 HYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDP----------TYNYAY  135 (296)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC----------CCHHHH
Confidence            4444444445555555555555544432 22334444444455555555555555555544433          122344


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHh
Q 046221          119 NAIVAGFINNKLFQQAVLLFNFFRG  143 (572)
Q Consensus       119 ~~l~~~~~~~~~~~~a~~~~~~m~~  143 (572)
                      ..+...+...|++++|.+.|+...+
T Consensus       136 ~~lg~~l~~~g~~~eA~~~~~~al~  160 (296)
T PRK11189        136 LNRGIALYYGGRYELAQDDLLAFYQ  160 (296)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4444444455555555555555444

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.92  E-value=1e-05  Score=80.55  Aligned_cols=395  Identities=11%  Similarity=0.015  Sum_probs=201.4

Q ss_pred             CCcchhhHHHHHhhcCChhhHHHHhccCCCCC-----hhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHH
Q 046221            4 DPYNSSKLLSNYFKSGKIKEAENLFDEIPEKN-----VVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVL   78 (572)
Q Consensus         4 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll   78 (572)
                      |...+..+.+.|.+..+++.|..+.-...+..     ...|-...-.|...++...|+.-|+...+.. +-|...|..+.
T Consensus       525 daeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLG  603 (1238)
T KOG1127|consen  525 DAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLG  603 (1238)
T ss_pred             hhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHH
Confidence            45566778889999999999998854433321     2234444445677788888888888877654 45666788888


Q ss_pred             HHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHH--HHHHHHhCCChHHHHHHHHHHHhC------CCCCCH
Q 046221           79 VAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNA--IVAGFINNKLFQQAVLLFNFFRGS------GLVPNA  150 (572)
Q Consensus        79 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~~~~~~a~~~~~~m~~~------~~~p~~  150 (572)
                      .+|.+.|++..|.++|.+.....+.            ..|..  ....-+..|.+.+|+..+......      +..--.
T Consensus       604 eAY~~sGry~~AlKvF~kAs~LrP~------------s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLa  671 (1238)
T KOG1127|consen  604 EAYPESGRYSHALKVFTKASLLRPL------------SKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLA  671 (1238)
T ss_pred             HHHHhcCceehHHHhhhhhHhcCcH------------hHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHH
Confidence            8888888888888888877766542            12222  222344568888888777766542      111122


Q ss_pred             hhHHHHHHHHhccCChHHHHHHHHH-------HHHhcCCCChhHHhHHHHHH-----------------------HhCCC
Q 046221          151 VTMLTVIRGCVALGSRALCELIHGL-------TIKLGLILDVSVNNSVLDMY-----------------------SCLMD  200 (572)
Q Consensus       151 ~~~~~ll~~~~~~~~~~~a~~~~~~-------~~~~~~~~~~~~~~~l~~~~-----------------------~~~~~  200 (572)
                      .++..+...+...|-...+..+++.       ...+....+...|-.+.+++                       -+.+.
T Consensus       672 E~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~  751 (1238)
T KOG1127|consen  672 ESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGA  751 (1238)
T ss_pred             HHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhccc
Confidence            2333333333333322223222222       22222111222222111111                       11111


Q ss_pred             H---H---HHHHHHhhcCC--CCcccHHHHHHHHHc--------cCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhccc
Q 046221          201 L---D---AAIQIFREMEC--KDVISWTRMMGLFVD--------FEYAGDALKIFREMRKSRIICDTVALLNLISVNAIL  264 (572)
Q Consensus       201 ~---~---~a~~~~~~~~~--~~~~~~~~li~~~~~--------~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  264 (572)
                      .   |   -+.+.+-.-..  .+..+|..++..|.+        ..+...|...+....+.  ..+...+-..+......
T Consensus       752 l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L--~ann~~~WnaLGVlsg~  829 (1238)
T KOG1127|consen  752 LKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSL--CANNEGLWNALGVLSGI  829 (1238)
T ss_pred             CcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHH--hhccHHHHHHHHHhhcc
Confidence            1   0   00000000000  133445555444433        12223456666655543  23444444444445555


Q ss_pred             CChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCC---CcchHHHHHHHHHHcCChHHHHHHHH
Q 046221          265 GDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEK---SLVSWTAIISGYVQNGCAREALNQFI  341 (572)
Q Consensus       265 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~  341 (572)
                      |++.-+..-|-.-.... +....+|..+.-.+.+..+++.|...|.....-   +...|--........|+.-+...+|.
T Consensus       830 gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfa  908 (1238)
T KOG1127|consen  830 GNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLDPLNLVQWLGEALIPEAVGRIIERLILFA  908 (1238)
T ss_pred             chhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhhcCchhhHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            66666655554443332 445556667777777888888888888877653   33455444444445666666666665


Q ss_pred             HH---HhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHH---------hcCCCchhHHHHHHHHhhhcCChHHHHH
Q 046221          342 KM---RQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFE---------AGFPRYRSVQNCLISSYSKCGNVDLAYI  409 (572)
Q Consensus       342 ~~---~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---------~~~~~~~~~~~~l~~~~~~~g~~~~A~~  409 (572)
                      .-   ....|.-++...+..........|+.+.-....+.+..         .+.+.....|.+.....-+.+.++.|..
T Consensus       909 Hs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~e  988 (1238)
T KOG1127|consen  909 HSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALE  988 (1238)
T ss_pred             hhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHH
Confidence            51   11233444444444444444444444433322222211         1334455556655555556666666655


Q ss_pred             HHHHc
Q 046221          410 VFEEM  414 (572)
Q Consensus       410 ~~~~~  414 (572)
                      ...+.
T Consensus       989 la~Rl  993 (1238)
T KOG1127|consen  989 LATRL  993 (1238)
T ss_pred             HHHHH
Confidence            55444

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.89  E-value=0.00013  Score=73.12  Aligned_cols=270  Identities=14%  Similarity=0.088  Sum_probs=159.4

Q ss_pred             HHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCH
Q 046221          122 VAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDL  201 (572)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (572)
                      ......++-+++|+.+|+..-     .+......++.-   .++++.|.+.-+..      ..+.+|+.+..+-.+.|.+
T Consensus      1055 a~iai~~~LyEEAF~ifkkf~-----~n~~A~~VLie~---i~~ldRA~efAe~~------n~p~vWsqlakAQL~~~~v 1120 (1666)
T KOG0985|consen 1055 AEIAIENQLYEEAFAIFKKFD-----MNVSAIQVLIEN---IGSLDRAYEFAERC------NEPAVWSQLAKAQLQGGLV 1120 (1666)
T ss_pred             HHHHhhhhHHHHHHHHHHHhc-----ccHHHHHHHHHH---hhhHHHHHHHHHhh------CChHHHHHHHHHHHhcCch
Confidence            334445555666666666542     233333333332   23444444433322      2345666677776777777


Q ss_pred             HHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhC
Q 046221          202 DAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGG  281 (572)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  281 (572)
                      .+|++-|-+.  .|+..|..+++...+.|.+++-.+++...++....|...  +.++-+|++.+++.+.+.++.      
T Consensus      1121 ~dAieSyika--dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi~------ 1190 (1666)
T KOG0985|consen 1121 KDAIESYIKA--DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFIA------ 1190 (1666)
T ss_pred             HHHHHHHHhc--CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHhc------
Confidence            7776655443  455567777777777777777777766666554444433  356666776666665554432      


Q ss_pred             CCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHH
Q 046221          282 LQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILT  361 (572)
Q Consensus       282 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~  361 (572)
                       -|+......+.+-|...|.++.|.-+|.     ++..|..|...+...|+++.|.+.-++..       +..||.-+-.
T Consensus      1191 -gpN~A~i~~vGdrcf~~~~y~aAkl~y~-----~vSN~a~La~TLV~LgeyQ~AVD~aRKAn-------s~ktWK~Vcf 1257 (1666)
T KOG0985|consen 1191 -GPNVANIQQVGDRCFEEKMYEAAKLLYS-----NVSNFAKLASTLVYLGEYQGAVDAARKAN-------STKTWKEVCF 1257 (1666)
T ss_pred             -CCCchhHHHHhHHHhhhhhhHHHHHHHH-----HhhhHHHHHHHHHHHHHHHHHHHHhhhcc-------chhHHHHHHH
Confidence             4555555666666777777777766665     34567778888888888888877666553       5567777777


Q ss_pred             HhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhc
Q 046221          362 ASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVN  433 (572)
Q Consensus       362 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~  433 (572)
                      +|...+.+..|.     +...++.....-..-++..|-..|-+++-+.+++.. |... ..-.|+-|.-.|.+-
T Consensus      1258 aCvd~~EFrlAQ-----iCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgmfTELaiLYsky 1326 (1666)
T KOG0985|consen 1258 ACVDKEEFRLAQ-----ICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGMFTELAILYSKY 1326 (1666)
T ss_pred             HHhchhhhhHHH-----hcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHHHHHHHHHHHhc
Confidence            777666554332     111222233344456777788888888888887766 4432 334455555555543

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.87  E-value=1.1e-05  Score=75.02  Aligned_cols=418  Identities=14%  Similarity=0.030  Sum_probs=238.8

Q ss_pred             HHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCC-HhhHHHHH
Q 046221           79 VAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPN-AVTMLTVI  157 (572)
Q Consensus        79 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll  157 (572)
                      .+.+..|+++.|...|-+.+...+          +|.+.|..-..+|...|++++|++=-.+-++  +.|+ ..-|+-.-
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~p----------~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~G   77 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLSP----------TNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKG   77 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccCC----------CccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhH
Confidence            355678999999999988888776          6788899999999999999999876666655  4555 34678888


Q ss_pred             HHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhh------cCC-C------CcccHHHHHH
Q 046221          158 RGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFRE------MEC-K------DVISWTRMMG  224 (572)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~------~~~-~------~~~~~~~li~  224 (572)
                      .++.-.|++++|...|.+-++.. +.+...++.+..++...   ..+.+.|..      +.. |      ....|..++.
T Consensus        78 aa~~~lg~~~eA~~ay~~GL~~d-~~n~~L~~gl~~a~~~~---~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~  153 (539)
T KOG0548|consen   78 AALFGLGDYEEAILAYSEGLEKD-PSNKQLKTGLAQAYLED---YAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILE  153 (539)
T ss_pred             HHHHhcccHHHHHHHHHHHhhcC-CchHHHHHhHHHhhhHH---HHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHH
Confidence            88888899999999998887764 55566777777766111   111111111      000 0      1112333332


Q ss_pred             HHHcc-------CCHHHHHHHHHHHHh--------CCCCCCccchH---HHHHHhcccCChHHHHHHHHHHHHhCCCCCc
Q 046221          225 LFVDF-------EYAGDALKIFREMRK--------SRIICDTVALL---NLISVNAILGDLKRGKQLHAQVVLGGLQSEL  286 (572)
Q Consensus       225 ~~~~~-------~~~~~a~~~~~~m~~--------~~~~p~~~~~~---~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  286 (572)
                      .+-++       .+.+......-.+..        .+..+....-.   .-.......++..+-.+.         ..-.
T Consensus       154 ~~~~~p~~l~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~---------k~~a  224 (539)
T KOG0548|consen  154 IIQKNPTSLKLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRV---------KEKA  224 (539)
T ss_pred             HhhcCcHhhhcccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHH---------HHhh
Confidence            22211       001111111111100        00000000000   000000000000000000         0001


Q ss_pred             chHHHHHHHHHhcCChhHHHHHHhccCCC--CcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCC--C----HhHHHH
Q 046221          287 RLSNSIIAMYSKCGDLDSSRSVFNQITEK--SLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSV--D----SITLVS  358 (572)
Q Consensus       287 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~----~~~~~~  358 (572)
                      .-...+.++..+..+++.|.+-+....+-  ++.-++....+|...|.+.+......... +.|...  +    ...+..
T Consensus       225 ~~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  225 HKEKELGNAAYKKKDFETAIQHYAKALELATDITYLNNIAAVYLERGKYAECIELCEKAV-EVGRELRADYKLIAKALAR  303 (539)
T ss_pred             hHHHHHHHHHHHhhhHHHHHHHHHHHHhHhhhhHHHHHHHHHHHhccHHHHhhcchHHHH-HHhHHHHHHHHHHHHHHHH
Confidence            12244566666677777777777665543  23334555566777776666665555544 222111  0    112222


Q ss_pred             HHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCH-hHHHHHHHHHHhcCCh
Q 046221          359 ILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDV-VSWNTIIYGYGVNGHG  436 (572)
Q Consensus       359 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~-~~~~~l~~~~~~~~~~  436 (572)
                      +..++.+.++++.+...+.+.......|+.         ..+....+++.+..+.. -+.|.. .....-...+.+.|++
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~---------ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy  374 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRTPDL---------LSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDY  374 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcCHHH---------HHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCH
Confidence            334566667788888888776554433332         23344455555555554 333432 1122235668889999


Q ss_pred             HHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHH
Q 046221          437 ETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAG  515 (572)
Q Consensus       437 ~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  515 (572)
                      ..|+..|.+++..  .| |...|....-+|.+.|.+..|+.-.+..++.+  ++....|.--..++.-..++++|.+.|+
T Consensus       375 ~~Av~~YteAIkr--~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~--p~~~kgy~RKg~al~~mk~ydkAleay~  450 (539)
T KOG0548|consen  375 PEAVKHYTEAIKR--DPEDARLYSNRAACYLKLGEYPEALKDAKKCIELD--PNFIKAYLRKGAALRAMKEYDKALEAYQ  450 (539)
T ss_pred             HHHHHHHHHHHhc--CCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--chHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999986  46 55889999999999999999999988887653  3334455555667777788999999999


Q ss_pred             hccC-CCChHHHHHHHHHHhh
Q 046221          516 KLLE-GMGPNIWRALLSGCVL  535 (572)
Q Consensus       516 ~~~~-~~~~~~~~~l~~~~~~  535 (572)
                      +..+ +|+..-+..-+.-|..
T Consensus       451 eale~dp~~~e~~~~~~rc~~  471 (539)
T KOG0548|consen  451 EALELDPSNAEAIDGYRRCVE  471 (539)
T ss_pred             HHHhcCchhHHHHHHHHHHHH
Confidence            9887 6665555555555544

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.86  E-value=5.8e-06  Score=70.75  Aligned_cols=300  Identities=10%  Similarity=0.034  Sum_probs=165.1

Q ss_pred             hhhHHHHHhhcCChhhHHHHhccCCCC---ChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHH-HHHHcC
Q 046221            8 SSKLLSNYFKSGKIKEAENLFDEIPEK---NVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGV-LVAAAG   83 (572)
Q Consensus         8 ~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l-l~~~~~   83 (572)
                      +.+.+..+.+..++++|++++..-.+.   +....+.+...|-...++..|-+.|+++-..  .|...-|... ..++.+
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY~   90 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLYK   90 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHHH
Confidence            456777788999999999999877663   4556777778888999999999999998765  5665555432 355667


Q ss_pred             CCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHH----HHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 046221           84 LQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIV----AGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRG  159 (572)
Q Consensus        84 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  159 (572)
                      .+.+..|.++...|...            +  ...+..+    ......+++..+..++++....|   +..+.+     
T Consensus        91 A~i~ADALrV~~~~~D~------------~--~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~i-----  148 (459)
T KOG4340|consen   91 ACIYADALRVAFLLLDN------------P--ALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQI-----  148 (459)
T ss_pred             hcccHHHHHHHHHhcCC------------H--HHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhc-----
Confidence            78888888887766432            1  1112111    12234566666666666554221   222222     


Q ss_pred             HhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCC----CCcccHHHHHHHHHccCCHHHH
Q 046221          160 CVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMEC----KDVISWTRMMGLFVDFEYAGDA  235 (572)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a  235 (572)
                                                    .......+.|+.+.|.+-|+...+    .....||..+ +..+.++++.|
T Consensus       149 ------------------------------n~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasA  197 (459)
T KOG4340|consen  149 ------------------------------NLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASA  197 (459)
T ss_pred             ------------------------------cchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHH
Confidence                                          222223344455555555544433    1233444333 34456777888


Q ss_pred             HHHHHHHHhCCCCCCccch-H---HHHHHhcccCCh-HHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHh
Q 046221          236 LKIFREMRKSRIICDTVAL-L---NLISVNAILGDL-KRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFN  310 (572)
Q Consensus       236 ~~~~~~m~~~~~~p~~~~~-~---~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  310 (572)
                      ++...++.++|++-.+..- .   ..+.+- ..|+. ..+..-+           ...+|.-...+.+.|+++.|.+.+.
T Consensus       198 Lk~iSEIieRG~r~HPElgIGm~tegiDvr-svgNt~~lh~Sal-----------~eAfNLKaAIeyq~~n~eAA~eaLt  265 (459)
T KOG4340|consen  198 LKHISEIIERGIRQHPELGIGMTTEGIDVR-SVGNTLVLHQSAL-----------VEAFNLKAAIEYQLRNYEAAQEALT  265 (459)
T ss_pred             HHHHHHHHHhhhhcCCccCccceeccCchh-cccchHHHHHHHH-----------HHHhhhhhhhhhhcccHHHHHHHhh
Confidence            8888888877754322210 0   000000 00110 0000000           1122333445667888899988888


Q ss_pred             ccCCC-----CcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHH
Q 046221          311 QITEK-----SLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHG  377 (572)
Q Consensus       311 ~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  377 (572)
                      .|+.+     |++|...+.-.- ..+++.+..+-+.-+.+..+  -...||..++-.||+..-++.|-.++.
T Consensus       266 DmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nP--fP~ETFANlLllyCKNeyf~lAADvLA  334 (459)
T KOG4340|consen  266 DMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNP--FPPETFANLLLLYCKNEYFDLAADVLA  334 (459)
T ss_pred             cCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCC--CChHHHHHHHHHHhhhHHHhHHHHHHh
Confidence            88753     455544332211 23444444444444442322  234566667777777776666666654

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

Probab=98.80  E-value=1.7e-05  Score=75.61  Aligned_cols=192  Identities=9%  Similarity=-0.006  Sum_probs=95.9

Q ss_pred             hHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchH--H-HHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCC
Q 046221           38 SWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTM--V-GVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPY  114 (572)
Q Consensus        38 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~--~-~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  114 (572)
                      .|..+...+...|+.+.+...+....+.. +++....  . .....+...|++++|..+++...+..+          .+
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P----------~~   76 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQAL-AARATERERAHVEALSAWIAGDLPKALALLEQLLDDYP----------RD   76 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHh-ccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC----------Cc
Confidence            34444445555556666555555544321 1121111  1 111223355666666666666665543          11


Q ss_pred             ceeHHHHHHHHH----hCCChHHHHHHHHHHHhCCCCCCH-hhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHh
Q 046221          115 LVSCNAIVAGFI----NNKLFQQAVLLFNFFRGSGLVPNA-VTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNN  189 (572)
Q Consensus       115 ~~~~~~l~~~~~----~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  189 (572)
                      ...+.. ...+.    ..+....+.+.+..  .....|+. .....+...+...|++++|...+++.++.. +.+...+.
T Consensus        77 ~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~  152 (355)
T cd05804          77 LLALKL-HLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVH  152 (355)
T ss_pred             HHHHHH-hHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHH
Confidence            222221 11111    12333444444433  11122222 222334445566677777777777776654 44455566


Q ss_pred             HHHHHHHhCCCHHHHHHHHhhcCC--C---Cc--ccHHHHHHHHHccCCHHHHHHHHHHHHh
Q 046221          190 SVLDMYSCLMDLDAAIQIFREMEC--K---DV--ISWTRMMGLFVDFEYAGDALKIFREMRK  244 (572)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~--~---~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~  244 (572)
                      .+...+...|++++|...+++...  +   +.  ..|..+...+...|++++|..++++...
T Consensus       153 ~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~  214 (355)
T cd05804         153 AVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIA  214 (355)
T ss_pred             HHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence            666677777777777777766554  1   11  1234566667777777777777777643

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.

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

Probab=98.77  E-value=3e-05  Score=73.91  Aligned_cols=194  Identities=14%  Similarity=0.038  Sum_probs=90.9

Q ss_pred             ccHHHHHHHHHccCCHHHHHHHHHHHHhCCC-CCCccchHH-HHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHH---
Q 046221          217 ISWTRMMGLFVDFEYAGDALKIFREMRKSRI-ICDTVALLN-LISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNS---  291 (572)
Q Consensus       217 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---  291 (572)
                      ..|..+...+...|+.+.+...+....+... .++...... ....+...|+++.|...++...+.. +.+...+..   
T Consensus         7 ~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~   85 (355)
T cd05804           7 LGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLG   85 (355)
T ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHH
Confidence            4455666666666777776666665544321 112111111 1223355677777777777766553 222222221   


Q ss_pred             HHHHHHhcCChhHHHHHHhccCCCCc---chHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhccccc
Q 046221          292 IIAMYSKCGDLDSSRSVFNQITEKSL---VSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAA  368 (572)
Q Consensus       292 l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  368 (572)
                      +.......+..+.+.+.+......+.   .....+...+...|++++|...+++..                        
T Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al------------------------  141 (355)
T cd05804          86 AFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRAL------------------------  141 (355)
T ss_pred             HHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH------------------------
Confidence            11111122333444444433221111   122223334455555555555555554                        


Q ss_pred             HHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCC---CCH--hHHHHHHHHHHhcCChHHHHHH
Q 046221          369 LEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFL---RDV--VSWNTIIYGYGVNGHGETALAL  442 (572)
Q Consensus       369 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~---~~~--~~~~~l~~~~~~~~~~~~A~~~  442 (572)
                                  +.. +.+...+..+..++...|++++|...+++. ...   |+.  ..|..+...+...|++++|..+
T Consensus       142 ------------~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~  208 (355)
T cd05804         142 ------------ELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAI  208 (355)
T ss_pred             ------------hhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHH
Confidence                        332 223344455555566666666666666655 111   221  2233455556666666666666


Q ss_pred             HHHHHh
Q 046221          443 YHKMTE  448 (572)
Q Consensus       443 ~~~~~~  448 (572)
                      +++...
T Consensus       209 ~~~~~~  214 (355)
T cd05804         209 YDTHIA  214 (355)
T ss_pred             HHHHhc
Confidence            666543

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.

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.72  E-value=1.2e-06  Score=81.88  Aligned_cols=242  Identities=12%  Similarity=0.120  Sum_probs=152.8

Q ss_pred             HHHhcCChhHHHHHHhccCCCCc---chHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHH
Q 046221          295 MYSKCGDLDSSRSVFNQITEKSL---VSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEI  371 (572)
Q Consensus       295 ~~~~~~~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  371 (572)
                      -+.+.|++.+|.-.|+...+.|+   ..|..|.......++-..|+..+++..  .-.+.+...+..|.-.|...|.-..
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl--~LdP~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCL--ELDPTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHH--hcCCccHHHHHHHHHHHhhhhhHHH
Confidence            34566777777777776665433   466667777777777777777777764  2334456666777777777777777


Q ss_pred             HHHHHHHHHHhcCCC--------chhHHHHHHHHhhhcCChHHHHHHHHHc----CCCCCHhHHHHHHHHHHhcCChHHH
Q 046221          372 CLQLHGIAFEAGFPR--------YRSVQNCLISSYSKCGNVDLAYIVFEEM----GFLRDVVSWNTIIYGYGVNGHGETA  439 (572)
Q Consensus       372 a~~~~~~~~~~~~~~--------~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~A  439 (572)
                      |...++..+....+-        +...-..  ..+.....+....++|-++    +..+|+.....|.-.|--.|++++|
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            777776665443110        0000000  1112222344445555555    4446777777777777788888888


Q ss_pred             HHHHHHHHhcCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCCh-hHHHHHHHHHHhhCChhHHHHHHHhc
Q 046221          440 LALYHKMTETGEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQ-EHYGCVVDLLARAGCLSDASGLAGKL  517 (572)
Q Consensus       440 ~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~  517 (572)
                      +..|+..+.  ++|+ ...|+-|...++...+.++|+..|.++++   ++|.- .....|.-.|...|.+++|...|=.+
T Consensus       450 iDcf~~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq---LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~A  524 (579)
T KOG1125|consen  450 VDCFEAALQ--VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQ---LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEA  524 (579)
T ss_pred             HHHHHHHHh--cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh---cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHH
Confidence            888888887  5674 47788888888888888888888888764   45553 36667777788888888887776654


Q ss_pred             cC------------CCChHHHHHHHHHHhhhcCCHHHHHHH
Q 046221          518 LE------------GMGPNIWRALLSGCVLHVGRFQDAEAL  546 (572)
Q Consensus       518 ~~------------~~~~~~~~~l~~~~~~~~g~~~~A~~~  546 (572)
                      ..            .++...|..|-.++... ++.|-+.+.
T Consensus       525 L~mq~ks~~~~~~~~~se~iw~tLR~als~~-~~~D~l~~a  564 (579)
T KOG1125|consen  525 LSMQRKSRNHNKAPMASENIWQTLRLALSAM-NRSDLLQEA  564 (579)
T ss_pred             HHhhhcccccccCCcchHHHHHHHHHHHHHc-CCchHHHHh
Confidence            33            12235677777665555 666645443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.71  E-value=7.5e-05  Score=80.95  Aligned_cols=326  Identities=10%  Similarity=-0.045  Sum_probs=170.2

Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCC------CC--cchHHHHHHHHH
Q 046221          226 FVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQ------SE--LRLSNSIIAMYS  297 (572)
Q Consensus       226 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~------~~--~~~~~~l~~~~~  297 (572)
                      ....|+++.+...+..+.......+..........+...|+++++...+......--.      +.  ......+...+.
T Consensus       384 l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~  463 (903)
T PRK04841        384 LFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAI  463 (903)
T ss_pred             HHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHH
Confidence            4445666666666555422111112222223333445667777777777766543111      11  111122334455


Q ss_pred             hcCChhHHHHHHhccCC----CCc----chHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC--C--CHhHHHHHHHHhcc
Q 046221          298 KCGDLDSSRSVFNQITE----KSL----VSWTAIISGYVQNGCAREALNQFIKMRQEKTDS--V--DSITLVSILTASGE  365 (572)
Q Consensus       298 ~~~~~~~a~~~~~~~~~----~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~--~~~~~~~ll~~~~~  365 (572)
                      ..|++++|...+++...    .+.    ...+.+...+...|++++|...+++........  +  ...+...+...+..
T Consensus       464 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~  543 (903)
T PRK04841        464 NDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFA  543 (903)
T ss_pred             hCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHH
Confidence            67788887777766432    111    233445555667788888887777765221111  1  11233444556667


Q ss_pred             cccHHHHHHHHHHHHHh----cCCC---chhHHHHHHHHhhhcCChHHHHHHHHHc-----CCCCC--HhHHHHHHHHHH
Q 046221          366 LAALEICLQLHGIAFEA----GFPR---YRSVQNCLISSYSKCGNVDLAYIVFEEM-----GFLRD--VVSWNTIIYGYG  431 (572)
Q Consensus       366 ~~~~~~a~~~~~~~~~~----~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~-----~~~~~--~~~~~~l~~~~~  431 (572)
                      .|+++.|...++.....    +...   ....+..+...+...|++++|...+.+.     ...+.  ...+..+...+.
T Consensus       544 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~  623 (903)
T PRK04841        544 QGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISL  623 (903)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHH
Confidence            78888887777665442    2111   1223344555666678888887777765     11121  233444555667


Q ss_pred             hcCChHHHHHHHHHHHhcC--CCC--CHHHH--HHHHHHHhccCChHHHHHHHHHhHHhcCCCCChh----HHHHHHHHH
Q 046221          432 VNGHGETALALYHKMTETG--EVP--DSSTY--LSILNACGHAGLTNDGLVIFNQMIEENKVKPSQE----HYGCVVDLL  501 (572)
Q Consensus       432 ~~~~~~~A~~~~~~~~~~g--~~p--~~~~~--~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~----~~~~l~~~~  501 (572)
                      ..|+++.|...+++.....  ...  .....  ...+..+...|+.+.|..++..... . ......    .+..+..++
T Consensus       624 ~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~-~-~~~~~~~~~~~~~~~a~~~  701 (903)
T PRK04841        624 ARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPK-P-EFANNHFLQGQWRNIARAQ  701 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCC-C-CCccchhHHHHHHHHHHHH
Confidence            7788888887777765421  011  00000  1112334456777777777765532 1 111111    134556677


Q ss_pred             HhhCChhHHHHHHHhccC-----CCC---hHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCC
Q 046221          502 ARAGCLSDASGLAGKLLE-----GMG---PNIWRALLSGCVLHVGRFQDAEALRSGSQKKG  554 (572)
Q Consensus       502 ~~~g~~~~A~~~~~~~~~-----~~~---~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~  554 (572)
                      ...|++++|...++++..     ...   ..+...+...+... |+.++|...+.+..+..
T Consensus       702 ~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~-G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        702 ILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQ-GRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHh
Confidence            777888888887777654     111   11233333344444 88888887777776544

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

Probab=98.70  E-value=8.7e-06  Score=78.43  Aligned_cols=231  Identities=13%  Similarity=0.090  Sum_probs=181.3

Q ss_pred             CCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHH
Q 046221          283 QSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTA  362 (572)
Q Consensus       283 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~  362 (572)
                      +|-...-..+...+...|-...|..+|+++     ..|..++.+|+..|+..+|..+..+-. +  .+||+..|..+...
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~l-e--k~~d~~lyc~LGDv  466 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQEL-E--KDPDPRLYCLLGDV  466 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHh-c--CCCcchhHHHhhhh
Confidence            444445567888899999999999999976     478889999999999999999888875 3  78899999999999


Q ss_pred             hcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCC-CCHhHHHHHHHHHHhcCChHHHH
Q 046221          363 SGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFL-RDVVSWNTIIYGYGVNGHGETAL  440 (572)
Q Consensus       363 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~A~  440 (572)
                      ..+..-+++|.++.+.....       .-..+.....+.++++++.+.|+.- .+. .-..+|-.+..+..+.++++.|.
T Consensus       467 ~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av  539 (777)
T KOG1128|consen  467 LHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAV  539 (777)
T ss_pred             ccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHH
Confidence            99888999999998765433       1122333344578999999999876 332 34567877878888899999999


Q ss_pred             HHHHHHHhcCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          441 ALYHKMTETGEVPDS-STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       441 ~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +.|.....  ..||. ..|+.+-.+|.+.|+-.+|...++++++-+  .-+..+|...+-...+.|.+++|.+.+.++..
T Consensus       540 ~aF~rcvt--L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn--~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  540 KAFHRCVT--LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN--YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHHHHHhh--cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC--CCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            99999888  68876 889999999999999999999999998554  34455777778888899999999999998876


Q ss_pred             ----CCChHHHHHHHHH
Q 046221          520 ----GMGPNIWRALLSG  532 (572)
Q Consensus       520 ----~~~~~~~~~l~~~  532 (572)
                          ..|+.+...++..
T Consensus       616 ~~~~~~d~~vl~~iv~~  632 (777)
T KOG1128|consen  616 LRKKYKDDEVLLIIVRT  632 (777)
T ss_pred             hhhhcccchhhHHHHHH
Confidence                3344444444433

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.66  E-value=4.7e-05  Score=66.73  Aligned_cols=306  Identities=10%  Similarity=0.038  Sum_probs=198.0

Q ss_pred             HHHHHHHhCCCHHHHHHHHhhcCCCCcccHHHHH---HHHHccCCHHHHHHHHHHHHhCCCCCCccchH-HHHHHhcccC
Q 046221          190 SVLDMYSCLMDLDAAIQIFREMECKDVISWTRMM---GLFVDFEYAGDALKIFREMRKSRIICDTVALL-NLISVNAILG  265 (572)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li---~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~-~ll~~~~~~~  265 (572)
                      -+...+...|++..|+.-|....+.|+..|.++.   ..|...|+...|+.-+.+..+.  +||-..-. .--..+.+.|
T Consensus        43 ElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~G  120 (504)
T KOG0624|consen   43 ELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQG  120 (504)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhcc
Confidence            4566667777888888888777776666666554   3566677777777666666653  45532211 1112345556


Q ss_pred             ChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHh
Q 046221          266 DLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQ  345 (572)
Q Consensus       266 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  345 (572)
                      .++.|..-|+.++++.....     ....++.+.-..++-+.            ....+..+.-.|+...|+.....+. 
T Consensus       121 ele~A~~DF~~vl~~~~s~~-----~~~eaqskl~~~~e~~~------------l~~ql~s~~~~GD~~~ai~~i~~ll-  182 (504)
T KOG0624|consen  121 ELEQAEADFDQVLQHEPSNG-----LVLEAQSKLALIQEHWV------------LVQQLKSASGSGDCQNAIEMITHLL-  182 (504)
T ss_pred             cHHHHHHHHHHHHhcCCCcc-----hhHHHHHHHHhHHHHHH------------HHHHHHHHhcCCchhhHHHHHHHHH-
Confidence            66666666666655432111     11122222211111111            1223445566788999999988885 


Q ss_pred             cCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCHhH--
Q 046221          346 EKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDVVS--  422 (572)
Q Consensus       346 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~--  422 (572)
                       .-.+.|...+..-..+|...|++..|+.=++...+.. ..+...+--+-..+...|+.+.++..+++. .+.||...  
T Consensus       183 -Ei~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKldpdHK~Cf  260 (504)
T KOG0624|consen  183 -EIQPWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKLDPDHKLCF  260 (504)
T ss_pred             -hcCcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccCcchhhHH
Confidence             3456677788888888899999999988877776655 334444555777888899999998888887 66676432  


Q ss_pred             --HHHH---H------HHHHhcCChHHHHHHHHHHHhcCCCCCH-----HHHHHHHHHHhccCChHHHHHHHHHhHHhcC
Q 046221          423 --WNTI---I------YGYGVNGHGETALALYHKMTETGEVPDS-----STYLSILNACGHAGLTNDGLVIFNQMIEENK  486 (572)
Q Consensus       423 --~~~l---~------~~~~~~~~~~~A~~~~~~~~~~g~~p~~-----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  486 (572)
                        |..|   .      ......+++.++++..+...+.  .|..     ..+..+-.++...|++.+|++...++++   
T Consensus       261 ~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~--ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~---  335 (504)
T KOG0624|consen  261 PFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN--EPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLD---  335 (504)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc--CCcccceeeeeeheeeecccccCCHHHHHHHHHHHHh---
Confidence              3222   1      2234567778888888877774  4542     3345566677888899999999988874   


Q ss_pred             CCCC-hhHHHHHHHHHHhhCChhHHHHHHHhccC-CCC
Q 046221          487 VKPS-QEHYGCVVDLLARAGCLSDASGLAGKLLE-GMG  522 (572)
Q Consensus       487 ~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~  522 (572)
                      +.|| +.++.--.++|.-...++.|+.-|+++.+ .++
T Consensus       336 ~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~s  373 (504)
T KOG0624|consen  336 IDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNES  373 (504)
T ss_pred             cCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcc
Confidence            3455 67888888899888899999999999887 443

>PF12854 PPR_1: PPR repeat

Probab=98.66  E-value=3.9e-08  Score=55.63  Aligned_cols=32  Identities=34%  Similarity=0.480  Sum_probs=21.9

Q ss_pred             cCCCChhHHhHHHHHHHhCCCHHHHHHHHhhc
Q 046221          180 GLILDVSVNNSVLDMYSCLMDLDAAIQIFREM  211 (572)
Q Consensus       180 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (572)
                      |+.||..+|++||++|++.|++++|.++|++|
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            56666666666677777777777777766666

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.66  E-value=5e-06  Score=77.91  Aligned_cols=248  Identities=15%  Similarity=0.102  Sum_probs=180.7

Q ss_pred             hcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCC---CcchHHHHHHHHHHcCChHHHH
Q 046221          261 NAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEK---SLVSWTAIISGYVQNGCAREAL  337 (572)
Q Consensus       261 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~  337 (572)
                      +.+.|++.+|.-.|+..++.+ +.+...|..|.......++-..|+..+.+..+-   +....-.|.-.|...|.-.+|+
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al  373 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQAL  373 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHH
Confidence            356788888888888888776 556778888888888888888888888887754   4456677777888889889999


Q ss_pred             HHHHHHHhcCC-----CC--CCHhHHHHHHHHhcccccHHHHHHHH-HHHHHhcCCCchhHHHHHHHHhhhcCChHHHHH
Q 046221          338 NQFIKMRQEKT-----DS--VDSITLVSILTASGELAALEICLQLH-GIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYI  409 (572)
Q Consensus       338 ~~~~~~~~~~~-----~~--~~~~~~~~ll~~~~~~~~~~~a~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  409 (572)
                      +.++.-.....     ..  ++..+-..  ........+....++| +.....+..+|+.+...|.-.|--.|++++|..
T Consensus       374 ~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiD  451 (579)
T KOG1125|consen  374 KMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVD  451 (579)
T ss_pred             HHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHH
Confidence            99887752220     00  00000000  1222333344455554 555556666899999999999999999999999


Q ss_pred             HHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHhHHhcC
Q 046221          410 VFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS-STYLSILNACGHAGLTNDGLVIFNQMIEENK  486 (572)
Q Consensus       410 ~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  486 (572)
                      .|+.. .+.| |...||.|...++...+.++|+..|.+.++  ++|+. .....|.-+|...|.+++|.+.|-.++....
T Consensus       452 cf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~  529 (579)
T KOG1125|consen  452 CFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQR  529 (579)
T ss_pred             HHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhh
Confidence            99998 6656 578899999999999999999999999999  79987 6667778889999999999998887664321


Q ss_pred             --------CCCChhHHHHHHHHHHhhCChhHHHHH
Q 046221          487 --------VKPSQEHYGCVVDLLARAGCLSDASGL  513 (572)
Q Consensus       487 --------~~~~~~~~~~l~~~~~~~g~~~~A~~~  513 (572)
                              -.++..+|..|=.++.-.++.+-+.+.
T Consensus       530 ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  530 KSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             cccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence                    112345777776666666666654443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.65  E-value=2.4e-06  Score=75.86  Aligned_cols=160  Identities=14%  Similarity=0.064  Sum_probs=98.0

Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHHc-CCCCC----HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH----HHHH
Q 046221          389 SVQNCLISSYSKCGNVDLAYIVFEEM-GFLRD----VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS----STYL  459 (572)
Q Consensus       389 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~----~~~~  459 (572)
                      ..+-.+...+...|++++|...++++ ...|+    ...+..+..++...|++++|...++++.+.  .|+.    .++.
T Consensus        34 ~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~  111 (235)
T TIGR03302        34 EELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL--HPNHPDADYAYY  111 (235)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCchHHHHH
Confidence            33444555566666666666666665 22222    134455566666666666666666666653  3322    1344


Q ss_pred             HHHHHHhcc--------CChHHHHHHHHHhHHhcCCCCChh-H-----------------HHHHHHHHHhhCChhHHHHH
Q 046221          460 SILNACGHA--------GLTNDGLVIFNQMIEENKVKPSQE-H-----------------YGCVVDLLARAGCLSDASGL  513 (572)
Q Consensus       460 ~l~~~~~~~--------g~~~~a~~~~~~~~~~~~~~~~~~-~-----------------~~~l~~~~~~~g~~~~A~~~  513 (572)
                      .+..++...        |++++|.+.++.+++..   |+.. .                 ...+...+.+.|++++|...
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~---p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~  188 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY---PNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINR  188 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC---CCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHH
Confidence            444444433        56666677776665443   2221 1                 12455678888999999999


Q ss_pred             HHhccC-CCC----hHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCC
Q 046221          514 AGKLLE-GMG----PNIWRALLSGCVLHVGRFQDAEALRSGSQKKG  554 (572)
Q Consensus       514 ~~~~~~-~~~----~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~  554 (572)
                      ++++.. .|+    +..+..+...+... |++++|...++.+..+.
T Consensus       189 ~~~al~~~p~~~~~~~a~~~l~~~~~~l-g~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       189 FETVVENYPDTPATEEALARLVEAYLKL-GLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHCCCCcchHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhhC
Confidence            999876 332    35677777777766 99999999998887654

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).

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.64  E-value=5.3e-05  Score=82.10  Aligned_cols=265  Identities=10%  Similarity=-0.077  Sum_probs=145.7

Q ss_pred             HHHHhhcCChhhHHHHhccCCCCChhh--HHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHH
Q 046221           12 LSNYFKSGKIKEAENLFDEIPEKNVVS--WSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLEL   89 (572)
Q Consensus        12 ~~~~~~~~~~~~A~~~~~~~~~~~~~~--~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~   89 (572)
                      ...+...|++.+|...+..........  .......+...|++..+...++.+.......+..........+...|++++
T Consensus       348 a~~~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~  427 (903)
T PRK04841        348 AEAWLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSE  427 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHH
Confidence            445556666666666665554432111  111223345567787777777665322112223333344445567899999


Q ss_pred             HHHHHHHHHHhcCCCCcccCCCCCC--ceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCH----hhHHHHHHHHhcc
Q 046221           90 ARSIHGLMVKFGLESDLFEGLKNPY--LVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNA----VTMLTVIRGCVAL  163 (572)
Q Consensus        90 a~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~  163 (572)
                      +..++....+.-...+.   ...+.  ......+...+...|++++|...+++..+.-...+.    ...+.+...+...
T Consensus       428 a~~~l~~a~~~~~~~~~---~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~  504 (903)
T PRK04841        428 VNTLLARAEQELKDRNI---ELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCK  504 (903)
T ss_pred             HHHHHHHHHHhccccCc---ccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHc
Confidence            99998877654211000   00011  112222334556789999999999887653111121    2334445556778


Q ss_pred             CChHHHHHHHHHHHHhcCC---C--ChhHHhHHHHHHHhCCCHHHHHHHHhhcCC-------CC----cccHHHHHHHHH
Q 046221          164 GSRALCELIHGLTIKLGLI---L--DVSVNNSVLDMYSCLMDLDAAIQIFREMEC-------KD----VISWTRMMGLFV  227 (572)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~---~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~~----~~~~~~li~~~~  227 (572)
                      |+++.|...+++.....-.   +  ...++..+...+...|+++.|...+++...       ++    ...+..+...+.
T Consensus       505 G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~  584 (903)
T PRK04841        505 GELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLW  584 (903)
T ss_pred             CCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHH
Confidence            8999998888887753211   1  123445556677778888888887766433       11    112334445566


Q ss_pred             ccCCHHHHHHHHHHHHhCC--CCCC--ccchHHHHHHhcccCChHHHHHHHHHHHH
Q 046221          228 DFEYAGDALKIFREMRKSR--IICD--TVALLNLISVNAILGDLKRGKQLHAQVVL  279 (572)
Q Consensus       228 ~~~~~~~a~~~~~~m~~~~--~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  279 (572)
                      ..|++++|...+.+.....  ..+.  ...+..+.......|+.+.|...+.....
T Consensus       585 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~  640 (903)
T PRK04841        585 EWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLEN  640 (903)
T ss_pred             HhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6788888877777764421  1111  12233334455566777777777666644

>PF12854 PPR_1: PPR repeat

Probab=98.63  E-value=5.5e-08  Score=55.00  Aligned_cols=32  Identities=28%  Similarity=0.599  Sum_probs=16.6

Q ss_pred             CCCCCHHHHHHHHHHHhccCChHHHHHHHHHh
Q 046221          450 GEVPDSSTYLSILNACGHAGLTNDGLVIFNQM  481 (572)
Q Consensus       450 g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  481 (572)
                      |+.||..||++|+.+|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            44555555555555555555555555555544

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.61  E-value=2.3e-05  Score=66.18  Aligned_cols=160  Identities=10%  Similarity=0.085  Sum_probs=91.6

Q ss_pred             CCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHH
Q 046221          350 SVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYG  429 (572)
Q Consensus       350 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~  429 (572)
                      ..+......-...|.+.++++.|.......      -+......=+..+.+..+++-|.+.+++|..--+..+.+-|..+
T Consensus       105 ~sn~i~~l~aa~i~~~~~~~deAl~~~~~~------~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~ided~tLtQLA~a  178 (299)
T KOG3081|consen  105 GSNLIDLLLAAIIYMHDGDFDEALKALHLG------ENLEAAALNVQILLKMHRFDLAEKELKKMQQIDEDATLTQLAQA  178 (299)
T ss_pred             chhHHHHHHhhHHhhcCCChHHHHHHHhcc------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHH
Confidence            333333333444556666666666655431      11222222244556666777777777777332455566656665


Q ss_pred             HHh----cCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhC
Q 046221          430 YGV----NGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAG  505 (572)
Q Consensus       430 ~~~----~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  505 (572)
                      +.+    .+.+..|.-+|++|.++ ..|+..+.+....++...|++++|..+++.++.+.  .-++.+...++.+-...|
T Consensus       179 wv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd--~~dpetL~Nliv~a~~~G  255 (299)
T KOG3081|consen  179 WVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD--AKDPETLANLIVLALHLG  255 (299)
T ss_pred             HHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhC
Confidence            543    34567777777777764 56777777777777777777777777777776544  345556666665555556


Q ss_pred             ChhHH-HHHHHhcc
Q 046221          506 CLSDA-SGLAGKLL  518 (572)
Q Consensus       506 ~~~~A-~~~~~~~~  518 (572)
                      ...++ .+.+.++.
T Consensus       256 kd~~~~~r~l~QLk  269 (299)
T KOG3081|consen  256 KDAEVTERNLSQLK  269 (299)
T ss_pred             CChHHHHHHHHHHH
Confidence            54333 34444444

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.56  E-value=0.00045  Score=60.80  Aligned_cols=307  Identities=10%  Similarity=0.012  Sum_probs=206.2

Q ss_pred             CHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCcccHHHH---HHH
Q 046221          149 NAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRM---MGL  225 (572)
Q Consensus       149 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l---i~~  225 (572)
                      ++.-..-+-..+...|.+..|..-|...++.. +.+-.++-.-...|...|+-..|+.-+.++.+..+.-+.+-   ...
T Consensus        37 dvekhlElGk~lla~~Q~sDALt~yHaAve~d-p~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~v  115 (504)
T KOG0624|consen   37 DVEKHLELGKELLARGQLSDALTHYHAAVEGD-PNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVV  115 (504)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCC-chhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchh
Confidence            34444556677778888888888888776532 22222333334567788888888888888876333333333   346


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHH
Q 046221          226 FVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSS  305 (572)
Q Consensus       226 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  305 (572)
                      +.+.|.+++|..-|+...+..  |+..+-   ..+..+.--.++-..+                ...+..+.-.|+...|
T Consensus       116 llK~Gele~A~~DF~~vl~~~--~s~~~~---~eaqskl~~~~e~~~l----------------~~ql~s~~~~GD~~~a  174 (504)
T KOG0624|consen  116 LLKQGELEQAEADFDQVLQHE--PSNGLV---LEAQSKLALIQEHWVL----------------VQQLKSASGSGDCQNA  174 (504)
T ss_pred             hhhcccHHHHHHHHHHHHhcC--CCcchh---HHHHHHHHhHHHHHHH----------------HHHHHHHhcCCchhhH
Confidence            789999999999999998863  433221   2222222222222222                1233345567888888


Q ss_pred             HHHHhccCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHh
Q 046221          306 RSVFNQITE---KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEA  382 (572)
Q Consensus       306 ~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  382 (572)
                      +.....+.+   .|...+..-..+|...|++..|+.=++...  .-..-+..++..+-..+...|+.+......++..+.
T Consensus       175 i~~i~~llEi~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~as--kLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl  252 (504)
T KOG0624|consen  175 IEMITHLLEIQPWDASLRQARAKCYIAEGEPKKAIHDLKQAS--KLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKL  252 (504)
T ss_pred             HHHHHHHHhcCcchhHHHHHHHHHHHhcCcHHHHHHHHHHHH--hccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc
Confidence            888877764   366677778899999999999998887774  333445566667777888899999998888887764


Q ss_pred             cCCCchhH----HHHH---HH------HhhhcCChHHHHHHHHHc-CCCCC-----HhHHHHHHHHHHhcCChHHHHHHH
Q 046221          383 GFPRYRSV----QNCL---IS------SYSKCGNVDLAYIVFEEM-GFLRD-----VVSWNTIIYGYGVNGHGETALALY  443 (572)
Q Consensus       383 ~~~~~~~~----~~~l---~~------~~~~~g~~~~A~~~~~~~-~~~~~-----~~~~~~l~~~~~~~~~~~~A~~~~  443 (572)
                        .|+...    |-.+   ..      .....+++.++.+..+.. ...|.     ...+..+-.++...+++.+|++..
T Consensus       253 --dpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC  330 (504)
T KOG0624|consen  253 --DPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQC  330 (504)
T ss_pred             --CcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHH
Confidence              344332    2221   11      123345666666666555 33344     233455667778889999999999


Q ss_pred             HHHHhcCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHH
Q 046221          444 HKMTETGEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIE  483 (572)
Q Consensus       444 ~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  483 (572)
                      .+.++  +.|| ..++.--..+|.-...+|.|+.-|+.+.+
T Consensus       331 ~evL~--~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e  369 (504)
T KOG0624|consen  331 KEVLD--IDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALE  369 (504)
T ss_pred             HHHHh--cCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh
Confidence            99998  6776 68999999999999999999999999965

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

Probab=98.56  E-value=1.4e-05  Score=82.49  Aligned_cols=196  Identities=13%  Similarity=0.111  Sum_probs=126.7

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHh---HHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHH
Q 046221          318 VSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSI---TLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCL  394 (572)
Q Consensus       318 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  394 (572)
                      ..|-..|.-+.+.++.+.|.+++++....-+..-...   .|.+++.....-|.-+...++|+++.+..  .....|..|
T Consensus      1459 i~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~~~L 1536 (1710)
T KOG1070|consen 1459 ILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVHLKL 1536 (1710)
T ss_pred             hHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHHHHH
Confidence            5677777777777788888888877752222222222   34444444444455666667777666543  234456667


Q ss_pred             HHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH---HHHHHHHHHHhccC
Q 046221          395 ISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS---STYLSILNACGHAG  469 (572)
Q Consensus       395 ~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~---~~~~~l~~~~~~~g  469 (572)
                      ...|.+.+.+++|.++++.|  ........|...+..+.++++-+.|..++.+..+.  -|..   ....-.+..-.+.|
T Consensus      1537 ~~iy~k~ek~~~A~ell~~m~KKF~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLEFk~G 1614 (1710)
T KOG1070|consen 1537 LGIYEKSEKNDEADELLRLMLKKFGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLEFKYG 1614 (1710)
T ss_pred             HHHHHHhhcchhHHHHHHHHHHHhcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHHhhcC
Confidence            77777777777777777777  44345667777777777777777777777777763  4432   33334444556777


Q ss_pred             ChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          470 LTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       470 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +.+++..+|+..+...  |-....|+.+++.-.+.|+.+.++.+|+++..
T Consensus      1615 DaeRGRtlfEgll~ay--PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~ 1662 (1710)
T KOG1070|consen 1615 DAERGRTLFEGLLSAY--PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIE 1662 (1710)
T ss_pred             CchhhHHHHHHHHhhC--ccchhHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            7777777777776544  34455677777777777777777777777766

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.53  E-value=1.1e-05  Score=81.46  Aligned_cols=145  Identities=15%  Similarity=0.117  Sum_probs=115.3

Q ss_pred             cCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCC-HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HHHH
Q 046221          383 GFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRD-VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS-STYL  459 (572)
Q Consensus       383 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~  459 (572)
                      ..+.+...+..|.....+.|.+++|+.+++.. ...|+ ......+...+.+.+++++|...+++...  ..|+. ....
T Consensus        81 ~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~--~~p~~~~~~~  158 (694)
T PRK15179         81 RYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS--GGSSSAREIL  158 (694)
T ss_pred             hccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh--cCCCCHHHHH
Confidence            34566778888888889999999999999988 66676 45566778888999999999999999988  46765 6677


Q ss_pred             HHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCChHHHHHHHH
Q 046221          460 SILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMGPNIWRALLS  531 (572)
Q Consensus       460 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~  531 (572)
                      .+..++.+.|++++|..+|++++..  .+-+...+..+..++.+.|+.++|...|++..+  .+....|+.++.
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~~--~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~~  230 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSRQ--HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRLV  230 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHHH
Confidence            7778888999999999999999752  234467888899999999999999999999877  455555555443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.51  E-value=2.4e-05  Score=79.02  Aligned_cols=134  Identities=10%  Similarity=0.079  Sum_probs=114.0

Q ss_pred             CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhH
Q 046221          415 GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS-STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEH  493 (572)
Q Consensus       415 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  493 (572)
                      ....+...+-.|.....+.|++++|..+++...+  +.||. .....++..+.+.+++++|...+++.++..  +-+...
T Consensus        81 ~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~--p~~~~~  156 (694)
T PRK15179         81 RYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG--SSSARE  156 (694)
T ss_pred             hccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC--CCCHHH
Confidence            4545688899999999999999999999999999  68976 677888899999999999999999998543  445557


Q ss_pred             HHHHHHHHHhhCChhHHHHHHHhccC-CC-ChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhC
Q 046221          494 YGCVVDLLARAGCLSDASGLAGKLLE-GM-GPNIWRALLSGCVLHVGRFQDAEALRSGSQKK  553 (572)
Q Consensus       494 ~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~  553 (572)
                      ...+..++.+.|++++|.++|+++.. .| +..++..+...+... |+.++|...|++..+.
T Consensus       157 ~~~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~-G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        157 ILLEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRR-GALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHh
Confidence            78888999999999999999999986 44 466788887777766 9999999999988643

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.50  E-value=3.6e-06  Score=67.44  Aligned_cols=101  Identities=9%  Similarity=-0.003  Sum_probs=71.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHH
Q 046221          423 WNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLL  501 (572)
Q Consensus       423 ~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  501 (572)
                      +..+...+...|++++|...|+....  +.| +...|..+..++...|++++|+..|+++++..  +.+...+..+..++
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~--p~~~~a~~~lg~~l  102 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVM--AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD--ASHPEPVYQTGVCL  102 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CCCcHHHHHHHHHH
Confidence            44456667777888888888887776  445 44777777777888888888888888776533  45666777777778


Q ss_pred             HhhCChhHHHHHHHhccC-CCChHHHH
Q 046221          502 ARAGCLSDASGLAGKLLE-GMGPNIWR  527 (572)
Q Consensus       502 ~~~g~~~~A~~~~~~~~~-~~~~~~~~  527 (572)
                      .+.|++++|...+++... .|+...+.
T Consensus       103 ~~~g~~~eAi~~~~~Al~~~p~~~~~~  129 (144)
T PRK15359        103 KMMGEPGLAREAFQTAIKMSYADASWS  129 (144)
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCChHHH
Confidence            888888888888887766 45444333

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.50  E-value=4.3e-05  Score=64.69  Aligned_cols=130  Identities=15%  Similarity=0.074  Sum_probs=104.9

Q ss_pred             CchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HHHHHHHH
Q 046221          386 RYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD-SSTYLSIL  462 (572)
Q Consensus       386 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~  462 (572)
                      .+.......+....+.|++..|...+.+.  .-++|...|+.+.-+|.+.|+.+.|..-|.+..+  +.|+ ...++.+.
T Consensus        98 ~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~--L~~~~p~~~nNlg  175 (257)
T COG5010          98 KDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALE--LAPNEPSIANNLG  175 (257)
T ss_pred             ccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHccChhHHHHHHHHHHH--hccCCchhhhhHH
Confidence            34445555778888899999999999988  6667889999999999999999999999999888  5664 47788888


Q ss_pred             HHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          463 NACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       463 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ..+.-.|+.+.|..++..... . -+-|..+-..+.-+....|++.+|..+...-..
T Consensus       176 ms~~L~gd~~~A~~lll~a~l-~-~~ad~~v~~NLAl~~~~~g~~~~A~~i~~~e~~  230 (257)
T COG5010         176 MSLLLRGDLEDAETLLLPAYL-S-PAADSRVRQNLALVVGLQGDFREAEDIAVQELL  230 (257)
T ss_pred             HHHHHcCCHHHHHHHHHHHHh-C-CCCchHHHHHHHHHHhhcCChHHHHhhcccccc
Confidence            888889999999999988853 3 133666777888888899999999988877654

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.49  E-value=1.1e-05  Score=71.69  Aligned_cols=186  Identities=11%  Similarity=-0.015  Sum_probs=109.7

Q ss_pred             CcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCC-HhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCch--hHHH
Q 046221          316 SLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVD-SITLVSILTASGELAALEICLQLHGIAFEAGFPRYR--SVQN  392 (572)
Q Consensus       316 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~  392 (572)
                      ....+..+...+.+.|++++|...|+++....+..|. ...+..+..++...|+++.|...++.+.+.......  ..+.
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~  111 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYY  111 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHH
Confidence            4456677777888888888888888887633332222 234555666677777777777777777654321111  1233


Q ss_pred             HHHHHhhhc--------CChHHHHHHHHHc-CCCCCH-hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 046221          393 CLISSYSKC--------GNVDLAYIVFEEM-GFLRDV-VSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSIL  462 (572)
Q Consensus       393 ~l~~~~~~~--------g~~~~A~~~~~~~-~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~  462 (572)
                      .+..++...        |+.++|.+.++++ ...|+. ..+..+...              ..+...   . ......+.
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~--------------~~~~~~---~-~~~~~~~a  173 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRM--------------DYLRNR---L-AGKELYVA  173 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHH--------------HHHHHH---H-HHHHHHHH
Confidence            333334332        5566666666665 222332 122111100              000000   0 00112455


Q ss_pred             HHHhccCChHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          463 NACGHAGLTNDGLVIFNQMIEENKVKP-SQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       463 ~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ..+.+.|++.+|+..++.+++...-.| ....+..++.++.+.|++++|...++.+..
T Consensus       174 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~  231 (235)
T TIGR03302       174 RFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGA  231 (235)
T ss_pred             HHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            668889999999999999886543222 345788899999999999999998887754

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.48  E-value=2.3e-05  Score=66.62  Aligned_cols=115  Identities=11%  Similarity=0.073  Sum_probs=78.7

Q ss_pred             cCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHH-hccCC--hHHH
Q 046221          401 CGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNAC-GHAGL--TNDG  474 (572)
Q Consensus       401 ~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~-~~~g~--~~~a  474 (572)
                      .++.+++...+++.  ..+.+...|..+...|...|++++|...|++..+  +.| +...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~--l~P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRANPQNSEQWALLGEYYLWRNDYDNALLAYRQALQ--LRGENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            45556666666555  3335567777777778788888888888887777  455 446666666653 56566  4778


Q ss_pred             HHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          475 LVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       475 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .++++++++..  +-+...+..+...+.+.|++++|...++++.+
T Consensus       130 ~~~l~~al~~d--P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~  172 (198)
T PRK10370        130 REMIDKALALD--ANEVTALMLLASDAFMQADYAQAIELWQKVLD  172 (198)
T ss_pred             HHHHHHHHHhC--CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            88888777544  34555677777777788888888888888766

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

Probab=98.44  E-value=2e-05  Score=76.05  Aligned_cols=229  Identities=11%  Similarity=0.036  Sum_probs=173.4

Q ss_pred             HHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC--CCcchHHHHHHHHHHcCC
Q 046221          255 LNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE--KSLVSWTAIISGYVQNGC  332 (572)
Q Consensus       255 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~  332 (572)
                      ..+...+.+.|-...|..+++.+.         .+..++.+|+..|+..+|..+..+..+  |+...|..+.+......-
T Consensus       402 ~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~  472 (777)
T KOG1128|consen  402 RLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSL  472 (777)
T ss_pred             HHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHH
Confidence            345566777888888998888765         345688899999999999888776554  667788888888877777


Q ss_pred             hHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHH
Q 046221          333 AREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFE  412 (572)
Q Consensus       333 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  412 (572)
                      +++|+++.+.....        .-..+.....+.++++++.+-++.-.+.+ +....+|-.+..+..+.+++..|.+.|.
T Consensus       473 yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~  543 (777)
T KOG1128|consen  473 YEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFH  543 (777)
T ss_pred             HHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHH
Confidence            89999998877422        12222222344788999998888776654 4556677777888889999999999999


Q ss_pred             Hc-CCCCC-HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC
Q 046221          413 EM-GFLRD-VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS  490 (572)
Q Consensus       413 ~~-~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  490 (572)
                      .. ...|+ ...||.+-.+|.+.++..+|...+++..+.+ .-+...|...+-...+.|.+++|.+.+.++........|
T Consensus       544 rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~~d  622 (777)
T KOG1128|consen  544 RCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKYKD  622 (777)
T ss_pred             HHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhccc
Confidence            88 44465 6789999999999999999999999999976 445566666777778999999999999988755433445


Q ss_pred             hhHHHHHHHHHH
Q 046221          491 QEHYGCVVDLLA  502 (572)
Q Consensus       491 ~~~~~~l~~~~~  502 (572)
                      ..+...++....
T Consensus       623 ~~vl~~iv~~~~  634 (777)
T KOG1128|consen  623 DEVLLIIVRTVL  634 (777)
T ss_pred             chhhHHHHHHHH
Confidence            555555554443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.44  E-value=0.0016  Score=61.16  Aligned_cols=412  Identities=10%  Similarity=0.049  Sum_probs=200.1

Q ss_pred             CCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHH
Q 046221          113 PYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVL  192 (572)
Q Consensus       113 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  192 (572)
                      -|+.+|+.||+-+... ..+++.+.++++... .+-....|..-|..-....+++.++.+|.+.+..-+  +...|...+
T Consensus        18 ~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvL--nlDLW~lYl   93 (656)
T KOG1914|consen   18 YDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVL--NLDLWKLYL   93 (656)
T ss_pred             ccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHh--hHhHHHHHH
Confidence            5688999999988766 999999999999864 333556788888888999999999999999887643  455555555


Q ss_pred             HHHHh-CCCHHHH----HHHHhhcCC------CCcccHHHHHHHH---------HccCCHHHHHHHHHHHHhCCCCC---
Q 046221          193 DMYSC-LMDLDAA----IQIFREMEC------KDVISWTRMMGLF---------VDFEYAGDALKIFREMRKSRIIC---  249 (572)
Q Consensus       193 ~~~~~-~~~~~~a----~~~~~~~~~------~~~~~~~~li~~~---------~~~~~~~~a~~~~~~m~~~~~~p---  249 (572)
                      +---+ .|+...+    .+.|+-...      .+...|+..+..+         ..+.+.+...++|+++....+.-   
T Consensus        94 ~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlEk  173 (656)
T KOG1914|consen   94 SYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLEK  173 (656)
T ss_pred             HHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHHH
Confidence            43222 2333321    122221111      2333455544332         23345556667777766431110   


Q ss_pred             ---CccchHHHHHH-------hcccCChHHHHHHHHHHHH--hCCCCCcchHHHHHHHHHhcCChhH--HHHHHhccC--
Q 046221          250 ---DTVALLNLISV-------NAILGDLKRGKQLHAQVVL--GGLQSELRLSNSIIAMYSKCGDLDS--SRSVFNQIT--  313 (572)
Q Consensus       250 ---~~~~~~~ll~~-------~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~--a~~~~~~~~--  313 (572)
                         |-.+|-.-|+.       --+...+..|.++++++..  .|+.....+.       -..|-.++  ..+++....  
T Consensus       174 LW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~v-------p~~~T~~e~~qv~~W~n~I~w  246 (656)
T KOG1914|consen  174 LWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAV-------PPKGTKDEIQQVELWKNWIKW  246 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCC-------CCCCChHHHHHHHHHHHHHHH
Confidence               01111111110       0122334455555555543  1211110000       00000011  111111110  


Q ss_pred             -CCCc--------------chHHHHHHHHHHcCC-hHHHHHHHHHHH---hcCCCCCCHhHHHHHHHHhcccccHHHHHH
Q 046221          314 -EKSL--------------VSWTAIISGYVQNGC-AREALNQFIKMR---QEKTDSVDSITLVSILTASGELAALEICLQ  374 (572)
Q Consensus       314 -~~~~--------------~~~~~l~~~~~~~~~-~~~a~~~~~~~~---~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  374 (572)
                       +.|.              .+|...+..+.-+-+ +-++-..+....   ...|..|+...            ..+++..
T Consensus       247 EksNpL~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~------------~t~e~~~  314 (656)
T KOG1914|consen  247 EKSNPLRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKS------------LTDEAAS  314 (656)
T ss_pred             HhcCCcccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchh------------hHHHHHH
Confidence             0000              111111111110000 111111111111   01111111111            1233444


Q ss_pred             HHHHHHHhcCCCchhHHHHHHHHhhhc---CChHHHHHHHHHc----CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 046221          375 LHGIAFEAGFPRYRSVQNCLISSYSKC---GNVDLAYIVFEEM----GFLRDVVSWNTIIYGYGVNGHGETALALYHKMT  447 (572)
Q Consensus       375 ~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  447 (572)
                      +++.....-..-+..+|..+.+---..   ...+.....++++    ...|+ .+|..+++.-.+..-...|..+|.++.
T Consensus       315 ~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR  393 (656)
T KOG1914|consen  315 IYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKAR  393 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHh
Confidence            444443332222333333322211111   1233334444444    33233 456666666666666777777777777


Q ss_pred             hcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccCC---CC-
Q 046221          448 ETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEG---MG-  522 (572)
Q Consensus       448 ~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~-  522 (572)
                      +.+..+ +......++.-++ .++.+-|.++|+--++..  .-++......++.+...++-..|..+|++....   ++ 
T Consensus       394 ~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkkf--~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~k  470 (656)
T KOG1914|consen  394 EDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKKF--GDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADK  470 (656)
T ss_pred             hccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHhc--CCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhh
Confidence            776666 4455666665444 466777777777766554  234445556677777777777777777777652   22 


Q ss_pred             -hHHHHHHHHHHhhhcCCHHHHHHHHHHHHh
Q 046221          523 -PNIWRALLSGCVLHVGRFQDAEALRSGSQK  552 (572)
Q Consensus       523 -~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~  552 (572)
                       ...|..++.--..- |+...+.++-+++..
T Consensus       471 s~~Iw~r~l~yES~v-GdL~si~~lekR~~~  500 (656)
T KOG1914|consen  471 SKEIWDRMLEYESNV-GDLNSILKLEKRRFT  500 (656)
T ss_pred             hHHHHHHHHHHHHhc-ccHHHHHHHHHHHHH
Confidence             23577777665555 777777776666543

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.43  E-value=5.1e-06  Score=66.58  Aligned_cols=110  Identities=11%  Similarity=-0.029  Sum_probs=90.6

Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          440 LALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       440 ~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ..++++.++  +.|+.  +..+..++...|++++|...|+.++...  +.+...+..+..++.+.|++++|...|+++..
T Consensus        13 ~~~~~~al~--~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~   86 (144)
T PRK15359         13 EDILKQLLS--VDPET--VYASGYASWQEGDYSRAVIDFSWLVMAQ--PWSWRAHIALAGTWMMLKEYTTAINFYGHALM   86 (144)
T ss_pred             HHHHHHHHH--cCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            466777777  56664  4567788899999999999999998644  55777899999999999999999999999988


Q ss_pred             --CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          520 --GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       520 --~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                        +.++..+..+...+... |++++|...+++..+..+.
T Consensus        87 l~p~~~~a~~~lg~~l~~~-g~~~eAi~~~~~Al~~~p~  124 (144)
T PRK15359         87 LDASHPEPVYQTGVCLKMM-GEPGLAREAFQTAIKMSYA  124 (144)
T ss_pred             cCCCCcHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCC
Confidence              55666777777777666 9999999999999887654

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

Probab=98.42  E-value=9.2e-05  Score=76.73  Aligned_cols=223  Identities=11%  Similarity=0.080  Sum_probs=126.7

Q ss_pred             chHHHHHHhcccCChHHHHHHHHHHHHhC-CC---CCcchHHHHHHHHHhcCChhHHHHHHhccCCC-C-cchHHHHHHH
Q 046221          253 ALLNLISVNAILGDLKRGKQLHAQVVLGG-LQ---SELRLSNSIIAMYSKCGDLDSSRSVFNQITEK-S-LVSWTAIISG  326 (572)
Q Consensus       253 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~~l~~~  326 (572)
                      .|..-|.-....++.+.|+++.++++..- +.   --..+|.++++.-..-|.-+...++|++..+- | ...|..|...
T Consensus      1460 ~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L~~i 1539 (1710)
T KOG1070|consen 1460 LWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKLLGI 1539 (1710)
T ss_pred             HHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHHHHH
Confidence            34444455555566666666666655421 11   11235555665555556666666666666542 2 2456666666


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCC-CchhHHHHHHHHhhhcCChH
Q 046221          327 YVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFP-RYRSVQNCLISSYSKCGNVD  405 (572)
Q Consensus       327 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~  405 (572)
                      |.+.+..++|.++++.|.+.-+  -....|...+..+.+.++.+.|..++.+..+.-.+ -......-.++.-.+.|+.+
T Consensus      1540 y~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDae 1617 (1710)
T KOG1070|consen 1540 YEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDAE 1617 (1710)
T ss_pred             HHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCch
Confidence            7777777777777777754333  34445666666666666666666666665543211 12333344455556667777


Q ss_pred             HHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH--HHHHHHHHHHhccCChHHHHHH
Q 046221          406 LAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS--STYLSILNACGHAGLTNDGLVI  477 (572)
Q Consensus       406 ~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~--~~~~~l~~~~~~~g~~~~a~~~  477 (572)
                      .+..+|+..  ..+.....|+..+..-.++|+.+.+..+|++....++.|-.  ..|...+..=-..|+-+.+..+
T Consensus      1618 RGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~V 1693 (1710)
T KOG1070|consen 1618 RGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEYV 1693 (1710)
T ss_pred             hhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHHH
Confidence            777777666  44334556777777777777777777777777776666533  4444455444444544444333

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.42  E-value=0.00037  Score=59.17  Aligned_cols=246  Identities=12%  Similarity=0.027  Sum_probs=151.9

Q ss_pred             HHHhcCChhHHHHHHhccCC--CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHH
Q 046221          295 MYSKCGDLDSSRSVFNQITE--KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEIC  372 (572)
Q Consensus       295 ~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  372 (572)
                      -+.-.|++..++..-.....  .++..-.-+.++|...|.+....   .++  ..+..|....+..+.......++.+..
T Consensus        17 n~fY~Gnyq~~ine~~~~~~~~~~~e~d~y~~raylAlg~~~~~~---~eI--~~~~~~~lqAvr~~a~~~~~e~~~~~~   91 (299)
T KOG3081|consen   17 NYFYLGNYQQCINEAEKFSSSKTDVELDVYMYRAYLALGQYQIVI---SEI--KEGKATPLQAVRLLAEYLELESNKKSI   91 (299)
T ss_pred             HHHHhhHHHHHHHHHHhhccccchhHHHHHHHHHHHHcccccccc---ccc--ccccCChHHHHHHHHHHhhCcchhHHH
Confidence            34444666666554443332  22223333445555555543332   222  222244444444444444444544443


Q ss_pred             HH-HHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 046221          373 LQ-LHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGE  451 (572)
Q Consensus       373 ~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~  451 (572)
                      .. +.+.+.......+......-...|++.|++++|++..... ...+  ....=+..+.+..+.+-|.+.+++|.+   
T Consensus        92 ~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~-~~lE--~~Al~VqI~lk~~r~d~A~~~lk~mq~---  165 (299)
T KOG3081|consen   92 LASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLG-ENLE--AAALNVQILLKMHRFDLAEKELKKMQQ---  165 (299)
T ss_pred             HHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhcc-chHH--HHHHHHHHHHHHHHHHHHHHHHHHHHc---
Confidence            33 3444444444444333344456788999999999999884 2223  232334456677889999999999997   


Q ss_pred             CCCHHHHHHHHHHHh----ccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCChHH
Q 046221          452 VPDSSTYLSILNACG----HAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMGPNI  525 (572)
Q Consensus       452 ~p~~~~~~~l~~~~~----~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~  525 (572)
                      --+..|.+.|..++.    ..+++.+|.-+|+++-++  .+|+..+.+....++...|++++|..+++.+..  ..++.+
T Consensus       166 ided~tLtQLA~awv~la~ggek~qdAfyifeE~s~k--~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpet  243 (299)
T KOG3081|consen  166 IDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK--TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPET  243 (299)
T ss_pred             cchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc--cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHH
Confidence            245577877777764    445799999999999543  589999999999999999999999999999987  455666


Q ss_pred             HHHHHHHHhhhcCCHHHH-HHHHHHHHhCC
Q 046221          526 WRALLSGCVLHVGRFQDA-EALRSGSQKKG  554 (572)
Q Consensus       526 ~~~l~~~~~~~~g~~~~A-~~~~~~m~~~~  554 (572)
                      ...++...... |+..++ .+.+.++....
T Consensus       244 L~Nliv~a~~~-Gkd~~~~~r~l~QLk~~~  272 (299)
T KOG3081|consen  244 LANLIVLALHL-GKDAEVTERNLSQLKLSH  272 (299)
T ss_pred             HHHHHHHHHHh-CCChHHHHHHHHHHHhcC
Confidence            65555544434 665444 45555554433

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.40  E-value=3.3e-05  Score=65.37  Aligned_cols=154  Identities=17%  Similarity=0.107  Sum_probs=124.2

Q ss_pred             HHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccC
Q 046221          392 NCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAG  469 (572)
Q Consensus       392 ~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g  469 (572)
                      ..+-..+...|+-+....+....  ..+.|.......+....+.|++..|...+.+.... -++|..+|+.+.-+|.+.|
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~G  148 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLG  148 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHcc
Confidence            44566677788888888888887  33345556667889999999999999999999984 3557799999999999999


Q ss_pred             ChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CC-ChHHHHHHHHHHhhhcCCHHHHHHHH
Q 046221          470 LTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GM-GPNIWRALLSGCVLHVGRFQDAEALR  547 (572)
Q Consensus       470 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~~~~~~g~~~~A~~~~  547 (572)
                      +.+.|..-|.++++-.  +-+...++.+.-.|.-.|+.+.|..++..... ++ +..+-..|....... |++++|..+.
T Consensus       149 r~~~Ar~ay~qAl~L~--~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~-g~~~~A~~i~  225 (257)
T COG5010         149 RFDEARRAYRQALELA--PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQ-GDFREAEDIA  225 (257)
T ss_pred             ChhHHHHHHHHHHHhc--cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhc-CChHHHHhhc
Confidence            9999999999998654  34556788888889999999999999999887 33 555666666666556 9999998876


Q ss_pred             HH
Q 046221          548 SG  549 (572)
Q Consensus       548 ~~  549 (572)
                      ..
T Consensus       226 ~~  227 (257)
T COG5010         226 VQ  227 (257)
T ss_pred             cc
Confidence            54

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.38  E-value=1.4e-05  Score=67.83  Aligned_cols=150  Identities=13%  Similarity=0.148  Sum_probs=112.9

Q ss_pred             HHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHH
Q 046221          395 ISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTND  473 (572)
Q Consensus       395 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~  473 (572)
                      +-.|...|+++.+....+.+..+..         .+...++.+++...+++..+.  .| |...|..+...|...|++++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~~---------~~~~~~~~~~~i~~l~~~L~~--~P~~~~~w~~Lg~~~~~~g~~~~   91 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPLH---------QFASQQTPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWRNDYDN   91 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCccc---------cccCchhHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHH
Confidence            3467788888777555544311111         122356778888888888874  45 66899999999999999999


Q ss_pred             HHHHHHHhHHhcCCCCChhHHHHHHHHH-HhhCC--hhHHHHHHHhccC-CC-ChHHHHHHHHHHhhhcCCHHHHHHHHH
Q 046221          474 GLVIFNQMIEENKVKPSQEHYGCVVDLL-ARAGC--LSDASGLAGKLLE-GM-GPNIWRALLSGCVLHVGRFQDAEALRS  548 (572)
Q Consensus       474 a~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~~~-~~-~~~~~~~l~~~~~~~~g~~~~A~~~~~  548 (572)
                      |...|+++++..  +.+...+..+..++ ...|+  .++|.+++++... .| ++..+..+...+... |++++|+..++
T Consensus        92 A~~a~~~Al~l~--P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~-g~~~~Ai~~~~  168 (198)
T PRK10370         92 ALLAYRQALQLR--GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQ-ADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHc-CCHHHHHHHHH
Confidence            999999998644  45667888888864 67777  5999999999988 55 555666666666666 99999999999


Q ss_pred             HHHhCCCCCC
Q 046221          549 GSQKKGIIKI  558 (572)
Q Consensus       549 ~m~~~~~~~~  558 (572)
                      ++.+...+.+
T Consensus       169 ~aL~l~~~~~  178 (198)
T PRK10370        169 KVLDLNSPRV  178 (198)
T ss_pred             HHHhhCCCCc
Confidence            9988877644

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.38  E-value=8.5e-05  Score=68.65  Aligned_cols=138  Identities=14%  Similarity=0.089  Sum_probs=98.7

Q ss_pred             HhhhcCChHHHHHHHHHc-CCCCC-HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCChHH
Q 046221          397 SYSKCGNVDLAYIVFEEM-GFLRD-VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS-STYLSILNACGHAGLTND  473 (572)
Q Consensus       397 ~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~  473 (572)
                      .+...|++++|+..++.+ ...|+ +..+......+.+.|+..+|.+.++++..  ..|+. .....+..++.+.|++.+
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~--l~P~~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALA--LDPNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh--cCCCccHHHHHHHHHHHhcCChHH
Confidence            345677888888888887 33344 44555566778888888888888888887  56764 556667778888888888


Q ss_pred             HHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccCCCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhC
Q 046221          474 GLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKK  553 (572)
Q Consensus       474 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~  553 (572)
                      |+.+++.....  .+-|+..|..|.++|...|+..+|.....+..               ... |+|+.|+..+....++
T Consensus       393 ai~~L~~~~~~--~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~---------------~~~-G~~~~A~~~l~~A~~~  454 (484)
T COG4783         393 AIRILNRYLFN--DPEDPNGWDLLAQAYAELGNRAEALLARAEGY---------------ALA-GRLEQAIIFLMRASQQ  454 (484)
T ss_pred             HHHHHHHHhhc--CCCCchHHHHHHHHHHHhCchHHHHHHHHHHH---------------HhC-CCHHHHHHHHHHHHHh
Confidence            88888887543  36677788888888888888888776655442               233 7777777777666655


Q ss_pred             C
Q 046221          554 G  554 (572)
Q Consensus       554 ~  554 (572)
                      .
T Consensus       455 ~  455 (484)
T COG4783         455 V  455 (484)
T ss_pred             c
Confidence            4

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.37  E-value=0.0024  Score=60.06  Aligned_cols=148  Identities=14%  Similarity=0.108  Sum_probs=91.5

Q ss_pred             hHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCC-chhHHHHHHHHhhhcCChHHHHHHH
Q 046221          333 AREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPR-YRSVQNCLISSYSKCGNVDLAYIVF  411 (572)
Q Consensus       333 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~  411 (572)
                      .+.....+++........|+ .+|...+....+..-++.|..+|.++.+.+..+ .+.++++++.-+| .++.+-|.++|
T Consensus       347 ~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIF  424 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIF  424 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHH
Confidence            44455555555523333333 345555666666667777777777777766665 5666666666555 46667777777


Q ss_pred             HHc--CCCCC-HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH--HHHHHHHHHHhccCChHHHHHHHHHhHH
Q 046221          412 EEM--GFLRD-VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS--STYLSILNACGHAGLTNDGLVIFNQMIE  483 (572)
Q Consensus       412 ~~~--~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~  483 (572)
                      +--  .. +| +.--...+.-+...++-..|..+|++....++.|+.  ..|..++.-=+.-|+...+.++-+++..
T Consensus       425 eLGLkkf-~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  425 ELGLKKF-GDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             HHHHHhc-CCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            654  22 33 223344555666667777777777777776666644  6677777777777777777777666543

>PLN02789 farnesyltranstransferase

Probab=98.37  E-value=0.00011  Score=67.21  Aligned_cols=174  Identities=7%  Similarity=-0.106  Sum_probs=85.7

Q ss_pred             HHHHHhhcCChhhHHHHhccCCCCCh---hhHHHHHHHHhhCC-ChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCC
Q 046221           11 LLSNYFKSGKIKEAENLFDEIPEKNV---VSWSIVIHGYSING-FHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQN   86 (572)
Q Consensus        11 l~~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~   86 (572)
                      +-..+...++.++|+.+.+.+.+.++   .+|+.--..+...| .+++++..++.+.+.+ +-+..+|+.....+.+.|+
T Consensus        43 ~ra~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~  121 (320)
T PLN02789         43 FRAVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGP  121 (320)
T ss_pred             HHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCc
Confidence            34444555566666666666554222   33443333444444 4566666666666543 2333344443333333343


Q ss_pred             --hHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhcc-
Q 046221           87 --LELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVAL-  163 (572)
Q Consensus        87 --~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~-  163 (572)
                        .+++..+++.+++..+          .|..+|+...-++...|+++++++.++++.+.++. |...|+.....+.+. 
T Consensus       122 ~~~~~el~~~~kal~~dp----------kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~  190 (320)
T PLN02789        122 DAANKELEFTRKILSLDA----------KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSP  190 (320)
T ss_pred             hhhHHHHHHHHHHHHhCc----------ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhcc
Confidence              2445556656655544          44456666666666666666666666666655422 334444433333222 


Q ss_pred             --CCh----HHHHHHHHHHHHhcCCCChhHHhHHHHHHHh
Q 046221          164 --GSR----ALCELIHGLTIKLGLILDVSVNNSVLDMYSC  197 (572)
Q Consensus       164 --~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  197 (572)
                        |..    +...+....++... +-|...|+.+...+..
T Consensus       191 ~l~~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~  229 (320)
T PLN02789        191 LLGGLEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKD  229 (320)
T ss_pred             ccccccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhc
Confidence              111    23344444444433 3445555555555544

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=98.35  E-value=0.0023  Score=58.88  Aligned_cols=128  Identities=16%  Similarity=0.111  Sum_probs=84.6

Q ss_pred             HhhhcCC-hHHHHHHHHHc-CCCC-CHhHHHHH----HHHHHh---cCChHHHHHHHHHHHhcCCCC----CHHHHHHHH
Q 046221          397 SYSKCGN-VDLAYIVFEEM-GFLR-DVVSWNTI----IYGYGV---NGHGETALALYHKMTETGEVP----DSSTYLSIL  462 (572)
Q Consensus       397 ~~~~~g~-~~~A~~~~~~~-~~~~-~~~~~~~l----~~~~~~---~~~~~~A~~~~~~~~~~g~~p----~~~~~~~l~  462 (572)
                      -+.+.|. -++|+++++.+ .+.+ |...-|.+    =.+|.+   ...+..-+.+-+-+.+.|+.|    +...-+.|.
T Consensus       388 ~lW~~g~~dekalnLLk~il~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~La  467 (549)
T PF07079_consen  388 HLWEIGQCDEKALNLLKLILQFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLA  467 (549)
T ss_pred             HHHhcCCccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHH
Confidence            3455565 77888888877 3333 33222222    122322   223444455555566778877    334455666


Q ss_pred             HH--HhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccCCCChHHHHHH
Q 046221          463 NA--CGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRAL  529 (572)
Q Consensus       463 ~~--~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l  529 (572)
                      +|  +...|++.++.-.-....+   +.|++.+|..++-++....++++|.+++.++  +|+..++++-
T Consensus       468 DAEyLysqgey~kc~~ys~WL~~---iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~L--P~n~~~~dsk  531 (549)
T PF07079_consen  468 DAEYLYSQGEYHKCYLYSSWLTK---IAPSPQAYRLLGLCLMENKRYQEAWEYLQKL--PPNERMRDSK  531 (549)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHH---hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhC--CCchhhHHHH
Confidence            55  5678999998877666643   6799999999999999999999999999998  4677776643

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PLN02789 farnesyltranstransferase

Probab=98.33  E-value=0.00069  Score=62.12  Aligned_cols=180  Identities=14%  Similarity=0.058  Sum_probs=93.0

Q ss_pred             cHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCCh--HHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHH
Q 046221          368 ALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNV--DLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALY  443 (572)
Q Consensus       368 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  443 (572)
                      +++++...++.+.+.. +.+..+|+....++.+.|+.  +++..+++++  ..+.+..+|+....++...|+++++++.+
T Consensus        87 ~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~  165 (320)
T PLN02789         87 DLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYC  165 (320)
T ss_pred             hHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            3455555555555443 23333444333333444432  4556666555  23245666666666666667777777777


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHhcc---CC----hHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhh----CChhHHHH
Q 046221          444 HKMTETGEVPDSSTYLSILNACGHA---GL----TNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARA----GCLSDASG  512 (572)
Q Consensus       444 ~~~~~~g~~p~~~~~~~l~~~~~~~---g~----~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~A~~  512 (572)
                      +++++.+. -|...|+.....+.+.   |.    .++++.+..++++..  +-+...|+.+...+...    ++..+|.+
T Consensus       166 ~~~I~~d~-~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~--P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~  242 (320)
T PLN02789        166 HQLLEEDV-RNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILAN--PRNESPWRYLRGLFKDDKEALVSDPEVSS  242 (320)
T ss_pred             HHHHHHCC-CchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhC--CCCcCHHHHHHHHHhcCCcccccchhHHH
Confidence            77776431 1334454444443332   22    235566665665443  34445666666555552    33455666


Q ss_pred             HHHhccC-CC-ChHHHHHHHHHHhhhcC-----------------CHHHHHHHHHHHH
Q 046221          513 LAGKLLE-GM-GPNIWRALLSGCVLHVG-----------------RFQDAEALRSGSQ  551 (572)
Q Consensus       513 ~~~~~~~-~~-~~~~~~~l~~~~~~~~g-----------------~~~~A~~~~~~m~  551 (572)
                      ++.+... .| ++.....|+..+.....                 ..++|.++++.|.
T Consensus       243 ~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        243 VCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             HHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhccccccccHHHHHHHHHHHH
Confidence            6666544 22 33344455555543211                 3467888888873

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.31  E-value=0.00024  Score=72.85  Aligned_cols=173  Identities=13%  Similarity=0.147  Sum_probs=97.5

Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHH
Q 046221          226 FVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSS  305 (572)
Q Consensus       226 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  305 (572)
                      .....++.-+..+...|.+.  .-+...+..+..+|.+.|+.+++..+|+++++.. +.++.+.|.+...|... ++++|
T Consensus        93 ~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA  168 (906)
T PRK14720         93 FSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKA  168 (906)
T ss_pred             cccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHH
Confidence            33334443333444444432  2233456666667777777777777777777766 55666777777777777 77777


Q ss_pred             HHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHh-cC
Q 046221          306 RSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEA-GF  384 (572)
Q Consensus       306 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~  384 (572)
                      ..++.+..           ..+...+++..+.++|.++......  +                .+.-..+.+.+... +.
T Consensus       169 ~~m~~KAV-----------~~~i~~kq~~~~~e~W~k~~~~~~~--d----------------~d~f~~i~~ki~~~~~~  219 (906)
T PRK14720        169 ITYLKKAI-----------YRFIKKKQYVGIEEIWSKLVHYNSD--D----------------FDFFLRIERKVLGHREF  219 (906)
T ss_pred             HHHHHHHH-----------HHHHhhhcchHHHHHHHHHHhcCcc--c----------------chHHHHHHHHHHhhhcc
Confidence            77766532           2366666777888888877522111  1                11122222222222 22


Q ss_pred             CCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHH
Q 046221          385 PRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYG  431 (572)
Q Consensus       385 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~  431 (572)
                      .--..++-.+...|-..++++++..+++.+ ...| +.....-++.+|.
T Consensus       220 ~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        220 TRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             chhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence            233344445556667777777777777777 3333 3444555555554

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.23  E-value=2.3e-06  Score=49.42  Aligned_cols=35  Identities=26%  Similarity=0.543  Sum_probs=32.3

Q ss_pred             hhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCc
Q 046221           37 VSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNS   71 (572)
Q Consensus        37 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~   71 (572)
                      .+||++|.+|++.|++++|.++|++|.+.|++||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            37999999999999999999999999999999974

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.22  E-value=2.4e-06  Score=49.32  Aligned_cols=34  Identities=21%  Similarity=0.435  Sum_probs=29.5

Q ss_pred             eHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCH
Q 046221          117 SCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNA  150 (572)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  150 (572)
                      +||.+|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            6888999999999999999999999888888873

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.

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.22  E-value=0.0084  Score=60.11  Aligned_cols=510  Identities=13%  Similarity=0.055  Sum_probs=266.3

Q ss_pred             hhcCChhhHHHHhccCCCCCh-hhHHHHHHH--HhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHH
Q 046221           16 FKSGKIKEAENLFDEIPEKNV-VSWSIVIHG--YSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARS   92 (572)
Q Consensus        16 ~~~~~~~~A~~~~~~~~~~~~-~~~~~li~~--~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~   92 (572)
                      ...+++..|....+.+.+..+ ..|..++.+  +.+.|+.++|..+++.....+.. |..|...+-.+|.+.++.++|..
T Consensus        20 ld~~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~   98 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKHPNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVH   98 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHH
Confidence            355778888888887765322 245555555  46789999999999887765533 77788888899999999999999


Q ss_pred             HHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccC--------
Q 046221           93 IHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALG--------  164 (572)
Q Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~--------  164 (572)
                      ++++..+..           |+......+..+|++.+++.+-.+.=-+|.+. .+-+...+-.+++...+.-        
T Consensus        99 ~Ye~~~~~~-----------P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~  166 (932)
T KOG2053|consen   99 LYERANQKY-----------PSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLD  166 (932)
T ss_pred             HHHHHHhhC-----------CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCccccc
Confidence            999998875           44445555666777777775544443333332 2334555556665544321        


Q ss_pred             --ChHHHHHHHHHHHHhc-CCCChhHHhHHHHHHHhCCCHHHHHHHHh-hcCC----CCcccHHHHHHHHHccCCHHHHH
Q 046221          165 --SRALCELIHGLTIKLG-LILDVSVNNSVLDMYSCLMDLDAAIQIFR-EMEC----KDVISWTRMMGLFVDFEYAGDAL  236 (572)
Q Consensus       165 --~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~----~~~~~~~~li~~~~~~~~~~~a~  236 (572)
                        -...|...++.+++.+ -.-+..-.-.-...+...|++++|..++. ..-+    -+...-+.-+..+...+++.+..
T Consensus       167 ~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~  246 (932)
T KOG2053|consen  167 PILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELF  246 (932)
T ss_pred             chhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHH
Confidence              1234555566665543 11111112222344556788999988883 2222    23334445667777888888888


Q ss_pred             HHHHHHHhCCCCCCccchHHHHH-------Hh---------cccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHH---
Q 046221          237 KIFREMRKSRIICDTVALLNLIS-------VN---------AILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYS---  297 (572)
Q Consensus       237 ~~~~~m~~~~~~p~~~~~~~ll~-------~~---------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---  297 (572)
                      ++-.++...|  +|.  |...+.       ..         ...+..+...+........   .....|-+-+.++.   
T Consensus       247 ~l~~~Ll~k~--~Dd--y~~~~~sv~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~---~~Rgp~LA~lel~kr~~  319 (932)
T KOG2053|consen  247 ELSSRLLEKG--NDD--YKIYTDSVFKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGS---KSRGPYLARLELDKRYK  319 (932)
T ss_pred             HHHHHHHHhC--Ccc--hHHHHHHHHHHHHhcccccchhhhhhhhhHHHHHHHHHHhhcc---cccCcHHHHHHHHHHhc
Confidence            8888888775  333  222211       11         1111222222222222211   11222333333333   


Q ss_pred             hcCChhHHHHHH-hccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCC-CH-----hHHHHHH-HHhc--ccc
Q 046221          298 KCGDLDSSRSVF-NQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSV-DS-----ITLVSIL-TASG--ELA  367 (572)
Q Consensus       298 ~~~~~~~a~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~-----~~~~~ll-~~~~--~~~  367 (572)
                      .-|+.+++...| +..-..  ..|..=+..|...=..+.-..++.......+... |.     .+....+ ..++  ..-
T Consensus       320 ~~gd~ee~~~~y~~kfg~k--pcc~~Dl~~yl~~l~~~q~~~l~~~l~~~~~~~s~~~k~l~~h~c~l~~~rl~G~~~~l  397 (932)
T KOG2053|consen  320 LIGDSEEMLSYYFKKFGDK--PCCAIDLNHYLGHLNIDQLKSLMSKLVLADDDSSGDEKVLQQHLCVLLLLRLLGLYEKL  397 (932)
T ss_pred             ccCChHHHHHHHHHHhCCC--cHhHhhHHHhhccCCHHHHHHHHHHhhccCCcchhhHHHHHHHHHHHHHHHHhhccccC
Confidence            346666655443 222211  1111111122222122222223322220100000 00     0111111 1111  011


Q ss_pred             cHHHHHHHHHHHH---Hhc------CCCchh---------HHHHHHHHhhhcCChHH---HHHHHHHc-CCCCC-HhHHH
Q 046221          368 ALEICLQLHGIAF---EAG------FPRYRS---------VQNCLISSYSKCGNVDL---AYIVFEEM-GFLRD-VVSWN  424 (572)
Q Consensus       368 ~~~~a~~~~~~~~---~~~------~~~~~~---------~~~~l~~~~~~~g~~~~---A~~~~~~~-~~~~~-~~~~~  424 (572)
                      +.+....++.++.   +.|      +-|+..         +-+.+++.+.+.++...   |+-+++.- ...|+ ..+--
T Consensus       398 ~ad~i~a~~~kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~~KL  477 (932)
T KOG2053|consen  398 PADSILAYVRKLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQTKL  477 (932)
T ss_pred             ChHHHHHHHHHHHHHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHHHHH
Confidence            2233333332221   222      122322         23677888888888663   33334433 33333 34444


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhh
Q 046221          425 TIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARA  504 (572)
Q Consensus       425 ~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  504 (572)
                      .+|..|+--|-+..|.++|+.+--+.+.-|..-|.. ..-+...|++..+...+....+-.+ ..-..+-..+..+| +.
T Consensus       478 lLiriY~~lGa~p~a~~~y~tLdIK~IQ~DTlgh~~-~~~~~t~g~~~~~s~~~~~~lkfy~-~~~kE~~eyI~~AY-r~  554 (932)
T KOG2053|consen  478 LLIRIYSYLGAFPDAYELYKTLDIKNIQTDTLGHLI-FRRAETSGRSSFASNTFNEHLKFYD-SSLKETPEYIALAY-RR  554 (932)
T ss_pred             HHHHHHHHhcCChhHHHHHHhcchHHhhhccchHHH-HHHHHhcccchhHHHHHHHHHHHHh-hhhhhhHHHHHHHH-Hc
Confidence            578889888999999999999877777777765543 3445677888888888876653221 11112333334444 67


Q ss_pred             CChhHHHHHHH---hccC---CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHH
Q 046221          505 GCLSDASGLAG---KLLE---GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQ  551 (572)
Q Consensus       505 g~~~~A~~~~~---~~~~---~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~  551 (572)
                      |.+.+..++..   ++..   .--..+-+..+...+.. ++.+.-...++.|.
T Consensus       555 g~ySkI~em~~fr~rL~~S~q~~a~~VE~~~l~ll~~~-~~~~q~~~~~~~~~  606 (932)
T KOG2053|consen  555 GAYSKIPEMLAFRDRLMHSLQKWACRVENLQLSLLCNA-DRGTQLLKLLESMK  606 (932)
T ss_pred             CchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-CcHHHHHHHHhccc
Confidence            77766655543   2321   11112333444444444 78888777777775

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.19  E-value=0.0013  Score=55.59  Aligned_cols=125  Identities=14%  Similarity=0.114  Sum_probs=53.5

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhh
Q 046221          321 TAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSK  400 (572)
Q Consensus       321 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  400 (572)
                      ..++-+....|+.+.|...++.+.+.-+..+...-+.++  -+.-.|.+++|.++++.+.+.. |.|..++-.-+...-.
T Consensus        56 EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam--~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka  132 (289)
T KOG3060|consen   56 EQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAM--LLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKA  132 (289)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHH--HHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHH
Confidence            334444445555555555555554222111111111111  1223344455555555444443 3333333333333344


Q ss_pred             cCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 046221          401 CGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTE  448 (572)
Q Consensus       401 ~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  448 (572)
                      .|+.-+|++-+.+.  .+..|...|.-+...|...|++++|.-.++++.-
T Consensus       133 ~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  133 QGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             cCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            44444444444433  3334444555555555555555555555555444

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.19  E-value=5.3e-05  Score=60.48  Aligned_cols=104  Identities=13%  Similarity=0.111  Sum_probs=66.8

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHH
Q 046221          421 VSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDL  500 (572)
Q Consensus       421 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  500 (572)
                      .....+...+...|++++|...++.+.+.+ +.+...+..+...+...|++++|..+++.+++..  +.+...+..+..+
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~la~~   94 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD--PDDPRPYFHAAEC   94 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CCChHHHHHHHHH
Confidence            334455566667777777777777776632 2244666667777777777777777777765432  4445566666777


Q ss_pred             HHhhCChhHHHHHHHhccC-CCChHHHH
Q 046221          501 LARAGCLSDASGLAGKLLE-GMGPNIWR  527 (572)
Q Consensus       501 ~~~~g~~~~A~~~~~~~~~-~~~~~~~~  527 (572)
                      +...|++++|...+++..+ .|+...+.
T Consensus        95 ~~~~g~~~~A~~~~~~al~~~p~~~~~~  122 (135)
T TIGR02552        95 LLALGEPESALKALDLAIEICGENPEYS  122 (135)
T ss_pred             HHHcCCHHHHHHHHHHHHHhccccchHH
Confidence            7777777777777777666 55444433

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.18  E-value=0.00063  Score=69.92  Aligned_cols=234  Identities=9%  Similarity=0.072  Sum_probs=125.7

Q ss_pred             CcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHH-HHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHH
Q 046221          215 DVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNL-ISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSII  293 (572)
Q Consensus       215 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  293 (572)
                      +...+..|+..+...+++++|.++.+...+.  .|+...+... ...+.+.++...+..+                 .++
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~l   90 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL-----------------NLI   90 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh-----------------hhh
Confidence            5567777888888888888888888866554  4554433222 2233444443333333                 122


Q ss_pred             HHHHhcCChhHHHHHHhccCC--CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHH
Q 046221          294 AMYSKCGDLDSSRSVFNQITE--KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEI  371 (572)
Q Consensus       294 ~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  371 (572)
                      .......++..+..+...+.+  .+-.++..+..+|-+.|+.++|...++++.+..  +-|....+.+...++.. ++++
T Consensus        91 ~~~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D--~~n~~aLNn~AY~~ae~-dL~K  167 (906)
T PRK14720         91 DSFSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD--RDNPEIVKKLATSYEEE-DKEK  167 (906)
T ss_pred             hhcccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHh-hHHH
Confidence            222222233222222222221  122355666677777777777777777775222  44556666666666666 6666


Q ss_pred             HHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhc-
Q 046221          372 CLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTET-  449 (572)
Q Consensus       372 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-  449 (572)
                      |.+++......               +...+++..+.++|.++ ...|+               +.+.-..+.+.+... 
T Consensus       168 A~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~~---------------d~d~f~~i~~ki~~~~  217 (906)
T PRK14720        168 AITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNSD---------------DFDFFLRIERKVLGHR  217 (906)
T ss_pred             HHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCcc---------------cchHHHHHHHHHHhhh
Confidence            66666555443               44555666666666666 22232               122222333333322 


Q ss_pred             CCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHH
Q 046221          450 GEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLA  502 (572)
Q Consensus       450 g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  502 (572)
                      |..--..++..+-..|-..+++++++.+++.+++..  +-|.....-++.+|.
T Consensus       218 ~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~--~~n~~a~~~l~~~y~  268 (906)
T PRK14720        218 EFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHD--NKNNKAREELIRFYK  268 (906)
T ss_pred             ccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcC--CcchhhHHHHHHHHH
Confidence            212223445555566777778888888888887533  334445556666654

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.18  E-value=3.3e-06  Score=48.27  Aligned_cols=33  Identities=15%  Similarity=0.377  Sum_probs=30.1

Q ss_pred             hhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCC
Q 046221           37 VSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLP   69 (572)
Q Consensus        37 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~   69 (572)
                      .+|+.+|.+|++.|+++.|.++|++|.+.|++|
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            589999999999999999999999999999887

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.16  E-value=4.8e-05  Score=60.69  Aligned_cols=111  Identities=7%  Similarity=-0.062  Sum_probs=87.9

Q ss_pred             HHHHHHHhcCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          441 ALYHKMTETGEVPDS-STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       441 ~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ..+++...  ..|+. .....+...+...|++++|.+.++.+.+..  +.+...+..+..++.+.|++++|...+++...
T Consensus         4 ~~~~~~l~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~   79 (135)
T TIGR02552         4 ATLKDLLG--LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYD--PYNSRYWLGLAACCQMLKEYEEAIDAYALAAA   79 (135)
T ss_pred             hhHHHHHc--CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34566666  45644 556777888999999999999999997544  45777888999999999999999999999876


Q ss_pred             --CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          520 --GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       520 --~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                        +.++..+..+...+... |++++|...+++..+....
T Consensus        80 ~~p~~~~~~~~la~~~~~~-g~~~~A~~~~~~al~~~p~  117 (135)
T TIGR02552        80 LDPDDPRPYFHAAECLLAL-GEPESALKALDLAIEICGE  117 (135)
T ss_pred             cCCCChHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhccc
Confidence              44556676666666655 9999999999998876643

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.16  E-value=0.0011  Score=61.71  Aligned_cols=145  Identities=12%  Similarity=0.056  Sum_probs=113.9

Q ss_pred             HhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCC-HhHHHHHHHHHHhcCChHHH
Q 046221          362 ASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRD-VVSWNTIIYGYGVNGHGETA  439 (572)
Q Consensus       362 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~~~~~~A  439 (572)
                      .....+..+.|+..++.+... .|.|+.......+.+.+.++.++|.+.++++ ...|+ ...+-.+..+|.+.|++.+|
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~ea  393 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEA  393 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHH
Confidence            445567778888888776654 3566777777888999999999999999998 55566 55566778899999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          440 LALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       440 ~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +.+++..... .+-|+..|..|.++|...|+..++.....+                   .|...|+++.|...+....+
T Consensus       394 i~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~AE-------------------~~~~~G~~~~A~~~l~~A~~  453 (484)
T COG4783         394 IRILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEALLARAE-------------------GYALAGRLEQAIIFLMRASQ  453 (484)
T ss_pred             HHHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHHHH-------------------HHHhCCCHHHHHHHHHHHHH
Confidence            9999998875 355779999999999999998888766543                   35567899999999888877


Q ss_pred             --CCChHHHH
Q 046221          520 --GMGPNIWR  527 (572)
Q Consensus       520 --~~~~~~~~  527 (572)
                        +.+...|.
T Consensus       454 ~~~~~~~~~a  463 (484)
T COG4783         454 QVKLGFPDWA  463 (484)
T ss_pred             hccCCcHHHH
Confidence              45555544

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.16  E-value=3.6e-06  Score=48.14  Aligned_cols=33  Identities=21%  Similarity=0.308  Sum_probs=25.7

Q ss_pred             eeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCC
Q 046221          116 VSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVP  148 (572)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p  148 (572)
                      .+|+.++.+|++.|+++.|.++|++|++.|++|
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            467788888888888888888888888777766

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.14  E-value=8.3e-05  Score=69.43  Aligned_cols=122  Identities=14%  Similarity=0.016  Sum_probs=81.0

Q ss_pred             HHHHHHhhhcCChHHHHHHHHHc-CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccC
Q 046221          392 NCLISSYSKCGNVDLAYIVFEEM-GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAG  469 (572)
Q Consensus       392 ~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g  469 (572)
                      ..++..+...++++.|..+++++ ...|+  ....++..+...++-.+|.+++++..+.  .| +...+..-...|.+.+
T Consensus       173 ~~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  173 DTLLKYLSLTQRYDEAIELLEKLRERDPE--VAVLLARVYLLMNEEVEAIRLLNEALKE--NPQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcCCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcC
Confidence            44555556667777777777777 33344  3334666666677777777777777753  33 4455555556677777


Q ss_pred             ChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          470 LTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       470 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +++.|+.+.+++++..  |-+..+|..|..+|.+.|+++.|+..++.+.-
T Consensus       249 ~~~lAL~iAk~av~ls--P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  249 KYELALEIAKKAVELS--PSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             CHHHHHHHHHHHHHhC--chhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            7777777777776433  33444777777777777777777777777664

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.11  E-value=0.014  Score=58.53  Aligned_cols=441  Identities=13%  Similarity=0.042  Sum_probs=247.7

Q ss_pred             hhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHc--CCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHH
Q 046221           47 SINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAA--GLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAG  124 (572)
Q Consensus        47 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~--~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  124 (572)
                      ...+++..|+.....+.+.  .|+. .|..++.++.  +.|+.++|..+++.....+.          .|..+...+-..
T Consensus        20 ld~~qfkkal~~~~kllkk--~Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~----------~D~~tLq~l~~~   86 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKK--HPNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKG----------TDDLTLQFLQNV   86 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHH--CCCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCC----------CchHHHHHHHHH
Confidence            4557889999999998775  4554 4666677665  89999999988887766655          356688889999


Q ss_pred             HHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCC----
Q 046221          125 FINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMD----  200 (572)
Q Consensus       125 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----  200 (572)
                      |...|+.++|..+|++....  .|+..-...+..+|.+.+++.+-.++--++.+. .+-+...+=++++.......    
T Consensus        87 y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~  163 (932)
T KOG2053|consen   87 YRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENE  163 (932)
T ss_pred             HHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcc
Confidence            99999999999999999874  678888888899999999888776665555553 35555555555555543321    


Q ss_pred             ------HHHHHHHHhhcCCCC--ccc---HHHHHHHHHccCCHHHHHHHHH-HHHhCCCCCCccchHHHHHHhcccCChH
Q 046221          201 ------LDAAIQIFREMECKD--VIS---WTRMMGLFVDFEYAGDALKIFR-EMRKSRIICDTVALLNLISVNAILGDLK  268 (572)
Q Consensus       201 ------~~~a~~~~~~~~~~~--~~~---~~~li~~~~~~~~~~~a~~~~~-~m~~~~~~p~~~~~~~ll~~~~~~~~~~  268 (572)
                            +.-|.+.++.+.+.+  ..+   ...-...+-..|++++|++++. ...+.-...+...-+.-+..+...+++.
T Consensus       164 ~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~  243 (932)
T KOG2053|consen  164 LLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQ  243 (932)
T ss_pred             cccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChH
Confidence                  223555555555433  111   1122334456788999999984 3333323333334445566777788899


Q ss_pred             HHHHHHHHHHHhCCCCCcchHHHHHHHHH----------------hcCChhHHHHHHhccCCC-CcchHHHHHHHHH---
Q 046221          269 RGKQLHAQVVLGGLQSELRLSNSIIAMYS----------------KCGDLDSSRSVFNQITEK-SLVSWTAIISGYV---  328 (572)
Q Consensus       269 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----------------~~~~~~~a~~~~~~~~~~-~~~~~~~l~~~~~---  328 (572)
                      +..++-.++...+...    |...++.+.                ..+..+...+...+.... .-..|-+-+.++.   
T Consensus       244 ~l~~l~~~Ll~k~~Dd----y~~~~~sv~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~~~Rgp~LA~lel~kr~~  319 (932)
T KOG2053|consen  244 ELFELSSRLLEKGNDD----YKIYTDSVFKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGSKSRGPYLARLELDKRYK  319 (932)
T ss_pred             HHHHHHHHHHHhCCcc----hHHHHHHHHHHHHhcccccchhhhhhhhhHHHHHHHHHHhhcccccCcHHHHHHHHHHhc
Confidence            8888888888876332    333222211                112222222222222211 1122333333333   


Q ss_pred             HcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchh-------HHHHHHHHhhhc
Q 046221          329 QNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRS-------VQNCLISSYSKC  401 (572)
Q Consensus       329 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~  401 (572)
                      .-|+.+++.-.|-+-.   |..|   .+..=+..|...=..+.-..++.......  ++..       .+.+.+..-.-.
T Consensus       320 ~~gd~ee~~~~y~~kf---g~kp---cc~~Dl~~yl~~l~~~q~~~l~~~l~~~~--~~~s~~~k~l~~h~c~l~~~rl~  391 (932)
T KOG2053|consen  320 LIGDSEEMLSYYFKKF---GDKP---CCAIDLNHYLGHLNIDQLKSLMSKLVLAD--DDSSGDEKVLQQHLCVLLLLRLL  391 (932)
T ss_pred             ccCChHHHHHHHHHHh---CCCc---HhHhhHHHhhccCCHHHHHHHHHHhhccC--CcchhhHHHHHHHHHHHHHHHHh
Confidence            4477777665543322   2222   11111111111112222222222221110  0000       011122222222


Q ss_pred             CC-----hHHHHHHHHHc------C------CCCCH---------hHHHHHHHHHHhcCChH---HHHHHHHHHHhcCCC
Q 046221          402 GN-----VDLAYIVFEEM------G------FLRDV---------VSWNTIIYGYGVNGHGE---TALALYHKMTETGEV  452 (572)
Q Consensus       402 g~-----~~~A~~~~~~~------~------~~~~~---------~~~~~l~~~~~~~~~~~---~A~~~~~~~~~~g~~  452 (572)
                      |.     -+.-..++.+.      |      .-|+.         .+-+.|+..|.+.++..   +|+-+++.-...  .
T Consensus       392 G~~~~l~ad~i~a~~~kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt~--s  469 (932)
T KOG2053|consen  392 GLYEKLPADSILAYVRKLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLTK--S  469 (932)
T ss_pred             hccccCChHHHHHHHHHHHHHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhc--C
Confidence            21     22222333222      1      22332         23466778888888765   445555554442  3


Q ss_pred             C-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          453 P-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       453 p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      | |..+-..+++.|+-.|-...|.++|+.+ .-..+..|..-|.. ...+...|++..+...++....
T Consensus       470 ~hnf~~KLlLiriY~~lGa~p~a~~~y~tL-dIK~IQ~DTlgh~~-~~~~~t~g~~~~~s~~~~~~lk  535 (932)
T KOG2053|consen  470 PHNFQTKLLLIRIYSYLGAFPDAYELYKTL-DIKNIQTDTLGHLI-FRRAETSGRSSFASNTFNEHLK  535 (932)
T ss_pred             CccHHHHHHHHHHHHHhcCChhHHHHHHhc-chHHhhhccchHHH-HHHHHhcccchhHHHHHHHHHH
Confidence            4 4466667888999999999999999988 44446666544332 3455566777777777765543

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.10  E-value=0.00013  Score=58.76  Aligned_cols=88  Identities=15%  Similarity=0.104  Sum_probs=44.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCH--HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh
Q 046221          426 IIYGYGVNGHGETALALYHKMTETGEVPDS--STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLAR  503 (572)
Q Consensus       426 l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  503 (572)
                      +...+...|++++|...|+...+....|+.  .....|...+...|++++|+..++.. ...  ......+....++|.+
T Consensus        54 lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~-~~~--~~~~~~~~~~Gdi~~~  130 (145)
T PF09976_consen   54 LAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQI-PDE--AFKALAAELLGDIYLA  130 (145)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhc-cCc--chHHHHHHHHHHHHHH
Confidence            334455566666666666666654311211  22333445555666666666665443 122  1233344455556666


Q ss_pred             hCChhHHHHHHHh
Q 046221          504 AGCLSDASGLAGK  516 (572)
Q Consensus       504 ~g~~~~A~~~~~~  516 (572)
                      .|++++|...|++
T Consensus       131 ~g~~~~A~~~y~~  143 (145)
T PF09976_consen  131 QGDYDEARAAYQK  143 (145)
T ss_pred             CCCHHHHHHHHHH
Confidence            6666666665554

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.05  E-value=0.00031  Score=56.62  Aligned_cols=125  Identities=11%  Similarity=0.107  Sum_probs=89.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC---HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCCh--hHHHH
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTETGEVPD---SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQ--EHYGC  496 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~--~~~~~  496 (572)
                      .|..++..+ ..++...+...++.+.+.. +.+   ......+...+...|++++|...|+.+++.. ..|+.  .....
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~-~d~~l~~~a~l~   90 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANA-PDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC-CCHHHHHHHHHH
Confidence            455555555 4788999999999999863 223   2344456677899999999999999998543 22222  24556


Q ss_pred             HHHHHHhhCChhHHHHHHHhccC-CCChHHHHHHHHHHhhhcCCHHHHHHHHHHH
Q 046221          497 VVDLLARAGCLSDASGLAGKLLE-GMGPNIWRALLSGCVLHVGRFQDAEALRSGS  550 (572)
Q Consensus       497 l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m  550 (572)
                      |..++...|++++|+..++.... ...+..+......+... |++++|...|++.
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~-g~~~~A~~~y~~A  144 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQ-GDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHC-CCHHHHHHHHHHh
Confidence            78899999999999999988765 33333444444555555 9999999999864

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.04  E-value=4.9e-05  Score=70.94  Aligned_cols=124  Identities=15%  Similarity=0.117  Sum_probs=103.1

Q ss_pred             hhHHHHHhhcCChhhHHHHhccCCCCChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChH
Q 046221            9 SKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLE   88 (572)
Q Consensus         9 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~   88 (572)
                      ..|+..+...++++.|+.+|+++.+.++.....++..+...++-.+|++++++..+.. +-+......-...|.+.++.+
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            3466777788999999999999998778788888899988999999999999988652 345445555566677999999


Q ss_pred             HHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHh
Q 046221           89 LARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRG  143 (572)
Q Consensus        89 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  143 (572)
                      .|..+.+++....+          .+..+|..|..+|.+.|+++.|+-.++.+.-
T Consensus       252 lAL~iAk~av~lsP----------~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  252 LALEIAKKAVELSP----------SEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             HHHHHHHHHHHhCc----------hhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            99999999998875          3456999999999999999999999988764

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.99  E-value=0.013  Score=53.78  Aligned_cols=122  Identities=16%  Similarity=0.150  Sum_probs=94.3

Q ss_pred             HHHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCC
Q 046221          391 QNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGL  470 (572)
Q Consensus       391 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~  470 (572)
                      .+..+.-+...|+...|.++..+..+ |+...|...+.+++..+++++-...-..      +-++..|..++.+|.+.|.
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fkv-~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~  252 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFKV-PDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGN  252 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcCC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCC
Confidence            34456667788999999999999999 9999999999999999999987765432      2234778899999999999


Q ss_pred             hHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccCCCChHHHHHHHHHH
Q 046221          471 TNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGC  533 (572)
Q Consensus       471 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~  533 (572)
                      ..+|..+..++      +     +..-+..|.++|++.+|.+.--+..   |......+...+
T Consensus       253 ~~eA~~yI~k~------~-----~~~rv~~y~~~~~~~~A~~~A~~~k---d~~~L~~i~~~~  301 (319)
T PF04840_consen  253 KKEASKYIPKI------P-----DEERVEMYLKCGDYKEAAQEAFKEK---DIDLLKQILKRC  301 (319)
T ss_pred             HHHHHHHHHhC------C-----hHHHHHHHHHCCCHHHHHHHHHHcC---CHHHHHHHHHHC
Confidence            99999988763      1     2445678899999999988876654   444555555444

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.99  E-value=2.8e-05  Score=55.75  Aligned_cols=48  Identities=15%  Similarity=0.241  Sum_probs=21.3

Q ss_pred             CChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHh
Q 046221          469 GLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGK  516 (572)
Q Consensus       469 g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  516 (572)
                      |+++.|+.+++++++.....++...+..+..+|.+.|++++|.+++++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            445555555555544331111223333345555555555555555554

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.96  E-value=8.8e-05  Score=64.19  Aligned_cols=93  Identities=17%  Similarity=0.161  Sum_probs=57.5

Q ss_pred             hhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCChHHH
Q 046221          398 YSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS-STYLSILNACGHAGLTNDG  474 (572)
Q Consensus       398 ~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a  474 (572)
                      +.+.+++.+|+..|.+. .+.| |.+.|..-..+|.+.|.++.|++-.+..+.  +.|.. .+|..|..+|...|++++|
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~--iDp~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALS--IDPHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHh--cChHHHHHHHHHHHHHHccCcHHHH
Confidence            44566666666666666 3333 455555666666666666666666666666  55644 6666666666666666666


Q ss_pred             HHHHHHhHHhcCCCCChhHHH
Q 046221          475 LVIFNQMIEENKVKPSQEHYG  495 (572)
Q Consensus       475 ~~~~~~~~~~~~~~~~~~~~~  495 (572)
                      ++.|+++++   +.|+-.+|.
T Consensus       169 ~~aykKaLe---ldP~Ne~~K  186 (304)
T KOG0553|consen  169 IEAYKKALE---LDPDNESYK  186 (304)
T ss_pred             HHHHHhhhc---cCCCcHHHH
Confidence            666666653   455555443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.89  E-value=0.00036  Score=54.14  Aligned_cols=96  Identities=11%  Similarity=0.085  Sum_probs=57.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCC-ChhHHHH
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTETGEVPD----SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKP-SQEHYGC  496 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~  496 (572)
                      ++-.+...+.+.|++++|...|+++.+.  .|+    ...+..+..++.+.|++++|...|+.+++...-.+ ....+..
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~   81 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKK--YPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLK   81 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHH
Confidence            3445555666677777777777776653  232    23455566667777777777777776654331111 1345566


Q ss_pred             HHHHHHhhCChhHHHHHHHhccC
Q 046221          497 VVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       497 l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +..++.+.|++++|...++++..
T Consensus        82 ~~~~~~~~~~~~~A~~~~~~~~~  104 (119)
T TIGR02795        82 LGMSLQELGDKEKAKATLQQVIK  104 (119)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHH
Confidence            66666677777777777776665

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.

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.86  E-value=0.0002  Score=52.13  Aligned_cols=79  Identities=11%  Similarity=0.057  Sum_probs=67.5

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHhCCC-CCCHhhHHHHHHHHhccC--------ChHHHHHHHHHHHHhcCCCChhHHh
Q 046221          119 NAIVAGFINNKLFQQAVLLFNFFRGSGL-VPNAVTMLTVIRGCVALG--------SRALCELIHGLTIKLGLILDVSVNN  189 (572)
Q Consensus       119 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~  189 (572)
                      ...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        ..-....+++.|+..+++|+..+|+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            3456667777999999999999999999 999999999999977654        3445678899999999999999999


Q ss_pred             HHHHHHHh
Q 046221          190 SVLDMYSC  197 (572)
Q Consensus       190 ~l~~~~~~  197 (572)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            99987765

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 [, , ].

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.84  E-value=0.00083  Score=60.79  Aligned_cols=127  Identities=10%  Similarity=0.128  Sum_probs=54.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHH-HhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHH
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNA-CGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDL  500 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  500 (572)
                      +|..++....+.+..+.|..+|.+.++.+ ..+...|...... +...++.+.|.++|+.+++..  +.+...|...++.
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f--~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKF--PSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHH--TT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHH
Confidence            34444444444444555555555554321 1122223222222 222334444555555554432  3344445555555


Q ss_pred             HHhhCChhHHHHHHHhccC-CCCh----HHHHHHHHHHhhhcCCHHHHHHHHHHHHh
Q 046221          501 LARAGCLSDASGLAGKLLE-GMGP----NIWRALLSGCVLHVGRFQDAEALRSGSQK  552 (572)
Q Consensus       501 ~~~~g~~~~A~~~~~~~~~-~~~~----~~~~~l~~~~~~~~g~~~~A~~~~~~m~~  552 (572)
                      +.+.|+.+.|..+|++... -+..    ..|...+.--... |+.+.+..+.+++.+
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~-Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKY-GDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHH-S-HHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHH
Confidence            5555555555555555544 1111    2444444444444 555555555554443

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.83  E-value=0.00076  Score=53.26  Aligned_cols=95  Identities=6%  Similarity=-0.043  Sum_probs=72.2

Q ss_pred             HHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccC
Q 046221          393 CLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAG  469 (572)
Q Consensus       393 ~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g  469 (572)
                      .+...+...|++++|.++|+.+ .+.| +..-|-.|..++...|++++|+..|......  .| |+.++..+..++...|
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L--~~ddp~~~~~ag~c~L~lG  117 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQI--KIDAPQAPWAAAECYLACD  117 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCchHHHHHHHHHHHcC
Confidence            3555667788888888888887 3333 4566777888888888899999998888884  45 4588888888888889


Q ss_pred             ChHHHHHHHHHhHHhcCCCC
Q 046221          470 LTNDGLVIFNQMIEENKVKP  489 (572)
Q Consensus       470 ~~~~a~~~~~~~~~~~~~~~  489 (572)
                      +.+.|.+.|+.++...+-.|
T Consensus       118 ~~~~A~~aF~~Ai~~~~~~~  137 (157)
T PRK15363        118 NVCYAIKALKAVVRICGEVS  137 (157)
T ss_pred             CHHHHHHHHHHHHHHhccCh
Confidence            99999888888876554333

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.83  E-value=2.6e-05  Score=43.38  Aligned_cols=31  Identities=29%  Similarity=0.589  Sum_probs=23.0

Q ss_pred             hhHHHHHHHHhhCCChHHHHHHHHHHHHcCC
Q 046221           37 VSWSIVIHGYSINGFHEKSMKAFSHMMLSGL   67 (572)
Q Consensus        37 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   67 (572)
                      ++|++++++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3677777777777777777777777777663

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.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.83  E-value=0.002  Score=54.45  Aligned_cols=190  Identities=14%  Similarity=0.086  Sum_probs=137.4

Q ss_pred             cccccHHHHHHHHHHHHHh---c-CCCch-hHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCCh
Q 046221          364 GELAALEICLQLHGIAFEA---G-FPRYR-SVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHG  436 (572)
Q Consensus       364 ~~~~~~~~a~~~~~~~~~~---~-~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~  436 (572)
                      ....+.++..+++..+...   | ..++. ..|..++-+....|+.+.|...++++  .++.+...-..-..-+-..|++
T Consensus        23 ~~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   23 ETVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             ccccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhch
Confidence            4456788888888777643   3 33443 34556666777899999999999998  4422222222122234457899


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHh
Q 046221          437 ETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGK  516 (572)
Q Consensus       437 ~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  516 (572)
                      ++|+++|+.+++.. +.|..++.-=+...-..|+.-+|++-+.+.++.  +..|...|.-+.+.|...|++++|.-.+++
T Consensus       103 ~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~--F~~D~EAW~eLaeiY~~~~~f~kA~fClEE  179 (289)
T KOG3060|consen  103 KEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK--FMNDQEAWHELAEIYLSEGDFEKAAFCLEE  179 (289)
T ss_pred             hhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHhHhHHHHHHHHHHH
Confidence            99999999999974 335688887777778889988999999998865  478999999999999999999999999999


Q ss_pred             ccC-CCChH-HHHHHHHHHhhh--cCCHHHHHHHHHHHHhCCCC
Q 046221          517 LLE-GMGPN-IWRALLSGCVLH--VGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       517 ~~~-~~~~~-~~~~l~~~~~~~--~g~~~~A~~~~~~m~~~~~~  556 (572)
                      +.- .|-.. .+..+...+...  ..+.+-|.+++.+..+....
T Consensus       180 ~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~  223 (289)
T KOG3060|consen  180 LLLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPK  223 (289)
T ss_pred             HHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChH
Confidence            876 55444 444555554433  24566778888887776653

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.82  E-value=3e-05  Score=43.12  Aligned_cols=30  Identities=23%  Similarity=0.589  Sum_probs=24.1

Q ss_pred             eHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 046221          117 SCNAIVAGFINNKLFQQAVLLFNFFRGSGL  146 (572)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~  146 (572)
                      +||.++++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            688888888888888888888888887663

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.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.81  E-value=0.00043  Score=53.67  Aligned_cols=100  Identities=14%  Similarity=0.021  Sum_probs=78.2

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCC----hHHHHHH
Q 046221          456 STYLSILNACGHAGLTNDGLVIFNQMIEENKVKP-SQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMG----PNIWRAL  529 (572)
Q Consensus       456 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~----~~~~~~l  529 (572)
                      .++..++..+.+.|++++|.+.|+.+++..+-.+ ....+..+..++.+.|++++|...++++.. .|+    +..+..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            4566777888999999999999999986542111 134667789999999999999999999876 444    3456666


Q ss_pred             HHHHhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          530 LSGCVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       530 ~~~~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                      ...+... |++++|...++++.+..+.
T Consensus        83 ~~~~~~~-~~~~~A~~~~~~~~~~~p~  108 (119)
T TIGR02795        83 GMSLQEL-GDKEKAKATLQQVIKRYPG  108 (119)
T ss_pred             HHHHHHh-CChHHHHHHHHHHHHHCcC
Confidence            6666655 9999999999999988654

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.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.81  E-value=4.8e-05  Score=54.54  Aligned_cols=81  Identities=16%  Similarity=0.241  Sum_probs=55.3

Q ss_pred             cCChHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHH
Q 046221          433 NGHGETALALYHKMTETGE-VPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDAS  511 (572)
Q Consensus       433 ~~~~~~A~~~~~~~~~~g~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  511 (572)
                      .|+++.|+.+++++.+..- .|+...+..+..+|.+.|++++|+.+++. .+..  +.+......+..++.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~--~~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD--PSNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH--HCHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC--CCCHHHHHHHHHHHHHhCCHHHHH
Confidence            5778888888888888532 12344555578888888888888888877 2322  123344555678888888888888


Q ss_pred             HHHHh
Q 046221          512 GLAGK  516 (572)
Q Consensus       512 ~~~~~  516 (572)
                      +.+++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            88875

>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=97.80  E-value=0.0003  Score=51.92  Aligned_cols=92  Identities=21%  Similarity=0.187  Sum_probs=50.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHH
Q 046221          423 WNTIIYGYGVNGHGETALALYHKMTETGEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLL  501 (572)
Q Consensus       423 ~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  501 (572)
                      +..+...+...|++++|...++++.+.  .|+ ...+..+...+...|++++|.+.++..++..  +.+...+..+...+
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~   78 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELD--PDNAKAYYNLGLAY   78 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC--CcchhHHHHHHHHH
Confidence            344455555666666666666666553  332 2445555555666666666666666654322  22334555555566


Q ss_pred             HhhCChhHHHHHHHhcc
Q 046221          502 ARAGCLSDASGLAGKLL  518 (572)
Q Consensus       502 ~~~g~~~~A~~~~~~~~  518 (572)
                      ...|++++|...+.+..
T Consensus        79 ~~~~~~~~a~~~~~~~~   95 (100)
T cd00189          79 YKLGKYEEALEAYEKAL   95 (100)
T ss_pred             HHHHhHHHHHHHHHHHH
Confidence            66666666666655543

>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=97.78  E-value=0.00034  Score=51.57  Aligned_cols=91  Identities=15%  Similarity=0.143  Sum_probs=48.0

Q ss_pred             HHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCChHHHHHHHHHHhhh
Q 046221          459 LSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMGPNIWRALLSGCVLH  536 (572)
Q Consensus       459 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~  536 (572)
                      ..+...+...|++++|..+++++++..  +.+...+..+..++...|++++|.+.+++...  +.+..++..+...+...
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELD--PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHH
Confidence            344445555666666666666654322  22334455555566666666666666665544  22333444444444444


Q ss_pred             cCCHHHHHHHHHHHHh
Q 046221          537 VGRFQDAEALRSGSQK  552 (572)
Q Consensus       537 ~g~~~~A~~~~~~m~~  552 (572)
                       |++++|...+++..+
T Consensus        82 -~~~~~a~~~~~~~~~   96 (100)
T cd00189          82 -GKYEEALEAYEKALE   96 (100)
T ss_pred             -HhHHHHHHHHHHHHc
Confidence             666666666655543

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.77  E-value=0.0038  Score=56.81  Aligned_cols=136  Identities=10%  Similarity=0.079  Sum_probs=76.3

Q ss_pred             HHHHHhhhc-CChHHHHHHHHHc-----CC-CCC--HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-----CH-HH
Q 046221          393 CLISSYSKC-GNVDLAYIVFEEM-----GF-LRD--VVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-----DS-ST  457 (572)
Q Consensus       393 ~l~~~~~~~-g~~~~A~~~~~~~-----~~-~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-----~~-~~  457 (572)
                      .+...|... |++++|.+.|++.     .. .+.  ...+..+...+.+.|++++|..+|++....-...     +. ..
T Consensus       119 ~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~  198 (282)
T PF14938_consen  119 ELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEY  198 (282)
T ss_dssp             HHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHH
Confidence            345566666 7888888777766     11 121  3345566777888889999999998887643221     22 12


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHhHHhc-CCCCCh--hHHHHHHHHHHh--hCChhHHHHHHHhccCCCChHHHHHH
Q 046221          458 YLSILNACGHAGLTNDGLVIFNQMIEEN-KVKPSQ--EHYGCVVDLLAR--AGCLSDASGLAGKLLEGMGPNIWRAL  529 (572)
Q Consensus       458 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~--~~~~~l~~~~~~--~g~~~~A~~~~~~~~~~~~~~~~~~l  529 (572)
                      |...+-++...|++..|.+.+++..... ++..+.  .....|+.++-.  ...+.+|..-|+.+. +.|+.--..|
T Consensus       199 ~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~-~ld~w~~~~l  274 (282)
T PF14938_consen  199 FLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSIS-RLDNWKTKML  274 (282)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS----HHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccC-ccHHHHHHHH
Confidence            3334445667788888888888875332 233332  256677777743  224556666666665 4444433333

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.76  E-value=0.00051  Score=64.56  Aligned_cols=103  Identities=17%  Similarity=0.112  Sum_probs=66.9

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhC
Q 046221          427 IYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAG  505 (572)
Q Consensus       427 ~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  505 (572)
                      ...+...|+++.|+..|+++++.  .| +...|..+..+|...|++++|+..++++++..  +.+...|..+..+|...|
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~--P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELD--PSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHhC
Confidence            34455667777777777777763  44 34666666777777777777777777776533  334556667777777777


Q ss_pred             ChhHHHHHHHhccC-CCChHHHHHHHHHH
Q 046221          506 CLSDASGLAGKLLE-GMGPNIWRALLSGC  533 (572)
Q Consensus       506 ~~~~A~~~~~~~~~-~~~~~~~~~l~~~~  533 (572)
                      ++++|...|+++.. .|+.......+..|
T Consensus        85 ~~~eA~~~~~~al~l~P~~~~~~~~l~~~  113 (356)
T PLN03088         85 EYQTAKAALEKGASLAPGDSRFTKLIKEC  113 (356)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            77777777777766 55544444444444

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.76  E-value=0.0007  Score=63.66  Aligned_cols=122  Identities=16%  Similarity=0.138  Sum_probs=85.6

Q ss_pred             CCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHh--cCCCchhHHHHHHHHhhhcCChHHHHHHHHHc---CCCCCHh
Q 046221          347 KTDSVDSITLVSILTASGELAALEICLQLHGIAFEA--GFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM---GFLRDVV  421 (572)
Q Consensus       347 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~~~~~  421 (572)
                      .+.+.+...+..++..+....+++.+..++-+....  ....-..+..++++.|.+.|..+.++.+++.=   |+-||..
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~  139 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNF  139 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChh
Confidence            445566777777777777777777777776666544  22222334457888888888888888887754   7778888


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhcc
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHA  468 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~  468 (572)
                      ++|.|+..+.+.|++..|.++...|...+...+..|+...+.+|.+-
T Consensus       140 s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  140 SFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            88888888888888888888877777766666666666655555444

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=97.75  E-value=0.00029  Score=66.17  Aligned_cols=127  Identities=9%  Similarity=-0.046  Sum_probs=98.8

Q ss_pred             cCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 046221           65 SGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGS  144 (572)
Q Consensus        65 ~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  144 (572)
                      .+.+.+......++..+....+++.+..++-......-...       --..+.+++++.|...|..+.++++++.=...
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~-------~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~y  132 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSY-------LLPSTHHALVRQCLELGAEDELLELLKNRLQY  132 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCccccc-------ccCccHHHHHHHHHhcCCHHHHHHHHhChhhc
Confidence            34466777788888888888888888888777766532211       11224568999999999999999999888888


Q ss_pred             CCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhC
Q 046221          145 GLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCL  198 (572)
Q Consensus       145 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (572)
                      |+-||..|++.+|..+.+.|++..|.++...|..++...+..|+..-+.+|.+.
T Consensus       133 GiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  133 GIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             ccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            999999999999999999999999999998888888777777776666666655

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 [].

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.74  E-value=0.0038  Score=50.11  Aligned_cols=123  Identities=16%  Similarity=0.140  Sum_probs=67.8

Q ss_pred             CCchhHHHHHHHHhhhcCChHHHHHHHHHc--C-CCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC---HHHH
Q 046221          385 PRYRSVQNCLISSYSKCGNVDLAYIVFEEM--G-FLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD---SSTY  458 (572)
Q Consensus       385 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~---~~~~  458 (572)
                      .|+...--.|..++.+.|+..+|...|++.  | ..-|....-.+.++....+++..|...++++-+..  |+   ..+.
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 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYN--PAFRSPDGH  163 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcC--CccCCCCch
Confidence            455554455666666666666666666665  2 23345555555666666666666666666665532  31   2233


Q ss_pred             HHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHH
Q 046221          459 LSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASG  512 (572)
Q Consensus       459 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  512 (572)
                      ..+.+.+...|++.+|..-|+.++..   -|+...-.-....+.++|+..+|..
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~---ypg~~ar~~Y~e~La~qgr~~ea~a  214 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISY---YPGPQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHh---CCCHHHHHHHHHHHHHhcchhHHHH
Confidence            44555666666666666666666532   2444444444455556665555443

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.73  E-value=0.00017  Score=49.17  Aligned_cols=62  Identities=16%  Similarity=0.268  Sum_probs=39.6

Q ss_pred             ccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHHHHHH
Q 046221          467 HAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWRALL  530 (572)
Q Consensus       467 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~  530 (572)
                      ..|++++|+++|+++++..  +-+...+..++.+|.+.|++++|.++++++.. .|+...|..++
T Consensus         3 ~~~~~~~A~~~~~~~l~~~--p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~l~   65 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN--PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQQLL   65 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT--TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            4567777777777776544  34555666677777777777777777777766 55544444443

...

>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=97.69  E-value=0.00043  Score=57.33  Aligned_cols=127  Identities=13%  Similarity=0.113  Sum_probs=88.9

Q ss_pred             hhHHHHhccC--CCCChhhHHHHHHHHhh-----CCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHH
Q 046221           22 KEAENLFDEI--PEKNVVSWSIVIHGYSI-----NGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIH   94 (572)
Q Consensus        22 ~~A~~~~~~~--~~~~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~   94 (572)
                      ..-...|++.  ...+-.+|..++..|.+     .|+.+-....+..|.+-|+.-|..+|+.||..+=+ |.+- -..+|
T Consensus        31 ~~~~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~f  108 (228)
T PF06239_consen   31 APHEELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFF  108 (228)
T ss_pred             cchHHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHH
Confidence            3445566665  45788899999988764     47888888889999999999999999999998864 3321 11111


Q ss_pred             HHHHHhcCCCCcccCCCCCCceeHHHHHHHHHh-CCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCC-hHHHHHH
Q 046221           95 GLMVKFGLESDLFEGLKNPYLVSCNAIVAGFIN-NKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGS-RALCELI  172 (572)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~-~~~a~~~  172 (572)
                      +.                           .+.. -.+-+-|++++++|...|+.||..|+..+++.+++.+. ..+..++
T Consensus       109 Q~---------------------------~F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p~~K~~rm  161 (228)
T PF06239_consen  109 QA---------------------------EFMHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSHPMKKYRRM  161 (228)
T ss_pred             HH---------------------------HhccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccHHHHHHHHH
Confidence            11                           1111 23557789999999999999999999999999987663 2334444


Q ss_pred             HHHHH
Q 046221          173 HGLTI  177 (572)
Q Consensus       173 ~~~~~  177 (572)
                      .=+|-
T Consensus       162 mYWmp  166 (228)
T PF06239_consen  162 MYWMP  166 (228)
T ss_pred             HHHHH
Confidence            43443

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.67  E-value=0.025  Score=54.62  Aligned_cols=253  Identities=11%  Similarity=0.049  Sum_probs=124.7

Q ss_pred             cHHHHHHHHHccCCHHHHHHHH---------HHHHhCCCCCCccchHHHHHHhcccCChH--HHHHHHHHHHHhCCCCCc
Q 046221          218 SWTRMMGLFVDFEYAGDALKIF---------REMRKSRIICDTVALLNLISVNAILGDLK--RGKQLHAQVVLGGLQSEL  286 (572)
Q Consensus       218 ~~~~li~~~~~~~~~~~a~~~~---------~~m~~~~~~p~~~~~~~ll~~~~~~~~~~--~a~~~~~~~~~~~~~~~~  286 (572)
                      .+.+-+-.|...|.+++|.++-         +.+...  ..+.-.++..=++|.+..+..  +...-++++.+.|-.|+.
T Consensus       558 p~~~~m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~--ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~  635 (1081)
T KOG1538|consen  558 PQSAPMYQYIERGLFKEAYQIACLGVTDTDWRELAME--ALEALDFETARKAYIRVRDLRYLELISELEERKKRGETPND  635 (1081)
T ss_pred             cccccchhhhhccchhhhhcccccceecchHHHHHHH--HHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchH
Confidence            4455556666777777665431         111110  122333444445555544433  233445566667766766


Q ss_pred             chHHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhccc
Q 046221          287 RLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGEL  366 (572)
Q Consensus       287 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  366 (572)
                      ..   +...++-.|++.+|.++|.+-                  |.-..|+++|..|.           ..-...-+...
T Consensus       636 iL---lA~~~Ay~gKF~EAAklFk~~------------------G~enRAlEmyTDlR-----------MFD~aQE~~~~  683 (1081)
T KOG1538|consen  636 LL---LADVFAYQGKFHEAAKLFKRS------------------GHENRALEMYTDLR-----------MFDYAQEFLGS  683 (1081)
T ss_pred             HH---HHHHHHhhhhHHHHHHHHHHc------------------CchhhHHHHHHHHH-----------HHHHHHHHhhc
Confidence            43   445566778888888877643                  44445555554443           11112222233


Q ss_pred             ccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc---------CCC---CCHhHHHHHHHHHHhcC
Q 046221          367 AALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM---------GFL---RDVVSWNTIIYGYGVNG  434 (572)
Q Consensus       367 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~---~~~~~~~~l~~~~~~~~  434 (572)
                      |..++-..+.++-.+.  ..+..--.+-.+++...|+..+|..+.-+-         +-+   .+..+...+..-+.+..
T Consensus       684 g~~~eKKmL~RKRA~W--Ar~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~  761 (1081)
T KOG1538|consen  684 GDPKEKKMLIRKRADW--ARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLD  761 (1081)
T ss_pred             CChHHHHHHHHHHHHH--hhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhcc
Confidence            3333322222211110  001111122344555666666665554322         111   23334444444455566


Q ss_pred             ChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhH-----------HHHHHHHHHh
Q 046221          435 HGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEH-----------YGCVVDLLAR  503 (572)
Q Consensus       435 ~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-----------~~~l~~~~~~  503 (572)
                      .+.-|-++|.+|-+.         ..+++.+...++|++|..+-+..-   .+.||+..           |.-.-++|.+
T Consensus       762 ~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hP---e~~~dVy~pyaqwLAE~DrFeEAqkAfhk  829 (1081)
T KOG1538|consen  762 SPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHP---EFKDDVYMPYAQWLAENDRFEEAQKAFHK  829 (1081)
T ss_pred             ccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCc---cccccccchHHHHhhhhhhHHHHHHHHHH
Confidence            677777888776552         356777888888988888776442   23455431           1112235555


Q ss_pred             hCChhHHHHHHHhcc
Q 046221          504 AGCLSDASGLAGKLL  518 (572)
Q Consensus       504 ~g~~~~A~~~~~~~~  518 (572)
                      .|+..+|.++++++.
T Consensus       830 AGr~~EA~~vLeQLt  844 (1081)
T KOG1538|consen  830 AGRQREAVQVLEQLT  844 (1081)
T ss_pred             hcchHHHHHHHHHhh
Confidence            555556665555554

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.64  E-value=0.046  Score=49.62  Aligned_cols=285  Identities=16%  Similarity=0.091  Sum_probs=161.4

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCccchHHHHHHhc--ccCChHHHHHHHHHHHHhCCCCCcch--HHHHHHHHHhcCChhHH
Q 046221          230 EYAGDALKIFREMRKSRIICDTVALLNLISVNA--ILGDLKRGKQLHAQVVLGGLQSELRL--SNSIIAMYSKCGDLDSS  305 (572)
Q Consensus       230 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a  305 (572)
                      |+-..|.++-.+..+. +..|......++.+-.  -.|+.+.|.+-|+.|...   |....  ...|.-.--+.|+.+.|
T Consensus        98 Gda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaA  173 (531)
T COG3898          98 GDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAA  173 (531)
T ss_pred             CchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHH
Confidence            4444444443333221 3334444444444332  236666666666666531   11111  11222223455777777


Q ss_pred             HHHHhccCCC---CcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHh--HHHHHHHHhcc---cccHHHHHHHHH
Q 046221          306 RSVFNQITEK---SLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSI--TLVSILTASGE---LAALEICLQLHG  377 (572)
Q Consensus       306 ~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~~ll~~~~~---~~~~~~a~~~~~  377 (572)
                      ..+-+..-..   -...+...+...+..|+++.|+++++.-....-+.++..  .-..++.+-..   ..+...|...-.
T Consensus       174 r~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~  253 (531)
T COG3898         174 RHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDAL  253 (531)
T ss_pred             HHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHH
Confidence            6666655432   124667778888888888888888887764444555543  22223322211   123334444333


Q ss_pred             HHHHhcCCCchhHH-HHHHHHhhhcCChHHHHHHHHHc-CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhc-CCCCC
Q 046221          378 IAFEAGFPRYRSVQ-NCLISSYSKCGNVDLAYIVFEEM-GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTET-GEVPD  454 (572)
Q Consensus       378 ~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-g~~p~  454 (572)
                      +..  .+.|+..-- -.-..++.+.|+..++-.+++.+ ...|.+..+...  .+.+.|+  .++.-+++.... .++||
T Consensus       254 ~a~--KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia~lY--~~ar~gd--ta~dRlkRa~~L~slk~n  327 (531)
T COG3898         254 EAN--KLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIALLY--VRARSGD--TALDRLKRAKKLESLKPN  327 (531)
T ss_pred             HHh--hcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHHHHH--HHhcCCC--cHHHHHHHHHHHHhcCcc
Confidence            322  334443221 22346788999999999999998 555766655332  2344454  344444443321 25675


Q ss_pred             H-HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh-hCChhHHHHHHHhccCCCChHHHH
Q 046221          455 S-STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLAR-AGCLSDASGLAGKLLEGMGPNIWR  527 (572)
Q Consensus       455 ~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~  527 (572)
                      . .....+..+....|++..|..--+.+.+   ..|....|..|.+.-.- .||-.++..++.+....|....|.
T Consensus       328 naes~~~va~aAlda~e~~~ARa~Aeaa~r---~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~APrdPaW~  399 (531)
T COG3898         328 NAESSLAVAEAALDAGEFSAARAKAEAAAR---EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKAPRDPAWT  399 (531)
T ss_pred             chHHHHHHHHHHHhccchHHHHHHHHHHhh---hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCCCCCccc
Confidence            5 7777788888889999888877766643   46888888888776544 499999999999887744443443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.63  E-value=0.0019  Score=53.78  Aligned_cols=83  Identities=16%  Similarity=0.159  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTETGEVPD--SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVD  499 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  499 (572)
                      .+..+...+...|++++|...|++..+.+..+.  ...+..+...+.+.|++++|...++++++..  +-+...+..+..
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~  114 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN--PKQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHHHHH
Confidence            344445555555666666666665554321111  2345555555666666666666666655432  223334444555


Q ss_pred             HHHhhCC
Q 046221          500 LLARAGC  506 (572)
Q Consensus       500 ~~~~~g~  506 (572)
                      ++...|+
T Consensus       115 ~~~~~g~  121 (172)
T PRK02603        115 IYHKRGE  121 (172)
T ss_pred             HHHHcCC
Confidence            5555444

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.59  E-value=0.00078  Score=49.16  Aligned_cols=79  Identities=9%  Similarity=0.049  Sum_probs=66.5

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCC-CCCccchHHHHHHhcccC--------ChHHHHHHHHHHHHhCCCCCcchHH
Q 046221          220 TRMMGLFVDFEYAGDALKIFREMRKSRI-ICDTVALLNLISVNAILG--------DLKRGKQLHAQVVLGGLQSELRLSN  290 (572)
Q Consensus       220 ~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~  290 (572)
                      ...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        .+.....+|+.|+..+++|+..+|+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            3456666677999999999999999999 899999999999886653        2445788999999999999999999


Q ss_pred             HHHHHHHh
Q 046221          291 SIIAMYSK  298 (572)
Q Consensus       291 ~l~~~~~~  298 (572)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            99988765

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 [, , ].

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.59  E-value=0.001  Score=60.19  Aligned_cols=126  Identities=10%  Similarity=-0.025  Sum_probs=59.7

Q ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhh-cCChHHHHHHHHHc--CCCCCHhHHHHHHHHHH
Q 046221          355 TLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSK-CGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYG  431 (572)
Q Consensus       355 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~  431 (572)
                      .|..++...-+.+..+.|..+|..+.+.+ ..+..+|-.....-.+ .++.+.|.++|+..  ....+...|...+..+.
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~l~   81 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDFLI   81 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            44555555555555666666665554221 2233333333333222 34444455555555  33334445555555555


Q ss_pred             hcCChHHHHHHHHHHHhcCCCCCH---HHHHHHHHHHhccCChHHHHHHHHHhH
Q 046221          432 VNGHGETALALYHKMTETGEVPDS---STYLSILNACGHAGLTNDGLVIFNQMI  482 (572)
Q Consensus       432 ~~~~~~~A~~~~~~~~~~g~~p~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~  482 (572)
                      +.|+.+.|..+|++.... +.++.   ..|...+.-=.+.|+.+.+.++.+++.
T Consensus        82 ~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~  134 (280)
T PF05843_consen   82 KLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAE  134 (280)
T ss_dssp             HTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHH
T ss_pred             HhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            555555566666555543 22221   245555555555555555555555554

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.

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.59  E-value=0.0017  Score=53.97  Aligned_cols=95  Identities=15%  Similarity=0.040  Sum_probs=55.8

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC--CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHH
Q 046221          420 VVSWNTIIYGYGVNGHGETALALYHKMTETGEVP--DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCV  497 (572)
Q Consensus       420 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l  497 (572)
                      ...|..+...+...|++++|+..|++.......|  ...++..+...+...|++++|+..++.+++..  +.....+..+
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~--~~~~~~~~~l  112 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN--PFLPQALNNM  112 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCcHHHHHHH
Confidence            3445555666666777777777777776532222  12456667777777777777777777776432  2233345555


Q ss_pred             HHHHH-------hhCChhHHHHHHHh
Q 046221          498 VDLLA-------RAGCLSDASGLAGK  516 (572)
Q Consensus       498 ~~~~~-------~~g~~~~A~~~~~~  516 (572)
                      ...+.       +.|++++|...+++
T Consensus       113 a~i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        113 AVICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHHhhHHHHHcccHHHHHHHHHH
Confidence            55555       66666655444443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.54  E-value=0.0032  Score=49.83  Aligned_cols=95  Identities=6%  Similarity=-0.035  Sum_probs=78.3

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 046221          421 VSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS-STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVD  499 (572)
Q Consensus       421 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  499 (572)
                      ...-.+..-+...|++++|.++|+-+..  +.|.. .-|..|..+|-..|++.+|+..|..+..-.  +-|+..+-.+..
T Consensus        36 ~~lY~~A~~ly~~G~l~~A~~~f~~L~~--~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~--~ddp~~~~~ag~  111 (157)
T PRK15363         36 NTLYRYAMQLMEVKEFAGAARLFQLLTI--YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK--IDAPQAPWAAAE  111 (157)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CCCchHHHHHHH
Confidence            3334455567789999999999999888  67755 667778888999999999999999997443  456778888999


Q ss_pred             HHHhhCChhHHHHHHHhccC
Q 046221          500 LLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       500 ~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ++...|+.+.|.+.|+....
T Consensus       112 c~L~lG~~~~A~~aF~~Ai~  131 (157)
T PRK15363        112 CYLACDNVCYAIKALKAVVR  131 (157)
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            99999999999999998765

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.53  E-value=0.023  Score=54.88  Aligned_cols=260  Identities=13%  Similarity=0.101  Sum_probs=126.8

Q ss_pred             hhhHHHHHhhcCChhhHHHHhccCCC-----------CChhhHHHHHHHHhhCCC--hHHHHHHHHHHHHcCCCCCcchH
Q 046221            8 SSKLLSNYFKSGKIKEAENLFDEIPE-----------KNVVSWSIVIHGYSINGF--HEKSMKAFSHMMLSGLLPNSFTM   74 (572)
Q Consensus         8 ~~~l~~~~~~~~~~~~A~~~~~~~~~-----------~~~~~~~~li~~~~~~~~--~~~a~~~~~~m~~~~~~~~~~~~   74 (572)
                      +..=+-.|...|.+++|.++----.-           .+.-.++..=.+|.+-++  +-+.+.-+++|.++|-.|+... 
T Consensus       559 ~~~~m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iL-  637 (1081)
T KOG1538|consen  559 QSAPMYQYIERGLFKEAYQIACLGVTDTDWRELAMEALEALDFETARKAYIRVRDLRYLELISELEERKKRGETPNDLL-  637 (1081)
T ss_pred             ccccchhhhhccchhhhhcccccceecchHHHHHHHHHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHH-
Confidence            34445567777888877765321111           122334444556655543  3344555666777776676543 


Q ss_pred             HHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHH
Q 046221           75 VGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTML  154 (572)
Q Consensus        75 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  154 (572)
                        +...|+-.|++.+|.++|                               .++|.-..|+++|.+|+--          
T Consensus       638 --lA~~~Ay~gKF~EAAklF-------------------------------k~~G~enRAlEmyTDlRMF----------  674 (1081)
T KOG1538|consen  638 --LADVFAYQGKFHEAAKLF-------------------------------KRSGHENRALEMYTDLRMF----------  674 (1081)
T ss_pred             --HHHHHHhhhhHHHHHHHH-------------------------------HHcCchhhHHHHHHHHHHH----------
Confidence              234455667777766553                               3455556666666655421          


Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHH
Q 046221          155 TVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGD  234 (572)
Q Consensus       155 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  234 (572)
                      -..+-+...|+.++-..+.+.--+..  .+..--.+....+...|+.++|..+.                  ..+|-.+-
T Consensus       675 D~aQE~~~~g~~~eKKmL~RKRA~WA--r~~kePkaAAEmLiSaGe~~KAi~i~------------------~d~gW~d~  734 (1081)
T KOG1538|consen  675 DYAQEFLGSGDPKEKKMLIRKRADWA--RNIKEPKAAAEMLISAGEHVKAIEIC------------------GDHGWVDM  734 (1081)
T ss_pred             HHHHHHhhcCChHHHHHHHHHHHHHh--hhcCCcHHHHHHhhcccchhhhhhhh------------------hcccHHHH
Confidence            12233344444444333333221110  00000012233344455555554432                  22222333


Q ss_pred             HHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC
Q 046221          235 ALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE  314 (572)
Q Consensus       235 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  314 (572)
                      +.++-+++..    .+..+...+...+.+...+..|-++|..|-..         ..++......+++++|..+-++.++
T Consensus       735 lidI~rkld~----~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe  801 (1081)
T KOG1538|consen  735 LIDIARKLDK----AEREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPE  801 (1081)
T ss_pred             HHHHHhhcch----hhhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCcc
Confidence            3333332221    22333444444444555556666666655432         3456666677777777777776664


Q ss_pred             --CCcc-----------hHHHHHHHHHHcCChHHHHHHHHHHH
Q 046221          315 --KSLV-----------SWTAIISGYVQNGCAREALNQFIKMR  344 (572)
Q Consensus       315 --~~~~-----------~~~~l~~~~~~~~~~~~a~~~~~~~~  344 (572)
                        +++.           -+...-.+|.+.|+..+|.++++++.
T Consensus       802 ~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLt  844 (1081)
T KOG1538|consen  802 FKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLT  844 (1081)
T ss_pred             ccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhh
Confidence              2221           11122345566677777777777764

>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=97.51  E-value=0.0028  Score=52.65  Aligned_cols=87  Identities=23%  Similarity=0.336  Sum_probs=58.1

Q ss_pred             CCHhHHHHHHHHHHh-----cCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhcc----------------CChHHHHH
Q 046221          418 RDVVSWNTIIYGYGV-----NGHGETALALYHKMTETGEVPDSSTYLSILNACGHA----------------GLTNDGLV  476 (572)
Q Consensus       418 ~~~~~~~~l~~~~~~-----~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~----------------g~~~~a~~  476 (572)
                      .+..+|..++..|.+     .|..+-....+..|.+-|+.-|..+|+.|++.+=+.                .+-+-|++
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~  124 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAID  124 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHH
Confidence            455555555555543     244555556666666666666666666666654321                23456888


Q ss_pred             HHHHhHHhcCCCCChhHHHHHHHHHHhhC
Q 046221          477 IFNQMIEENKVKPSQEHYGCVVDLLARAG  505 (572)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  505 (572)
                      ++++| +.+|+-||.+++..|++.+.+.+
T Consensus       125 lL~qM-E~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  125 LLEQM-ENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             HHHHH-HHcCCCCcHHHHHHHHHHhcccc
Confidence            89999 78889999999999998886555

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.50  E-value=0.042  Score=50.28  Aligned_cols=330  Identities=10%  Similarity=-0.017  Sum_probs=165.1

Q ss_pred             HHHHhCCCHHHHHHHHhhcCC--C-CcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-ccchHHHHHHhcccCChH
Q 046221          193 DMYSCLMDLDAAIQIFREMEC--K-DVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICD-TVALLNLISVNAILGDLK  268 (572)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~  268 (572)
                      ..+.+..++.+|+..+....+  | +..-|..-+..+...++++++.--.+.-.+.  .|. .......-.++...++..
T Consensus        57 n~~yk~k~Y~nal~~yt~Ai~~~pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~--kd~~~k~~~r~~~c~~a~~~~i  134 (486)
T KOG0550|consen   57 NAFYKQKTYGNALKNYTFAIDMCPDNASYYSNRAATLMMLGRFEEALGDARQSVRL--KDGFSKGQLREGQCHLALSDLI  134 (486)
T ss_pred             chHHHHhhHHHHHHHHHHHHHhCccchhhhchhHHHHHHHHhHhhcccchhhheec--CCCccccccchhhhhhhhHHHH
Confidence            345555566666666665544  2 3444555555666666666666555444332  221 223334444444444555


Q ss_pred             HHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC-----CCcchHHHH-HHHHHHcCChHHHHHHHHH
Q 046221          269 RGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE-----KSLVSWTAI-ISGYVQNGCAREALNQFIK  342 (572)
Q Consensus       269 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~l-~~~~~~~~~~~~a~~~~~~  342 (572)
                      +|.+.++.-.         .+           ....+...++.+..     |....|..+ ..++.-.|++++|...-..
T Consensus       135 ~A~~~~~~~~---------~~-----------~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~  194 (486)
T KOG0550|consen  135 EAEEKLKSKQ---------AY-----------KAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAID  194 (486)
T ss_pred             HHHHHhhhhh---------hh-----------HHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHH
Confidence            5544444111         00           01111111222211     111222222 2345556666666665555


Q ss_pred             HHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhH-------------HHHHHHHhhhcCChHHHHH
Q 046221          343 MRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSV-------------QNCLISSYSKCGNVDLAYI  409 (572)
Q Consensus       343 ~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------------~~~l~~~~~~~g~~~~A~~  409 (572)
                      +.+......+....+  -.++...++.+.+..-|++.++.+  |+...             +..-.+-..+.|++..|.+
T Consensus       195 ilkld~~n~~al~vr--g~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E  270 (486)
T KOG0550|consen  195 ILKLDATNAEALYVR--GLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYE  270 (486)
T ss_pred             HHhcccchhHHHHhc--ccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHH
Confidence            542222211111111  112233455556665555544332  22111             1111234567899999999


Q ss_pred             HHHHc-CCC-----CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHhH
Q 046221          410 VFEEM-GFL-----RDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS-STYLSILNACGHAGLTNDGLVIFNQMI  482 (572)
Q Consensus       410 ~~~~~-~~~-----~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~  482 (572)
                      .+.+. ++.     |+...|.....+..+.|+..+|+.-.++..+  +.|.. ..|..-..++...++|++|.+-++.++
T Consensus       271 ~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~--iD~syikall~ra~c~l~le~~e~AV~d~~~a~  348 (486)
T KOG0550|consen  271 CYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK--IDSSYIKALLRRANCHLALEKWEEAVEDYEKAM  348 (486)
T ss_pred             HHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh--cCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99988 444     4555666677778889999999999988887  45543 555556667888899999999999887


Q ss_pred             HhcCCCCChhHHHHHHHHHHhh--CChhHHHHHHHhccCCCChHHHHHHHHHHh--hhcCCHHHHHHHHHHH
Q 046221          483 EENKVKPSQEHYGCVVDLLARA--GCLSDASGLAGKLLEGMGPNIWRALLSGCV--LHVGRFQDAEALRSGS  550 (572)
Q Consensus       483 ~~~~~~~~~~~~~~l~~~~~~~--g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~--~~~g~~~~A~~~~~~m  550 (572)
                      +...-.-...++.-...++-+.  .++-.-+-+.......+.-..|.-+.-..+  .+.|.-.+|...|.+.
T Consensus       349 q~~~s~e~r~~l~~A~~aLkkSkRkd~ykilGi~~~as~~eikkayrk~AL~~Hpd~~agsq~eaE~kFkev  420 (486)
T KOG0550|consen  349 QLEKDCEIRRTLREAQLALKKSKRKDWYKILGISRNASDDEIKKAYRKLALVHHPDKNAGSQKEAEAKFKEV  420 (486)
T ss_pred             hhccccchHHHHHHHHHHHHHhhhhhHHHHhhhhhhcccchhhhHHHHHHHHhCCCcCcchhHHHHHHHHHH
Confidence            5442222233444444444322  233344444444433444445543322221  2234444555444443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.50  E-value=0.0019  Score=63.47  Aligned_cols=143  Identities=13%  Similarity=0.006  Sum_probs=92.0

Q ss_pred             cCCCchhHHHHHHHHhhhc-----CChHHHHHHHHHc-CCCCC-HhHHHHHHHHHHhcC--------ChHHHHHHHHHHH
Q 046221          383 GFPRYRSVQNCLISSYSKC-----GNVDLAYIVFEEM-GFLRD-VVSWNTIIYGYGVNG--------HGETALALYHKMT  447 (572)
Q Consensus       383 ~~~~~~~~~~~l~~~~~~~-----g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~~--------~~~~A~~~~~~~~  447 (572)
                      ..+.+...|..++++....     ++.+.|..+|++. ...|+ ...|..+..++....        +...+.+...+..
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            4567778888888775432     2367888888887 55565 445555544443221        1223333344333


Q ss_pred             hcC-CCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHH
Q 046221          448 ETG-EVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNI  525 (572)
Q Consensus       448 ~~g-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~  525 (572)
                      ... ...+...|..+.-.+...|++++|...++++++.   .|+...|..+..++...|+.++|.+.++++.. .|...+
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L---~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDL---EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence            321 2234566777766666778888888888888753   46777888888888888888888888888776 666666


Q ss_pred             HHH
Q 046221          526 WRA  528 (572)
Q Consensus       526 ~~~  528 (572)
                      |..
T Consensus       489 ~~~  491 (517)
T PRK10153        489 LYW  491 (517)
T ss_pred             HHH
Confidence            543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.46  E-value=0.0049  Score=46.98  Aligned_cols=93  Identities=15%  Similarity=0.180  Sum_probs=63.8

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCH--HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHH
Q 046221          426 IIYGYGVNGHGETALALYHKMTETGEVPDS--STYLSILNACGHAGLTNDGLVIFNQMIEENKVKP-SQEHYGCVVDLLA  502 (572)
Q Consensus       426 l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~  502 (572)
                      +..++-..|+.++|+.+|++....|+....  ..+..+..++...|++++|+.++++.++..+-.+ +......+.-++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            345666788888888888888888766643  5666777788888888888888888875431111 1222233344667


Q ss_pred             hhCChhHHHHHHHhcc
Q 046221          503 RAGCLSDASGLAGKLL  518 (572)
Q Consensus       503 ~~g~~~~A~~~~~~~~  518 (572)
                      ..|+.++|.+.+-...
T Consensus        87 ~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   87 NLGRPKEALEWLLEAL  102 (120)
T ss_pred             HCCCHHHHHHHHHHHH
Confidence            8888888887776544

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.43  E-value=0.0022  Score=55.88  Aligned_cols=99  Identities=21%  Similarity=0.157  Sum_probs=77.8

Q ss_pred             HhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCC-HhHHHHHHHHHHhcCChHHH
Q 046221          362 ASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRD-VVSWNTIIYGYGVNGHGETA  439 (572)
Q Consensus       362 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~~~~~~A  439 (572)
                      -..+.+++++|...|...++.. +-+...|..-..+|.+.|.++.|++-.+.. .+.|. ..+|..|..+|...|++++|
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHH
Confidence            4567788888888888888764 556677777888888999988888888777 55454 67888888888888999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHH
Q 046221          440 LALYHKMTETGEVPDSSTYLSILN  463 (572)
Q Consensus       440 ~~~~~~~~~~g~~p~~~~~~~l~~  463 (572)
                      ++.|++.++  +.|+..+|..=+.
T Consensus       169 ~~aykKaLe--ldP~Ne~~K~nL~  190 (304)
T KOG0553|consen  169 IEAYKKALE--LDPDNESYKSNLK  190 (304)
T ss_pred             HHHHHhhhc--cCCCcHHHHHHHH
Confidence            988888888  7888777765444

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.43  E-value=0.0083  Score=59.15  Aligned_cols=74  Identities=9%  Similarity=0.029  Sum_probs=60.3

Q ss_pred             CCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHH
Q 046221          416 FLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHY  494 (572)
Q Consensus       416 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  494 (572)
                      ...+...|..+.......|++++|...++++.+  +.|+...|..+...+...|+.++|.+.++++++..   |...+|
T Consensus       416 ~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~--L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~---P~~pt~  489 (517)
T PRK10153        416 LNVLPRIYEILAVQALVKGKTDEAYQAINKAID--LEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR---PGENTL  489 (517)
T ss_pred             CcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHH--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC---CCCchH
Confidence            334557787776677778999999999999999  56888999999999999999999999999987644   554444

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.41  E-value=0.0036  Score=52.19  Aligned_cols=99  Identities=12%  Similarity=0.032  Sum_probs=72.7

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhhCChhHHHHHHHhccC-CC-ChHHHHHHHHH
Q 046221          456 STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS-QEHYGCVVDLLARAGCLSDASGLAGKLLE-GM-GPNIWRALLSG  532 (572)
Q Consensus       456 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~  532 (572)
                      ..+..+...+...|++++|...|+++++...-+++ ...+..+..++.+.|++++|...++++.. .| +...+..+...
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~  115 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            56777888899999999999999999854322222 35788899999999999999999999887 44 34455555555


Q ss_pred             HhhhcCC--------------HHHHHHHHHHHHhCCC
Q 046221          533 CVLHVGR--------------FQDAEALRSGSQKKGI  555 (572)
Q Consensus       533 ~~~~~g~--------------~~~A~~~~~~m~~~~~  555 (572)
                      +... |+              +++|.+++++..+.+.
T Consensus       116 ~~~~-g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~p  151 (172)
T PRK02603        116 YHKR-GEKAEEAGDQDEAEALFDKAAEYWKQAIRLAP  151 (172)
T ss_pred             HHHc-CChHhHhhCHHHHHHHHHHHHHHHHHHHhhCc
Confidence            5443 55              4667777777666553

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.40  E-value=0.0038  Score=56.81  Aligned_cols=23  Identities=13%  Similarity=0.339  Sum_probs=10.3

Q ss_pred             HHHHHHHhccCChHHHHHHHHHh
Q 046221          459 LSILNACGHAGLTNDGLVIFNQM  481 (572)
Q Consensus       459 ~~l~~~~~~~g~~~~a~~~~~~~  481 (572)
                      ..+...+.+.|++++|+++|+++
T Consensus       159 ~~~A~l~~~l~~y~~A~~~~e~~  181 (282)
T PF14938_consen  159 LKAADLYARLGRYEEAIEIYEEV  181 (282)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHH
Confidence            33444444444555555555444

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.39  E-value=0.0022  Score=60.41  Aligned_cols=91  Identities=14%  Similarity=0.092  Sum_probs=75.2

Q ss_pred             HHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CC-ChHHHHHHHHHHhhhcCC
Q 046221          462 LNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GM-GPNIWRALLSGCVLHVGR  539 (572)
Q Consensus       462 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~~~~~~g~  539 (572)
                      ...+...|++++|+..|+++++..  +-+...|..+..+|.+.|++++|+..++++.. .| +...|..+..++... |+
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~--P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~l-g~   85 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLD--PNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKL-EE   85 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHh-CC
Confidence            456778899999999999998754  45667888899999999999999999999987 44 556677777777666 99


Q ss_pred             HHHHHHHHHHHHhCCC
Q 046221          540 FQDAEALRSGSQKKGI  555 (572)
Q Consensus       540 ~~~A~~~~~~m~~~~~  555 (572)
                      +++|+..|++..+...
T Consensus        86 ~~eA~~~~~~al~l~P  101 (356)
T PLN03088         86 YQTAKAALEKGASLAP  101 (356)
T ss_pred             HHHHHHHHHHHHHhCC
Confidence            9999999999876554

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.35  E-value=0.00067  Score=46.36  Aligned_cols=61  Identities=20%  Similarity=0.285  Sum_probs=32.2

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccC-ChHHHHHHHHHhH
Q 046221          420 VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS-STYLSILNACGHAG-LTNDGLVIFNQMI  482 (572)
Q Consensus       420 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g-~~~~a~~~~~~~~  482 (572)
                      ...|..+...+...|++++|+..|++..+.  .|+. ..|..+..++...| ++++|++.+++++
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~--~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIEL--DPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHH--STTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            344555555555555555555555555552  3432 44555555555555 4555555555554

...

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.34  E-value=0.004  Score=47.46  Aligned_cols=91  Identities=14%  Similarity=0.158  Sum_probs=68.0

Q ss_pred             HHHHHHhccCChHHHHHHHHHhHHhcCCCCC--hhHHHHHHHHHHhhCChhHHHHHHHhccC-CCC---hHHHHHHHHHH
Q 046221          460 SILNACGHAGLTNDGLVIFNQMIEENKVKPS--QEHYGCVVDLLARAGCLSDASGLAGKLLE-GMG---PNIWRALLSGC  533 (572)
Q Consensus       460 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~---~~~~~~l~~~~  533 (572)
                      .+..++-..|+.++|+.+|++.++ .|....  ...+-.+...+...|++++|..++++... .|+   ...........
T Consensus         6 ~~A~a~d~~G~~~~Ai~~Y~~Al~-~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~   84 (120)
T PF12688_consen    6 ELAWAHDSLGREEEAIPLYRRALA-AGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALA   84 (120)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH-cCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHH
Confidence            456678899999999999999974 566544  33677788899999999999999999877 465   33333333333


Q ss_pred             hhhcCCHHHHHHHHHHHH
Q 046221          534 VLHVGRFQDAEALRSGSQ  551 (572)
Q Consensus       534 ~~~~g~~~~A~~~~~~m~  551 (572)
                      ....|+.++|++.+-...
T Consensus        85 L~~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   85 LYNLGRPKEALEWLLEAL  102 (120)
T ss_pred             HHHCCCHHHHHHHHHHHH
Confidence            334599999999886654

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.32  E-value=0.00056  Score=46.09  Aligned_cols=54  Identities=15%  Similarity=0.265  Sum_probs=27.6

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHH
Q 046221          428 YGYGVNGHGETALALYHKMTETGEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIE  483 (572)
Q Consensus       428 ~~~~~~~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  483 (572)
                      ..+.+.|++++|...|+++++.  .|+ ...+..+..++...|++++|...|+++++
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQ--DPDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCC--STTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3445555555555555555553  242 24455555555555555555555555543

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.32  E-value=0.0049  Score=54.06  Aligned_cols=103  Identities=15%  Similarity=0.068  Sum_probs=46.5

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhC---ChhHHHHHHHhccC-CCChH-HHHH
Q 046221          454 DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAG---CLSDASGLAGKLLE-GMGPN-IWRA  528 (572)
Q Consensus       454 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~-~~~~~-~~~~  528 (572)
                      |...|..|...|...|+.+.|...|.++.+-.  +++...+..+.+++..+.   ...++.++|+++.. +|+.. +...
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~--g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~l  232 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLA--GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSL  232 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHH
Confidence            33555555555555555555555555554333  233334444444443322   23445555555544 33222 2222


Q ss_pred             HHHHHhhhcCCHHHHHHHHHHHHhCCCCCCC
Q 046221          529 LLSGCVLHVGRFQDAEALRSGSQKKGIIKIP  559 (572)
Q Consensus       529 l~~~~~~~~g~~~~A~~~~~~m~~~~~~~~~  559 (572)
                      |...+... |++.+|...++.|.+.....+|
T Consensus       233 LA~~afe~-g~~~~A~~~Wq~lL~~lp~~~~  262 (287)
T COG4235         233 LAFAAFEQ-GDYAEAAAAWQMLLDLLPADDP  262 (287)
T ss_pred             HHHHHHHc-ccHHHHHHHHHHHHhcCCCCCc
Confidence            23333333 5555555555555555544443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.30  E-value=0.0047  Score=51.31  Aligned_cols=113  Identities=13%  Similarity=-0.006  Sum_probs=76.6

Q ss_pred             hHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhhCChhHHHHH
Q 046221          436 GETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKP-SQEHYGCVVDLLARAGCLSDASGL  513 (572)
Q Consensus       436 ~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~  513 (572)
                      +..+...+..+.+..-.. ....|..+...+...|++++|+..|++++....-++ ...++..+..++...|++++|...
T Consensus        15 ~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~   94 (168)
T CHL00033         15 FTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEY   94 (168)
T ss_pred             cccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            444555555554321122 235677788888899999999999999975432122 234788899999999999999999


Q ss_pred             HHhccC-CC-ChHHHHHHHHHHh-------hhcCCHHHHHHHHHH
Q 046221          514 AGKLLE-GM-GPNIWRALLSGCV-------LHVGRFQDAEALRSG  549 (572)
Q Consensus       514 ~~~~~~-~~-~~~~~~~l~~~~~-------~~~g~~~~A~~~~~~  549 (572)
                      +++... .| ....+..+...+.       .. |++++|...+++
T Consensus        95 ~~~Al~~~~~~~~~~~~la~i~~~~~~~~~~~-g~~~~A~~~~~~  138 (168)
T CHL00033         95 YFQALERNPFLPQALNNMAVICHYRGEQAIEQ-GDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHHhCcCcHHHHHHHHHHHHHhhHHHHHc-ccHHHHHHHHHH
Confidence            999887 33 3445555555554       44 787766555544

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.26  E-value=0.031  Score=45.13  Aligned_cols=110  Identities=15%  Similarity=0.068  Sum_probs=69.6

Q ss_pred             CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHH
Q 046221          415 GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHY  494 (572)
Q Consensus       415 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  494 (572)
                      ...|+...--.|..+....|+..+|...|++...--..-|......+.++....+++..|...++...+.+.-.-++...
T Consensus        84 ~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~  163 (251)
T COG4700          84 AIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGH  163 (251)
T ss_pred             hhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCch
Confidence            33466666666667777777777777777776664334466666677777777777777777777766544222223344


Q ss_pred             HHHHHHHHhhCChhHHHHHHHhccC-CCChH
Q 046221          495 GCVVDLLARAGCLSDASGLAGKLLE-GMGPN  524 (572)
Q Consensus       495 ~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~  524 (572)
                      -.+...|...|++.+|+..|+.+.. -|++.
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~ypg~~  194 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYPGPQ  194 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCCCHH
Confidence            4566677777777777777777666 44443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.20  E-value=0.18  Score=46.42  Aligned_cols=110  Identities=15%  Similarity=0.112  Sum_probs=66.6

Q ss_pred             cHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHH
Q 046221          218 SWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYS  297 (572)
Q Consensus       218 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  297 (572)
                      +.+..|.-+...|+...|.++-.+.+    .||...|...+.+++..++|++-.++-..      ..++.-|..++.+|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHH
Confidence            44445556666666666666655542    35666666666777777776665554321      234466667777777


Q ss_pred             hcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHH
Q 046221          298 KCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKM  343 (572)
Q Consensus       298 ~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  343 (572)
                      +.|+..+|..+...+      .+..-+..|.+.|++.+|.+.-.+.
T Consensus       249 ~~~~~~eA~~yI~k~------~~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  249 KYGNKKEASKYIPKI------PDEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HCCCHHHHHHHHHhC------ChHHHHHHHHHCCCHHHHHHHHHHc
Confidence            777777777776663      2355566667777777766554444

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

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.18  E-value=0.0024  Score=43.61  Aligned_cols=64  Identities=16%  Similarity=0.146  Sum_probs=52.7

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhC-ChhHHHHHHHhccC
Q 046221          454 DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAG-CLSDASGLAGKLLE  519 (572)
Q Consensus       454 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~  519 (572)
                      +..+|..+...+...|++++|+..|+++++..  +.+...+..+..++.+.| ++++|++.+++..+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~--p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD--PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS--TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            45678888888999999999999999998654  446668888889999998 79999999888764

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.17  E-value=0.0053  Score=54.53  Aligned_cols=100  Identities=14%  Similarity=0.193  Sum_probs=60.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH----HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCC-ChhHHHH
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTETGEVPDS----STYLSILNACGHAGLTNDGLVIFNQMIEENKVKP-SQEHYGC  496 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~  496 (572)
                      .|...+..+.+.|++++|+..|+.+.+.  .|+.    ..+..+..+|...|++++|...|+.+++...-.| ....+..
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            3444444445567777777777777763  4543    3556666777777777777777777765432111 1234444


Q ss_pred             HHHHHHhhCChhHHHHHHHhccC-CCCh
Q 046221          497 VVDLLARAGCLSDASGLAGKLLE-GMGP  523 (572)
Q Consensus       497 l~~~~~~~g~~~~A~~~~~~~~~-~~~~  523 (572)
                      ++.++...|+.++|...++++.. .|+.
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~~yP~s  250 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIKKYPGT  250 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence            55666677777777777777665 4443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.15  E-value=0.0024  Score=42.93  Aligned_cols=60  Identities=17%  Similarity=0.241  Sum_probs=42.1

Q ss_pred             HHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCC
Q 046221          461 ILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMG  522 (572)
Q Consensus       461 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~  522 (572)
                      +...+...|++++|+..|+++++..  +-+...+..+..++...|++++|..+++++.+ .|+
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            3456677788888888888886443  34556777777888888888888888887765 444

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.15  E-value=0.22  Score=46.40  Aligned_cols=128  Identities=14%  Similarity=0.078  Sum_probs=79.2

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 046221          421 VSWNTIIYGYGVNGHGETALALYHKMTETG-EVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVD  499 (572)
Q Consensus       421 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  499 (572)
                      ..|...+..-.+..-.+.|..+|-++.+.| +.++...++.++.-++ .|+...|.++|+--+...  +.+.....-.+.
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f--~d~~~y~~kyl~  474 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKF--PDSTLYKEKYLL  474 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhC--CCchHHHHHHHH
Confidence            456666666666666777777787777777 4556677777766543 567777777777665433  223333345566


Q ss_pred             HHHhhCChhHHHHHHHhccC--CCC--hHHHHHHHHHHhhhcCCHHHHHHHHHHHHh
Q 046221          500 LLARAGCLSDASGLAGKLLE--GMG--PNIWRALLSGCVLHVGRFQDAEALRSGSQK  552 (572)
Q Consensus       500 ~~~~~g~~~~A~~~~~~~~~--~~~--~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~  552 (572)
                      .+.+.++-+.|..+|++..+  ..+  ...|..++.--... |+...|..+=++|.+
T Consensus       475 fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~-G~lN~v~sLe~rf~e  530 (660)
T COG5107         475 FLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMV-GSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhh-cchHHHHhHHHHHHH
Confidence            66777777777777775554  111  33566666555444 666666665555543

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.10  E-value=0.0025  Score=43.36  Aligned_cols=61  Identities=15%  Similarity=0.299  Sum_probs=45.4

Q ss_pred             HhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHH
Q 046221          431 GVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGC  496 (572)
Q Consensus       431 ~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  496 (572)
                      .+.|++++|+.+|+++.+.  .| +...+..+..+|.+.|++++|..+++.+....   |+...|..
T Consensus         2 l~~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~---~~~~~~~~   63 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQR--NPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQD---PDNPEYQQ   63 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHH--TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG---TTHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC---cCHHHHHH
Confidence            4678889999999998884  45 56777788888999999999999998887543   55444433

...

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.04  E-value=0.056  Score=47.71  Aligned_cols=24  Identities=4%  Similarity=0.023  Sum_probs=13.1

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhC
Q 046221          222 MMGLFVDFEYAGDALKIFREMRKS  245 (572)
Q Consensus       222 li~~~~~~~~~~~a~~~~~~m~~~  245 (572)
                      +.+.|.+.|.+..|..-++.+.+.
T Consensus       181 ia~~Y~~~~~y~AA~~r~~~v~~~  204 (243)
T PRK10866        181 VAEYYTKRGAYVAVVNRVEQMLRD  204 (243)
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHH
Confidence            334455556665565555555543

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.97  E-value=0.015  Score=52.95  Aligned_cols=130  Identities=13%  Similarity=0.022  Sum_probs=76.0

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHHc-------CCC-CCHhHHHHHHHHHHhcCChHHHHHHHHHHHh----cCCC-CCHH
Q 046221          390 VQNCLISSYSKCGNVDLAYIVFEEM-------GFL-RDVVSWNTIIYGYGVNGHGETALALYHKMTE----TGEV-PDSS  456 (572)
Q Consensus       390 ~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~g~~-p~~~  456 (572)
                      .|..|...|.-.|+++.|+..-+.-       |.. .....+..+..++.-.|+++.|.+.|+....    .|-+ ....
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            3445555566667777776654432       322 2245566677777777777777777766433    2211 1234


Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHhHHh----cCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          457 TYLSILNACGHAGLTNDGLVIFNQMIEE----NKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       457 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +..+|..+|.-..++..|+.++.+-+.-    ....-....+.+|..+|...|..++|+.+.+...+
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            4556667776667777777776643211    11122334566777777777777777777766553

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.97  E-value=0.13  Score=45.51  Aligned_cols=54  Identities=7%  Similarity=0.028  Sum_probs=35.2

Q ss_pred             HHHHHHhhCChhHHHHHHHhccC-----CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHH
Q 046221          497 VVDLLARAGCLSDASGLAGKLLE-----GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQ  551 (572)
Q Consensus       497 l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~  551 (572)
                      +...|.+.|.+..|..-++.+.+     +..+.....+..++... |..++|......+.
T Consensus       181 ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~l-g~~~~a~~~~~~l~  239 (243)
T PRK10866        181 VAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQL-QLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHc-CChHHHHHHHHHHh
Confidence            44567778888777777777765     22333455566666655 88888877766553

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.95  E-value=0.014  Score=50.16  Aligned_cols=65  Identities=17%  Similarity=0.210  Sum_probs=36.7

Q ss_pred             CCCCCcchhhHHHHHhhcCChhhHHHHhccCCC--CC----hhhHHHHHHHHhhCCChHHHHHHHHHHHHc
Q 046221            1 PCIDPYNSSKLLSNYFKSGKIKEAENLFDEIPE--KN----VVSWSIVIHGYSINGFHEKSMKAFSHMMLS   65 (572)
Q Consensus         1 p~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   65 (572)
                      |+.++...-.....+...|++.+|...|+.+..  |+    ..+.-.++.++.+.|+++.|...+++..+.
T Consensus         1 p~~~~~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen    1 PEDTAEALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             ----HHHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            444444555556666677777777777776653  22    234445566677777777777777776654

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.95  E-value=0.36  Score=47.63  Aligned_cols=30  Identities=17%  Similarity=-0.004  Sum_probs=18.8

Q ss_pred             CCCcchhhHHHHHhhcCChhhHHHHhccCC
Q 046221            3 IDPYNSSKLLSNYFKSGKIKEAENLFDEIP   32 (572)
Q Consensus         3 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~   32 (572)
                      |.+..|..|.......-.++-|...|-+..
T Consensus       690 PHprLWrllAe~Al~Kl~l~tAE~AFVrc~  719 (1189)
T KOG2041|consen  690 PHPRLWRLLAEYALFKLALDTAEHAFVRCG  719 (1189)
T ss_pred             CchHHHHHHHHHHHHHHhhhhHhhhhhhhc
Confidence            566666666666666666666666665554

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.93  E-value=0.012  Score=52.38  Aligned_cols=97  Identities=14%  Similarity=0.069  Sum_probs=73.3

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCCh----hHHHHHHHHHHhhCChhHHHHHHHhccC-CCC----hHHH
Q 046221          456 STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQ----EHYGCVVDLLARAGCLSDASGLAGKLLE-GMG----PNIW  526 (572)
Q Consensus       456 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~----~~~~  526 (572)
                      ..|...+....+.|++++|+..|+.+++..   |+.    ..+..+..+|...|++++|...|+++.. .|+    +..+
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y---P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl  220 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKY---PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAM  220 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHC---cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHH
Confidence            445555555567799999999999998765   443    4777899999999999999999999986 333    3334


Q ss_pred             HHHHHHHhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          527 RALLSGCVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       527 ~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                      ..+...+... |++++|...+++..+.-+.
T Consensus       221 ~klg~~~~~~-g~~~~A~~~~~~vi~~yP~  249 (263)
T PRK10803        221 FKVGVIMQDK-GDTAKAKAVYQQVIKKYPG  249 (263)
T ss_pred             HHHHHHHHHc-CCHHHHHHHHHHHHHHCcC
Confidence            4444444444 9999999999999876654

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.93  E-value=0.0043  Score=42.92  Aligned_cols=54  Identities=20%  Similarity=0.185  Sum_probs=30.7

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHH
Q 046221          428 YGYGVNGHGETALALYHKMTETGEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIE  483 (572)
Q Consensus       428 ~~~~~~~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  483 (572)
                      ..|.+.+++++|.++++.+...  .|+ ...+.....++.+.|++++|.+.|+.+++
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALEL--DPDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHh--CcccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3455566666666666666652  343 34555555556666666666666666654

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.92  E-value=0.18  Score=43.31  Aligned_cols=136  Identities=10%  Similarity=-0.040  Sum_probs=86.9

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHH---
Q 046221          319 SWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLI---  395 (572)
Q Consensus       319 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~---  395 (572)
                      ..+.++..+.-.|.+.-.+..+.+.. +...+.++.....+.+.-.+.|+.+.|...++...+..-..+..+.+.++   
T Consensus       179 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  179 VMYSMANCLLGMKEYVLSVDAYHSVI-KYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHH-HhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhh
Confidence            34455566666777788888888887 55556677777778888888888888888888776654444444443333   


Q ss_pred             --HHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHH
Q 046221          396 --SSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSST  457 (572)
Q Consensus       396 --~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~  457 (572)
                        ..|.-++++.+|...+.++  ....++..-|.-.-+..-.|+...|++.++.|.+  ..|...+
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~--~~P~~~l  321 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQ--QDPRHYL  321 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhc--cCCccch
Confidence              3445566777777777776  2223444444444444456777778888877777  3454433

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.88  E-value=0.025  Score=49.81  Aligned_cols=97  Identities=15%  Similarity=0.183  Sum_probs=44.5

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhcc---CChHHHHHHHHHhHHhcCCCCChhHH
Q 046221          419 DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHA---GLTNDGLVIFNQMIEENKVKPSQEHY  494 (572)
Q Consensus       419 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~~~~~~~~~~~  494 (572)
                      |...|-.|...|...|+.+.|...|.+..+  +.| +...+..+..++..+   ....++..+|+++++..  +-++...
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~r--L~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D--~~~iral  230 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALR--LAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD--PANIRAL  230 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC--CccHHHH
Confidence            444555555555555555555555555554  233 223333333332211   12334555555554322  2233344


Q ss_pred             HHHHHHHHhhCChhHHHHHHHhccC
Q 046221          495 GCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       495 ~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .-|...+...|++.+|...|+.|.+
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~  255 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLD  255 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHh
Confidence            4444455555555555555555554

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.88  E-value=0.17  Score=47.03  Aligned_cols=75  Identities=8%  Similarity=0.062  Sum_probs=32.8

Q ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHhc---CCCchhHHHHHHHHhhh---cCChHHHHHHHHHc---CCCCCHhHHHHH
Q 046221          356 LVSILTASGELAALEICLQLHGIAFEAG---FPRYRSVQNCLISSYSK---CGNVDLAYIVFEEM---GFLRDVVSWNTI  426 (572)
Q Consensus       356 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~---~~~~~~~~~~~l  426 (572)
                      ...++-+|....+++...++.+.+....   +.....+--...-++-+   .|+.++|++++..+   ...+++.+|..+
T Consensus       144 v~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~  223 (374)
T PF13281_consen  144 VINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLL  223 (374)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHH
Confidence            3344444555555555555555554431   11111222223333334   45555555555552   233444455554


Q ss_pred             HHHH
Q 046221          427 IYGY  430 (572)
Q Consensus       427 ~~~~  430 (572)
                      ...|
T Consensus       224 GRIy  227 (374)
T PF13281_consen  224 GRIY  227 (374)
T ss_pred             HHHH
Confidence            4443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.79  E-value=0.0055  Score=42.35  Aligned_cols=63  Identities=14%  Similarity=0.045  Sum_probs=44.0

Q ss_pred             HHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHHH
Q 046221          463 NACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWR  527 (572)
Q Consensus       463 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~  527 (572)
                      ..|.+.+++++|.++++.+++..  |.+...+.....++.+.|++++|.+.+++..+ .|+.....
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~   66 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD--PDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDAR   66 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC--cccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHH
Confidence            45677788888888888777543  44555666777777888888888888887776 55554433

>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=96.77  E-value=0.024  Score=43.69  Aligned_cols=98  Identities=12%  Similarity=0.163  Sum_probs=66.2

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Q 046221          388 RSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACG  466 (572)
Q Consensus       388 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~  466 (572)
                      ..++..++.++++.|+++....+++.. |+.++...         ..+.         --....+.|+..+...++.+|+
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~---------~~~~---------~~~~spl~Pt~~lL~AIv~sf~   63 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKK---------KEGD---------YPPSSPLYPTSRLLIAIVHSFG   63 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCcc---------ccCc---------cCCCCCCCCCHHHHHHHHHHHH
Confidence            455667777777777777777777666 44333110         0000         1223346778888888888888


Q ss_pred             ccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh
Q 046221          467 HAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLAR  503 (572)
Q Consensus       467 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  503 (572)
                      ..|++..|.++++...+..+++.+...|..|++-...
T Consensus        64 ~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   64 YNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             hcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            8888888888888888888887777888888765443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.76  E-value=0.71  Score=46.12  Aligned_cols=109  Identities=9%  Similarity=0.006  Sum_probs=71.9

Q ss_pred             HHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhccccc
Q 046221          289 SNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAA  368 (572)
Q Consensus       289 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  368 (572)
                      .+--+.-+...|+..+|.++-.+..-||-..|-.-+.+++..+++++-+++-+..+       ++..|..+..+|.+.|+
T Consensus       687 l~dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskk-------sPIGy~PFVe~c~~~~n  759 (829)
T KOG2280|consen  687 LHDTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKK-------SPIGYLPFVEACLKQGN  759 (829)
T ss_pred             HHHHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccC-------CCCCchhHHHHHHhccc
Confidence            34444555666777777777777777777777777777777777766665554442       25567777777777777


Q ss_pred             HHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHH
Q 046221          369 LEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEE  413 (572)
Q Consensus       369 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  413 (572)
                      .++|..++.+.....         -.+.+|.+.|++.+|.++--+
T Consensus       760 ~~EA~KYiprv~~l~---------ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  760 KDEAKKYIPRVGGLQ---------EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HHHHhhhhhccCChH---------HHHHHHHHhccHHHHHHHHHH
Confidence            777777776554321         256777888888877765443

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.71  E-value=0.0034  Score=44.12  Aligned_cols=62  Identities=13%  Similarity=0.218  Sum_probs=37.2

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhHHhcC-CC---CC-hhHHHHHHHHHHhhCChhHHHHHHHhc
Q 046221          456 STYLSILNACGHAGLTNDGLVIFNQMIEENK-VK---PS-QEHYGCVVDLLARAGCLSDASGLAGKL  517 (572)
Q Consensus       456 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~---~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~  517 (572)
                      .+|+.+...|...|++++|+..|+++++... ..   |+ ..++..+..++...|++++|++++++.
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4566666677777777777777776653210 11   11 335666666777777777777776654

...

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.68  E-value=0.81  Score=45.76  Aligned_cols=341  Identities=12%  Similarity=0.001  Sum_probs=178.5

Q ss_pred             CCCCCCHhhHHH-----HHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCC---CHHHHHHHHhhcCC--
Q 046221          144 SGLVPNAVTMLT-----VIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLM---DLDAAIQIFREMEC--  213 (572)
Q Consensus       144 ~~~~p~~~~~~~-----ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~--  213 (572)
                      -|+..+..-|..     +|..+...+.+..|.++-..+-..-..- ..+|......+.+..   +-+.+..+-+++..  
T Consensus       426 ~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~  504 (829)
T KOG2280|consen  426 IGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKL  504 (829)
T ss_pred             cCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHHHHHHHhccCccchHHHHHHHHHhcccC
Confidence            356666555544     4555666777777777766553211111 455666666665542   33344445455554  


Q ss_pred             CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCC----CCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchH
Q 046221          214 KDVISWTRMMGLFVDFEYAGDALKIFREMRKSR----IICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLS  289 (572)
Q Consensus       214 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  289 (572)
                      ....+|..+.+.....|+++-|..+++.=...+    +-.+..-+...+.-+...|+.+....++-++...-.       
T Consensus       505 ~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~-------  577 (829)
T KOG2280|consen  505 TPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLN-------  577 (829)
T ss_pred             CCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHH-------
Confidence            355677778877778888888887766422111    001223344444555556666665555555443210       


Q ss_pred             HHHHHHHHhcCChhHHHHHHhccCC-CCcchHHHHHHHHHHcCChHHHHHHHH--HH---HhcCCCCCCHhHHHHHHHHh
Q 046221          290 NSIIAMYSKCGDLDSSRSVFNQITE-KSLVSWTAIISGYVQNGCAREALNQFI--KM---RQEKTDSVDSITLVSILTAS  363 (572)
Q Consensus       290 ~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~--~~---~~~~~~~~~~~~~~~ll~~~  363 (572)
                        ....+....+.-.|..+|....+ .|..+   +-..| +.++-..+..-|.  ..   ....+..|+..   .....+
T Consensus       578 --~s~l~~~l~~~p~a~~lY~~~~r~~~~~~---l~d~y-~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk---~~a~~~  648 (829)
T KOG2280|consen  578 --RSSLFMTLRNQPLALSLYRQFMRHQDRAT---LYDFY-NQDDNHQALASFHLQASYAAETIEGRIPALK---TAANAF  648 (829)
T ss_pred             --HHHHHHHHHhchhhhHHHHHHHHhhchhh---hhhhh-hcccchhhhhhhhhhhhhhhhhhcccchhHH---HHHHHH
Confidence              00001111122223333332221 11000   00111 1111111111111  10   00112222222   222233


Q ss_pred             cccccH---HHH-------HHHHHHHH-HhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHh
Q 046221          364 GELAAL---EIC-------LQLHGIAF-EAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGV  432 (572)
Q Consensus       364 ~~~~~~---~~a-------~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~  432 (572)
                      .+....   +++       ..+.+.+. +.|..-.-.+.+--+..+...|+..+|.++-.+..+ ||...|-.-+.+++.
T Consensus       649 a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fki-pdKr~~wLk~~aLa~  727 (829)
T KOG2280|consen  649 AKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKI-PDKRLWWLKLTALAD  727 (829)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcCC-cchhhHHHHHHHHHh
Confidence            332221   111       11111111 123233333445556667788999999999999988 898888888999999


Q ss_pred             cCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHH
Q 046221          433 NGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASG  512 (572)
Q Consensus       433 ~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  512 (572)
                      .+++++-+++-+.++      .+.-|.-...+|.+.|+.++|.+++-+.-   |.+       -.+.+|.+.|++.+|.+
T Consensus       728 ~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~EA~KYiprv~---~l~-------ekv~ay~~~~~~~eAad  791 (829)
T KOG2280|consen  728 IKKWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDEAKKYIPRVG---GLQ-------EKVKAYLRVGDVKEAAD  791 (829)
T ss_pred             hhhHHHHHHHHhccC------CCCCchhHHHHHHhcccHHHHhhhhhccC---ChH-------HHHHHHHHhccHHHHHH
Confidence            999887666554433      24556777889999999999999887541   111       46788899999999988


Q ss_pred             HHHhcc
Q 046221          513 LAGKLL  518 (572)
Q Consensus       513 ~~~~~~  518 (572)
                      +--+-.
T Consensus       792 ~A~~~r  797 (829)
T KOG2280|consen  792 LAAEHR  797 (829)
T ss_pred             HHHHhc
Confidence            766543

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.54  E-value=0.081  Score=45.39  Aligned_cols=140  Identities=9%  Similarity=-0.043  Sum_probs=82.3

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHHc---CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHH-----
Q 046221          390 VQNCLISSYSKCGNVDLAYIVFEEM---GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSI-----  461 (572)
Q Consensus       390 ~~~~l~~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l-----  461 (572)
                      +.++++.++.-.|.+.-....+.+.   .-+.++.....|...-.+.||.+.|..+|++..+..-..|..+.+.+     
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            3455555555566666666666665   22235566666777777778888888888766554333333333333     


Q ss_pred             HHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHHHHHHH
Q 046221          462 LNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWRALLS  531 (572)
Q Consensus       462 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~  531 (572)
                      ...|.-++++..|...+.++++..  +.++...+.-.-++.-.|+..+|.+.++.|.+ .|.+.+-++++-
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D--~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~l~es~~~  327 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMD--PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHYLHESVLF  327 (366)
T ss_pred             hhheecccchHHHHHHHhhccccC--CCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccchhhhHHH
Confidence            233556667777777777776544  22333333333344455777788888887776 666665554433

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.53  E-value=0.023  Score=51.85  Aligned_cols=129  Identities=15%  Similarity=0.113  Sum_probs=84.0

Q ss_pred             HHHHHHHHhcccccHHHHHHHHHHHH----HhcCC-CchhHHHHHHHHhhhcCChHHHHHHHHHc-------CC-CCCHh
Q 046221          355 TLVSILTASGELAALEICLQLHGIAF----EAGFP-RYRSVQNCLISSYSKCGNVDLAYIVFEEM-------GF-LRDVV  421 (572)
Q Consensus       355 ~~~~ll~~~~~~~~~~~a~~~~~~~~----~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~-~~~~~  421 (572)
                      .|..+-..|.-.|+++.|+...+.-.    +.|-. .....+..+..++.-.|+++.|.+.++..       +. .....
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            45555566666788888887654332    22322 12345566778888889999998888765       22 12334


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHh----cC-CCCCHHHHHHHHHHHhccCChHHHHHHHHHhHH
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTE----TG-EVPDSSTYLSILNACGHAGLTNDGLVIFNQMIE  483 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~----~g-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  483 (572)
                      +.-+|...|.-..++++|+.++.+-+.    .+ ..-....+.+|..+|...|..++|+.+.+..++
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            445566777777788888887766332    11 122447788899999999999999888776543

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.52  E-value=0.035  Score=50.92  Aligned_cols=96  Identities=13%  Similarity=-0.038  Sum_probs=63.3

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHHHHHHHHHh
Q 046221          456 STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWRALLSGCV  534 (572)
Q Consensus       456 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~  534 (572)
                      .++..+..+|.+.+++..|++..++.++..  +++......-..++...|+++.|+..|+++.+ .|+......-+..|.
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~--~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~  335 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELD--PNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLK  335 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcC--CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            456667777778888888888887777543  55666666667778888888888888888777 666666555555554


Q ss_pred             hh-cCCHHHHHHHHHHHHhC
Q 046221          535 LH-VGRFQDAEALRSGSQKK  553 (572)
Q Consensus       535 ~~-~g~~~~A~~~~~~m~~~  553 (572)
                      .. ....+...++|..|-.+
T Consensus       336 ~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  336 QKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHHHHhhc
Confidence            33 12333346667766543

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.46  E-value=0.8  Score=43.00  Aligned_cols=80  Identities=11%  Similarity=0.082  Sum_probs=58.1

Q ss_pred             HHHcCCCC----CHhHHHHHHHH--HHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHh
Q 046221          411 FEEMGFLR----DVVSWNTIIYG--YGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEE  484 (572)
Q Consensus       411 ~~~~~~~~----~~~~~~~l~~~--~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  484 (572)
                      +++.|++|    +...-|.|..+  +...|++.++.-.-..+.+  +.|++.+|..+.-+.....++++|..++..+   
T Consensus       447 i~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~L---  521 (549)
T PF07079_consen  447 ITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKL---  521 (549)
T ss_pred             HHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhC---
Confidence            34445544    23344555444  4568899998888888877  8899999999988888999999999988754   


Q ss_pred             cCCCCChhHHHHHH
Q 046221          485 NKVKPSQEHYGCVV  498 (572)
Q Consensus       485 ~~~~~~~~~~~~l~  498 (572)
                         ||+..++++-+
T Consensus       522 ---P~n~~~~dskv  532 (549)
T PF07079_consen  522 ---PPNERMRDSKV  532 (549)
T ss_pred             ---CCchhhHHHHH
Confidence               67777766543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>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=96.45  E-value=0.055  Score=41.75  Aligned_cols=96  Identities=18%  Similarity=0.159  Sum_probs=68.2

Q ss_pred             CHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCHhHHHHHHHHH
Q 046221          352 DSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDVVSWNTIIYGY  430 (572)
Q Consensus       352 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~  430 (572)
                      |..++..++.++++.|+.+....+++..-  |+.++...         ..+.       +..- +..|+..+..+++.+|
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~~~---------~~~~-------~~~~spl~Pt~~lL~AIv~sf   62 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNGKK---------KEGD-------YPPSSPLYPTSRLLIAIVHSF   62 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCCcc---------ccCc-------cCCCCCCCCCHHHHHHHHHHH
Confidence            56788999999999999999999886554  33222110         0011       1111 6668888889999999


Q ss_pred             HhcCChHHHHHHHHHHHhc-CCCCCHHHHHHHHHHH
Q 046221          431 GVNGHGETALALYHKMTET-GEVPDSSTYLSILNAC  465 (572)
Q Consensus       431 ~~~~~~~~A~~~~~~~~~~-g~~p~~~~~~~l~~~~  465 (572)
                      +..|++..|+++.+...+. +++-+..+|..|+.-+
T Consensus        63 ~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   63 GYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             HhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            8899999999988887664 5555678888887743

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>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=96.37  E-value=0.036  Score=44.68  Aligned_cols=70  Identities=23%  Similarity=0.308  Sum_probs=37.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhH----HhcCCCCChhHH
Q 046221          423 WNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMI----EENKVKPSQEHY  494 (572)
Q Consensus       423 ~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~~~~  494 (572)
                      ...++..+...|+++.|..+++.+..  ..| |...|..++.+|...|+..+|.+.|+++.    +..|+.|+..+-
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~--~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALA--LDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH--HSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            34445555566666666666666666  344 44666666666666666666666666542    234566665543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.36  E-value=1.4  Score=44.79  Aligned_cols=177  Identities=14%  Similarity=0.006  Sum_probs=107.5

Q ss_pred             hHHHHHhhcCChhhHHHHhccCCCCCh---hhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCC
Q 046221           10 KLLSNYFKSGKIKEAENLFDEIPEKNV---VSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQN   86 (572)
Q Consensus        10 ~l~~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~   86 (572)
                      .-+..+.+..-++-|+.+-..-..+..   .......+-+.+.|++++|...|-+-...      .--..++.-|.....
T Consensus       339 ~kL~iL~kK~ly~~Ai~LAk~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~------le~s~Vi~kfLdaq~  412 (933)
T KOG2114|consen  339 TKLDILFKKNLYKVAINLAKSQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF------LEPSEVIKKFLDAQR  412 (933)
T ss_pred             HHHHHHHHhhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc------CChHHHHHHhcCHHH
Confidence            346667777777888877765443211   12233334566788999888877664421      112345555666666


Q ss_pred             hHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCh
Q 046221           87 LELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSR  166 (572)
Q Consensus        87 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  166 (572)
                      +..-...++.+.+.|..          +...-..|+.+|.+.++.++..+..+.-. .|..  ..-....+..|.+.+-.
T Consensus       413 IknLt~YLe~L~~~gla----------~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl  479 (933)
T KOG2114|consen  413 IKNLTSYLEALHKKGLA----------NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYL  479 (933)
T ss_pred             HHHHHHHHHHHHHcccc----------cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChH
Confidence            67777778888888873          33456678889999998888766666543 2211  11234456666666666


Q ss_pred             HHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCC
Q 046221          167 ALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMEC  213 (572)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (572)
                      ++|.-+-.....     .......+   +-..+++++|.+.+..++-
T Consensus       480 ~~a~~LA~k~~~-----he~vl~il---le~~~ny~eAl~yi~slp~  518 (933)
T KOG2114|consen  480 DEAELLATKFKK-----HEWVLDIL---LEDLHNYEEALRYISSLPI  518 (933)
T ss_pred             HHHHHHHHHhcc-----CHHHHHHH---HHHhcCHHHHHHHHhcCCH
Confidence            666555433222     23333333   3445789999999998864

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.31  E-value=0.88  Score=42.46  Aligned_cols=30  Identities=17%  Similarity=0.122  Sum_probs=22.8

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHhHH
Q 046221          454 DSSTYLSILNACGHAGLTNDGLVIFNQMIE  483 (572)
Q Consensus       454 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  483 (572)
                      |..-+.+++.++.-.|++++|.+..++|.+
T Consensus       304 dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~  333 (374)
T PF13281_consen  304 DYWDVATLLEASVLAGDYEKAIQAAEKAFK  333 (374)
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Confidence            556667777788888888888888888864

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.25  E-value=0.98  Score=41.87  Aligned_cols=151  Identities=11%  Similarity=0.008  Sum_probs=75.6

Q ss_pred             HhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHH--HHHhcCChhHHHHHHhccCCCCcch---------------HHH
Q 046221          260 VNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIA--MYSKCGDLDSSRSVFNQITEKSLVS---------------WTA  322 (572)
Q Consensus       260 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~---------------~~~  322 (572)
                      ++...|+.++|.++--.+++...   ...+..+++  ++--.++.+.+...|++...-++..               |..
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld~---~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ldpdh~~sk~~~~~~k~le~~k~  254 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLDA---TNAEALYVRGLCLYYNDNADKAINHFQQALRLDPDHQKSKSASMMPKKLEVKKE  254 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhccc---chhHHHHhcccccccccchHHHHHHHhhhhccChhhhhHHhHhhhHHHHHHHHh
Confidence            45566777777776666665431   112222222  2333566777888887776533321               111


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhc--CCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhh
Q 046221          323 IISGYVQNGCAREALNQFIKMRQE--KTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSK  400 (572)
Q Consensus       323 l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  400 (572)
                      -..-..+.|.+..|.+.+.+....  ....|+...|........+.|+.++|+.-.+...... +.-...|..-..++..
T Consensus       255 ~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD-~syikall~ra~c~l~  333 (486)
T KOG0550|consen  255 RGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID-SSYIKALLRRANCHLA  333 (486)
T ss_pred             hhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC-HHHHHHHHHHHHHHHH
Confidence            122345677788888888776522  2233444455555555556666666655555444322 0001111112223333


Q ss_pred             cCChHHHHHHHHHc
Q 046221          401 CGNVDLAYIVFEEM  414 (572)
Q Consensus       401 ~g~~~~A~~~~~~~  414 (572)
                      .+++++|.+-+++.
T Consensus       334 le~~e~AV~d~~~a  347 (486)
T KOG0550|consen  334 LEKWEEAVEDYEKA  347 (486)
T ss_pred             HHHHHHHHHHHHHH
Confidence            45555665555554

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.17  E-value=1.2  Score=41.89  Aligned_cols=143  Identities=17%  Similarity=0.199  Sum_probs=96.2

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHHc---C-CCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHH-HHHH
Q 046221          388 RSVQNCLISSYSKCGNVDLAYIVFEEM---G-FLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTY-LSIL  462 (572)
Q Consensus       388 ~~~~~~l~~~~~~~g~~~~A~~~~~~~---~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~-~~l~  462 (572)
                      ..+|..+++...+..-++.|..+|-+.   + ..+++..+++++..++. |+...|.++|+--...  -||...| .-.+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~--f~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            345566777777778888888888887   3 44677788888877654 6677788888765543  4555333 3445


Q ss_pred             HHHhccCChHHHHHHHHHhHHhcCCCCC--hhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHHHHHHHHHhh
Q 046221          463 NACGHAGLTNDGLVIFNQMIEENKVKPS--QEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWRALLSGCVL  535 (572)
Q Consensus       463 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~  535 (572)
                      .-+...++-..|..+|+..+++-  ..+  ..+|..+++.=..-|+...|..+-+++.+ -|...+.......+..
T Consensus       474 ~fLi~inde~naraLFetsv~r~--~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQen~~evF~Sry~i  547 (660)
T COG5107         474 LFLIRINDEENARALFETSVERL--EKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQENLIEVFTSRYAI  547 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHHH--HHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcHhHHHHHHHHHhh
Confidence            55677888888888888665432  223  45788888877888888888877777766 4555444444444433

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.13  E-value=0.014  Score=41.01  Aligned_cols=63  Identities=19%  Similarity=0.268  Sum_probs=40.2

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhcC--CC---CC-HHHHHHHHHHHhccCChHHHHHHHHHhHH
Q 046221          421 VSWNTIIYGYGVNGHGETALALYHKMTETG--EV---PD-SSTYLSILNACGHAGLTNDGLVIFNQMIE  483 (572)
Q Consensus       421 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g--~~---p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  483 (572)
                      .+|+.+...|...|++++|+..|++..+..  ..   |+ ..++..+..++...|++++|+++++++++
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            456666777777777777777777665420  11   22 35666777777777777777777777653

...

>PRK15331 chaperone protein SicA; Provisional

Probab=96.11  E-value=0.14  Score=41.06  Aligned_cols=84  Identities=11%  Similarity=-0.088  Sum_probs=44.0

Q ss_pred             hhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHH
Q 046221          398 YSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGL  475 (572)
Q Consensus       398 ~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~  475 (572)
                      +...|++++|..+|.-+  -..-+..-|..|..++-..+++++|+..|......+ .-|+..+.....++...|+.+.|.
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~~~~A~  125 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKAAKAR  125 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCHHHHH
Confidence            34556666666666655  111233344455555555566666666665554432 123344445555556666666666


Q ss_pred             HHHHHhH
Q 046221          476 VIFNQMI  482 (572)
Q Consensus       476 ~~~~~~~  482 (572)
                      ..|+.++
T Consensus       126 ~~f~~a~  132 (165)
T PRK15331        126 QCFELVN  132 (165)
T ss_pred             HHHHHHH
Confidence            6665554

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.09  E-value=0.26  Score=48.45  Aligned_cols=115  Identities=20%  Similarity=0.175  Sum_probs=64.1

Q ss_pred             CChHHHHHHHHHHHhcCCCCCHHHHHHH-HHHHhccCChHHHHHHHHHhHHhcCC--CCChhHHHHHHHHHHhhCChhHH
Q 046221          434 GHGETALALYHKMTETGEVPDSSTYLSI-LNACGHAGLTNDGLVIFNQMIEENKV--KPSQEHYGCVVDLLARAGCLSDA  510 (572)
Q Consensus       434 ~~~~~A~~~~~~~~~~g~~p~~~~~~~l-~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A  510 (572)
                      .+.+.|.++++.+.+.  -|+...|... .+.+...|++++|++.|+++++...-  +.....+--+.-.+.-.+++++|
T Consensus       247 ~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A  324 (468)
T PF10300_consen  247 VPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEA  324 (468)
T ss_pred             CCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHH
Confidence            3456677777777663  5655444332 33456667777777777765421110  11122333445556667777777


Q ss_pred             HHHHHhccC--CCChHHHHHHHHHHhhhcCCH-------HHHHHHHHHH
Q 046221          511 SGLAGKLLE--GMGPNIWRALLSGCVLHVGRF-------QDAEALRSGS  550 (572)
Q Consensus       511 ~~~~~~~~~--~~~~~~~~~l~~~~~~~~g~~-------~~A~~~~~~m  550 (572)
                      .+.|.++.+  .-+...|.-+..+|....|+.       ++|.+++.+.
T Consensus       325 ~~~f~~L~~~s~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~v  373 (468)
T PF10300_consen  325 AEYFLRLLKESKWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKV  373 (468)
T ss_pred             HHHHHHHHhccccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHH
Confidence            777777765  334444555555555545666       6666666655

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=96.04  E-value=1.8  Score=43.03  Aligned_cols=29  Identities=10%  Similarity=-0.089  Sum_probs=18.1

Q ss_pred             CCceeHHHHHHHHHhCCChHHHHHHHHHH
Q 046221          113 PYLVSCNAIVAGFINNKLFQQAVLLFNFF  141 (572)
Q Consensus       113 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m  141 (572)
                      |....|..+.......-.++.|...|-+.
T Consensus       690 PHprLWrllAe~Al~Kl~l~tAE~AFVrc  718 (1189)
T KOG2041|consen  690 PHPRLWRLLAEYALFKLALDTAEHAFVRC  718 (1189)
T ss_pred             CchHHHHHHHHHHHHHHhhhhHhhhhhhh
Confidence            66667777776666655666665555444

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=95.93  E-value=0.036  Score=44.66  Aligned_cols=61  Identities=16%  Similarity=0.187  Sum_probs=46.1

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          457 TYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       457 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +...++..+...|++++|..+++.++...  |.+...+..++.+|...|+..+|.+.|+++..
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d--P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~  124 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD--PYDEEAYRLLMRALAAQGRRAEALRVYERYRR  124 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS--TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            44556667778888999999988888655  55777888889999999999999888887754

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=95.86  E-value=1.4  Score=40.12  Aligned_cols=99  Identities=11%  Similarity=0.043  Sum_probs=53.9

Q ss_pred             HHHHHHHHhhhcCChHH---HHHHHHHc-CCCCC-HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 046221          390 VQNCLISSYSKCGNVDL---AYIVFEEM-GFLRD-VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNA  464 (572)
Q Consensus       390 ~~~~l~~~~~~~g~~~~---A~~~~~~~-~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~  464 (572)
                      +...++.+|...+..+.   |.++++.+ +.-|+ +..+-.-+..+.+.++.+.+.+.+.+|... +.-....+..++..
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~-~~~~e~~~~~~l~~  164 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESEYGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS-VDHSESNFDSILHH  164 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh-cccccchHHHHHHH
Confidence            44556677777666543   44455445 11133 334444456666678888888888888875 22123444444444


Q ss_pred             H---hccCChHHHHHHHHHhHHhcCCCCCh
Q 046221          465 C---GHAGLTNDGLVIFNQMIEENKVKPSQ  491 (572)
Q Consensus       465 ~---~~~g~~~~a~~~~~~~~~~~~~~~~~  491 (572)
                      +   .. .....|...+..++..+ +.|..
T Consensus       165 i~~l~~-~~~~~a~~~ld~~l~~r-~~~~~  192 (278)
T PF08631_consen  165 IKQLAE-KSPELAAFCLDYLLLNR-FKSSE  192 (278)
T ss_pred             HHHHHh-hCcHHHHHHHHHHHHHH-hCCCh
Confidence            3   33 23445666666665433 34444

It is also involved in sporulation [].

>PRK15331 chaperone protein SicA; Provisional

Probab=95.85  E-value=0.2  Score=40.19  Aligned_cols=95  Identities=7%  Similarity=-0.060  Sum_probs=67.0

Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCCh
Q 046221          429 GYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCL  507 (572)
Q Consensus       429 ~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  507 (572)
                      -+...|++++|..+|.-+.-.  .| +..-+..|..++-..+++++|+..|..+.--.  .-|+..+-....+|...|+.
T Consensus        46 ~~y~~Gk~~eA~~~F~~L~~~--d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~--~~dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         46 EFYNQGRLDEAETFFRFLCIY--DFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL--KNDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHCCCHHHHHHHHHHHHHh--CcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc--cCCCCccchHHHHHHHhCCH
Confidence            345678888888888877763  34 44556667777778888888888888764322  23444455677888888888


Q ss_pred             hHHHHHHHhccCCCChHHHH
Q 046221          508 SDASGLAGKLLEGMGPNIWR  527 (572)
Q Consensus       508 ~~A~~~~~~~~~~~~~~~~~  527 (572)
                      +.|+..|+...+.|......
T Consensus       122 ~~A~~~f~~a~~~~~~~~l~  141 (165)
T PRK15331        122 AKARQCFELVNERTEDESLR  141 (165)
T ss_pred             HHHHHHHHHHHhCcchHHHH
Confidence            88888888887755544433

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.84  E-value=0.12  Score=45.11  Aligned_cols=95  Identities=16%  Similarity=0.221  Sum_probs=70.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCCh-hHHHH
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTETGEVPD----SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQ-EHYGC  496 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~~  496 (572)
                      .|+.-+..| +.|++..|...|...++..  |+    ...+.-|..++...|++++|..+|..+.+..+-.|.. ..+--
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~~Y--P~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQAFIKKY--PNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcC--CCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            566655544 5566888888888888752  32    2445667888888888888888888887766544444 57777


Q ss_pred             HHHHHHhhCChhHHHHHHHhccC
Q 046221          497 VVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       497 l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      |..+..+.|+.++|...|++..+
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHH
Confidence            88888888888888888888776

>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=95.82  E-value=0.37  Score=46.63  Aligned_cols=157  Identities=13%  Similarity=0.085  Sum_probs=104.4

Q ss_pred             HHHHhCCChHHHHHHHH--HHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCC
Q 046221          123 AGFINNKLFQQAVLLFN--FFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMD  200 (572)
Q Consensus       123 ~~~~~~~~~~~a~~~~~--~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  200 (572)
                      +...-.|+++++.++.+  ++..   .......+.+++-+.+.|-.+.|.++...-.            .-.+...+.|+
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~---~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~  333 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLP---NIPKDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGN  333 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGG---G--HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-
T ss_pred             HHHHHcCChhhhhhhhhhhhhcc---cCChhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCC
Confidence            45566789998877775  2221   1124557888888899999999988754321            23456678899


Q ss_pred             HHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHh
Q 046221          201 LDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLG  280 (572)
Q Consensus       201 ~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  280 (572)
                      ++.|.++.++..  +...|..|.......|+++-|.+.|.+..+         |..++-.+...|+.+...++.+.....
T Consensus       334 L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  334 LDIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            999999888775  667999999999999999999999998653         556677777788888877777776666


Q ss_pred             CCCCCcchHHHHHHHHHhcCChhHHHHHHhc
Q 046221          281 GLQSELRLSNSIIAMYSKCGDLDSSRSVFNQ  311 (572)
Q Consensus       281 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  311 (572)
                      |      -++....++.-.|++++..+++.+
T Consensus       403 ~------~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  403 G------DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             T-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             c------CHHHHHHHHHHcCCHHHHHHHHHH
Confidence            5      234455555666777777766654

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.80  E-value=0.16  Score=44.16  Aligned_cols=126  Identities=11%  Similarity=0.051  Sum_probs=85.6

Q ss_pred             hHHHHhccCC--CCChhhHHHHHHHHh-----hCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHH
Q 046221           23 EAENLFDEIP--EKNVVSWSIVIHGYS-----INGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHG   95 (572)
Q Consensus        23 ~A~~~~~~~~--~~~~~~~~~li~~~~-----~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~   95 (572)
                      ..+..|+..+  ++|-.+|-+.+..+.     +.++++-....+..|.+.|+.-|..+|..||..+-+..-..       
T Consensus        52 ~~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP-------  124 (406)
T KOG3941|consen   52 HVEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIP-------  124 (406)
T ss_pred             chhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCccccccc-------
Confidence            3445566665  467778888887664     34677777788889999999999999999998875432211       


Q ss_pred             HHHHhcCCCCcccCCCCCCceeHHHHHHHHHhC-CChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCh-HHHHHHH
Q 046221           96 LMVKFGLESDLFEGLKNPYLVSCNAIVAGFINN-KLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSR-ALCELIH  173 (572)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~-~~a~~~~  173 (572)
                                            -|.+=+.+..- .+-+-+++++++|...|+.||..+-..+++++.+.+-. .+...++
T Consensus       125 ----------------------~nvfQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~  182 (406)
T KOG3941|consen  125 ----------------------QNVFQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRML  182 (406)
T ss_pred             ----------------------HHHHHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHH
Confidence                                  12222222222 23345788999999999999999999999999887743 3344444


Q ss_pred             HHHH
Q 046221          174 GLTI  177 (572)
Q Consensus       174 ~~~~  177 (572)
                      -.|-
T Consensus       183 yWmP  186 (406)
T KOG3941|consen  183 YWMP  186 (406)
T ss_pred             Hhhh
Confidence            4443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.73  E-value=0.061  Score=50.63  Aligned_cols=61  Identities=15%  Similarity=0.022  Sum_probs=28.6

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCH----hHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 046221          388 RSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDV----VSWNTIIYGYGVNGHGETALALYHKMTE  448 (572)
Q Consensus       388 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~  448 (572)
                      ...++.+..+|.+.|++++|+..|++. .+.|+.    .+|..+..+|...|+.++|+..+++.++
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344444444555555555555555443 333332    2244444455555555555555555444

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.71  E-value=0.13  Score=44.57  Aligned_cols=96  Identities=24%  Similarity=0.237  Sum_probs=65.3

Q ss_pred             HHHHc-CCCCCHhHHHHHHHHHHh-----cCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccC--------------
Q 046221          410 VFEEM-GFLRDVVSWNTIIYGYGV-----NGHGETALALYHKMTETGEVPDSSTYLSILNACGHAG--------------  469 (572)
Q Consensus       410 ~~~~~-~~~~~~~~~~~l~~~~~~-----~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g--------------  469 (572)
                      .|..+ +-..|..+|-..+..+..     .+..+-....++.|.+-|+.-|..+|+.|+..+-+..              
T Consensus        56 ~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HY  135 (406)
T KOG3941|consen   56 QFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHY  135 (406)
T ss_pred             hhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhC
Confidence            34444 334566666666666543     2445666666777788888888888887777654322              


Q ss_pred             --ChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCC
Q 046221          470 --LTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGC  506 (572)
Q Consensus       470 --~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  506 (572)
                        +-+-++.++++| +.+|+.||.++-..|++++.+.|-
T Consensus       136 P~QQ~C~I~vLeqM-E~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  136 PQQQNCAIKVLEQM-EWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             chhhhHHHHHHHHH-HHcCCCCchHHHHHHHHHhccccc
Confidence              234577888888 788899999988888888877664

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.67  E-value=1.2  Score=40.10  Aligned_cols=156  Identities=13%  Similarity=0.073  Sum_probs=89.6

Q ss_pred             hcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHH----HHHHHHhccCChHH
Q 046221          400 KCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYL----SILNACGHAGLTND  473 (572)
Q Consensus       400 ~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~----~l~~~~~~~g~~~~  473 (572)
                      -.|+..+|...++++  ..+.|...++..=.+|...|+.+.-...++++... -.||...|.    ++.-++...|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            356666666666666  55456666666666777777777766677666654 244443332    23334456677777


Q ss_pred             HHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccCCCCh-------HHHHHHHHHHhhhcCCHHHHHHH
Q 046221          474 GLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGP-------NIWRALLSGCVLHVGRFQDAEAL  546 (572)
Q Consensus       474 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-------~~~~~l~~~~~~~~g~~~~A~~~  546 (572)
                      |++.-++.++-+  +.|.....++...+...|++.++.++..+-...-+.       .-|..  ..|....+.++.|+++
T Consensus       194 AEk~A~ralqiN--~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~--Al~~iE~aeye~aleI  269 (491)
T KOG2610|consen  194 AEKQADRALQIN--RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHT--ALFHIEGAEYEKALEI  269 (491)
T ss_pred             HHHHHHhhccCC--CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHH--HHhhhcccchhHHHHH
Confidence            777777666443  345555566666667777777777777665441111       11221  1122233677777777


Q ss_pred             HHHHHhCCCCCCCc
Q 046221          547 RSGSQKKGIIKIPG  560 (572)
Q Consensus       547 ~~~m~~~~~~~~~~  560 (572)
                      |+.-.-+...++.+
T Consensus       270 yD~ei~k~l~k~Da  283 (491)
T KOG2610|consen  270 YDREIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHHHhhccch
Confidence            77655555554444

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.67  E-value=0.14  Score=48.41  Aligned_cols=63  Identities=11%  Similarity=0.057  Sum_probs=49.3

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH----HHHHHHHHHHhccCChHHHHHHHHHhHH
Q 046221          419 DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS----STYLSILNACGHAGLTNDGLVIFNQMIE  483 (572)
Q Consensus       419 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~  483 (572)
                      +...|+.+..+|.+.|++++|+..|++.++  +.|+.    .+|..+..+|...|+.++|+..++++++
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALe--L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALE--LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            466778888888888888888888888887  56764    3477888888888888888888888875

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.59  E-value=0.18  Score=46.49  Aligned_cols=120  Identities=13%  Similarity=0.076  Sum_probs=85.9

Q ss_pred             HHhhhcCChHHHHHHHHHc--------CCC---------CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHH
Q 046221          396 SSYSKCGNVDLAYIVFEEM--------GFL---------RDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTY  458 (572)
Q Consensus       396 ~~~~~~g~~~~A~~~~~~~--------~~~---------~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~  458 (572)
                      +.|.+.|++..|..-|++.        +..         .-...+..+..+|.+.+++..|+...++.+..+ ++|....
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KAL  294 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKAL  294 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHH
Confidence            4566777777777666654        111         123456778888999999999999999999953 4567888


Q ss_pred             HHHHHHHhccCChHHHHHHHHHhHHhcCCCCChh-HHHHHHHHHHhhCChhHH-HHHHHhccC
Q 046221          459 LSILNACGHAGLTNDGLVIFNQMIEENKVKPSQE-HYGCVVDLLARAGCLSDA-SGLAGKLLE  519 (572)
Q Consensus       459 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A-~~~~~~~~~  519 (572)
                      ..-..+|...|+++.|...|+++++.   .|+.. +-..|+.+-.+.....+. .++|..|..
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k~---~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALKL---EPSNKAARAELIKLKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            88889999999999999999999863   45544 445555555555544443 677777765

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.53  E-value=4.2  Score=43.41  Aligned_cols=47  Identities=15%  Similarity=-0.096  Sum_probs=22.9

Q ss_pred             HHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHH
Q 046221          393 CLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYH  444 (572)
Q Consensus       393 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  444 (572)
                      .|+.-+...++.-+|-++..+....|.     -.+..|++...+++|.++-.
T Consensus      1004 ~L~s~L~e~~kh~eAa~il~e~~sd~~-----~av~ll~ka~~~~eAlrva~ 1050 (1265)
T KOG1920|consen 1004 ELVSRLVEQRKHYEAAKILLEYLSDPE-----EAVALLCKAKEWEEALRVAS 1050 (1265)
T ss_pred             HHHHHHHHcccchhHHHHHHHHhcCHH-----HHHHHHhhHhHHHHHHHHHH
Confidence            344555556666666666555532222     12233444455555555543

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.53  E-value=0.13  Score=40.23  Aligned_cols=82  Identities=11%  Similarity=0.088  Sum_probs=61.0

Q ss_pred             CCCCCcchhhHHHHHhhcCChhhHHHHhccCCC--C----ChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchH
Q 046221            1 PCIDPYNSSKLLSNYFKSGKIKEAENLFDEIPE--K----NVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTM   74 (572)
Q Consensus         1 p~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~   74 (572)
                      |+..+..+-.-.....+.|++++|++.|+.+..  |    ...+.-.++.+|.+.+++++|+..+++.++..-.....-|
T Consensus         6 ~~~~~~~ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdY   85 (142)
T PF13512_consen    6 PDKSPQELYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDY   85 (142)
T ss_pred             CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccH
Confidence            344444455566777789999999999999875  2    3456777889999999999999999999886533333456


Q ss_pred             HHHHHHHc
Q 046221           75 VGVLVAAA   82 (572)
Q Consensus        75 ~~ll~~~~   82 (572)
                      ...+.+++
T Consensus        86 a~Y~~gL~   93 (142)
T PF13512_consen   86 AYYMRGLS   93 (142)
T ss_pred             HHHHHHHH
Confidence            66666655

>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=95.49  E-value=0.61  Score=45.18  Aligned_cols=161  Identities=16%  Similarity=0.067  Sum_probs=91.2

Q ss_pred             HHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCCh
Q 046221          325 SGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNV  404 (572)
Q Consensus       325 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  404 (572)
                      +...-.++++++.+....-. .-+..| ......++.-+.+.|-.+.|.++-..-            ..-.+...+.|++
T Consensus       269 k~av~~~d~~~v~~~i~~~~-ll~~i~-~~~~~~i~~fL~~~G~~e~AL~~~~D~------------~~rFeLAl~lg~L  334 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASN-LLPNIP-KDQGQSIARFLEKKGYPELALQFVTDP------------DHRFELALQLGNL  334 (443)
T ss_dssp             HHHHHTT-HHH-----HHHH-TGGG---HHHHHHHHHHHHHTT-HHHHHHHSS-H------------HHHHHHHHHCT-H
T ss_pred             HHHHHcCChhhhhhhhhhhh-hcccCC-hhHHHHHHHHHHHCCCHHHHHhhcCCh------------HHHhHHHHhcCCH
Confidence            34445666666665554211 111111 334556666666667777776664221            1134455677888


Q ss_pred             HHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHh
Q 046221          405 DLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEE  484 (572)
Q Consensus       405 ~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  484 (572)
                      +.|.++.++.   ++...|..|.......|+++-|++.|++..+         |..|+-.|...|+.+...++.+.+. .
T Consensus       335 ~~A~~~a~~~---~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~-~  401 (443)
T PF04053_consen  335 DIALEIAKEL---DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAE-E  401 (443)
T ss_dssp             HHHHHHCCCC---STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHH-H
T ss_pred             HHHHHHHHhc---CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHH-H
Confidence            8887766655   4667888888888888888888888877664         4556666777777777777776664 3


Q ss_pred             cCCCCChhHHHHHHHHHHhhCChhHHHHHHHhcc
Q 046221          485 NKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       485 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                      .|      -++....++.-.|+.++..+++.+..
T Consensus       402 ~~------~~n~af~~~~~lgd~~~cv~lL~~~~  429 (443)
T PF04053_consen  402 RG------DINIAFQAALLLGDVEECVDLLIETG  429 (443)
T ss_dssp             TT-------HHHHHHHHHHHT-HHHHHHHHHHTT
T ss_pred             cc------CHHHHHHHHHHcCCHHHHHHHHHHcC
Confidence            22      14444455566677777777776653

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.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.45  E-value=1.4  Score=37.69  Aligned_cols=86  Identities=13%  Similarity=0.042  Sum_probs=49.1

Q ss_pred             HHHHHHhhhcCChHHHHHHHHHc-------CCCCC-HhHHHHHHHHHHhcCChHHHHHHHHHHHhcC--CCC-CHHHHHH
Q 046221          392 NCLISSYSKCGNVDLAYIVFEEM-------GFLRD-VVSWNTIIYGYGVNGHGETALALYHKMTETG--EVP-DSSTYLS  460 (572)
Q Consensus       392 ~~l~~~~~~~g~~~~A~~~~~~~-------~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g--~~p-~~~~~~~  460 (572)
                      ......+.+...+++|-..+.+-       ..-++ ...|-..|-.|....++..|.+.++.-.+.+  ..| +..+...
T Consensus       154 gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~len  233 (308)
T KOG1585|consen  154 GKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLEN  233 (308)
T ss_pred             HHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHH
Confidence            33445566667777666555544       11122 2334555556666777888888887754432  122 4467777


Q ss_pred             HHHHHhccCChHHHHHHH
Q 046221          461 ILNACGHAGLTNDGLVIF  478 (572)
Q Consensus       461 l~~~~~~~g~~~~a~~~~  478 (572)
                      |+.+| ..|+.+++.+++
T Consensus       234 LL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  234 LLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHh-ccCCHHHHHHHH
Confidence            77776 456666665554

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.42  E-value=0.58  Score=46.06  Aligned_cols=117  Identities=16%  Similarity=0.096  Sum_probs=74.3

Q ss_pred             cCChHHHHHHHHHc-CCCCCHhHHHHH-HHHHHhcCChHHHHHHHHHHHhcC--CC-CCHHHHHHHHHHHhccCChHHHH
Q 046221          401 CGNVDLAYIVFEEM-GFLRDVVSWNTI-IYGYGVNGHGETALALYHKMTETG--EV-PDSSTYLSILNACGHAGLTNDGL  475 (572)
Q Consensus       401 ~g~~~~A~~~~~~~-~~~~~~~~~~~l-~~~~~~~~~~~~A~~~~~~~~~~g--~~-p~~~~~~~l~~~~~~~g~~~~a~  475 (572)
                      ..+.+.|.++++.+ ..-|+...|... ...+...|++++|++.|++.....  .+ .....+.-+...+.-.++|++|.
T Consensus       246 ~~~~~~a~~lL~~~~~~yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~  325 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKRYPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAA  325 (468)
T ss_pred             CCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHH
Confidence            45677888888887 333666555443 344566788888888888765421  11 12345566667778888888888


Q ss_pred             HHHHHhHHhcCCCCChhHHHHH-HHHHHhhCCh-------hHHHHHHHhccC
Q 046221          476 VIFNQMIEENKVKPSQEHYGCV-VDLLARAGCL-------SDASGLAGKLLE  519 (572)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~g~~-------~~A~~~~~~~~~  519 (572)
                      +.|..+.+.+..  +..+|.-+ ..++...|+.       ++|.++|.+...
T Consensus       326 ~~f~~L~~~s~W--Ska~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  326 EYFLRLLKESKW--SKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHhcccc--HHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            888888765533  33333322 3355667777       777777777654

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.

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.41  E-value=1.5  Score=37.58  Aligned_cols=51  Identities=18%  Similarity=0.229  Sum_probs=29.2

Q ss_pred             HHHHHhccCChHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhhCChhHHH
Q 046221          461 ILNACGHAGLTNDGLVIFNQMIEENKVKPS-QEHYGCVVDLLARAGCLSDAS  511 (572)
Q Consensus       461 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~  511 (572)
                      +..-|.+.|.+..|..-++.+++...-.+. ......++.+|.+.|..+.|.
T Consensus       147 ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  147 IARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            445577777777777777777765411111 124455667777777766443

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.37  E-value=2.1  Score=39.01  Aligned_cols=164  Identities=10%  Similarity=0.035  Sum_probs=95.1

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCH---hHHHHHHHHhcccccHHHHHHHHHHHHHhcCC-----CchhH
Q 046221          319 SWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDS---ITLVSILTASGELAALEICLQLHGIAFEAGFP-----RYRSV  390 (572)
Q Consensus       319 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~  390 (572)
                      +|-.+.+++-+.-++.+++.+-+.-....|..|..   ....++..++...+.++++.+.|+...+....     ....+
T Consensus        85 a~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqv  164 (518)
T KOG1941|consen   85 AYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQV  164 (518)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeeh
Confidence            44455555555555556655555444333433311   22334555666667778888777766553211     23456


Q ss_pred             HHHHHHHhhhcCChHHHHHHHHHc-------CCCCCHhHHH-----HHHHHHHhcCChHHHHHHHHHHHh----cCCCCC
Q 046221          391 QNCLISSYSKCGNVDLAYIVFEEM-------GFLRDVVSWN-----TIIYGYGVNGHGETALALYHKMTE----TGEVPD  454 (572)
Q Consensus       391 ~~~l~~~~~~~g~~~~A~~~~~~~-------~~~~~~~~~~-----~l~~~~~~~~~~~~A~~~~~~~~~----~g~~p~  454 (572)
                      +-.|...|.+..++++|.-+..+.       ++.-=..-|.     .|..++...|....|.+..++..+    .|-.|.
T Consensus       165 cv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~  244 (518)
T KOG1941|consen  165 CVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRAL  244 (518)
T ss_pred             hhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHH
Confidence            777788888888888776665544       3211111122     344567777877777777766544    343332


Q ss_pred             H-HHHHHHHHHHhccCChHHHHHHHHHhH
Q 046221          455 S-STYLSILNACGHAGLTNDGLVIFNQMI  482 (572)
Q Consensus       455 ~-~~~~~l~~~~~~~g~~~~a~~~~~~~~  482 (572)
                      . .....+.+.|-..|+.+.|..-|+.++
T Consensus       245 ~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  245 QARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence            2 445566677888888888888777664

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.27  E-value=1.5  Score=40.02  Aligned_cols=63  Identities=10%  Similarity=-0.012  Sum_probs=39.3

Q ss_pred             hHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhc--cC----ChHHHHHHHHHHHHhcC---CCChhHHhHHHH
Q 046221          131 FQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVA--LG----SRALCELIHGLTIKLGL---ILDVSVNNSVLD  193 (572)
Q Consensus       131 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~  193 (572)
                      +++.+.+++.|.+.|.+-+..+|.+..-....  ..    ....+..+++.|.+...   .++...+..++.
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA  149 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLA  149 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHh
Confidence            34556788899999988888877664444333  12    34567777888877652   334445555543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.13  E-value=2.3  Score=40.78  Aligned_cols=76  Identities=12%  Similarity=0.113  Sum_probs=55.8

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCChH--HHHHHHHH
Q 046221          457 TYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMGPN--IWRALLSG  532 (572)
Q Consensus       457 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~--~~~~l~~~  532 (572)
                      +-..+..++.+.|+.++|++.++++++.....-...+...|++++...+.+.++..++.+..+  -|...  .|+..+-.
T Consensus       261 ~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLk  340 (539)
T PF04184_consen  261 AKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLK  340 (539)
T ss_pred             hHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHH
Confidence            334567778899999999999999987653323445778899999999999999999999754  23333  35554433

The molecular function of this protein is uncertain.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.08  E-value=0.66  Score=42.23  Aligned_cols=135  Identities=10%  Similarity=0.042  Sum_probs=88.1

Q ss_pred             hHHHHHHHHHHHHcCCCCCcchHHHHHHHHcC--CC----ChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHH
Q 046221           52 HEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAG--LQ----NLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGF  125 (572)
Q Consensus        52 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~--~g----~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (572)
                      +++.+.+++.|.+.|++-+..+|.+.......  ..    ....+..+++.|++..+-..      .++-.++..++.. 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLT------s~~D~~~a~lLA~-  150 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLT------SPEDYPFAALLAM-  150 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCcccc------CccchhHHHHHhc-
Confidence            45667889999999999998888764433332  23    34578999999999876433      2444455555544 


Q ss_pred             HhCCCh----HHHHHHHHHHHhCCCCCCHh--hHHHHHHHHhccCC--hHHHHHHHHHHHHhcCCCChhHHhHHHHH
Q 046221          126 INNKLF----QQAVLLFNFFRGSGLVPNAV--TMLTVIRGCVALGS--RALCELIHGLTIKLGLILDVSVNNSVLDM  194 (572)
Q Consensus       126 ~~~~~~----~~a~~~~~~m~~~~~~p~~~--~~~~ll~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  194 (572)
                       ..++.    +.+..+|+.+.+.|...+..  ....++..+.....  ...+..+++.+.+.|+++....|..+.-.
T Consensus       151 -~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  151 -TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLL  226 (297)
T ss_pred             -ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHH
Confidence             33333    56678888888888766544  33333333332222  34678888888899988887777765443

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=95.07  E-value=2.6  Score=38.32  Aligned_cols=100  Identities=11%  Similarity=-0.042  Sum_probs=55.6

Q ss_pred             HHHHHHHHhcccccHH---HHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHH
Q 046221          355 TLVSILTASGELAALE---ICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYG  429 (572)
Q Consensus       355 ~~~~ll~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~  429 (572)
                      ++..+..++...+..+   +|..+++.+... .+..+.++-.-+..+.+.++.+++.+.+.+|  ...-....+...+..
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~~~~l~~  164 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSESNFDSILHH  164 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcccccchHHHHHHH
Confidence            4555555665555443   344444444332 2333444445566666688888888888888  332234455555555


Q ss_pred             HHh--cCChHHHHHHHHHHHhcCCCCCH
Q 046221          430 YGV--NGHGETALALYHKMTETGEVPDS  455 (572)
Q Consensus       430 ~~~--~~~~~~A~~~~~~~~~~g~~p~~  455 (572)
                      +..  ......|...++.+....+.|..
T Consensus       165 i~~l~~~~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  165 IKQLAEKSPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             HHHHHhhCcHHHHHHHHHHHHHHhCCCh
Confidence            422  23345666777676665566654

It is also involved in sporulation [].

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.93  E-value=1.5  Score=34.88  Aligned_cols=25  Identities=8%  Similarity=-0.140  Sum_probs=11.7

Q ss_pred             hhHHHHHHHHhccCChHHHHHHHHH
Q 046221          151 VTMLTVIRGCVALGSRALCELIHGL  175 (572)
Q Consensus       151 ~~~~~ll~~~~~~~~~~~a~~~~~~  175 (572)
                      .....+++.|.+.+-++.+..++..
T Consensus        70 yd~~~~~~~c~~~~l~~~~~~l~~k   94 (140)
T smart00299       70 YDIEKVGKLCEKAKLYEEAVELYKK   94 (140)
T ss_pred             CCHHHHHHHHHHcCcHHHHHHHHHh
Confidence            3334455555555555444444433

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=94.84  E-value=0.4  Score=36.37  Aligned_cols=96  Identities=16%  Similarity=0.024  Sum_probs=70.9

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChh--HHHHHHHHHHhh
Q 046221          428 YGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQE--HYGCVVDLLARA  504 (572)
Q Consensus       428 ~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~  504 (572)
                      -+....|+.+.|++.|.+.+.  +.| ....|+.-..++--.|+.++|+.-++++++-.|-+....  .|..-...|...
T Consensus        51 valaE~g~Ld~AlE~F~qal~--l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALC--LAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHH--hcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHh
Confidence            356788999999999998888  455 558899999999999999999999998887766442222  233334567788


Q ss_pred             CChhHHHHHHHhccCCCChHH
Q 046221          505 GCLSDASGLAGKLLEGMGPNI  525 (572)
Q Consensus       505 g~~~~A~~~~~~~~~~~~~~~  525 (572)
                      |+.+.|..-|+.+-+-.++..
T Consensus       129 g~dd~AR~DFe~AA~LGS~FA  149 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLGSKFA  149 (175)
T ss_pred             CchHHHHHhHHHHHHhCCHHH
Confidence            888888888888765333333

>PRK11906 transcriptional regulator; Provisional

Probab=94.80  E-value=3.4  Score=39.54  Aligned_cols=114  Identities=13%  Similarity=0.070  Sum_probs=71.0

Q ss_pred             ChHHHHHHHHHc-CC-CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCChHHHHHHHH
Q 046221          403 NVDLAYIVFEEM-GF-LRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS-STYLSILNACGHAGLTNDGLVIFN  479 (572)
Q Consensus       403 ~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~  479 (572)
                      ...+|.+.-+.. .+ +-|......+..+....++++.|..+|++...  +.||. .+|......+.-.|+.++|.+.++
T Consensus       319 ~~~~a~~~A~rAveld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~--L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~  396 (458)
T PRK11906        319 AAQKALELLDYVSDITTVDGKILAIMGLITGLSGQAKVSHILFEQAKI--HSTDIASLYYYRALVHFHNEKIEEARICID  396 (458)
T ss_pred             HHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhh--cCCccHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            344555555554 22 24566666666666667778888888888887  56765 666666666777788888888888


Q ss_pred             HhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          480 QMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       480 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ++++....+.-..+....++.|+.. ..++|..++-+-.+
T Consensus       397 ~alrLsP~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~  435 (458)
T PRK11906        397 KSLQLEPRRRKAVVIKECVDMYVPN-PLKNNIKLYYKETE  435 (458)
T ss_pred             HHhccCchhhHHHHHHHHHHHHcCC-chhhhHHHHhhccc
Confidence            8765443333344444555566543 35666666655443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=94.64  E-value=0.93  Score=34.51  Aligned_cols=87  Identities=15%  Similarity=0.130  Sum_probs=66.0

Q ss_pred             HHhhhcCChHHHHHHHHHc-C-CCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH---HHHHHHHHHHhccCC
Q 046221          396 SSYSKCGNVDLAYIVFEEM-G-FLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS---STYLSILNACGHAGL  470 (572)
Q Consensus       396 ~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~---~~~~~l~~~~~~~g~  470 (572)
                      -+++..|+++.|++.|.+. . .+.....||.-..++.-.|+.++|+.-+++..+..-.-..   ..|..-...|-..|+
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            3567889999999999987 3 3346778999999999999999999999998885211121   334444455778889


Q ss_pred             hHHHHHHHHHhH
Q 046221          471 TNDGLVIFNQMI  482 (572)
Q Consensus       471 ~~~a~~~~~~~~  482 (572)
                      .+.|..-|+.+-
T Consensus       131 dd~AR~DFe~AA  142 (175)
T KOG4555|consen  131 DDAARADFEAAA  142 (175)
T ss_pred             hHHHHHhHHHHH
Confidence            999999888874

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.62  E-value=0.081  Score=31.92  Aligned_cols=27  Identities=11%  Similarity=0.286  Sum_probs=14.6

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHhHHh
Q 046221          458 YLSILNACGHAGLTNDGLVIFNQMIEE  484 (572)
Q Consensus       458 ~~~l~~~~~~~g~~~~a~~~~~~~~~~  484 (572)
                      +..+..+|...|++++|+++|+++++.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            444555555555555555555555543

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.46  E-value=6.7  Score=40.25  Aligned_cols=180  Identities=13%  Similarity=0.061  Sum_probs=102.0

Q ss_pred             hHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhh
Q 046221           73 TMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVT  152 (572)
Q Consensus        73 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  152 (572)
                      +...-|..+++..-++-|..+-   +..+.+++.       -..........+.+.|++++|..-|-+-... +.|    
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LA---k~~~~d~d~-------~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~----  400 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLA---KSQHLDEDT-------LAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP----  400 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHH---HhcCCCHHH-------HHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh----
Confidence            3445566666666666665553   222322110       0112223334456778888888777655432 233    


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCc-ccHHHHHHHHHccCC
Q 046221          153 MLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDV-ISWTRMMGLFVDFEY  231 (572)
Q Consensus       153 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~li~~~~~~~~  231 (572)
                       ..++.-+.........-.+++.+.+.|+. +...-+.|+.+|.+.++.++-.++.+....... .-....+..+.+.+-
T Consensus       401 -s~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~~g~~~fd~e~al~Ilr~sny  478 (933)
T KOG2114|consen  401 -SEVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCDKGEWFFDVETALEILRKSNY  478 (933)
T ss_pred             -HHHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCCCcceeeeHHHHHHHHHHhCh
Confidence             23555566666677777778888888743 445556788899999888888877776652111 124456666666666


Q ss_pred             HHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHH
Q 046221          232 AGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQV  277 (572)
Q Consensus       232 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  277 (572)
                      .++|..+-.....     .....   --.+-..+++++|.+.+..+
T Consensus       479 l~~a~~LA~k~~~-----he~vl---~ille~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  479 LDEAELLATKFKK-----HEWVL---DILLEDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHHHHHHhcc-----CHHHH---HHHHHHhcCHHHHHHHHhcC
Confidence            6666665554332     11111   12233456677776666543

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.44  E-value=1.8  Score=33.92  Aligned_cols=53  Identities=13%  Similarity=0.166  Sum_probs=25.3

Q ss_pred             hcCChHHHHHHHHHHHhcCCCC---CHHHHHHHHHHHhccCChHHHHHHHHHhHHhc
Q 046221          432 VNGHGETALALYHKMTETGEVP---DSSTYLSILNACGHAGLTNDGLVIFNQMIEEN  485 (572)
Q Consensus       432 ~~~~~~~A~~~~~~~~~~g~~p---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  485 (572)
                      +.|++++|.+.|+.+... .+.   ....-..|+.+|.+.|++++|...+++.++.+
T Consensus        22 ~~~~Y~~A~~~le~L~~r-yP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLh   77 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTR-YPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLH   77 (142)
T ss_pred             HhCCHHHHHHHHHHHHhc-CCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            445555555555555443 111   12333444555555555555555555555444

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.43  E-value=3.2  Score=36.37  Aligned_cols=156  Identities=19%  Similarity=0.129  Sum_probs=69.8

Q ss_pred             HHHHHHhhhcCChHHHHHHHHHc-CCCCCH-hHHHHHHH-HHHhcCChHHHHHHHHHHHhcCCCC----CHHHHHHHHHH
Q 046221          392 NCLISSYSKCGNVDLAYIVFEEM-GFLRDV-VSWNTIIY-GYGVNGHGETALALYHKMTETGEVP----DSSTYLSILNA  464 (572)
Q Consensus       392 ~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~-~~~~~l~~-~~~~~~~~~~A~~~~~~~~~~g~~p----~~~~~~~l~~~  464 (572)
                      ......+...+++..+.+.+... ...++. ........ .+...|+++.|...+.+...  ..|    ....+......
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~  176 (291)
T COG0457          99 LNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALE--LDPELNELAEALLALGAL  176 (291)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCccchHHHHHHhhhH
Confidence            33344444444455555555544 111111 11122222 45555555566555555543  222    11223333333


Q ss_pred             HhccCChHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCC-hHHHHHHHHHHhhhcCCHH
Q 046221          465 CGHAGLTNDGLVIFNQMIEENKVKP-SQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMG-PNIWRALLSGCVLHVGRFQ  541 (572)
Q Consensus       465 ~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~-~~~~~~l~~~~~~~~g~~~  541 (572)
                      +...++.+.+...+..+++..  +. ....+..+...+...++++.|...+..... .|+ ...+..+...+. ..|.++
T Consensus       177 ~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~  253 (291)
T COG0457         177 LEALGRYEEALELLEKALKLN--PDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLL-ELGRYE  253 (291)
T ss_pred             HHHhcCHHHHHHHHHHHHhhC--cccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHH-HcCCHH
Confidence            445555666666555554322  22 234455555555555556666665555554 222 233333333333 225555


Q ss_pred             HHHHHHHHHHh
Q 046221          542 DAEALRSGSQK  552 (572)
Q Consensus       542 ~A~~~~~~m~~  552 (572)
                      ++...+.+..+
T Consensus       254 ~~~~~~~~~~~  264 (291)
T COG0457         254 EALEALEKALE  264 (291)
T ss_pred             HHHHHHHHHHH
Confidence            55555555443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.39  E-value=0.13  Score=31.02  Aligned_cols=26  Identities=19%  Similarity=0.353  Sum_probs=12.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHh
Q 046221          423 WNTIIYGYGVNGHGETALALYHKMTE  448 (572)
Q Consensus       423 ~~~l~~~~~~~~~~~~A~~~~~~~~~  448 (572)
                      |..+...|...|++++|+++|+++++
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            33444444455555555555555444

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=94.19  E-value=4.7  Score=37.36  Aligned_cols=283  Identities=14%  Similarity=0.053  Sum_probs=173.9

Q ss_pred             cccCChHHHHHHHHHHHHhCCCCCcchHHHHHH--HHHhcCChhHHHHHHhccCC-CCcc--hHHHHHHHHHHcCChHHH
Q 046221          262 AILGDLKRGKQLHAQVVLGGLQSELRLSNSIIA--MYSKCGDLDSSRSVFNQITE-KSLV--SWTAIISGYVQNGCAREA  336 (572)
Q Consensus       262 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~-~~~~--~~~~l~~~~~~~~~~~~a  336 (572)
                      ...||-..|.+.-.+..+. +..|....-.++.  +-.-.|+++.|.+-|+.|.. |...  -...|.-.-.+.|+.+.|
T Consensus        95 agAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~dPEtRllGLRgLyleAqr~GareaA  173 (531)
T COG3898          95 AGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDDPETRLLGLRGLYLEAQRLGAREAA  173 (531)
T ss_pred             hccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcChHHHHHhHHHHHHHHHhcccHHHH
Confidence            3457777777766554421 1222222222332  23446999999999999985 2221  122233333567888888


Q ss_pred             HHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhc-CCCchhHH--HHHHHHhh---hcCChHHHHHH
Q 046221          337 LNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAG-FPRYRSVQ--NCLISSYS---KCGNVDLAYIV  410 (572)
Q Consensus       337 ~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~--~~l~~~~~---~~g~~~~A~~~  410 (572)
                      .++-++.-  ..-+.-.......+...+..|+++.|+++.+.-.... +.++..--  ..|+.+-.   -..+...|...
T Consensus       174 r~yAe~Aa--~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~  251 (531)
T COG3898         174 RHYAERAA--EKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDD  251 (531)
T ss_pred             HHHHHHHH--hhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHH
Confidence            88887774  2233345678889999999999999999998766543 33332211  12222111   12345566655


Q ss_pred             HHHc-CCCCCHhHH-HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCC
Q 046221          411 FEEM-GFLRDVVSW-NTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVK  488 (572)
Q Consensus       411 ~~~~-~~~~~~~~~-~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  488 (572)
                      -.+. .+.||...- ..-..++.+.|+..++-.+++.+-+.  .|........+  +.+.|+  .++.=++++.+-..++
T Consensus       252 A~~a~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~--ePHP~ia~lY~--~ar~gd--ta~dRlkRa~~L~slk  325 (531)
T COG3898         252 ALEANKLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKA--EPHPDIALLYV--RARSGD--TALDRLKRAKKLESLK  325 (531)
T ss_pred             HHHHhhcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhc--CCChHHHHHHH--HhcCCC--cHHHHHHHHHHHHhcC
Confidence            5554 666774433 33456789999999999999999985  45444333322  345554  3333333332222234


Q ss_pred             CC-hhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhC
Q 046221          489 PS-QEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKK  553 (572)
Q Consensus       489 ~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~  553 (572)
                      |+ .+....+.++-...|++..|..--+.... .|....|..|...--...|+-.++...+-+..+.
T Consensus       326 ~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         326 PNNAESSLAVAEAALDAGEFSAARAKAEAAAREAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             ccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            44 45666778888899999999887777665 7777777776665544458888888877765443

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=94.07  E-value=6.6  Score=38.66  Aligned_cols=128  Identities=9%  Similarity=0.066  Sum_probs=86.3

Q ss_pred             ceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhH-HHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHH
Q 046221          115 LVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTM-LTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLD  193 (572)
Q Consensus       115 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  193 (572)
                      -..|..+|..--...+.+.+..++..+...  .|-..-| ......=.+.|..+.+.++|+..+. |++.+...|...+.
T Consensus        45 f~~wt~li~~~~~~~~~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~-aip~SvdlW~~Y~~  121 (577)
T KOG1258|consen   45 FDAWTTLIQENDSIEDVDALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQ-AIPLSVDLWLSYLA  121 (577)
T ss_pred             ccchHHHHhccCchhHHHHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH-hhhhHHHHHHHHHH
Confidence            345666666555555566677777777653  5555433 3333334567888888888888876 45677777777665


Q ss_pred             HHH-hCCCHHHHHHHHhhcCC------CCcccHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 046221          194 MYS-CLMDLDAAIQIFREMEC------KDVISWTRMMGLFVDFEYAGDALKIFREMRKS  245 (572)
Q Consensus       194 ~~~-~~~~~~~a~~~~~~~~~------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  245 (572)
                      .++ ..|+.+.....|+....      .....|...|..-..++++.....+|++.++.
T Consensus       122 f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRilei  180 (577)
T KOG1258|consen  122 FLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEI  180 (577)
T ss_pred             HHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhh
Confidence            544 35666777777776654      35567888888888888888888888888764

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.99  E-value=0.85  Score=39.94  Aligned_cols=98  Identities=12%  Similarity=-0.036  Sum_probs=56.9

Q ss_pred             HHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCC-CC-CHh
Q 046221           74 MVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGL-VP-NAV  151 (572)
Q Consensus        74 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p-~~~  151 (572)
                      |+.-+..+ +.|++..|...|...++..+...       -....+..|...+...|++++|..+|..+.+.-. .| -..
T Consensus       145 Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~-------~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApd  216 (262)
T COG1729         145 YNAALDLY-KSGDYAEAEQAFQAFIKKYPNST-------YTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPD  216 (262)
T ss_pred             HHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCc-------ccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChH
Confidence            55555443 55667777777777766665432       2233555667777777777777777766665411 11 123


Q ss_pred             hHHHHHHHHhccCChHHHHHHHHHHHHh
Q 046221          152 TMLTVIRGCVALGSRALCELIHGLTIKL  179 (572)
Q Consensus       152 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~  179 (572)
                      ++..|.....+.|+.+.|..+|+++.+.
T Consensus       217 allKlg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         217 ALLKLGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            4555555556666666666666666654

>PRK11906 transcriptional regulator; Provisional

Probab=93.83  E-value=1.6  Score=41.57  Aligned_cols=142  Identities=11%  Similarity=0.053  Sum_probs=97.6

Q ss_pred             ChHHHHHHHHHc----CCCCC-HhHHHHHHHHHHh---------cCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhcc
Q 046221          403 NVDLAYIVFEEM----GFLRD-VVSWNTIIYGYGV---------NGHGETALALYHKMTETGEVPDSSTYLSILNACGHA  468 (572)
Q Consensus       403 ~~~~A~~~~~~~----~~~~~-~~~~~~l~~~~~~---------~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~  468 (572)
                      ..+.|..+|.+.    ...|+ ...|..+..++..         ..+..+|.++-++..+.+ .-|......+..+..-.
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhh
Confidence            467788888877    44454 5556666555432         123456777788888743 33778888888888888


Q ss_pred             CChHHHHHHHHHhHHhcCCCCChh-HHHHHHHHHHhhCChhHHHHHHHhccC-CCChH---HHHHHHHHHhhhcCCHHHH
Q 046221          469 GLTNDGLVIFNQMIEENKVKPSQE-HYGCVVDLLARAGCLSDASGLAGKLLE-GMGPN---IWRALLSGCVLHVGRFQDA  543 (572)
Q Consensus       469 g~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~---~~~~l~~~~~~~~g~~~~A  543 (572)
                      ++++.|...|+++..-   .|+.. .|........-.|+.++|.+.+++..+ .|...   .....+..|+ . ...++|
T Consensus       352 ~~~~~a~~~f~rA~~L---~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~-~-~~~~~~  426 (458)
T PRK11906        352 GQAKVSHILFEQAKIH---STDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYV-P-NPLKNN  426 (458)
T ss_pred             cchhhHHHHHHHHhhc---CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHc-C-Cchhhh
Confidence            8999999999998753   45543 555555666778999999999999776 55433   2333333443 3 688899


Q ss_pred             HHHHHHH
Q 046221          544 EALRSGS  550 (572)
Q Consensus       544 ~~~~~~m  550 (572)
                      +.++-+-
T Consensus       427 ~~~~~~~  433 (458)
T PRK11906        427 IKLYYKE  433 (458)
T ss_pred             HHHHhhc
Confidence            9988763

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.68  E-value=3.4  Score=39.66  Aligned_cols=73  Identities=18%  Similarity=0.159  Sum_probs=45.9

Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHHc-CCCCC---HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH--HHHHHHH
Q 046221          389 SVQNCLISSYSKCGNVDLAYIVFEEM-GFLRD---VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS--STYLSIL  462 (572)
Q Consensus       389 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~--~~~~~l~  462 (572)
                      .+-..+..+..+.|+.++|.+.+.++ ...|.   ......|+.++...+.+.++..++.+--+.. -|.+  .+|+..+
T Consensus       260 y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~-lpkSAti~YTaAL  338 (539)
T PF04184_consen  260 YAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDIS-LPKSATICYTAAL  338 (539)
T ss_pred             hhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcccc-CCchHHHHHHHHH
Confidence            33345666667778888888888877 22232   3345567788888888888888887765432 3333  4455433

The molecular function of this protein is uncertain.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.53  E-value=2.1  Score=38.60  Aligned_cols=149  Identities=5%  Similarity=-0.113  Sum_probs=70.1

Q ss_pred             hCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHh---cCCCChhHHhHHHHHHHhCCCHHH
Q 046221          127 NNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKL---GLILDVSVNNSVLDMYSCLMDLDA  203 (572)
Q Consensus       127 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~  203 (572)
                      ..|+..+|...++++.+. .+.|...+...-.+|.-.|+...-...++.++..   +++-...+-..+.-++..+|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            345555555555555544 2334445555555555556555555555555432   111111222222333445566666


Q ss_pred             HHHHHhhcCCC---CcccHHHHHHHHHccCCHHHHHHHHHHHHhC---CCCCCccchHHHHHHhcccCChHHHHHHHHH
Q 046221          204 AIQIFREMECK---DVISWTRMMGLFVDFEYAGDALKIFREMRKS---RIICDTVALLNLISVNAILGDLKRGKQLHAQ  276 (572)
Q Consensus       204 a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  276 (572)
                      |++.-++..+-   |..+-.++...+-.++++.++.+++.+-...   +-..-..-|-...-.+...+.++.|..+|+.
T Consensus       194 AEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  194 AEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            66666555442   2233334444455556666666655543221   1001112233333344444666666666654

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=93.44  E-value=2.8  Score=32.19  Aligned_cols=57  Identities=16%  Similarity=0.147  Sum_probs=25.0

Q ss_pred             HHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhcc
Q 046221          460 SILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       460 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                      ..+......|+-|...+++.++.+ + -.+++.....+..+|.+.|+..+|.+++.++.
T Consensus        91 ~ALd~lv~~~kkDqLdki~~~l~k-n-~~~~p~~L~kia~Ay~klg~~r~~~ell~~AC  147 (161)
T PF09205_consen   91 LALDILVKQGKKDQLDKIYNELKK-N-EEINPEFLVKIANAYKKLGNTREANELLKEAC  147 (161)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHH-------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHhh-c-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence            334444455555555555555432 1 23444455555555555555555555555443

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=93.08  E-value=5.6  Score=34.73  Aligned_cols=53  Identities=17%  Similarity=0.122  Sum_probs=27.7

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhCCCCCCcc---chHHHHHHhcccCChHHHHHHHH
Q 046221          222 MMGLFVDFEYAGDALKIFREMRKSRIICDTV---ALLNLISVNAILGDLKRGKQLHA  275 (572)
Q Consensus       222 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~---~~~~ll~~~~~~~~~~~a~~~~~  275 (572)
                      +.+.|.+.|.+..|..-+++|.+. .+-+..   .+-.+..++...|-.++|...-+
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~  228 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAK  228 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHH
Confidence            445666777777777777777665 222222   22233344455555555544433

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=92.73  E-value=4.2  Score=32.32  Aligned_cols=84  Identities=10%  Similarity=0.043  Sum_probs=38.4

Q ss_pred             HHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHH
Q 046221          256 NLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCARE  335 (572)
Q Consensus       256 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  335 (572)
                      .++..+...+.......+++.+...+ ..+....+.++..|++.+ .++....+..  ..+......++..+.+.+.+++
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~--~~~~yd~~~~~~~c~~~~l~~~   87 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN--KSNHYDIEKVGKLCEKAKLYEE   87 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh--ccccCCHHHHHHHHHHcCcHHH
Confidence            34444444444555555555555444 244445555665555542 2233333331  1222333344455555555555


Q ss_pred             HHHHHHHH
Q 046221          336 ALNQFIKM  343 (572)
Q Consensus       336 a~~~~~~~  343 (572)
                      +.-++.++
T Consensus        88 ~~~l~~k~   95 (140)
T smart00299       88 AVELYKKD   95 (140)
T ss_pred             HHHHHHhh
Confidence            55555444

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=92.58  E-value=12  Score=37.08  Aligned_cols=176  Identities=10%  Similarity=-0.005  Sum_probs=85.3

Q ss_pred             chHHHHHHHHHhcCChhHHHHHHhccCCCCc---chHHHHHHHHHHcCChHHHHHHHHHHHhcCC--CCCCHhHHHHHHH
Q 046221          287 RLSNSIIAMYSKCGDLDSSRSVFNQITEKSL---VSWTAIISGYVQNGCAREALNQFIKMRQEKT--DSVDSITLVSILT  361 (572)
Q Consensus       287 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~~ll~  361 (572)
                      .+|...+..-.+.|+.+.+.-+|++..-|-.   ..|-..+.-....|+.+-|..++.... +--  ..|....+.+.  
T Consensus       298 ~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~-~i~~k~~~~i~L~~a~--  374 (577)
T KOG1258|consen  298 KNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARAC-KIHVKKTPIIHLLEAR--  374 (577)
T ss_pred             HHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhh-hhcCCCCcHHHHHHHH--
Confidence            4556666666677777777777776654321   234444444444466666665555443 211  22222222222  


Q ss_pred             HhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHH---HHHHHc-CCCCCHhHHHHHHHH-----HHh
Q 046221          362 ASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAY---IVFEEM-GFLRDVVSWNTIIYG-----YGV  432 (572)
Q Consensus       362 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~---~~~~~~-~~~~~~~~~~~l~~~-----~~~  432 (572)
                      .+-..|++..|..+++.+...- +--...-..-+....+.|..+.+.   .++... ....+....+.+.--     +.-
T Consensus       375 f~e~~~n~~~A~~~lq~i~~e~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~i  453 (577)
T KOG1258|consen  375 FEESNGNFDDAKVILQRIESEY-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYKI  453 (577)
T ss_pred             HHHhhccHHHHHHHHHHHHhhC-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHHH
Confidence            2334567777777777666553 222222222334445566666665   333333 111222222222211     222


Q ss_pred             cCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc
Q 046221          433 NGHGETALALYHKMTETGEVPDSSTYLSILNACGH  467 (572)
Q Consensus       433 ~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~  467 (572)
                      .++.+.|..++.++.+. .+++...|..+++-+..
T Consensus       454 ~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~  487 (577)
T KOG1258|consen  454 REDADLARIILLEANDI-LPDCKVLYLELIRFELI  487 (577)
T ss_pred             hcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHh
Confidence            45667777777777763 33344556566554443

>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=92.55  E-value=5  Score=32.75  Aligned_cols=134  Identities=10%  Similarity=0.045  Sum_probs=84.6

Q ss_pred             HHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCC--CHHHHHHHHhhcC
Q 046221          135 VLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLM--DLDAAIQIFREME  212 (572)
Q Consensus       135 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~  212 (572)
                      .+.++.+.+.++.|+...|..++..+.+.|.+..    +.+++..++-+|.......+-.+....  -..-|.+.+.++.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            4566777778899999999999999999998654    445556666666555444433332211  1333444444442


Q ss_pred             CCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHh
Q 046221          213 CKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLG  280 (572)
Q Consensus       213 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  280 (572)
                          ..+..++..+...|++-+|+++.+.....    +......++.+..+.+|...-..+++-....
T Consensus        90 ----~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   90 ----TAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             ----hhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                34667788889999999999998875322    2233355666666666666555555555443

>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=92.53  E-value=1.8  Score=35.97  Aligned_cols=97  Identities=13%  Similarity=0.061  Sum_probs=61.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH--HHHHHHHHHHhccCChHHHHHHHHHhHHhcCC--CCChh----
Q 046221          421 VSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS--STYLSILNACGHAGLTNDGLVIFNQMIEENKV--KPSQE----  492 (572)
Q Consensus       421 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~----  492 (572)
                      ..+..+...|.+.|+.+.|.+.|.++.+....|..  ..+..+++.....|++..+...+.++......  +++..    
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            45667777788888888888888888776555543  45666777777788888887777766322111  11111    


Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          493 HYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       493 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .|..|  .+...+++.+|-+.|-....
T Consensus       117 ~~~gL--~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  117 VYEGL--ANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHH--HHHHhchHHHHHHHHHccCc
Confidence            22222  23456788888887776654

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=92.50  E-value=1.5  Score=39.86  Aligned_cols=225  Identities=12%  Similarity=-0.009  Sum_probs=139.3

Q ss_pred             HHHcCChHHHHHHHHHHHhcCCC-CCCHhHHHHHHHHhcccccHHHHHHHHHHHHHh--cCCCch---hHHHHHHHHhhh
Q 046221          327 YVQNGCAREALNQFIKMRQEKTD-SVDSITLVSILTASGELAALEICLQLHGIAFEA--GFPRYR---SVQNCLISSYSK  400 (572)
Q Consensus       327 ~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~---~~~~~l~~~~~~  400 (572)
                      +....+.++|+..|.+....... .....++..+..+.++.|.++++..+--.....  ......   ..|-.+..++.+
T Consensus        16 Ly~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   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEK   95 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44567788888888877633222 223357777888888888888877653211111  111121   233344445555


Q ss_pred             cCChHHHHHHHHHc----CCCCC---HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCC---CC--CHHHHHHHHHHHhcc
Q 046221          401 CGNVDLAYIVFEEM----GFLRD---VVSWNTIIYGYGVNGHGETALALYHKMTETGE---VP--DSSTYLSILNACGHA  468 (572)
Q Consensus       401 ~g~~~~A~~~~~~~----~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~---~p--~~~~~~~l~~~~~~~  468 (572)
                      ..++.+++.+-..-    |..|.   -....++..++...+.++++++.|+...+---   .|  ....+..|...|...
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            55556665555443    22221   12234466677777889999999988766311   12  235788888999999


Q ss_pred             CChHHHHHHHHHhHH---hcCCCCCh-----hHHHHHHHHHHhhCChhHHHHHHHhccC----CCChHHH----HHHHHH
Q 046221          469 GLTNDGLVIFNQMIE---ENKVKPSQ-----EHYGCVVDLLARAGCLSDASGLAGKLLE----GMGPNIW----RALLSG  532 (572)
Q Consensus       469 g~~~~a~~~~~~~~~---~~~~~~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~----~~l~~~  532 (572)
                      .++++|.-+..++.+   ..++..-.     .....+..++...|...+|.+.-++..+    ..|..++    ..+...
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            999999988876643   22322111     1344555678899999999999999887    3444443    344455


Q ss_pred             HhhhcCCHHHHHHHHHHHHh
Q 046221          533 CVLHVGRFQDAEALRSGSQK  552 (572)
Q Consensus       533 ~~~~~g~~~~A~~~~~~m~~  552 (572)
                      |... |+.+.|..-++....
T Consensus       256 yR~~-gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  256 YRSR-GDLERAFRRYEQAMG  274 (518)
T ss_pred             HHhc-ccHhHHHHHHHHHHH
Confidence            5555 999999998887654

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.49  E-value=5.2  Score=34.27  Aligned_cols=14  Identities=29%  Similarity=0.254  Sum_probs=7.8

Q ss_pred             ChHHHHHHHHHHHh
Q 046221          435 HGETALALYHKMTE  448 (572)
Q Consensus       435 ~~~~A~~~~~~~~~  448 (572)
                      ++++|...++..++
T Consensus        88 ~~~eAv~cL~~aie  101 (288)
T KOG1586|consen   88 DPEEAVNCLEKAIE  101 (288)
T ss_pred             ChHHHHHHHHHHHH
Confidence            55666655555444

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.48  E-value=6.9  Score=34.23  Aligned_cols=47  Identities=11%  Similarity=0.076  Sum_probs=21.6

Q ss_pred             ChHHHHHHHHHHHHhCCCCCcc---hHHHHHHHHHhcCChhHHHHHHhcc
Q 046221          266 DLKRGKQLHAQVVLGGLQSELR---LSNSIIAMYSKCGDLDSSRSVFNQI  312 (572)
Q Consensus       266 ~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~  312 (572)
                      .+++|..-|...++..-.....   ....++..+.+.|++++....+.++
T Consensus        42 ~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~ql   91 (440)
T KOG1464|consen   42 EPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQL   91 (440)
T ss_pred             CHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHH
Confidence            4555666555555433222221   2223344455555555555544444

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=92.45  E-value=1.6  Score=38.87  Aligned_cols=76  Identities=17%  Similarity=0.299  Sum_probs=35.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhH----HhcCCCCChhHHHHH
Q 046221          423 WNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMI----EENKVKPSQEHYGCV  497 (572)
Q Consensus       423 ~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~~~~~~l  497 (572)
                      +..++..+...|+.+.+...++++...  .| +...|..++.+|.+.|+...|+..|+.+.    +..|+.|...+...+
T Consensus       156 l~~lae~~~~~~~~~~~~~~l~~Li~~--dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         156 LTKLAEALIACGRADAVIEHLERLIEL--DPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhc--CccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            334444444455555555555555542  23 44455555555555555555555444432    124455555544444


Q ss_pred             HHH
Q 046221          498 VDL  500 (572)
Q Consensus       498 ~~~  500 (572)
                      .++
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            333

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=92.40  E-value=7.8  Score=34.65  Aligned_cols=139  Identities=14%  Similarity=0.126  Sum_probs=78.0

Q ss_pred             hcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHH---HHHHHHhcCChHHH
Q 046221          363 SGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNT---IIYGYGVNGHGETA  439 (572)
Q Consensus       363 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---l~~~~~~~~~~~~A  439 (572)
                      ....++...+...++...... +-+...--.+..+|...|+.+.|..++..++..-....+..   -+..+.+.....+.
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            345566666666666555543 22344445577888888888888888888843332222222   23334444444433


Q ss_pred             HHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhC
Q 046221          440 LALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAG  505 (572)
Q Consensus       440 ~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  505 (572)
                      ..+-.+.-.   .| |...-..+...+...|+.++|.+.+=.++++..---|...-..|++.+.--|
T Consensus       223 ~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g  286 (304)
T COG3118         223 QDLQRRLAA---DPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFG  286 (304)
T ss_pred             HHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcC
Confidence            344444333   45 5566666777778888888887766665544322234444445555544444

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=92.36  E-value=5.8  Score=33.54  Aligned_cols=179  Identities=17%  Similarity=0.153  Sum_probs=99.9

Q ss_pred             hcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCHhHHHHHHH--HHHhcCChHHH
Q 046221          363 SGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDVVSWNTIIY--GYGVNGHGETA  439 (572)
Q Consensus       363 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~--~~~~~~~~~~A  439 (572)
                      |-..|-...|.-=|....... |.-+.+||-+.--+...|+++.|.+.|+.. ...|. .-|..+=+  ++--.|++.-|
T Consensus        75 YDSlGL~~LAR~DftQaLai~-P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~-y~Ya~lNRgi~~YY~gR~~LA  152 (297)
T COG4785          75 YDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRYKLA  152 (297)
T ss_pred             hhhhhHHHHHhhhhhhhhhcC-CCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCc-chHHHhccceeeeecCchHhh
Confidence            455566666665555554432 334677888888888899999999999887 44443 12322222  23346888888


Q ss_pred             HHHHHHHHhcCCCCCH--HHHHHHHHHHhccCChHHHHHHHH-HhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHh
Q 046221          440 LALYHKMTETGEVPDS--STYLSILNACGHAGLTNDGLVIFN-QMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGK  516 (572)
Q Consensus       440 ~~~~~~~~~~g~~p~~--~~~~~l~~~~~~~g~~~~a~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  516 (572)
                      .+-+...-+.. +.|+  ..|..+..   ..-++.+|..-+. +. +    ..|..-|...+-.|. .|++.+ ..++++
T Consensus       153 q~d~~~fYQ~D-~~DPfR~LWLYl~E---~k~dP~~A~tnL~qR~-~----~~d~e~WG~~iV~~y-LgkiS~-e~l~~~  221 (297)
T COG4785         153 QDDLLAFYQDD-PNDPFRSLWLYLNE---QKLDPKQAKTNLKQRA-E----KSDKEQWGWNIVEFY-LGKISE-ETLMER  221 (297)
T ss_pred             HHHHHHHHhcC-CCChHHHHHHHHHH---hhCCHHHHHHHHHHHH-H----hccHhhhhHHHHHHH-HhhccH-HHHHHH
Confidence            88777776642 1132  22322322   3345666665443 33 2    345555654443332 232221 233444


Q ss_pred             ccC-CCC--------hHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCC
Q 046221          517 LLE-GMG--------PNIWRALLSGCVLHVGRFQDAEALRSGSQKKGI  555 (572)
Q Consensus       517 ~~~-~~~--------~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~  555 (572)
                      +.. .-+        ..+|--|..-+... |+.++|..+|+-....++
T Consensus       222 ~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~-G~~~~A~~LfKLaiannV  268 (297)
T COG4785         222 LKADATDNTSLAEHLTETYFYLGKYYLSL-GDLDEATALFKLAVANNV  268 (297)
T ss_pred             HHhhccchHHHHHHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhH
Confidence            433 112        22444455555555 999999999998776554

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=92.33  E-value=7.9  Score=34.59  Aligned_cols=138  Identities=12%  Similarity=-0.014  Sum_probs=81.5

Q ss_pred             HHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHH
Q 046221          396 SSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTND  473 (572)
Q Consensus       396 ~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~  473 (572)
                      ......|++.+|...|+..  ..+-+...--.++.+|...|+.+.|..++..+...--.........-+..+.+.....+
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAAPENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhCcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            3455678888888888877  22223455566778888888888888888876653211122222222333444444444


Q ss_pred             HHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC----CCChHHHHHHHHHHhhh
Q 046221          474 GLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE----GMGPNIWRALLSGCVLH  536 (572)
Q Consensus       474 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~~l~~~~~~~  536 (572)
                      ...+-.+. ...  +-|...-..+...+...|+.++|.+.+=.+..    .-|...-..++..+-..
T Consensus       222 ~~~l~~~~-aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~  285 (304)
T COG3118         222 IQDLQRRL-AAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAF  285 (304)
T ss_pred             HHHHHHHH-HhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhc
Confidence            44444444 222  33666677778888888888888876665544    33444555555555444

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.33  E-value=2.4  Score=37.85  Aligned_cols=100  Identities=13%  Similarity=0.211  Sum_probs=65.7

Q ss_pred             hcCCCchhHHHHHHHHhhhcCChHHHHHHHHHcCCCCC--------HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 046221          382 AGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRD--------VVSWNTIIYGYGVNGHGETALALYHKMTETGEVP  453 (572)
Q Consensus       382 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p  453 (572)
                      .|.+....+...++..-....+++.++..+-++...|+        ..+|-.++    -.-++++++.++..=++-|+-|
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irll----lky~pq~~i~~l~npIqYGiF~  133 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLL----LKYDPQKAIYTLVNPIQYGIFP  133 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHH----HccChHHHHHHHhCcchhcccc
Confidence            45555555556666666666777777777777633232        22222222    2235677777777777788888


Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHhHHhc
Q 046221          454 DSSTYLSILNACGHAGLTNDGLVIFNQMIEEN  485 (572)
Q Consensus       454 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  485 (572)
                      |..+++.+++.+.+.+++.+|.++...|+...
T Consensus       134 dqf~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  134 DQFTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             chhhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            88888888888888888888888777766443

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=92.23  E-value=1.6  Score=38.89  Aligned_cols=76  Identities=18%  Similarity=0.221  Sum_probs=63.5

Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHh-----cCCCCCHHHHHHH
Q 046221          389 SVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTE-----TGEVPDSSTYLSI  461 (572)
Q Consensus       389 ~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~g~~p~~~~~~~l  461 (572)
                      .++..++..+...|+.+.+.+.++++  -.+-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+...+
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            45567888899999999999999998  4445788999999999999999999999998876     5788887776666


Q ss_pred             HHH
Q 046221          462 LNA  464 (572)
Q Consensus       462 ~~~  464 (572)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            655

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.22  E-value=7  Score=33.76  Aligned_cols=142  Identities=15%  Similarity=0.086  Sum_probs=68.5

Q ss_pred             HHHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-----CHHHHHHHHHHH
Q 046221          391 QNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-----DSSTYLSILNAC  465 (572)
Q Consensus       391 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-----~~~~~~~l~~~~  465 (572)
                      |+--...|..+|..+.|-..+++.+.             ...+.+++.|+.+|++...-=..-     -...+..+.+.+
T Consensus        94 ~eKAs~lY~E~GspdtAAmaleKAak-------------~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~l  160 (308)
T KOG1585|consen   94 YEKASELYVECGSPDTAAMALEKAAK-------------ALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVL  160 (308)
T ss_pred             HHHHHHHHHHhCCcchHHHHHHHHHH-------------HhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHh
Confidence            33344555666665555555554410             122334555555555543310000     112233344456


Q ss_pred             hccCChHHHHHHHHHhHH---hcCCCCCh-hHHHHHHHHHHhhCChhHHHHHHHhccC------CCChHHHHHHHHHHhh
Q 046221          466 GHAGLTNDGLVIFNQMIE---ENKVKPSQ-EHYGCVVDLLARAGCLSDASGLAGKLLE------GMGPNIWRALLSGCVL  535 (572)
Q Consensus       466 ~~~g~~~~a~~~~~~~~~---~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~------~~~~~~~~~l~~~~~~  535 (572)
                      .+..++++|-..+.+-..   ...--++. ..|...|-.+....++..|...++.-.+      ..+..+...|+.+|- 
T Consensus       161 Vrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd-  239 (308)
T KOG1585|consen  161 VRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYD-  239 (308)
T ss_pred             hhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhc-
Confidence            666666665554432210   00001222 2344455556666777777777777433      334446667777763 


Q ss_pred             hcCCHHHHHHHH
Q 046221          536 HVGRFQDAEALR  547 (572)
Q Consensus       536 ~~g~~~~A~~~~  547 (572)
                      . |+.+++..++
T Consensus       240 ~-gD~E~~~kvl  250 (308)
T KOG1585|consen  240 E-GDIEEIKKVL  250 (308)
T ss_pred             c-CCHHHHHHHH
Confidence            3 6777766554

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.18  E-value=0.3  Score=27.83  Aligned_cols=24  Identities=8%  Similarity=0.087  Sum_probs=13.9

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHh
Q 046221          458 YLSILNACGHAGLTNDGLVIFNQM  481 (572)
Q Consensus       458 ~~~l~~~~~~~g~~~~a~~~~~~~  481 (572)
                      |..|...|.+.|++++|+++++++
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            455566666666666666666653

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=92.15  E-value=1.8  Score=34.76  Aligned_cols=78  Identities=15%  Similarity=-0.022  Sum_probs=51.6

Q ss_pred             hHHHHHHHH---HHhcCChHHHHHHHHHHHhcCCCCCHHHHHH-HHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHH
Q 046221          421 VSWNTIIYG---YGVNGHGETALALYHKMTETGEVPDSSTYLS-ILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGC  496 (572)
Q Consensus       421 ~~~~~l~~~---~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~-l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  496 (572)
                      ...+.|+..   -.+.++.+.+..+++.+.-  +.|....... -...+...|++.+|+.+|+++.+..   |....-..
T Consensus         8 ~iv~gLie~~~~al~~~~~~D~e~lL~ALrv--LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~---~~~p~~kA   82 (160)
T PF09613_consen    8 EIVGGLIEVLSVALRLGDPDDAEALLDALRV--LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA---PGFPYAKA   82 (160)
T ss_pred             HHHHHHHHHHHHHHccCChHHHHHHHHHHHH--hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC---CCChHHHH
Confidence            344444444   4567899999999999988  6787644333 3445788999999999999985433   44444444


Q ss_pred             HHHHHHh
Q 046221          497 VVDLLAR  503 (572)
Q Consensus       497 l~~~~~~  503 (572)
                      |+..|..
T Consensus        83 LlA~CL~   89 (160)
T PF09613_consen   83 LLALCLY   89 (160)
T ss_pred             HHHHHHH
Confidence            5444443

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=92.10  E-value=4.2  Score=32.14  Aligned_cols=51  Identities=10%  Similarity=-0.029  Sum_probs=36.0

Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCCHHH-HHHHHHHHhccCChHHHHHHHHHhHH
Q 046221          431 GVNGHGETALALYHKMTETGEVPDSST-YLSILNACGHAGLTNDGLVIFNQMIE  483 (572)
Q Consensus       431 ~~~~~~~~A~~~~~~~~~~g~~p~~~~-~~~l~~~~~~~g~~~~a~~~~~~~~~  483 (572)
                      ...++++++..+++.|.-  +.|+..- -..-...+...|++++|+++|++..+
T Consensus        21 L~~~d~~D~e~lLdALrv--LrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~   72 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRV--LRPNLKELDMFDGWLLIARGNYDEAARILRELLS   72 (153)
T ss_pred             HhcCCHHHHHHHHHHHHH--hCCCccccchhHHHHHHHcCCHHHHHHHHHhhhc
Confidence            347888888888888887  5775532 22233456788888888888888854

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.10  E-value=5.5  Score=32.30  Aligned_cols=91  Identities=15%  Similarity=0.078  Sum_probs=50.9

Q ss_pred             HHhhhcCChHHHHHHHHHc-CCCCCHhHHHH---H--HHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccC
Q 046221          396 SSYSKCGNVDLAYIVFEEM-GFLRDVVSWNT---I--IYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAG  469 (572)
Q Consensus       396 ~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~---l--~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g  469 (572)
                      ......|+...|...|+++ ...|.+....-   |  .-.+..+|.++......+.+...|-+.....-..|.-+-.+.|
T Consensus       102 t~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kag  181 (221)
T COG4649         102 TLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAG  181 (221)
T ss_pred             HHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhcc
Confidence            3455667777777777777 22222222211   1  1224556677766666665555443333344555666666777


Q ss_pred             ChHHHHHHHHHhHHhcC
Q 046221          470 LTNDGLVIFNQMIEENK  486 (572)
Q Consensus       470 ~~~~a~~~~~~~~~~~~  486 (572)
                      ++..|.+.|..+..+.+
T Consensus       182 d~a~A~~~F~qia~Da~  198 (221)
T COG4649         182 DFAKAKSWFVQIANDAQ  198 (221)
T ss_pred             chHHHHHHHHHHHcccc
Confidence            77777777777765443

>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=92.00  E-value=4.5  Score=31.09  Aligned_cols=137  Identities=18%  Similarity=0.169  Sum_probs=73.4

Q ss_pred             HHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHH---hHHHHHHHhCCCH
Q 046221          125 FINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVN---NSVLDMYSCLMDL  201 (572)
Q Consensus       125 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~  201 (572)
                      +.-.|..++..+++.+...+   .+..-||.+|--....-+-+...+.++   ..|--.|....   ..++.+|++.|..
T Consensus        12 ~ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~Ld---sIGkiFDis~C~NlKrVi~C~~~~n~~   85 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLD---SIGKIFDISKCGNLKRVIECYAKRNKL   85 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHH---HHGGGS-GGG-S-THHHHHHHHHTT--
T ss_pred             HHHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHH---HHhhhcCchhhcchHHHHHHHHHhcch
Confidence            34567777777777777653   244555555544443333333333333   33433333322   2334444444432


Q ss_pred             HHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhC
Q 046221          202 DAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGG  281 (572)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  281 (572)
                                    .......+..+...|+-+.-.+++.++.+. -.+++.....+..+|.+.|+..++..++.++-+.|
T Consensus        86 --------------se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   86 --------------SEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             ---------------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             --------------HHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence                          223445567777888888888888887653 35677777777788888888888888887777766


Q ss_pred             C
Q 046221          282 L  282 (572)
Q Consensus       282 ~  282 (572)
                      +
T Consensus       151 ~  151 (161)
T PF09205_consen  151 L  151 (161)
T ss_dssp             -
T ss_pred             h
Confidence            3

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=91.95  E-value=0.21  Score=28.00  Aligned_cols=23  Identities=22%  Similarity=0.333  Sum_probs=12.2

Q ss_pred             CChhHHHHHHHHHHhhCChhHHH
Q 046221          489 PSQEHYGCVVDLLARAGCLSDAS  511 (572)
Q Consensus       489 ~~~~~~~~l~~~~~~~g~~~~A~  511 (572)
                      -+...|..+...|...|++++|+
T Consensus        11 ~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   11 NNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCHHHHHHHHHHHHHCcCHHhhc
Confidence            34445555555555555555553

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=91.92  E-value=3.1  Score=34.62  Aligned_cols=107  Identities=12%  Similarity=0.025  Sum_probs=72.0

Q ss_pred             HHHHHhcCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCCh--hHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          443 YHKMTETGEVPDS-STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQ--EHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       443 ~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ++...+..++-+. ..+..+..-|.+.|+.+.|.+.|.++. .....+..  ..+-.++......|++..+...+.++..
T Consensus        23 lk~~~~n~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~-~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   23 LKDAKSNLGKESIRMALEDLADHYCKIGDLEEALKAYSRAR-DYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHhccchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHh-hhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            3333344344443 678889999999999999999999985 44344443  3667788888999999999999988776


Q ss_pred             ---CCC-hHHHH---HHHHHHhhhcCCHHHHHHHHHHH
Q 046221          520 ---GMG-PNIWR---ALLSGCVLHVGRFQDAEALRSGS  550 (572)
Q Consensus       520 ---~~~-~~~~~---~l~~~~~~~~g~~~~A~~~~~~m  550 (572)
                         .+. ...-+   ..-..+....+++.+|.+.|-..
T Consensus       102 ~~~~~~d~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  102 LIEKGGDWERRNRLKVYEGLANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHhccchHHHHHHHHHHHHHHHHHhchHHHHHHHHHcc
Confidence               222 22111   11111222349999999888764

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.

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=91.88  E-value=5.7  Score=31.97  Aligned_cols=111  Identities=17%  Similarity=0.152  Sum_probs=62.0

Q ss_pred             HHhhhcCChHHHHHHHHHc-CCCCCHhHHHHH-HHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh-ccCChH
Q 046221          396 SSYSKCGNVDLAYIVFEEM-GFLRDVVSWNTI-IYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACG-HAGLTN  472 (572)
Q Consensus       396 ~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l-~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~-~~g~~~  472 (572)
                      ..-.+.++.+++..++..+ -..|.......+ ...+...|++.+|..+|+++.+.  .|....-..|+..|. ..|+.+
T Consensus        18 ~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~--~~~~p~~kALlA~CL~~~~D~~   95 (160)
T PF09613_consen   18 SVALRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEER--APGFPYAKALLALCLYALGDPS   95 (160)
T ss_pred             HHHHccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHHcCChH
Confidence            3445678999999999988 344443333222 33467899999999999998774  344433344444333 333332


Q ss_pred             HHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHH
Q 046221          473 DGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGL  513 (572)
Q Consensus       473 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  513 (572)
                       =..+-+++++..   +|.. -..++..+....+...|...
T Consensus        96 -Wr~~A~evle~~---~d~~-a~~Lv~~Ll~~~~~~~a~~~  131 (160)
T PF09613_consen   96 -WRRYADEVLESG---ADPD-ARALVRALLARADLEPAHEA  131 (160)
T ss_pred             -HHHHHHHHHhcC---CChH-HHHHHHHHHHhccccchhhh
Confidence             122222343322   3332 23455666666666665553

>PRK09687 putative lyase; Provisional

Probab=91.60  E-value=10  Score=34.40  Aligned_cols=241  Identities=9%  Similarity=-0.081  Sum_probs=134.2

Q ss_pred             HHhccCCCCChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCCh----HHHHHHHHHHHHhc
Q 046221           26 NLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNL----ELARSIHGLMVKFG  101 (572)
Q Consensus        26 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~----~~a~~~~~~~~~~~  101 (572)
                      .+++.+..+|.......+.++...|. .++...+..+..   .+|...-...+.++...|+.    .++...+..+....
T Consensus        27 ~L~~~L~d~d~~vR~~A~~aL~~~~~-~~~~~~l~~ll~---~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~D  102 (280)
T PRK09687         27 ELFRLLDDHNSLKRISSIRVLQLRGG-QDVFRLAIELCS---SKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALED  102 (280)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcCc-chHHHHHHHHHh---CCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhcC
Confidence            34444455677777777777776664 344444444443   33444444555666666653    34555555553322


Q ss_pred             CCCCcccCCCCCCceeHHHHHHHHHhCCC-----hHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHH
Q 046221          102 LESDLFEGLKNPYLVSCNAIVAGFINNKL-----FQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLT  176 (572)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-----~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  176 (572)
                                 ++..+-...+.++...+.     ...+.+.+.....   .++..+-...+.++++.++. .+...+-.+
T Consensus       103 -----------~d~~VR~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~~-~ai~~L~~~  167 (280)
T PRK09687        103 -----------KSACVRASAINATGHRCKKNPLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVINDE-AAIPLLINL  167 (280)
T ss_pred             -----------CCHHHHHHHHHHHhcccccccccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCCH-HHHHHHHHH
Confidence                       444455555555555432     1234444444333   33555666677777777763 455555555


Q ss_pred             HHhcCCCChhHHhHHHHHHHhCC-CHHHHHH-HHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccch
Q 046221          177 IKLGLILDVSVNNSVLDMYSCLM-DLDAAIQ-IFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVAL  254 (572)
Q Consensus       177 ~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~-~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  254 (572)
                      ++   .++..+-...+.++.+.+ +...+.. +...+..++..+-...+.++.+.++. .+...+-...+.+.     ..
T Consensus       168 L~---d~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~D~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~~~~-----~~  238 (280)
T PRK09687        168 LK---DPNGDVRNWAAFALNSNKYDNPDIREAFVAMLQDKNEEIRIEAIIGLALRKDK-RVLSVLIKELKKGT-----VG  238 (280)
T ss_pred             hc---CCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhcCCChHHHHHHHHHHHccCCh-hHHHHHHHHHcCCc-----hH
Confidence            54   344455555556666543 1233443 34444557777777888888888874 45555555554422     24


Q ss_pred             HHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHH
Q 046221          255 LNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYS  297 (572)
Q Consensus       255 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  297 (572)
                      ..++.++...|+. .+...+..+.+.  .+|..+-...+.++.
T Consensus       239 ~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~~  278 (280)
T PRK09687        239 DLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKLK  278 (280)
T ss_pred             HHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHHh
Confidence            5677788888885 577777776654  336655555555443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=91.55  E-value=8.9  Score=33.54  Aligned_cols=53  Identities=13%  Similarity=0.043  Sum_probs=29.3

Q ss_pred             HHHHHHhhCChhHHHHHHHhccC--CCC---hHHHHHHHHHHhhhcCCHHHHHHHHHHH
Q 046221          497 VVDLLARAGCLSDASGLAGKLLE--GMG---PNIWRALLSGCVLHVGRFQDAEALRSGS  550 (572)
Q Consensus       497 l~~~~~~~g~~~~A~~~~~~~~~--~~~---~~~~~~l~~~~~~~~g~~~~A~~~~~~m  550 (572)
                      +.+.|.+.|.+..|..-++.+.+  +..   ......+..+|..- |-.++|...-+=+
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~l-gl~~~a~~~~~vl  230 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYAL-GLTDEAKKTAKVL  230 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHh-CChHHHHHHHHHH
Confidence            34566677777777776666665  111   12344445555544 6666666544433

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.45  E-value=2.6  Score=41.26  Aligned_cols=152  Identities=14%  Similarity=0.116  Sum_probs=101.1

Q ss_pred             HhhcCChhhHHHHhccCCCCChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHH
Q 046221           15 YFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIH   94 (572)
Q Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~   94 (572)
                      +.-.|+++.|..++..++++   .-+.+...+.++|..++|+++         .+|+..   -.....+.|+++.|.++.
T Consensus       596 ~vmrrd~~~a~~vLp~I~k~---~rt~va~Fle~~g~~e~AL~~---------s~D~d~---rFelal~lgrl~iA~~la  660 (794)
T KOG0276|consen  596 LVLRRDLEVADGVLPTIPKE---IRTKVAHFLESQGMKEQALEL---------STDPDQ---RFELALKLGRLDIAFDLA  660 (794)
T ss_pred             HhhhccccccccccccCchh---hhhhHHhHhhhccchHhhhhc---------CCChhh---hhhhhhhcCcHHHHHHHH
Confidence            34457888888887777743   345666777777877777765         233321   123344678888887775


Q ss_pred             HHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHH
Q 046221           95 GLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHG  174 (572)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  174 (572)
                      .+.               .+..-|..|..+....|++..|.+.|...+.         |..|+-.+...|+.+....+-.
T Consensus       661 ~e~---------------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~  716 (794)
T KOG0276|consen  661 VEA---------------NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLAS  716 (794)
T ss_pred             Hhh---------------cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHH
Confidence            443               3455799999999999999999999987654         4556666777777766665555


Q ss_pred             HHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhc
Q 046221          175 LTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREM  211 (572)
Q Consensus       175 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (572)
                      ...+.| ..     |...-+|...|+++++.+++.+-
T Consensus       717 ~~~~~g-~~-----N~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  717 LAKKQG-KN-----NLAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             HHHhhc-cc-----chHHHHHHHcCCHHHHHHHHHhc
Confidence            555555 22     22334556677888877777654

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=91.45  E-value=0.49  Score=26.92  Aligned_cols=27  Identities=22%  Similarity=0.277  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHh
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTE  448 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~  448 (572)
                      +|..|...|.+.|++++|+.+|++.+.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            467788889999999999999988553

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=91.08  E-value=0.46  Score=38.06  Aligned_cols=86  Identities=5%  Similarity=-0.013  Sum_probs=58.8

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCC
Q 046221          120 AIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLM  199 (572)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  199 (572)
                      .++..+.+.+.+......++.+...+...+....+.++..|++.++.+....+++       ..+..-...++..+.+.|
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~-------~~~~yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK-------TSNNYDLDKALRLCEKHG   84 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT-------SSSSS-CTHHHHHHHTTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc-------cccccCHHHHHHHHHhcc
Confidence            4567777788888888888888877656677788888888888877777776665       222244455666667777


Q ss_pred             CHHHHHHHHhhcC
Q 046221          200 DLDAAIQIFREME  212 (572)
Q Consensus       200 ~~~~a~~~~~~~~  212 (572)
                      .+++|.-++.++.
T Consensus        85 l~~~a~~Ly~~~~   97 (143)
T PF00637_consen   85 LYEEAVYLYSKLG   97 (143)
T ss_dssp             SHHHHHHHHHCCT
T ss_pred             hHHHHHHHHHHcc
Confidence            7777776666654

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.

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=90.92  E-value=1.7  Score=35.97  Aligned_cols=20  Identities=20%  Similarity=0.101  Sum_probs=9.7

Q ss_pred             HHHhhCChhHHHHHHHhccC
Q 046221          500 LLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       500 ~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +|.+..++++|++-+.++.+
T Consensus       177 ayek~ek~eealeDyKki~E  196 (271)
T KOG4234|consen  177 AYEKMEKYEEALEDYKKILE  196 (271)
T ss_pred             HHHhhhhHHHHHHHHHHHHH
Confidence            44444455555555554443

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=90.72  E-value=0.63  Score=25.89  Aligned_cols=25  Identities=20%  Similarity=0.311  Sum_probs=12.0

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHhH
Q 046221          458 YLSILNACGHAGLTNDGLVIFNQMI  482 (572)
Q Consensus       458 ~~~l~~~~~~~g~~~~a~~~~~~~~  482 (572)
                      |..+..+|...|++++|+..|++++
T Consensus         4 ~~~~g~~~~~~~~~~~A~~~~~~al   28 (34)
T PF00515_consen    4 YYNLGNAYFQLGDYEEALEYYQRAL   28 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHH
Confidence            4444445555555555555555544

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 ....

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=90.62  E-value=23  Score=36.64  Aligned_cols=166  Identities=13%  Similarity=0.017  Sum_probs=93.2

Q ss_pred             CCceeHHHHHHHHH-hCCChHHHHHHHHHHHhCCCCCCHh-----hHHHHHHHHhccCChHHHHHHHHHHHHhcCC----
Q 046221          113 PYLVSCNAIVAGFI-NNKLFQQAVLLFNFFRGSGLVPNAV-----TMLTVIRGCVALGSRALCELIHGLTIKLGLI----  182 (572)
Q Consensus       113 ~~~~~~~~l~~~~~-~~~~~~~a~~~~~~m~~~~~~p~~~-----~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----  182 (572)
                      ....++-.+...+. ...+++.|...+++.....-.++-.     .-..+++.+.+.+... |...++..++.--.    
T Consensus        57 ~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~  135 (608)
T PF10345_consen   57 QEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHS  135 (608)
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCch
Confidence            33455666777766 5788999999998765433222222     1223455555655555 88888887764322    


Q ss_pred             CChhHHhHH-HHHHHhCCCHHHHHHHHhhcCC-----CC--cccHHHHHHHHH--ccCCHHHHHHHHHHHHhCCC-----
Q 046221          183 LDVSVNNSV-LDMYSCLMDLDAAIQIFREMEC-----KD--VISWTRMMGLFV--DFEYAGDALKIFREMRKSRI-----  247 (572)
Q Consensus       183 ~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~-----~~--~~~~~~li~~~~--~~~~~~~a~~~~~~m~~~~~-----  247 (572)
                      +-...+.-+ +..+...++...|.+.++.+..     .|  ...+-.++.+..  ..+..+++.+.++++.....     
T Consensus       136 ~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~  215 (608)
T PF10345_consen  136 AWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLD  215 (608)
T ss_pred             hHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccC
Confidence            222233333 2233334788888888877654     22  233334444333  45666777777776633221     


Q ss_pred             ----CCCccchHHHHHHhc--ccCChHHHHHHHHHHHH
Q 046221          248 ----ICDTVALLNLISVNA--ILGDLKRGKQLHAQVVL  279 (572)
Q Consensus       248 ----~p~~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~  279 (572)
                          .|-..++..+++.++  ..|+++.+...++++..
T Consensus       216 ~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq~  253 (608)
T PF10345_consen  216 PSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQQ  253 (608)
T ss_pred             CCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                233455666666553  45776677666665543

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=90.07  E-value=32  Score=37.35  Aligned_cols=111  Identities=18%  Similarity=0.161  Sum_probs=74.0

Q ss_pred             HHHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHH--HHHHHHHHHhcc
Q 046221          391 QNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSS--TYLSILNACGHA  468 (572)
Q Consensus       391 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~--~~~~l~~~~~~~  468 (572)
                      |.+..+-+...+.+++|.-.|+..|.      ..--+.+|...|++.+|+.+..++..   .-|..  +-..|+.-+...
T Consensus       942 ~~~ya~hL~~~~~~~~Aal~Ye~~Gk------lekAl~a~~~~~dWr~~l~~a~ql~~---~~de~~~~a~~L~s~L~e~ 1012 (1265)
T KOG1920|consen  942 YEAYADHLREELMSDEAALMYERCGK------LEKALKAYKECGDWREALSLAAQLSE---GKDELVILAEELVSRLVEQ 1012 (1265)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHhcc------HHHHHHHHHHhccHHHHHHHHHhhcC---CHHHHHHHHHHHHHHHHHc
Confidence            33444445566777777777777654      23446777888888888888776654   12222  225677778888


Q ss_pred             CChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          469 GLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       469 g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +++-+|-++..+...    .|.     -.+..|++...+++|.++......
T Consensus      1013 ~kh~eAa~il~e~~s----d~~-----~av~ll~ka~~~~eAlrva~~~~~ 1054 (1265)
T KOG1920|consen 1013 RKHYEAAKILLEYLS----DPE-----EAVALLCKAKEWEEALRVASKAKR 1054 (1265)
T ss_pred             ccchhHHHHHHHHhc----CHH-----HHHHHHhhHhHHHHHHHHHHhccc
Confidence            999999988887652    222     234566777889999998887763

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=89.97  E-value=20  Score=34.85  Aligned_cols=160  Identities=17%  Similarity=0.154  Sum_probs=70.1

Q ss_pred             CHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc---CCCCCHhHHHHHHH
Q 046221          352 DSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM---GFLRDVVSWNTIIY  428 (572)
Q Consensus       352 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~~l~~  428 (572)
                      |.....+++..++...+...++.+..+|...|  -+...|-.++++|... ..+.-..+|+++   .+ .|.+.-..|..
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~ReLa~  140 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGRELAD  140 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHHHHH
Confidence            33444444555555555555555555554443  2333444455555444 334444444433   21 22222222333


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCC------HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHH
Q 046221          429 GYGVNGHGETALALYHKMTETGEVPD------SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLA  502 (572)
Q Consensus       429 ~~~~~~~~~~A~~~~~~~~~~g~~p~------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  502 (572)
                      -|-+ ++.+.+...|.++... +-|.      ...|.-|...  -..+.|..+.+..++..+.|..--...+.-+..-|.
T Consensus       141 ~yEk-ik~sk~a~~f~Ka~yr-fI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys  216 (711)
T COG1747         141 KYEK-IKKSKAAEFFGKALYR-FIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYS  216 (711)
T ss_pred             HHHH-hchhhHHHHHHHHHHH-hcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhc
Confidence            3322 4445555555554443 2220      0122222221  123444555555555444444444444444445555


Q ss_pred             hhCChhHHHHHHHhccC
Q 046221          503 RAGCLSDASGLAGKLLE  519 (572)
Q Consensus       503 ~~g~~~~A~~~~~~~~~  519 (572)
                      ...++.+|++++..+.+
T Consensus       217 ~~eN~~eai~Ilk~il~  233 (711)
T COG1747         217 ENENWTEAIRILKHILE  233 (711)
T ss_pred             cccCHHHHHHHHHHHhh
Confidence            55566666666655544

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=89.88  E-value=4.7  Score=31.85  Aligned_cols=50  Identities=6%  Similarity=0.088  Sum_probs=36.4

Q ss_pred             hhcCChHHHHHHHHHc-CCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 046221          399 SKCGNVDLAYIVFEEM-GFL---RDVVSWNTIIYGYGVNGHGETALALYHKMTETG  450 (572)
Q Consensus       399 ~~~g~~~~A~~~~~~~-~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g  450 (572)
                      ...++.+++..+++.+ -..   +...++...  .+...|++++|.++|++..+.+
T Consensus        21 L~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~--l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVLRPNLKELDMFDGW--LLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHhCCCccccchhHHH--HHHHcCCHHHHHHHHHhhhccC
Confidence            4578899999999888 333   444444433  4677899999999999988854

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=89.57  E-value=10  Score=30.98  Aligned_cols=92  Identities=16%  Similarity=0.155  Sum_probs=47.0

Q ss_pred             CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHH
Q 046221          415 GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHY  494 (572)
Q Consensus       415 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  494 (572)
                      +++|+...+..++..+.+.|++..    +..+...++-||+......+-.+.  +.+..+.++=-+|++.-+.     .+
T Consensus        24 ~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkRL~~-----~~   92 (167)
T PF07035_consen   24 NIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKRLGT-----AY   92 (167)
T ss_pred             CCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHHhhh-----hH
Confidence            555666666666666666665433    333444455555544443332222  2233444444444432211     24


Q ss_pred             HHHHHHHHhhCChhHHHHHHHhc
Q 046221          495 GCVVDLLARAGCLSDASGLAGKL  517 (572)
Q Consensus       495 ~~l~~~~~~~g~~~~A~~~~~~~  517 (572)
                      ..+++.+...|++-+|.++.++.
T Consensus        93 ~~iievLL~~g~vl~ALr~ar~~  115 (167)
T PF07035_consen   93 EEIIEVLLSKGQVLEALRYARQY  115 (167)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHc
Confidence            44556666777777777777664

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=89.39  E-value=20  Score=34.00  Aligned_cols=65  Identities=9%  Similarity=0.123  Sum_probs=42.9

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC---CHHHHHHHHHHHhccCChHHHHHHHHHhHH
Q 046221          419 DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP---DSSTYLSILNACGHAGLTNDGLVIFNQMIE  483 (572)
Q Consensus       419 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  483 (572)
                      ...+|..++..+.+.|.++.|...+.++...+..+   ++.....-+......|+..+|+..++..++
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            35567777778888888888888888777643211   223333445556677777888887777664

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=89.27  E-value=0.6  Score=25.98  Aligned_cols=27  Identities=19%  Similarity=0.130  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          493 HYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       493 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .|..++.+|...|++++|+..++++.+
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            455666666666666666666666554

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=88.87  E-value=1.1  Score=24.84  Aligned_cols=25  Identities=12%  Similarity=0.224  Sum_probs=11.8

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHhH
Q 046221          458 YLSILNACGHAGLTNDGLVIFNQMI  482 (572)
Q Consensus       458 ~~~l~~~~~~~g~~~~a~~~~~~~~  482 (572)
                      +..+...+...|++++|++.|++++
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al   28 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            3344444555555555555555544

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 ....

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=88.57  E-value=0.71  Score=25.59  Aligned_cols=27  Identities=19%  Similarity=0.115  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          493 HYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       493 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .+..+..++...|++++|++.+++...
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            345556666666666666666666544

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 ....

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=88.13  E-value=27  Score=34.00  Aligned_cols=159  Identities=10%  Similarity=0.096  Sum_probs=107.7

Q ss_pred             CCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHH-HHHH
Q 046221          385 PRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTY-LSIL  462 (572)
Q Consensus       385 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~-~~l~  462 (572)
                      +.+....-+++..+.......-.+.+..+| .+..+...|-.++++|..+ ..++-..+|+++.+.  .-|.... ..|.
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~el~q~y~en-~n~~l~~lWer~ve~--dfnDvv~~ReLa  139 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALLELLQCYKEN-GNEQLYSLWERLVEY--DFNDVVIGRELA  139 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CchhhHHHHHHHHHh--cchhHHHHHHHH
Confidence            445556667888888888888888999888 5556778899999999998 567889999999984  3444333 4444


Q ss_pred             HHHhccCChHHHHHHHHHhHHhcCCCCC------hhHHHHHHHHHHhhCChhHHHHHHHhccC----CCChHHHHHHHHH
Q 046221          463 NACGHAGLTNDGLVIFNQMIEENKVKPS------QEHYGCVVDLLARAGCLSDASGLAGKLLE----GMGPNIWRALLSG  532 (572)
Q Consensus       463 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~~l~~~  532 (572)
                      .-| ..++...+..+|.+++...  .|.      ...|..|...-  ..+.+.-..+..++..    ..-...+.-+..-
T Consensus       140 ~~y-Ekik~sk~a~~f~Ka~yrf--I~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~  214 (711)
T COG1747         140 DKY-EKIKKSKAAEFFGKALYRF--IPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKK  214 (711)
T ss_pred             HHH-HHhchhhHHHHHHHHHHHh--cchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHH
Confidence            444 4488899999999887443  231      12455554322  3466666777776655    2222334444455


Q ss_pred             HhhhcCCHHHHHHHHHHHHh
Q 046221          533 CVLHVGRFQDAEALRSGSQK  552 (572)
Q Consensus       533 ~~~~~g~~~~A~~~~~~m~~  552 (572)
                      |... .+|++|++++..+.+
T Consensus       215 Ys~~-eN~~eai~Ilk~il~  233 (711)
T COG1747         215 YSEN-ENWTEAIRILKHILE  233 (711)
T ss_pred             hccc-cCHHHHHHHHHHHhh
Confidence            5555 899999999986554

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.13  E-value=3.7  Score=36.78  Aligned_cols=101  Identities=13%  Similarity=0.099  Sum_probs=69.9

Q ss_pred             cCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCC-CCc-----ccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccc
Q 046221          180 GLILDVSVNNSVLDMYSCLMDLDAAIQIFREMEC-KDV-----ISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVA  253 (572)
Q Consensus       180 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~-----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  253 (572)
                      |.+....+...++..-....+++.++..+-++.. ++.     .+-...++. +..-++++++.++..=.+-|+-||.++
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irl-llky~pq~~i~~l~npIqYGiF~dqf~  137 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRL-LLKYDPQKAIYTLVNPIQYGIFPDQFT  137 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHH-HHccChHHHHHHHhCcchhccccchhh
Confidence            4455555555555555556678888877766654 211     111122232 333467788888888888899999999


Q ss_pred             hHHHHHHhcccCChHHHHHHHHHHHHhC
Q 046221          254 LLNLISVNAILGDLKRGKQLHAQVVLGG  281 (572)
Q Consensus       254 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~  281 (572)
                      ++.+|+.+.+.+++..|.++.-.|....
T Consensus       138 ~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  138 FCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            9999999999999999998888887665

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=87.84  E-value=1.7  Score=29.76  Aligned_cols=47  Identities=13%  Similarity=0.174  Sum_probs=27.3

Q ss_pred             ccCChHHHHHHHHHhHHhcCCCCChh-HHHHHHHHHHhhCChhHHHHH
Q 046221          467 HAGLTNDGLVIFNQMIEENKVKPSQE-HYGCVVDLLARAGCLSDASGL  513 (572)
Q Consensus       467 ~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~  513 (572)
                      ...+.++|+..|+.++++..-+|+.. ++..++.+|+..|++.+++++
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55566666666666665443333322 555666666666666666654

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.69  E-value=36  Score=35.03  Aligned_cols=66  Identities=9%  Similarity=0.203  Sum_probs=34.7

Q ss_pred             HHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccCCCChHHHHHHHHHHhhh
Q 046221          459 LSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLH  536 (572)
Q Consensus       459 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~  536 (572)
                      ...+..|.+.|-+++..-++.+|    |     .+..+|.-.--+.++.++|.++.++   ..|+..|..|+..+..+
T Consensus       638 ekA~eiC~q~~~~~E~VYlLgrm----G-----n~k~AL~lII~el~die~AIefvKe---q~D~eLWe~LI~~~ldk  703 (846)
T KOG2066|consen  638 EKALEICSQKNFYEELVYLLGRM----G-----NAKEALKLIINELRDIEKAIEFVKE---QDDSELWEDLINYSLDK  703 (846)
T ss_pred             HHHHHHHHhhCcHHHHHHHHHhh----c-----chHHHHHHHHHHhhCHHHHHHHHHh---cCCHHHHHHHHHHhhcC
Confidence            33444555555555555555544    1     1222222223344666666666554   45667777777766543

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=86.93  E-value=0.66  Score=25.98  Aligned_cols=31  Identities=23%  Similarity=0.369  Sum_probs=21.7

Q ss_pred             HHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHH
Q 046221          443 YHKMTETGEVP-DSSTYLSILNACGHAGLTNDGL  475 (572)
Q Consensus       443 ~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~  475 (572)
                      |++.++  +.| +...|..+...|...|++++|+
T Consensus         2 y~kAie--~~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIE--LNPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHH--HCCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            445555  456 4577888888888888888775

>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=86.11  E-value=8.6  Score=32.31  Aligned_cols=74  Identities=9%  Similarity=0.092  Sum_probs=43.3

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcC--CCCChhHHHHHHHHHHhhCChhHHH
Q 046221          437 ETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENK--VKPSQEHYGCVVDLLARAGCLSDAS  511 (572)
Q Consensus       437 ~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~  511 (572)
                      +.|.+.|-.+...+.--++.....|..-|. ..+.+++++++-++++...  -.+|+..+.+|+..+.+.|+++.|-
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            456666666666554434444444443333 5567777777766654332  2456667777777777777776664

>PRK11619 lytic murein transglycosylase; Provisional

Probab=86.07  E-value=46  Score=34.56  Aligned_cols=311  Identities=8%  Similarity=-0.069  Sum_probs=150.8

Q ss_pred             HHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhc-CCCChhHHhHHHHHHHhCCCHHH
Q 046221          125 FINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLG-LILDVSVNNSVLDMYSCLMDLDA  203 (572)
Q Consensus       125 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~  203 (572)
                      ..+.|++..+..+...+...-+ ..-..|..+..... ....++....++   +.. .+.....-...+..+.+.+++..
T Consensus        43 a~~~g~~~~~~~~~~~l~d~pL-~~yl~y~~L~~~l~-~~~~~ev~~Fl~---~~~~~P~~~~Lr~~~l~~La~~~~w~~  117 (644)
T PRK11619         43 AWDNRQMDVVEQLMPTLKDYPL-YPYLEYRQLTQDLM-NQPAVQVTNFIR---ANPTLPPARSLQSRFVNELARREDWRG  117 (644)
T ss_pred             HHHCCCHHHHHHHHHhccCCCc-HhHHHHHHHHhccc-cCCHHHHHHHHH---HCCCCchHHHHHHHHHHHHHHccCHHH
Confidence            3567888888777777643222 12223333332221 223443333332   322 22223334445556677888888


Q ss_pred             HHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHH--HHHHHHHHhC
Q 046221          204 AIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGK--QLHAQVVLGG  281 (572)
Q Consensus       204 a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~--~~~~~~~~~~  281 (572)
                      ....+..- ..+...-.....+....|+.++|....+.+-..|. ..+.....++..+...|.+....  +=+..+...|
T Consensus       118 ~~~~~~~~-p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g~-~~p~~cd~l~~~~~~~g~lt~~d~w~R~~~al~~~  195 (644)
T PRK11619        118 LLAFSPEK-PKPVEARCNYYYAKWATGQQQEAWQGAKELWLTGK-SLPNACDKLFSVWQQSGKQDPLAYLERIRLAMKAG  195 (644)
T ss_pred             HHHhcCCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCC-CCChHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCC
Confidence            88744232 34555566777888888998888887777766552 34566777777776555443322  1111111111


Q ss_pred             C-----------CCCc-chHHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHH--HcCChHHHHHHHHHHHhcC
Q 046221          282 L-----------QSEL-RLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYV--QNGCAREALNQFIKMRQEK  347 (572)
Q Consensus       282 ~-----------~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~  347 (572)
                      -           .++. .....++..+   .+...+...+.... ++...-..++-++.  ...+.+.|..++.......
T Consensus       196 ~~~lA~~l~~~l~~~~~~~a~a~~al~---~~p~~~~~~~~~~~-~~~~~~~~~~~~l~Rlar~d~~~A~~~~~~~~~~~  271 (644)
T PRK11619        196 NTGLVTYLAKQLPADYQTIASALIKLQ---NDPNTVETFARTTG-PTDFTRQMAAVAFASVARQDAENARLMIPSLVRAQ  271 (644)
T ss_pred             CHHHHHHHHHhcChhHHHHHHHHHHHH---HCHHHHHHHhhccC-CChhhHHHHHHHHHHHHHhCHHHHHHHHHHHHHhc
Confidence            0           1110 0111111111   12222222222211 11111111111221  3445688888888775344


Q ss_pred             CCCCCHh--HHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHH
Q 046221          348 TDSVDSI--TLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSW  423 (572)
Q Consensus       348 ~~~~~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~  423 (572)
                      ...+...  ....+.......+..+.+...++......  .+......-+..-.+.++++.+...+..|  ...-...-.
T Consensus       272 ~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~--~~~~~~e~r~r~Al~~~dw~~~~~~i~~L~~~~~~~~rw~  349 (644)
T PRK11619        272 KLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRS--QSTSLLERRVRMALGTGDRRGLNTWLARLPMEAKEKDEWR  349 (644)
T ss_pred             CCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccccc--CCcHHHHHHHHHHHHccCHHHHHHHHHhcCHhhccCHhhH
Confidence            4333322  22222222222222445555554433222  23344444455555788888888888888  121111222


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHh
Q 046221          424 NTIIYGYGVNGHGETALALYHKMTE  448 (572)
Q Consensus       424 ~~l~~~~~~~~~~~~A~~~~~~~~~  448 (572)
                      -=+..++...|+.++|...|+++..
T Consensus       350 YW~aRa~~~~g~~~~A~~~~~~~a~  374 (644)
T PRK11619        350 YWQADLLLEQGRKAEAEEILRQLMQ  374 (644)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            2245555667888888888888754

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=86.00  E-value=46  Score=34.45  Aligned_cols=48  Identities=10%  Similarity=-0.124  Sum_probs=32.2

Q ss_pred             hhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCC
Q 046221           37 VSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQ   85 (572)
Q Consensus        37 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g   85 (572)
                      ..--.+|-.+.+.|++++|.++..+.... .......+...+..+....
T Consensus       112 ~p~Wa~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s~  159 (613)
T PF04097_consen  112 DPIWALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASSP  159 (613)
T ss_dssp             EEHHHHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTTT
T ss_pred             CccHHHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhCC
Confidence            34446667788899999999988665443 4555667788888887653

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>PRK11619 lytic murein transglycosylase; Provisional

Probab=85.82  E-value=47  Score=34.47  Aligned_cols=133  Identities=9%  Similarity=-0.024  Sum_probs=66.4

Q ss_pred             HHhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHc--cCCHHHHHHHHHHHHhCCCCCCcc-chHHHHHHhcccCChHHHH
Q 046221          195 YSCLMDLDAAIQIFREMECKDVISWTRMMGLFVD--FEYAGDALKIFREMRKSRIICDTV-ALLNLISVNAILGDLKRGK  271 (572)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~--~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~  271 (572)
                      ..+.|++..+.++...+...-...|-........  ...+++...++++-..   .|-.. .-...+..+.+.+++....
T Consensus        43 a~~~g~~~~~~~~~~~l~d~pL~~yl~y~~L~~~l~~~~~~ev~~Fl~~~~~---~P~~~~Lr~~~l~~La~~~~w~~~~  119 (644)
T PRK11619         43 AWDNRQMDVVEQLMPTLKDYPLYPYLEYRQLTQDLMNQPAVQVTNFIRANPT---LPPARSLQSRFVNELARREDWRGLL  119 (644)
T ss_pred             HHHCCCHHHHHHHHHhccCCCcHhHHHHHHHHhccccCCHHHHHHHHHHCCC---CchHHHHHHHHHHHHHHccCHHHHH
Confidence            4566788888888877754322222222221111  2245555555444211   12221 1222333445556666555


Q ss_pred             HHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccC---CCCcchHHHHHHHHHHcCChHH
Q 046221          272 QLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQIT---EKSLVSWTAIISGYVQNGCARE  335 (572)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~  335 (572)
                      ..+.     ..+.+.........+....|+.++|......+-   ...+..++.++..+.+.|....
T Consensus       120 ~~~~-----~~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g~~~p~~cd~l~~~~~~~g~lt~  181 (644)
T PRK11619        120 AFSP-----EKPKPVEARCNYYYAKWATGQQQEAWQGAKELWLTGKSLPNACDKLFSVWQQSGKQDP  181 (644)
T ss_pred             HhcC-----CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCCChHHHHHHHHHHHcCCCCH
Confidence            4221     123444445566677777787766655554432   2234567777777776665443

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=85.72  E-value=5  Score=33.41  Aligned_cols=87  Identities=14%  Similarity=0.081  Sum_probs=65.3

Q ss_pred             HHhhhcCChHHHHHHHHHc--CCCCC-----HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhc
Q 046221          396 SSYSKCGNVDLAYIVFEEM--GFLRD-----VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS-STYLSILNACGH  467 (572)
Q Consensus       396 ~~~~~~g~~~~A~~~~~~~--~~~~~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~  467 (572)
                      .-+.+.|++++|..-|...  -+++.     ...|..-..++.+.+.++.|+.-..+.++  +.|+. .....-..+|.+
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaie--l~pty~kAl~RRAeayek  180 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIE--LNPTYEKALERRAEAYEK  180 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHh--cCchhHHHHHHHHHHHHh
Confidence            3466789999999888877  23221     34455556778889999999999988888  56644 555555678899


Q ss_pred             cCChHHHHHHHHHhHHh
Q 046221          468 AGLTNDGLVIFNQMIEE  484 (572)
Q Consensus       468 ~g~~~~a~~~~~~~~~~  484 (572)
                      ..++++|+.-|+.+++.
T Consensus       181 ~ek~eealeDyKki~E~  197 (271)
T KOG4234|consen  181 MEKYEEALEDYKKILES  197 (271)
T ss_pred             hhhHHHHHHHHHHHHHh
Confidence            99999999999998764

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=85.55  E-value=3.5  Score=37.33  Aligned_cols=86  Identities=12%  Similarity=0.005  Sum_probs=51.2

Q ss_pred             HHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHH
Q 046221          396 SSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTND  473 (572)
Q Consensus       396 ~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~  473 (572)
                      +.|.+.|.+++|+..|... ...| +.+++..-..+|.+.+++..|+.-....+..+ ..-...|..-+.+-...|...+
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~~E  183 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNNME  183 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhHHH
Confidence            4577888888888888765 4445 67777777778888887777776666655421 0011233333333334445555


Q ss_pred             HHHHHHHhH
Q 046221          474 GLVIFNQMI  482 (572)
Q Consensus       474 a~~~~~~~~  482 (572)
                      |.+-++.++
T Consensus       184 AKkD~E~vL  192 (536)
T KOG4648|consen  184 AKKDCETVL  192 (536)
T ss_pred             HHHhHHHHH
Confidence            555555444

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=85.25  E-value=35  Score=34.73  Aligned_cols=148  Identities=18%  Similarity=0.171  Sum_probs=73.8

Q ss_pred             hcccccHHHHHHHHHHHHH-------hcCCCchhHHHHHHHHhhhcC-----ChHHHHHHHHHc---CCCCCHhHHHHHH
Q 046221          363 SGELAALEICLQLHGIAFE-------AGFPRYRSVQNCLISSYSKCG-----NVDLAYIVFEEM---GFLRDVVSWNTII  427 (572)
Q Consensus       363 ~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~g-----~~~~A~~~~~~~---~~~~~~~~~~~l~  427 (572)
                      .....|.+.|..+++.+.+       .+.+   ....-+..+|.+..     +.+.|..++...   +. |+....-..+
T Consensus       259 ~g~~~d~e~a~~~l~~aa~~~~~~a~~~~~---~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~  334 (552)
T KOG1550|consen  259 YGVTQDLESAIEYLKLAAESFKKAATKGLP---PAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAELGN-PDAQYLLGVL  334 (552)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHHHhhcCC---ccccHHHHHHhcCCCCccccHHHHHHHHHHHHhcCC-chHHHHHHHH
Confidence            3455566777777666655       4422   23344555555532     566788888776   33 4443332222


Q ss_pred             HHHHh-cCChHHHHHHHHHHHhcCCCCCHHHHHHHHH--HHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhh
Q 046221          428 YGYGV-NGHGETALALYHKMTETGEVPDSSTYLSILN--ACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARA  504 (572)
Q Consensus       428 ~~~~~-~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~--~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  504 (572)
                      .-... ..+...|.++|......|..+-. .+..++.  +..-..+...|..+++++.+ .| .|...--...+..+.. 
T Consensus       335 ~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~-~~la~~y~~G~gv~r~~~~A~~~~k~aA~-~g-~~~A~~~~~~~~~~g~-  410 (552)
T KOG1550|consen  335 YETGTKERDYRRAFEYYSLAAKAGHILAI-YRLALCYELGLGVERNLELAFAYYKKAAE-KG-NPSAAYLLGAFYEYGV-  410 (552)
T ss_pred             HHcCCccccHHHHHHHHHHHHHcCChHHH-HHHHHHHHhCCCcCCCHHHHHHHHHHHHH-cc-ChhhHHHHHHHHHHcc-
Confidence            22222 24567888888888887643321 1111111  12234467788888887753 33 2332222222233333 


Q ss_pred             CChhHHHHHHHhcc
Q 046221          505 GCLSDASGLAGKLL  518 (572)
Q Consensus       505 g~~~~A~~~~~~~~  518 (572)
                      ++++.+.-.+..+.
T Consensus       411 ~~~~~~~~~~~~~a  424 (552)
T KOG1550|consen  411 GRYDTALALYLYLA  424 (552)
T ss_pred             ccccHHHHHHHHHH
Confidence            55555554444433

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=85.24  E-value=15  Score=30.20  Aligned_cols=41  Identities=20%  Similarity=0.270  Sum_probs=21.5

Q ss_pred             hhHHHHHHHhccC-CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCC
Q 046221          507 LSDASGLAGKLLE-GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKG  554 (572)
Q Consensus       507 ~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~  554 (572)
                      +++|.+.|+++.. +|+..+|+.-+....       .|-++..++.+.+
T Consensus        96 F~kA~~~FqkAv~~~P~ne~Y~ksLe~~~-------kap~lh~e~~~~~  137 (186)
T PF06552_consen   96 FEKATEYFQKAVDEDPNNELYRKSLEMAA-------KAPELHMEIHKQG  137 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-HHHHHHHHHHH-------THHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHhcCCCcHHHHHHHHHHH-------hhHHHHHHHHHHH
Confidence            3445555555554 777777776665442       3555555555444

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=85.11  E-value=13  Score=27.23  Aligned_cols=60  Identities=13%  Similarity=0.158  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 046221          438 TALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVD  499 (572)
Q Consensus       438 ~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  499 (572)
                      +..+-++.+....+.|++......+++|-+.+++..|+++|+-+..+.|  +....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~--~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCG--NKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTT--T-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--ChHHHHHHHHH
Confidence            4455566666666777777777777777777777777777776644433  22225555543

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 ....

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=85.11  E-value=1  Score=23.32  Aligned_cols=21  Identities=29%  Similarity=0.354  Sum_probs=13.6

Q ss_pred             hhHHHHHhhcCChhhHHHHhc
Q 046221            9 SKLLSNYFKSGKIKEAENLFD   29 (572)
Q Consensus         9 ~~l~~~~~~~~~~~~A~~~~~   29 (572)
                      ..+...+...|++++|+.+++
T Consensus         5 ~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    5 LALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHcCCHHHHHHHHh
Confidence            445666667777777766664

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=84.90  E-value=20  Score=29.31  Aligned_cols=121  Identities=12%  Similarity=0.106  Sum_probs=71.9

Q ss_pred             hhhcCChHHHHHHHHHc---CCCCC-HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHH-HHHHH--HHHHhccCC
Q 046221          398 YSKCGNVDLAYIVFEEM---GFLRD-VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSS-TYLSI--LNACGHAGL  470 (572)
Q Consensus       398 ~~~~g~~~~A~~~~~~~---~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~-~~~~l--~~~~~~~g~  470 (572)
                      +.+.+..++|+.-|..+   |...- ...--.+.......|+...|...|+++-...-.|-.. -...|  ...+...|.
T Consensus        68 lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gs  147 (221)
T COG4649          68 LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGS  147 (221)
T ss_pred             HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhcccc
Confidence            45677788888888777   22111 1111122333566788888888888877644334322 11112  223567788


Q ss_pred             hHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          471 TNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       471 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +++...-.+.+- ..+-+.....-..|.-+-.+.|++.+|...|..+..
T Consensus       148 y~dV~srvepLa-~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         148 YDDVSSRVEPLA-GDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHHhhhcc-CCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            888777777663 333333444555676677788888888888887765

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=84.20  E-value=9.1  Score=27.59  Aligned_cols=62  Identities=18%  Similarity=0.101  Sum_probs=44.2

Q ss_pred             hHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHH
Q 046221          131 FQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLD  193 (572)
Q Consensus       131 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  193 (572)
                      .-++.+-++.+....+.|+.....+.+++|.+.+++..|..+++-..... ..+...|..++.
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~-~~~~~~y~~~lq   84 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKC-GAHKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cCchhhHHHHHH
Confidence            33556667777777788999999999999999999999999888776432 223345555443

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=84.08  E-value=2.3  Score=24.79  Aligned_cols=27  Identities=19%  Similarity=0.300  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhH
Q 046221          456 STYLSILNACGHAGLTNDGLVIFNQMI  482 (572)
Q Consensus       456 ~~~~~l~~~~~~~g~~~~a~~~~~~~~  482 (572)
                      .+++.|...|...|++++|..++++++
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            345566666666666666666666654

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=83.96  E-value=19  Score=31.11  Aligned_cols=115  Identities=8%  Similarity=-0.071  Sum_probs=64.0

Q ss_pred             hhcCChHHHHHHHHHc-CCCCCH-hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCChHHHH
Q 046221          399 SKCGNVDLAYIVFEEM-GFLRDV-VSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS-STYLSILNACGHAGLTNDGL  475 (572)
Q Consensus       399 ~~~g~~~~A~~~~~~~-~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~  475 (572)
                      ....++..|...+.+. -+.|+. .-|+.-+.++.+.++++.+..--.+.++  +.||. .....+..+......+++|+
T Consensus        21 f~~k~y~~ai~~y~raI~~nP~~~~Y~tnralchlk~~~~~~v~~dcrralq--l~~N~vk~h~flg~~~l~s~~~~eaI   98 (284)
T KOG4642|consen   21 FIPKRYDDAIDCYSRAICINPTVASYYTNRALCHLKLKHWEPVEEDCRRALQ--LDPNLVKAHYFLGQWLLQSKGYDEAI   98 (284)
T ss_pred             cchhhhchHHHHHHHHHhcCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHh--cChHHHHHHHHHHHHHHhhccccHHH
Confidence            3344566666655554 555665 3345556667777777777766666666  56665 44445555666667777777


Q ss_pred             HHHHHhH---HhcCCCCChhHHHHHHHHHHhhCChhHHHHHHH
Q 046221          476 VIFNQMI---EENKVKPSQEHYGCVVDLLARAGCLSDASGLAG  515 (572)
Q Consensus       476 ~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  515 (572)
                      ..+.++.   +...+++-..+...|..+=.+.=...++.++.+
T Consensus        99 ~~Lqra~sl~r~~~~~~~~di~~~L~~ak~~~w~v~e~~Ri~Q  141 (284)
T KOG4642|consen   99 KVLQRAYSLLREQPFTFGDDIPKALRDAKKKRWEVSEEKRIRQ  141 (284)
T ss_pred             HHHHHHHHHHhcCCCCCcchHHHHHHHHHhCccchhHHHHHHH
Confidence            7776652   223344444455555544333223334444333

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=83.77  E-value=1.9  Score=23.51  Aligned_cols=23  Identities=13%  Similarity=0.303  Sum_probs=11.7

Q ss_pred             HHHHHhccCChHHHHHHHHHhHH
Q 046221          461 ILNACGHAGLTNDGLVIFNQMIE  483 (572)
Q Consensus       461 l~~~~~~~g~~~~a~~~~~~~~~  483 (572)
                      +..++.+.|++++|.+.|+++++
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHH
Confidence            34444455555555555555543

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=83.68  E-value=2  Score=23.76  Aligned_cols=24  Identities=13%  Similarity=0.220  Sum_probs=10.8

Q ss_pred             HHHHHHHhccCChHHHHHHHHHhH
Q 046221          459 LSILNACGHAGLTNDGLVIFNQMI  482 (572)
Q Consensus       459 ~~l~~~~~~~g~~~~a~~~~~~~~  482 (572)
                      ..+...|...|++++|...|++.+
T Consensus         5 ~~lg~~y~~~~~~~~A~~~~~~a~   28 (34)
T PF13181_consen    5 YNLGKIYEQLGDYEEALEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHHTTSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH
Confidence            334444444444444444444443

...

>PF09670 Cas_Cas02710: CRISPR-associated protein (Cas_Cas02710)

Probab=83.55  E-value=25  Score=33.62  Aligned_cols=52  Identities=6%  Similarity=-0.026  Sum_probs=28.2

Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCHH--HHHHHHHHH--hccCChHHHHHHHHHhH
Q 046221          430 YGVNGHGETALALYHKMTETGEVPDSS--TYLSILNAC--GHAGLTNDGLVIFNQMI  482 (572)
Q Consensus       430 ~~~~~~~~~A~~~~~~~~~~g~~p~~~--~~~~l~~~~--~~~g~~~~a~~~~~~~~  482 (572)
                      +...+++..|.++++.+... ++++..  .+..+..+|  ...-++++|.+.++...
T Consensus       141 l~n~~~y~aA~~~l~~l~~r-l~~~~~~~~~~~l~~~y~~WD~fd~~~A~~~l~~~~  196 (379)
T PF09670_consen  141 LFNRYDYGAAARILEELLRR-LPGREEYQRYKDLCEGYDAWDRFDHKEALEYLEKLL  196 (379)
T ss_pred             HHhcCCHHHHHHHHHHHHHh-CCchhhHHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            33556666666666666664 444333  333344443  34455666666666554

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=83.38  E-value=3.1  Score=24.27  Aligned_cols=29  Identities=28%  Similarity=0.378  Sum_probs=22.8

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 046221          420 VVSWNTIIYGYGVNGHGETALALYHKMTE  448 (572)
Q Consensus       420 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  448 (572)
                      ..+++.|...|...|++++|..++++..+
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            35678888888889999999998888765

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=83.31  E-value=26  Score=29.37  Aligned_cols=87  Identities=14%  Similarity=0.032  Sum_probs=47.5

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCHHHH-----HHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHH
Q 046221          427 IYGYGVNGHGETALALYHKMTETGEVPDSSTY-----LSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLL  501 (572)
Q Consensus       427 ~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~-----~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  501 (572)
                      ...+...+++++|+.-++.....   |....+     ..|.+.....|.+|+|+.+++... ..+.  .......-.+++
T Consensus        96 Ak~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~-~~~w--~~~~~elrGDil  169 (207)
T COG2976          96 AKAEVEANNLDKAEAQLKQALAQ---TKDENLKALAALRLARVQLQQKKADAALKTLDTIK-EESW--AAIVAELRGDIL  169 (207)
T ss_pred             HHHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccc-cccH--HHHHHHHhhhHH
Confidence            34466667777777777666542   222222     223444566677777777766542 1111  122233345666


Q ss_pred             HhhCChhHHHHHHHhccC
Q 046221          502 ARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       502 ~~~g~~~~A~~~~~~~~~  519 (572)
                      ...|+.++|+.-|++..+
T Consensus       170 l~kg~k~~Ar~ay~kAl~  187 (207)
T COG2976         170 LAKGDKQEARAAYEKALE  187 (207)
T ss_pred             HHcCchHHHHHHHHHHHH
Confidence            677777777777766655

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=83.28  E-value=1.3  Score=24.49  Aligned_cols=27  Identities=22%  Similarity=0.194  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          493 HYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       493 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +|..+...|...|++++|.+.|++..+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            456667777777777777777777654

...

>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=83.26  E-value=0.72  Score=36.92  Aligned_cols=86  Identities=12%  Similarity=0.113  Sum_probs=60.5

Q ss_pred             HHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHH
Q 046221          256 NLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCARE  335 (572)
Q Consensus       256 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  335 (572)
                      .++..+.+.+.+.....+++.+...+...+....+.++..|++.++.+...++++....   .-...++..+.+.|.+++
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~   88 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEE   88 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHH
Confidence            45666777777778888888888777667788888899999998888888888874332   334456666677777777


Q ss_pred             HHHHHHHHH
Q 046221          336 ALNQFIKMR  344 (572)
Q Consensus       336 a~~~~~~~~  344 (572)
                      +.-++.++.
T Consensus        89 a~~Ly~~~~   97 (143)
T PF00637_consen   89 AVYLYSKLG   97 (143)
T ss_dssp             HHHHHHCCT
T ss_pred             HHHHHHHcc
Confidence            777776653

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.

>PRK09687 putative lyase; Provisional

Probab=82.99  E-value=37  Score=30.91  Aligned_cols=135  Identities=8%  Similarity=-0.032  Sum_probs=72.8

Q ss_pred             chhHHHHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcC-ChHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 046221          387 YRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNG-HGETALALYHKMTETGEVPDSSTYLSILNAC  465 (572)
Q Consensus       387 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  465 (572)
                      +..+-...+.++++.++. +|...+-.+-..++...-...+.++.+.+ +...+...+..+..   .++..+-...+.++
T Consensus       141 ~~~VR~~a~~aLg~~~~~-~ai~~L~~~L~d~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aL  216 (280)
T PRK09687        141 STNVRFAVAFALSVINDE-AAIPLLINLLKDPNGDVRNWAAFALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGL  216 (280)
T ss_pred             CHHHHHHHHHHHhccCCH-HHHHHHHHHhcCCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHHHH
Confidence            444444556666666653 44444444411244444444444554432 23456666666654   45666666677777


Q ss_pred             hccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHHHHHHHHH
Q 046221          466 GHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWRALLSGC  533 (572)
Q Consensus       466 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~  533 (572)
                      .+.|+ .+|+..+-+.++.    ++  .....+.++...|+. +|...+..+.. .||..+-...+.+|
T Consensus       217 g~~~~-~~av~~Li~~L~~----~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~~~d~~v~~~a~~a~  277 (280)
T PRK09687        217 ALRKD-KRVLSVLIKELKK----GT--VGDLIIEAAGELGDK-TLLPVLDTLLYKFDDNEIITKAIDKL  277 (280)
T ss_pred             HccCC-hhHHHHHHHHHcC----Cc--hHHHHHHHHHhcCCH-hHHHHHHHHHhhCCChhHHHHHHHHH
Confidence            77776 3555555555432    22  233566677777774 57777777665 56665544444443

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=82.17  E-value=8.2  Score=32.73  Aligned_cols=64  Identities=6%  Similarity=-0.117  Sum_probs=50.1

Q ss_pred             hHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcC
Q 046221           38 SWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGL  102 (572)
Q Consensus        38 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  102 (572)
                      +.+..++.+.+.++..+++...+.-.+.. +.|..+-..++..+|-.|++++|..-++-.-+..+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p   66 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSP   66 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCc
Confidence            34556778888899999999988877663 55666778888999999999999887777666554

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=82.08  E-value=20  Score=30.99  Aligned_cols=100  Identities=12%  Similarity=0.014  Sum_probs=73.5

Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChh-HHHHHHHHHHhhCCh
Q 046221          430 YGVNGHGETALALYHKMTETGEVPDS-STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQE-HYGCVVDLLARAGCL  507 (572)
Q Consensus       430 ~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~  507 (572)
                      |....+++.|+..|.+.+.  +.|+. .-|+.-+-++.+..+++.+..-...+++   +.|+.. ....+..++.....+
T Consensus        20 ~f~~k~y~~ai~~y~raI~--~nP~~~~Y~tnralchlk~~~~~~v~~dcrralq---l~~N~vk~h~flg~~~l~s~~~   94 (284)
T KOG4642|consen   20 CFIPKRYDDAIDCYSRAIC--INPTVASYYTNRALCHLKLKHWEPVEEDCRRALQ---LDPNLVKAHYFLGQWLLQSKGY   94 (284)
T ss_pred             ccchhhhchHHHHHHHHHh--cCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHh---cChHHHHHHHHHHHHHHhhccc
Confidence            4455678889998888877  78988 4456667788889999998888877764   456654 445567788888999


Q ss_pred             hHHHHHHHhccC-------CCChHHHHHHHHHHh
Q 046221          508 SDASGLAGKLLE-------GMGPNIWRALLSGCV  534 (572)
Q Consensus       508 ~~A~~~~~~~~~-------~~~~~~~~~l~~~~~  534 (572)
                      .+|+..+++..+       ++....+..|..+-.
T Consensus        95 ~eaI~~Lqra~sl~r~~~~~~~~di~~~L~~ak~  128 (284)
T KOG4642|consen   95 DEAIKVLQRAYSLLREQPFTFGDDIPKALRDAKK  128 (284)
T ss_pred             cHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHh
Confidence            999999998744       445556777776543

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=82.03  E-value=14  Score=26.93  Aligned_cols=60  Identities=18%  Similarity=0.117  Sum_probs=40.6

Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHH
Q 046221          133 QAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLD  193 (572)
Q Consensus       133 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  193 (572)
                      +..+-++.+....+.|+.......+++|.+.+++..|..+++-+...- .+....|..++.
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~-~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKC-GNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHT-TT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cChHHHHHHHHH
Confidence            455666777777888999999999999999999999999988877643 233336665554

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 ....

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=81.63  E-value=4.6  Score=27.77  Aligned_cols=51  Identities=18%  Similarity=0.088  Sum_probs=37.2

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCC-CH-HHHHHHHHHHhccCChHHHHHHH
Q 046221          427 IYGYGVNGHGETALALYHKMTETGEVP-DS-STYLSILNACGHAGLTNDGLVIF  478 (572)
Q Consensus       427 ~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~-~~~~~l~~~~~~~g~~~~a~~~~  478 (572)
                      +..| ..++.++|+..|....+.-..| +. .++..++.+|+..|++.+++++-
T Consensus        14 lkLY-~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~fA   66 (80)
T PF10579_consen   14 LKLY-HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAFA   66 (80)
T ss_pred             HHHh-ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444 6677888999998888764333 22 67788888999999988887653

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=81.30  E-value=35  Score=29.47  Aligned_cols=85  Identities=25%  Similarity=0.250  Sum_probs=39.3

Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhhCC
Q 046221          430 YGVNGHGETALALYHKMTETGEVPD--SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS-QEHYGCVVDLLARAGC  506 (572)
Q Consensus       430 ~~~~~~~~~A~~~~~~~~~~g~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~  506 (572)
                      +...++.+.+...+.+....  .++  ...+..+...+...++++.|...+....+..   |+ ...+..+...+...|.
T Consensus       177 ~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~  251 (291)
T COG0457         177 LEALGRYEEALELLEKALKL--NPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELD---PDNAEALYNLALLLLELGR  251 (291)
T ss_pred             HHHhcCHHHHHHHHHHHHhh--CcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhC---cccHHHHhhHHHHHHHcCC
Confidence            34445555555555555542  222  3444455555555555555555555554321   22 2233333333334444


Q ss_pred             hhHHHHHHHhccC
Q 046221          507 LSDASGLAGKLLE  519 (572)
Q Consensus       507 ~~~A~~~~~~~~~  519 (572)
                      .+++...+.+...
T Consensus       252 ~~~~~~~~~~~~~  264 (291)
T COG0457         252 YEEALEALEKALE  264 (291)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555555444

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=81.06  E-value=39  Score=29.86  Aligned_cols=260  Identities=12%  Similarity=0.127  Sum_probs=156.0

Q ss_pred             CCCCCcchHHHHHHH-HHhcCChhHHHHHHhccCCC-------CcchHHHHHHHHHHcCChHHHHHHHHHHHhc----CC
Q 046221          281 GLQSELRLSNSIIAM-YSKCGDLDSSRSVFNQITEK-------SLVSWTAIISGYVQNGCAREALNQFIKMRQE----KT  348 (572)
Q Consensus       281 ~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~  348 (572)
                      +..||+..-|..-+. -.+..++++|.+-|.+..+-       +..+...++..+.+.+++++.+..+.++..-    -.
T Consensus        21 ~sEpdVDlENQYYnsK~l~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVT  100 (440)
T KOG1464|consen   21 NSEPDVDLENQYYNSKGLKEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVT  100 (440)
T ss_pred             CCCCCcchHhhhhccccccccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHh
Confidence            345666544433221 12445788999999887642       2245667888999999999999999888521    11


Q ss_pred             CCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHh-----cCCCchhHHHHHHHHhhhcCChHHHHHHHHHc--CCC----
Q 046221          349 DSVDSITLVSILTASGELAALEICLQLHGIAFEA-----GFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFL----  417 (572)
Q Consensus       349 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~----  417 (572)
                      ..-+..+.++++...+...+.+...++++.-.+.     +-..-..+-..+...|...|.+....+++.++  .++    
T Consensus       101 rNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edG  180 (440)
T KOG1464|consen  101 RNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDG  180 (440)
T ss_pred             ccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccC
Confidence            2334557778887777777777777766544321     11223334456777888888888888888887  110    


Q ss_pred             --------CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcC-CCCCHHHHHHHHHH-----HhccCChHHHHHHHHHhHH
Q 046221          418 --------RDVVSWNTIIYGYGVNGHGETALALYHKMTETG-EVPDSSTYLSILNA-----CGHAGLTNDGLVIFNQMIE  483 (572)
Q Consensus       418 --------~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g-~~p~~~~~~~l~~~-----~~~~g~~~~a~~~~~~~~~  483 (572)
                              .-...|..=|..|...++-.+...+|++.+.-. .-|.+... ..|+-     +.+.|++++|..-|=++.+
T Consensus       181 edD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlIm-GvIRECGGKMHlreg~fe~AhTDFFEAFK  259 (440)
T KOG1464|consen  181 EDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIM-GVIRECGGKMHLREGEFEKAHTDFFEAFK  259 (440)
T ss_pred             chhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHH-hHHHHcCCccccccchHHHHHhHHHHHHh
Confidence                    113456667788888888888888888766532 23444433 33443     4577889888765544443


Q ss_pred             h---cCCCCChh---HHHHHHHHHHhhCChhHHHHHHHhccC-----CCChHHHHHHHHHHhhhcCCHHHHHHHHHH
Q 046221          484 E---NKVKPSQE---HYGCVVDLLARAGCLSDASGLAGKLLE-----GMGPNIWRALLSGCVLHVGRFQDAEALRSG  549 (572)
Q Consensus       484 ~---~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~  549 (572)
                      .   .|- |...   -|..|...+.+.|     ..=|+.-..     .|.......|+.+|..  ++..+-.+++..
T Consensus       260 NYDEsGs-pRRttCLKYLVLANMLmkS~-----iNPFDsQEAKPyKNdPEIlAMTnlv~aYQ~--NdI~eFE~Il~~  328 (440)
T KOG1464|consen  260 NYDESGS-PRRTTCLKYLVLANMLMKSG-----INPFDSQEAKPYKNDPEILAMTNLVAAYQN--NDIIEFERILKS  328 (440)
T ss_pred             cccccCC-cchhHHHHHHHHHHHHHHcC-----CCCCcccccCCCCCCHHHHHHHHHHHHHhc--ccHHHHHHHHHh
Confidence            3   222 2222   2444444544433     222222111     3444567788888853  576666666554

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=81.05  E-value=73  Score=33.02  Aligned_cols=85  Identities=13%  Similarity=0.078  Sum_probs=38.6

Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhc-CCCchhHHHHHHHHhhh--
Q 046221          324 ISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAG-FPRYRSVQNCLISSYSK--  400 (572)
Q Consensus       324 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~--  400 (572)
                      ...+.-.|+++.|++.+-+   ......+.+.+...+..+.-..-.+...   ..+.... -.|...-+..||..|.+  
T Consensus       265 f~~LlLtgqFE~AI~~L~~---~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F  338 (613)
T PF04097_consen  265 FQVLLLTGQFEAAIEFLYR---NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSF  338 (613)
T ss_dssp             HHHHHHTT-HHHHHHHHHT-----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTT
T ss_pred             HHHHHHHhhHHHHHHHHHh---hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHH
Confidence            3445567788888877755   2244556666666666555443222221   1111100 01111445667777765  


Q ss_pred             -cCChHHHHHHHHHc
Q 046221          401 -CGNVDLAYIVFEEM  414 (572)
Q Consensus       401 -~g~~~~A~~~~~~~  414 (572)
                       ..+..+|.+++--+
T Consensus       339 ~~td~~~Al~Y~~li  353 (613)
T PF04097_consen  339 EITDPREALQYLYLI  353 (613)
T ss_dssp             TTT-HHHHHHHHHGG
T ss_pred             hccCHHHHHHHHHHH
Confidence             46788888888777

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=80.97  E-value=32  Score=28.85  Aligned_cols=127  Identities=13%  Similarity=0.065  Sum_probs=80.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHH--HHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHH---
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYL--SILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGC---  496 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~--~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~---  496 (572)
                      .|..++.... .+.+ +.....+++....-.....++.  .+...+...|++++|+.-++..+.    .|....+..   
T Consensus        56 ~Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~----~t~De~lk~l~~  129 (207)
T COG2976          56 QYQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALA----QTKDENLKALAA  129 (207)
T ss_pred             HHHHHHHHHh-cCCc-hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHc----cchhHHHHHHHH
Confidence            3444444432 2333 4455556666532121222232  344568899999999999998863    233344443   


Q ss_pred             --HHHHHHhhCChhHHHHHHHhccCCCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCC
Q 046221          497 --VVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKG  554 (572)
Q Consensus       497 --l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~  554 (572)
                        |.......|.+++|+..++....+.-......+..-.....|+.++|..-|++..+..
T Consensus       130 lRLArvq~q~~k~D~AL~~L~t~~~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         130 LRLARVQLQQKKADAALKTLDTIKEESWAAIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHHHHHhhhHHHHHHHHhccccccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence              4467788999999999999887432233344444444444599999999999998886

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=80.89  E-value=80  Score=33.37  Aligned_cols=158  Identities=16%  Similarity=0.066  Sum_probs=75.5

Q ss_pred             hhcCChHHHHHHHHHc-------CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHH---HHHH--HHHh
Q 046221          399 SKCGNVDLAYIVFEEM-------GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTY---LSIL--NACG  466 (572)
Q Consensus       399 ~~~g~~~~A~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~---~~l~--~~~~  466 (572)
                      ...|+++.|.++.+..       ...+....+..+..+..-.|++++|..+..+..+..-.-+...+   ..+.  ..+.
T Consensus       469 l~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~  548 (894)
T COG2909         469 LNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGEAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILE  548 (894)
T ss_pred             HhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhHHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHH
Confidence            3467777777776655       12234555666667777778888888777666553222233222   2222  2345


Q ss_pred             ccCChHHH--HHHHHHhHHhcCC-CC----ChhHHHHHHHHHHhhCChhHHHHHHHhccC-----CCChH-HHHH--HHH
Q 046221          467 HAGLTNDG--LVIFNQMIEENKV-KP----SQEHYGCVVDLLARAGCLSDASGLAGKLLE-----GMGPN-IWRA--LLS  531 (572)
Q Consensus       467 ~~g~~~~a--~~~~~~~~~~~~~-~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~-~~~~--l~~  531 (572)
                      ..|+...+  ...+......... +|    -..+...+..++.+   ++.+..-.....+     .|.+. .+..  ++.
T Consensus       549 ~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA  625 (894)
T COG2909         549 AQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQLLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLA  625 (894)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHHHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHH
Confidence            56633322  2233322211111 11    12233334444433   4444433333322     22222 2222  233


Q ss_pred             HHhhhcCCHHHHHHHHHHHHhCCCCCCC
Q 046221          532 GCVLHVGRFQDAEALRSGSQKKGIIKIP  559 (572)
Q Consensus       532 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~  559 (572)
                      .+....|+.++|...++++....-.+.+
T Consensus       626 ~l~~~~Gdl~~A~~~l~~~~~l~~~~~~  653 (894)
T COG2909         626 ELEFLRGDLDKALAQLDELERLLLNGQY  653 (894)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHhcCCCC
Confidence            3333348888888888887765555443

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=80.66  E-value=8.1  Score=28.00  Aligned_cols=50  Identities=14%  Similarity=0.208  Sum_probs=21.9

Q ss_pred             HhhcCChhhHHHHhccCCCCChhhHHHHHHHHhhCCChHHHHHHHHHHHHcC
Q 046221           15 YFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSG   66 (572)
Q Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   66 (572)
                      +...|++++|..+.+.+.-||...|-++-.  .+.|..+.+..-+.+|-.+|
T Consensus        49 LmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla~sg   98 (115)
T TIGR02508        49 LMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLAASG   98 (115)
T ss_pred             HHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHHhCC
Confidence            334445555555555444445544444432  23333333444444444433

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>PHA02875 ankyrin repeat protein; Provisional

Probab=80.30  E-value=60  Score=31.62  Aligned_cols=18  Identities=11%  Similarity=0.174  Sum_probs=8.7

Q ss_pred             HHHHHhCCCHHHHHHHHh
Q 046221          192 LDMYSCLMDLDAAIQIFR  209 (572)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~  209 (572)
                      +...+..|+.+-+..+++
T Consensus       139 Lh~A~~~~~~~~v~~Ll~  156 (413)
T PHA02875        139 LHLAVMMGDIKGIELLID  156 (413)
T ss_pred             HHHHHHcCCHHHHHHHHh
Confidence            344445555555444444

>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=80.09  E-value=11  Score=31.77  Aligned_cols=75  Identities=12%  Similarity=0.067  Sum_probs=51.2

Q ss_pred             HHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChH
Q 046221           53 EKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQ  132 (572)
Q Consensus        53 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  132 (572)
                      +.|...|-.+...+.- +.......+..|--..+.+++..++-++.+.....+      .+|+..+.+|+..+.+.|+++
T Consensus       123 ~~A~~~fL~~E~~~~l-~t~elq~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~------~~n~eil~sLas~~~~~~~~e  195 (203)
T PF11207_consen  123 QEALRRFLQLEGTPEL-ETAELQYALATYYTKRDPEKTIQLLLRALELSNPDD------NFNPEILKSLASIYQKLKNYE  195 (203)
T ss_pred             HHHHHHHHHHcCCCCC-CCHHHHHHHHHHHHccCHHHHHHHHHHHHHhcCCCC------CCCHHHHHHHHHHHHHhcchh
Confidence            5677777777766633 334444445555557788888888888877655432      367778888888888888877


Q ss_pred             HH
Q 046221          133 QA  134 (572)
Q Consensus       133 ~a  134 (572)
                      .|
T Consensus       196 ~A  197 (203)
T PF11207_consen  196 QA  197 (203)
T ss_pred             hh
Confidence            76

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=80.03  E-value=17  Score=32.22  Aligned_cols=86  Identities=15%  Similarity=0.125  Sum_probs=54.2

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhc--CCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHH---
Q 046221          427 IYGYGVNGHGETALALYHKMTET--GEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLL---  501 (572)
Q Consensus       427 ~~~~~~~~~~~~A~~~~~~~~~~--g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~---  501 (572)
                      |.+++..+++.+++...-+--+.  .++|  .....-|-.|.+.|.+..+.++-..-++..+ .-+..-|..+++.|   
T Consensus        90 IQALAEmnrWreVLsWvlqyYq~pEklPp--kIleLCILLysKv~Ep~amlev~~~WL~~p~-Nq~lp~y~~vaELyLl~  166 (309)
T PF07163_consen   90 IQALAEMNRWREVLSWVLQYYQVPEKLPP--KILELCILLYSKVQEPAAMLEVASAWLQDPS-NQSLPEYGTVAELYLLH  166 (309)
T ss_pred             HHHHHHHhhHHHHHHHHHHHhcCcccCCH--HHHHHHHHHHHHhcCHHHHHHHHHHHHhCcc-cCCchhhHHHHHHHHHH
Confidence            67888888888877654443331  1333  4445555567888888888887777764322 22233466666544   


Q ss_pred             --HhhCChhHHHHHHH
Q 046221          502 --ARAGCLSDASGLAG  515 (572)
Q Consensus       502 --~~~g~~~~A~~~~~  515 (572)
                        .-.|.+++|++++.
T Consensus       167 VLlPLG~~~eAeelv~  182 (309)
T PF07163_consen  167 VLLPLGHFSEAEELVV  182 (309)
T ss_pred             HHhccccHHHHHHHHh
Confidence              45688888888883

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

---

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	572
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-12
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04
1qzv_F	154	Plant photosystem I: subunit PSAF; photosynthesis,	7e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 69.1 bits (167), Expect = 2e-12
 Identities = 17/139 (12%), Positives = 42/139 (30%), Gaps = 6/139 (4%)

Query: 381 EAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM------GFLRDVVSWNTIIYGYGVNG 434
           +A     +               + LA+ +            L  +  +N ++ G+   G
Sbjct: 120 QAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQG 179

Query: 435 HGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHY 494
             +  + +   + + G  PD  +Y + L   G        +    + + +  +K      
Sbjct: 180 AFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFT 239

Query: 495 GCVVDLLARAGCLSDASGL 513
             ++    RA  L     +
Sbjct: 240 AVLLSEEDRATVLKAVHKV 258

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 45.2 bits (105), Expect = 6e-05
 Identities = 16/124 (12%), Positives = 43/124 (34%), Gaps = 10/124 (8%)

Query: 139 NFFRGSGLVPNAVTMLTVIRGCVALG--SRA--LCELIHGLTIKLGLILDVSVNNSVLDM 194
                + L      +L   + C+       A  L  + HG   K   +L + + N+V+  
Sbjct: 116 GQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQK-RKLLTLDMYNAVMLG 174

Query: 195 YSCLMDLDAAIQIFREMECK----DVISWTRMM-GLFVDFEYAGDALKIFREMRKSRIIC 249
           ++        + +   ++      D++S+   +  +    + AG   +   +M +  +  
Sbjct: 175 WARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKL 234

Query: 250 DTVA 253
             + 
Sbjct: 235 QALF 238

>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 = 43.3 bits (101), Expect = 2e-04
 Identities = 47/300 (15%), Positives = 104/300 (34%), Gaps = 71/300 (23%)

Query: 68  LPNSFT---MVGVLVAAAGLQNLEL---ARSIHGLMVK-FGLE----SDLFEGLKNPYLV 116
              + T   +  +L+     +  +L     + +   +             ++  K+    
Sbjct: 294 HSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCD 353

Query: 117 SCNAIVAGFINN---KLFQQAVLLFNFFRGSGLVPNAV-TML--TVIRGCV-----ALGS 165
               I+   +N      +++     + F  S  +P  + +++   VI+  V      L  
Sbjct: 354 KLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK 413

Query: 166 RALCEL--------IHGLTIKLGLILD--VSVNNSVLDMYSCLMDLDAAIQIFREMECKD 215
            +L E         I  + ++L + L+   +++ S++D Y           I +  +  D
Sbjct: 414 YSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHY----------NIPKTFDSDD 463

Query: 216 VISWTRMMGLFVD---FEYAGDALK---------IFREM----R--KSRIICDTVALLNL 257
           +I        ++D   + + G  LK         +FR +    R  + +I  D+ A    
Sbjct: 464 LIP------PYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNAS 517

Query: 258 ISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSL 317
            S+   L  LK  K     +     + E RL N+I+    K  + +   S +  +   +L
Sbjct: 518 GSILNTLQQLKFYKP---YICDNDPKYE-RLVNAILDFLPKIEE-NLICSKYTDLLRIAL 572

>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154

 Score = 39.5 bits (91), Expect = 7e-04
 Identities = 8/28 (28%), Positives = 12/28 (42%), Gaps = 9/28 (32%)

Query: 437 ETALALYHKMTETGEVPDSSTYLSILNA 464
           + +L LY          DS+  L+I  A
Sbjct: 26  QASLKLY--------ADDSAPALAI-KA 44

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	572
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.93
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.93
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.91
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.91
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.9
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.9
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.84
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.84
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.83
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.82
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.82
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.82
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.82
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.79
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.79
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.79
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.78
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.78
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.77
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.77
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.75
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.75
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.74
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.74
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.73
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.71
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.71
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.71
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.71
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.7
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.62
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.62
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.59
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.59
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.58
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.58
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.57
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.55
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.55
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.54
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.53
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.53
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.53
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.53
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.52
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.51
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.5
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.5
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.49
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.47
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.46
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.46
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.45
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.44
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.43
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.42
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.42
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.42
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.42
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.4
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.4
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.4
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.39
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.35
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.34
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.34
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.32
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.31
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.31
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.27
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.26
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.22
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.21
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.2
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.19
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.19
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.18
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.16
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.15
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.07
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.06
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.05
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.05
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.04
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.01
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.01
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.98
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.96
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.96
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.95
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.94
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.93
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.93
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.92
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.89
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.87
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.87
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.86
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.85
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.85
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.84
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.8
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.79
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.79
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.78
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.77
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.76
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.75
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.73
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.71
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.71
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.7
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.69
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.68
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.67
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.66
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.66
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.64
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.64
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.61
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.59
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.59
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.58
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.58
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.58
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.58
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.57
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.57
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.56
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.54
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.53
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.53
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.52
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.51
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.51
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.51
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.51
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.5
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.5
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.5
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.48
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.44
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.43
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.41
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.41
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.39
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.37
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.36
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.34
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.34
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.34
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.33
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.33
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.33
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.32
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.32
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.32
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.32
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.3
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.3
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.3
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.28
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.27
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.26
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	98.25
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.25
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.25
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.22
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.21
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.21
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.19
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.18
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.18
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.16
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.15
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.12
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.06
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.04
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.03
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.02
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.0
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.92
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.91
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.9
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.9
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.87
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.87
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.86
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.86
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.83
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.76
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.73
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.73
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.68
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.65
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.63
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.59
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.58
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.45
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.44
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.44
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.43
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.32
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.25
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.16
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.03
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.0
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.91
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.84
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.83
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.75
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.7
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.69
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.56
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.55
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.51
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.42
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.41
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.31
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.13
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.01
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	95.77
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.77
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.26
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.21
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.18
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.07
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.73
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.52
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.36
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	94.3
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	93.71
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	93.71
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	92.64
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	92.51
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	92.25
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	92.02
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.96
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	91.66
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	91.36
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	91.23
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	90.39
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	90.13
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	90.06
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	89.02
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	88.87
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	88.75
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	88.61
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	87.02
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	85.82
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	85.39
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	85.33
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	85.22
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	84.98
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	81.52
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	81.18
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	80.57

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=8.6e-41  Score=341.60  Aligned_cols=484  Identities=10%  Similarity=-0.054  Sum_probs=290.5

Q ss_pred             HHhhcCChhhHHHHhccCCCCChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHH
Q 046221           14 NYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSI   93 (572)
Q Consensus        14 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~   93 (572)
                      .+.+.|.+..+...++.++.+++..|+.++..+.+.|++++|+.+|++|...  .|+..++..++.++.+.|++++|..+
T Consensus        62 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~  139 (597)
T 2xpi_A           62 NTSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKCL  139 (597)
T ss_dssp             --------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cccccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHHH
Confidence            3455677788888888888888999999999999999999999999999854  67888999999999999999999999


Q ss_pred             HHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhC---------------CCCCCHhhHHHHHH
Q 046221           94 HGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGS---------------GLVPNAVTMLTVIR  158 (572)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~---------------~~~p~~~~~~~ll~  158 (572)
                      ++.+....           ++..+++.++.+|.+.|++++|.++|+++...               +..++..+|+.++.
T Consensus       140 ~~~~~~~~-----------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  208 (597)
T 2xpi_A          140 LTKEDLYN-----------RSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQ  208 (597)
T ss_dssp             HHHTCGGG-----------TCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHH
T ss_pred             HHHHhccc-----------cchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHH
Confidence            99875432           66789999999999999999999999953221               22334667777777


Q ss_pred             HHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHH---HhhcCC----CCcccHHHHHHHHHccCC
Q 046221          159 GCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQI---FREMEC----KDVISWTRMMGLFVDFEY  231 (572)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~---~~~~~~----~~~~~~~~li~~~~~~~~  231 (572)
                      ++.+.|++++|.++|+++.+.+ +.+...+..+...+...+..+.+...   +..+..    ....+|+.++..|.+.|+
T Consensus       209 ~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~  287 (597)
T 2xpi_A          209 VYTNLSNFDRAKECYKEALMVD-AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDE  287 (597)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcch
Confidence            7777777777777777777754 33344444444433322221111110   111111    122334444555666666


Q ss_pred             HHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhc
Q 046221          232 AGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQ  311 (572)
Q Consensus       232 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  311 (572)
                      +++|.++|+++.+.  +++..++..++..+.+.|++++|..+++.+.+.+ +.+..++..++.++.+.|++++|..++++
T Consensus       288 ~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  364 (597)
T 2xpi_A          288 LRRAEDYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISND  364 (597)
T ss_dssp             HHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            66666666666543  3556666666666666666666666666666554 33555566666666666666666666665


Q ss_pred             cCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCch
Q 046221          312 ITE---KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYR  388 (572)
Q Consensus       312 ~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  388 (572)
                      +.+   .+..+|+.++..|.+.|++++|.++|+++.+.  .+.+..++..++..+.+.|++++|.++++.+.+.+ +.+.
T Consensus       365 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~  441 (597)
T 2xpi_A          365 LVDRHPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTM--DPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTH  441 (597)
T ss_dssp             HHHHCTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCS
T ss_pred             HHhhCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccch
Confidence            542   23455666666666666666666666666421  22234455555555555555555555555555433 3345


Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCCC--HHHHHH
Q 046221          389 SVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTET----GEVPD--SSTYLS  460 (572)
Q Consensus       389 ~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----g~~p~--~~~~~~  460 (572)
                      .+++.++.+|.+.|++++|.++|+++  ..+.+..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..
T Consensus       442 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~  521 (597)
T 2xpi_A          442 LPYLFLGMQHMQLGNILLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWAN  521 (597)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHH
Confidence            55555666666666666666666655  22234555666666666666666666666665553    34554  455566


Q ss_pred             HHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          461 ILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       461 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ++.+|.+.|++++|.++++++++..  +.+..+|..++.+|.+.|++++|.+.++++.+
T Consensus       522 l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  578 (597)
T 2xpi_A          522 LGHAYRKLKMYDAAIDALNQGLLLS--TNDANVHTAIALVYLHKKIPGLAITHLHESLA  578 (597)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Confidence            6666666666666666666555432  33455556666666666666666666665555

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=5.7e-40  Score=335.50  Aligned_cols=490  Identities=9%  Similarity=-0.030  Sum_probs=406.9

Q ss_pred             CCCCCcchhhHHHHHhhcCChhhHHHHhccCCC--CChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHH
Q 046221            1 PCIDPYNSSKLLSNYFKSGKIKEAENLFDEIPE--KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVL   78 (572)
Q Consensus         1 p~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll   78 (572)
                      |.+++..|+.++..|.+.|++++|+.+|+++..  |+..++..++.+|.+.|++++|+.+|+.+...  +++..+++.++
T Consensus        80 ~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~  157 (597)
T 2xpi_A           80 SLSREDYLRLWRHDALMQQQYKCAAFVGEKVLDITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAA  157 (597)
T ss_dssp             --CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHccCchHHHHHHHHHHhhCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHH
Confidence            446778899999999999999999999999864  78889999999999999999999999998654  78889999999


Q ss_pred             HHHcCCCChHHHHHHHHHHHHhcCC------CCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhh
Q 046221           79 VAAAGLQNLELARSIHGLMVKFGLE------SDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVT  152 (572)
Q Consensus        79 ~~~~~~g~~~~a~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  152 (572)
                      .++.+.|++++|.++|+++......      ...+.....++..+|+.++.+|.+.|++++|.++|++|.+.+. .+...
T Consensus       158 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~  236 (597)
T 2xpi_A          158 FCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDA-KCYEA  236 (597)
T ss_dssp             HHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHH
T ss_pred             HHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-hhhHH
Confidence            9999999999999998842111100      0000000113577999999999999999999999999998642 23445


Q ss_pred             HHHHHHHHhccCChHHH--HHH-HHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCC--CCcccHHHHHHHHH
Q 046221          153 MLTVIRGCVALGSRALC--ELI-HGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMEC--KDVISWTRMMGLFV  227 (572)
Q Consensus       153 ~~~ll~~~~~~~~~~~a--~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~li~~~~  227 (572)
                      +..+...+...+..+.+  ..+ +..+...+..+...+|+.++..|.+.|++++|.++|+++..  ++..+|+.++..|.
T Consensus       237 ~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~  316 (597)
T 2xpi_A          237 FDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLF  316 (597)
T ss_dssp             HHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHH
Confidence            55555444433322221  111 44444445555667788888999999999999999999987  78999999999999


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHH
Q 046221          228 DFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRS  307 (572)
Q Consensus       228 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  307 (572)
                      +.|++++|..+|+++.+.+ +.+..++..++.++...|++++|..+++.+.+.. +.+..+++.++..|.+.|++++|.+
T Consensus       317 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  394 (597)
T 2xpi_A          317 VRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARR  394 (597)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHH
Confidence            9999999999999999765 3477889999999999999999999999999665 6678899999999999999999999


Q ss_pred             HHhccCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcC
Q 046221          308 VFNQITE---KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGF  384 (572)
Q Consensus       308 ~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  384 (572)
                      +|+++.+   .+..+|+.++.+|.+.|++++|+++|+++..  ..+.+..++..+..+|.+.|++++|.++++.+.+.. 
T Consensus       395 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-  471 (597)
T 2xpi_A          395 YFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAAR--LFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-  471 (597)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--TTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            9998753   4567999999999999999999999999963  244578899999999999999999999999999875 


Q ss_pred             CCchhHHHHHHHHhhhcCChHHHHHHHHHc-------CCCCC--HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH
Q 046221          385 PRYRSVQNCLISSYSKCGNVDLAYIVFEEM-------GFLRD--VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS  455 (572)
Q Consensus       385 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~  455 (572)
                      +.+..+|+.++.+|.+.|++++|.++|+++       +..|+  ..+|..++.+|.+.|++++|.+.++++.+.+ +.+.
T Consensus       472 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~  550 (597)
T 2xpi_A          472 QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDA  550 (597)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCH
T ss_pred             CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCh
Confidence            567889999999999999999999999998       44677  7899999999999999999999999999863 3377


Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHH
Q 046221          456 STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLL  501 (572)
Q Consensus       456 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  501 (572)
                      .+|..+..+|.+.|++++|.++|+++++..  +.+...+..+..+|
T Consensus       551 ~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~l~~~~  594 (597)
T 2xpi_A          551 NVHTAIALVYLHKKIPGLAITHLHESLAIS--PNEIMASDLLKRAL  594 (597)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHhcC--CCChHHHHHHHHHH
Confidence            999999999999999999999999998654  34556676666655

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.96  E-value=6.9e-29  Score=241.97  Aligned_cols=191  Identities=12%  Similarity=0.047  Sum_probs=147.4

Q ss_pred             hHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCcee
Q 046221           38 SWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVS  117 (572)
Q Consensus        38 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (572)
                      .++.+|++|++.|++++|+++|++|.+.|++||..||++||.+|++.+....+                           
T Consensus        28 ~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~---------------------------   80 (501)
T 4g26_A           28 LLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES---------------------------   80 (501)
T ss_dssp             HHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS---------------------------
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh---------------------------
Confidence            45666666666666666666666666666666666666666666655442211                           


Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHh
Q 046221          118 CNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSC  197 (572)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  197 (572)
                              .+.++++.|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++
T Consensus        81 --------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~  152 (501)
T 4g26_A           81 --------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCR  152 (501)
T ss_dssp             --------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHH
T ss_pred             --------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHH
Confidence                    123457899999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             CCCHHHHHHHHhhcCC----CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcc
Q 046221          198 LMDLDAAIQIFREMEC----KDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAI  263 (572)
Q Consensus       198 ~~~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  263 (572)
                      .|++++|.++|++|.+    ||..+|+.||.+|++.|+.++|.+++++|.+.|..|+..||+.++..++.
T Consensus       153 ~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          153 KGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             TTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            8888888887777754    67777777777777777777777777777777777777777777766654

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.96  E-value=1.9e-28  Score=238.89  Aligned_cols=185  Identities=11%  Similarity=0.149  Sum_probs=173.7

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccc---------cHHHHHHHHHHHHHhcCCCch
Q 046221          318 VSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELA---------ALEICLQLHGIAFEAGFPRYR  388 (572)
Q Consensus       318 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---------~~~~a~~~~~~~~~~~~~~~~  388 (572)
                      ..++.+|.+|++.|++++|+++|++|. ..|+.||..||+++|.+|++.+         .++.|.++|+.|.+.|+.||.
T Consensus        27 ~~l~~~id~c~k~G~~~~A~~lf~~M~-~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~  105 (501)
T 4g26_A           27 ALLKQKLDMCSKKGDVLEALRLYDEAR-RNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNE  105 (501)
T ss_dssp             HHHHHHHHHTTTSCCHHHHHHHHHHHH-HHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHH-HcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCH
Confidence            357788999999999999999999999 8899999999999999998654         478999999999999999999


Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHHc---CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 046221          389 SVQNCLISSYSKCGNVDLAYIVFEEM---GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNAC  465 (572)
Q Consensus       389 ~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  465 (572)
                      .+|+++|.+|++.|++++|.++|++|   |+.||..+|+.+|.+|++.|+.++|.++|++|.+.|+.||..||+.|+.+|
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            99999999999999999999999999   899999999999999999999999999999999999999999999999999


Q ss_pred             hccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhh
Q 046221          466 GHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARA  504 (572)
Q Consensus       466 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  504 (572)
                      ++.|++++|.+++++| ++.|..|+..||+.++..|...
T Consensus       186 ~~~g~~d~A~~ll~~M-r~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          186 MDTKNADKVYKTLQRL-RDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHTTCHHHHHHHHHHH-HHHTSSBCHHHHHHHHHHHHSH
T ss_pred             hhCCCHHHHHHHHHHH-HHhCCCcCHHHHHHHHHHHhcC
Confidence            9999999999999999 5778999999999999988764

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.96  E-value=8.6e-26  Score=217.28  Aligned_cols=370  Identities=12%  Similarity=0.054  Sum_probs=216.4

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCC
Q 046221          121 IVAGFINNKLFQQAVLLFNFFRGSGLVPN-AVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLM  199 (572)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  199 (572)
                      +...+.+.|++++|.+.++.+.+.  .|+ ...+..+...+...|++++|...++..++.. +.+..+|..+...+.+.|
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g   81 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERG   81 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCC
Confidence            345666778888888888777664  333 3445555566677777777777777776654 455666777777777777


Q ss_pred             CHHHHHHHHhhcCC--C-CcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCcc-chHHHHHHhcccCChHHHHHHHH
Q 046221          200 DLDAAIQIFREMEC--K-DVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTV-ALLNLISVNAILGDLKRGKQLHA  275 (572)
Q Consensus       200 ~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~  275 (572)
                      ++++|...|+++..  | +..+|..+..++...|++++|.+.|+++.+.  .|+.. .+..+...+...|++++|...++
T Consensus        82 ~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (388)
T 1w3b_A           82 QLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYL  159 (388)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            77777777766543  2 3345666666666666666666666666553  23332 33334444445555555555555


Q ss_pred             HHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhH
Q 046221          276 QVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSIT  355 (572)
Q Consensus       276 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  355 (572)
                      .+.+.. +.+..++..+.                               ..+...|++++|...|+++...  .+.+...
T Consensus       160 ~al~~~-p~~~~~~~~l~-------------------------------~~~~~~g~~~~A~~~~~~al~~--~p~~~~~  205 (388)
T 1w3b_A          160 KAIETQ-PNFAVAWSNLG-------------------------------CVFNAQGEIWLAIHHFEKAVTL--DPNFLDA  205 (388)
T ss_dssp             HHHHHC-TTCHHHHHHHH-------------------------------HHHHTTTCHHHHHHHHHHHHHH--CTTCHHH
T ss_pred             HHHHhC-CCCHHHHHHHH-------------------------------HHHHHcCCHHHHHHHHHHHHhc--CCCcHHH
Confidence            555442 22233444444                               4444444444444444444321  1122333


Q ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhc
Q 046221          356 LVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVN  433 (572)
Q Consensus       356 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~  433 (572)
                      +..+...+...|++++|...++...... +.+..++..+..++.+.|++++|.+.++++ ...| +..+|..+...+.+.
T Consensus       206 ~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  284 (388)
T 1w3b_A          206 YINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEK  284 (388)
T ss_dssp             HHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHc
Confidence            4444444444444445544444444432 334555666666677777777777777766 2223 355666777777777


Q ss_pred             CChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHH
Q 046221          434 GHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGL  513 (572)
Q Consensus       434 ~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  513 (572)
                      |++++|...|+++.+. .+.+..++..+...+...|++++|...++++++..  +.+..++..++.+|.+.|++++|.+.
T Consensus       285 g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~  361 (388)
T 1w3b_A          285 GSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALMH  361 (388)
T ss_dssp             SCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC--TTCHHHHHHHHHHHHTTTCCHHHHHH
T ss_pred             CCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHcCCHHHHHHH
Confidence            7777777777777764 23355667777777777777777777777765422  34455677777777777777777777


Q ss_pred             HHhccC-CC-ChHHHHHHHHHH
Q 046221          514 AGKLLE-GM-GPNIWRALLSGC  533 (572)
Q Consensus       514 ~~~~~~-~~-~~~~~~~l~~~~  533 (572)
                      ++++.+ .| .+..|..+...+
T Consensus       362 ~~~a~~~~p~~~~a~~~lg~~~  383 (388)
T 1w3b_A          362 YKEAIRISPTFADAYSNMGNTL  383 (388)
T ss_dssp             HHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHHHhhCCCCHHHHHhHHHHH
Confidence            777665 33 344455444433

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.96  E-value=9.4e-26  Score=217.01  Aligned_cols=347  Identities=12%  Similarity=0.044  Sum_probs=266.0

Q ss_pred             CceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHH
Q 046221          114 YLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLD  193 (572)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  193 (572)
                      +...+..+...+...|++++|...++...+.. +.+..+|..+...+.+.|++++|...++++++.. +.+...|..+..
T Consensus        32 ~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  109 (388)
T 1w3b_A           32 NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAA  109 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHH
Confidence            34566777788899999999999999988753 4577899999999999999999999999999864 455678999999


Q ss_pred             HHHhCCCHHHHHHHHhhcCC--C-CcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHH
Q 046221          194 MYSCLMDLDAAIQIFREMEC--K-DVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRG  270 (572)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  270 (572)
                      ++.+.|++++|...|+++..  | +...+..+...+...|++++|.+.|+++.+.. +-+..++..+...+...|+++.|
T Consensus       110 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A  188 (388)
T 1w3b_A          110 ALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLA  188 (388)
T ss_dssp             HHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999998865  4 44567788899999999999999999998763 33467888899999999999999


Q ss_pred             HHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcC
Q 046221          271 KQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE---KSLVSWTAIISGYVQNGCAREALNQFIKMRQEK  347 (572)
Q Consensus       271 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  347 (572)
                      ...++.+.+.+ +.+...+..+...+...|++++|...|++..+   .+..++..+...+.+.|++++|+..|+++... 
T Consensus       189 ~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-  266 (388)
T 1w3b_A          189 IHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL-  266 (388)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-
T ss_pred             HHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-
Confidence            99999999875 44556677777788888888888877776542   23456677777777777777777777776521 


Q ss_pred             CCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHH
Q 046221          348 TDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNT  425 (572)
Q Consensus       348 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~  425 (572)
                                                         . +.+...+..+..++.+.|++++|.+.++++  ..+.+..++..
T Consensus       267 -----------------------------------~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~  310 (388)
T 1w3b_A          267 -----------------------------------Q-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNN  310 (388)
T ss_dssp             -----------------------------------C-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             -----------------------------------C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHH
Confidence                                               1 223445566667777777777777777776  33345677777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhh
Q 046221          426 IIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARA  504 (572)
Q Consensus       426 l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  504 (572)
                      +...+.+.|++++|...++++.+.  .| +..++..+..++.+.|++++|...|+++++..  +.+...+..+...+.+.
T Consensus       311 l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~--p~~~~a~~~lg~~~~~~  386 (388)
T 1w3b_A          311 LANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS--PTFADAYSNMGNTLKEM  386 (388)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCHHHHHhHHHHHHHc
Confidence            777888888888888888887773  44 45777778888888888888888888876432  33445666666666555


Q ss_pred             C
Q 046221          505 G  505 (572)
Q Consensus       505 g  505 (572)
                      |
T Consensus       387 ~  387 (388)
T 1w3b_A          387 Q  387 (388)
T ss_dssp             C
T ss_pred             c
Confidence            4

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.93  E-value=1.5e-23  Score=209.95  Aligned_cols=399  Identities=11%  Similarity=-0.035  Sum_probs=291.3

Q ss_pred             eeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHH
Q 046221          116 VSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMY  195 (572)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  195 (572)
                      ..+......+.+.|++++|+..|+++.+..  |+..+|..+..++...|++++|...++.+++.+ +.+...+..+..++
T Consensus         7 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~   83 (514)
T 2gw1_A            7 LALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASAN   83 (514)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHH
Confidence            356777888999999999999999999864  799999999999999999999999999999876 56678999999999


Q ss_pred             HhCCCHHHHHHHHhhcCC---CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCC-------------------CCCC---
Q 046221          196 SCLMDLDAAIQIFREMEC---KDVISWTRMMGLFVDFEYAGDALKIFREMRKSR-------------------IICD---  250 (572)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-------------------~~p~---  250 (572)
                      .+.|++++|...|+++..   .+......++..+........+.+.+..+...+                   ..|+   
T Consensus        84 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (514)
T 2gw1_A           84 EGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTS  163 (514)
T ss_dssp             HHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHH
T ss_pred             HHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHH
Confidence            999999999999998764   233444444444433322222222221111110                   0010   


Q ss_pred             ----------------------ccchHHHHHHhc---ccCChHHHHHHHHHHHH-----hCC--------CCCcchHHHH
Q 046221          251 ----------------------TVALLNLISVNA---ILGDLKRGKQLHAQVVL-----GGL--------QSELRLSNSI  292 (572)
Q Consensus       251 ----------------------~~~~~~ll~~~~---~~~~~~~a~~~~~~~~~-----~~~--------~~~~~~~~~l  292 (572)
                                            ...+......+.   +.|+++.|...++.+.+     ...        +.+..++..+
T Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (514)
T 2gw1_A          164 MASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHT  243 (514)
T ss_dssp             HHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHH
Confidence                                  112222222222   37888899998888887     311        2234566777


Q ss_pred             HHHHHhcCChhHHHHHHhccCC--CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHH
Q 046221          293 IAMYSKCGDLDSSRSVFNQITE--KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALE  370 (572)
Q Consensus       293 ~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  370 (572)
                      ...+...|++++|...|+++.+  |+...+..+...+...|++++|...++++.  ...+.+...+..+...+...|+++
T Consensus       244 ~~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~  321 (514)
T 2gw1_A          244 GIFKFLKNDPLGAHEDIKKAIELFPRVNSYIYMALIMADRNDSTEYYNYFDKAL--KLDSNNSSVYYHRGQMNFILQNYD  321 (514)
T ss_dssp             HHHHHHSSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHTSSCCTTGGGHHHHHH--TTCTTCTHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCccHHHHHHHHHHHHHCCCHHHHHHHHHHHh--hcCcCCHHHHHHHHHHHHHhCCHH
Confidence            8888888888888888887752  345677777888888888888888888885  233445667777888888888888


Q ss_pred             HHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 046221          371 ICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTE  448 (572)
Q Consensus       371 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  448 (572)
                      .|...++.+.+.. +.+...+..+...+...|++++|...++++  ..+.+...+..+...|...|++++|...++++.+
T Consensus       322 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~  400 (514)
T 2gw1_A          322 QAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQYDLAIE  400 (514)
T ss_dssp             HHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            8888888887754 445677788888888888888888888887  2223466778888888888888888888888876


Q ss_pred             cCCCCC-------HHHHHHHHHHHhc---cCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhcc
Q 046221          449 TGEVPD-------SSTYLSILNACGH---AGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       449 ~g~~p~-------~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                      .  .|+       ..++..+...+..   .|++++|...++++++..  +.+...+..+..+|.+.|++++|.+.++++.
T Consensus       401 ~--~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  476 (514)
T 2gw1_A          401 L--ENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD--PRSEQAKIGLAQMKLQQEDIDEAITLFEESA  476 (514)
T ss_dssp             H--HHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             h--hhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            3  232       2277888888888   888888888888887543  4456677888888888888888888888887


Q ss_pred             C-CCChH
Q 046221          519 E-GMGPN  524 (572)
Q Consensus       519 ~-~~~~~  524 (572)
                      + .|+..
T Consensus       477 ~~~~~~~  483 (514)
T 2gw1_A          477 DLARTME  483 (514)
T ss_dssp             HHCSSHH
T ss_pred             HhccccH
Confidence            7 55433

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.93  E-value=1.6e-22  Score=202.44  Aligned_cols=430  Identities=9%  Similarity=-0.028  Sum_probs=312.8

Q ss_pred             hhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCc
Q 046221           36 VVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYL  115 (572)
Q Consensus        36 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  115 (572)
                      ...|......+.+.|++++|+..|+++.+.+  |+...|..+..++...|++++|...++.+.+..+          .+.
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p----------~~~   73 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKP----------DYS   73 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCS----------CCH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccCh----------HHH
Confidence            3456667778888889999999998888764  6788888888888888999999998888888765          445


Q ss_pred             eeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHH---
Q 046221          116 VSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVL---  192 (572)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~---  192 (572)
                      .+|..+..++...|++++|...|+++.+.+ +++......++..+........+.+.+..+...+..|+......-.   
T Consensus        74 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  152 (514)
T 2gw1_A           74 KVLLRRASANEGLGKFADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERK  152 (514)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC-----------------------
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHH
Confidence            678888888999999999999998888765 3344444444444443333333333332222221111111111000   


Q ss_pred             HHHHhCCCHHHHHHHHhhcCC---------C-CcccHHHHHHHHHc---cCCHHHHHHHHHHHHh-----CCCCC-----
Q 046221          193 DMYSCLMDLDAAIQIFREMEC---------K-DVISWTRMMGLFVD---FEYAGDALKIFREMRK-----SRIIC-----  249 (572)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~---------~-~~~~~~~li~~~~~---~~~~~~a~~~~~~m~~-----~~~~p-----  249 (572)
                      ...............+.....         | +...+......+..   .|++++|...|+++.+     ....|     
T Consensus       153 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  232 (514)
T 2gw1_A          153 DKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKL  232 (514)
T ss_dssp             ----CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHH
T ss_pred             hhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCcccccc
Confidence            000011111112222222211         1 23444445555554   8999999999999987     32222     


Q ss_pred             ---CccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC---CCcchHHHH
Q 046221          250 ---DTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE---KSLVSWTAI  323 (572)
Q Consensus       250 ---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l  323 (572)
                         +..++..+...+...|+++.|...++.+.+....  ...+..+...+...|++++|...++.+.+   .+...+..+
T Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  310 (514)
T 2gw1_A          233 KEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHR  310 (514)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHH
Confidence               2456677788889999999999999999988644  77888899999999999999999998764   355688889


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCC
Q 046221          324 ISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGN  403 (572)
Q Consensus       324 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  403 (572)
                      ...+...|++++|...+++....  .+.+...+..+...+...|+++.|...++.+.+.. +.+...+..+...+.+.|+
T Consensus       311 ~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~  387 (514)
T 2gw1_A          311 GQMNFILQNYDQAGKDFDKAKEL--DPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKND  387 (514)
T ss_dssp             HHHHHHTTCTTHHHHHHHHHHHT--CSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHh--ChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCC
Confidence            99999999999999999999733  33356788889999999999999999999998864 5567888899999999999


Q ss_pred             hHHHHHHHHHc----CCCCC----HhHHHHHHHHHHh---cCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCCh
Q 046221          404 VDLAYIVFEEM----GFLRD----VVSWNTIIYGYGV---NGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLT  471 (572)
Q Consensus       404 ~~~A~~~~~~~----~~~~~----~~~~~~l~~~~~~---~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~  471 (572)
                      +++|...++++    +..++    ...+..+...|..   .|++++|...++++.+.  .| +..++..+...+.+.|++
T Consensus       388 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~g~~  465 (514)
T 2gw1_A          388 FDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKL--DPRSEQAKIGLAQMKLQQEDI  465 (514)
T ss_dssp             HHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhcCH
Confidence            99999999988    22222    3488899999999   99999999999999985  45 568889999999999999


Q ss_pred             HHHHHHHHHhHHhc
Q 046221          472 NDGLVIFNQMIEEN  485 (572)
Q Consensus       472 ~~a~~~~~~~~~~~  485 (572)
                      ++|...|+++++..
T Consensus       466 ~~A~~~~~~a~~~~  479 (514)
T 2gw1_A          466 DEAITLFEESADLA  479 (514)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999998644

>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=99.91  E-value=8.9e-22  Score=198.13  Aligned_cols=426  Identities=10%  Similarity=-0.005  Sum_probs=270.4

Q ss_pred             eeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHH
Q 046221          116 VSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMY  195 (572)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  195 (572)
                      ..|..+...+.+.|++++|++.|+++.+.. +.+...+..+..++...|++++|.+.++.+++.+ +.+...+..+..++
T Consensus        26 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~  103 (537)
T 3fp2_A           26 VQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASAN  103 (537)
T ss_dssp             HHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHH
Confidence            467788889999999999999999998864 3477889999999999999999999999999876 56778899999999


Q ss_pred             HhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCC--CCCCccchHHHHHHhcccCChHHHHHH
Q 046221          196 SCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSR--IICDTVALLNLISVNAILGDLKRGKQL  273 (572)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~ll~~~~~~~~~~~a~~~  273 (572)
                      ...|++++|...|+.+. .++......+..+...+...+|...++++....  ..+........+..+....+.+.+...
T Consensus       104 ~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  182 (537)
T 3fp2_A          104 ESLGNFTDAMFDLSVLS-LNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSS  182 (537)
T ss_dssp             HHHTCHHHHHHHHHHHC------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHT
T ss_pred             HHcCCHHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHH
Confidence            99999999999997543 222233334455556666788999998886541  011111112222223333333332222


Q ss_pred             HHHHHHhCCCCCcc---hHHHHHHHHHh--------cCChhHHHHHHhccCCCCc----------chHHHHHHHHHHcCC
Q 046221          274 HAQVVLGGLQSELR---LSNSIIAMYSK--------CGDLDSSRSVFNQITEKSL----------VSWTAIISGYVQNGC  332 (572)
Q Consensus       274 ~~~~~~~~~~~~~~---~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~----------~~~~~l~~~~~~~~~  332 (572)
                      +...    ...+..   ....+...+..        .|++++|..+|+++.+.++          .++..+...+...|+
T Consensus       183 ~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~  258 (537)
T 3fp2_A          183 VNTS----SNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNN  258 (537)
T ss_dssp             SCCC----CSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             Hhhc----cccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhccc
Confidence            1111    011111   11222222111        2466777777776654322          135555566677777


Q ss_pred             hHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHH
Q 046221          333 AREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFE  412 (572)
Q Consensus       333 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  412 (572)
                      +++|...+++....   .|+...+..+...+...|+++.|...++.+.+.. +.+...+..+...+...|++++|...++
T Consensus       259 ~~~A~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  334 (537)
T 3fp2_A          259 LLDAQVLLQESINL---HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQ  334 (537)
T ss_dssp             HHHHHHHHHHHHHH---CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc---CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            77777777777632   2336666777777777777777777777777654 4456667777777777777777777777


Q ss_pred             Hc-C-CCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCC
Q 046221          413 EM-G-FLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKP  489 (572)
Q Consensus       413 ~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  489 (572)
                      +. . .+.+...|..+...|...|++++|...++++.+.  .| +...+..+...+...|++++|...++++++...-.+
T Consensus       335 ~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~  412 (537)
T 3fp2_A          335 KAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLK--FPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQE  412 (537)
T ss_dssp             HHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCS
T ss_pred             HHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcch
Confidence            76 2 2223556777777777777777777777777774  34 346677777777777777777777777765431111


Q ss_pred             C----hhHHHHHHHHHHhh----------CChhHHHHHHHhccC--CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhC
Q 046221          490 S----QEHYGCVVDLLARA----------GCLSDASGLAGKLLE--GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKK  553 (572)
Q Consensus       490 ~----~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~  553 (572)
                      +    ...+..+..++.+.          |++++|...++++.+  +.+...|..+...+... |++++|.+.+++..+.
T Consensus       413 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~al~~  491 (537)
T 3fp2_A          413 KIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQM-EKIDEAIELFEDSAIL  491 (537)
T ss_dssp             SCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHh-ccHHHHHHHHHHHHHh
Confidence            1    11233445566666          777777777777766  33455666666666655 7777777777777665


Q ss_pred             CC
Q 046221          554 GI  555 (572)
Q Consensus       554 ~~  555 (572)
                      ..
T Consensus       492 ~~  493 (537)
T 3fp2_A          492 AR  493 (537)
T ss_dssp             C-
T ss_pred             CC
Confidence            43

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.91  E-value=1.4e-21  Score=196.71  Aligned_cols=424  Identities=8%  Similarity=-0.020  Sum_probs=247.1

Q ss_pred             ChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCC
Q 046221           35 NVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPY  114 (572)
Q Consensus        35 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  114 (572)
                      ....|..+...+.+.|++++|+..|+++.+.. +.+...+..+..++.+.|++++|...++.+.+..+          .+
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p----------~~   92 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKP----------DH   92 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT----------TC
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC----------ch
Confidence            34677888889999999999999999998875 55677888889999999999999999999998875          45


Q ss_pred             ceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhc--CCCChhHHhHHH
Q 046221          115 LVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLG--LILDVSVNNSVL  192 (572)
Q Consensus       115 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~  192 (572)
                      ...+..+...+...|++++|.+.|+.+. .  .|+..  ...+..+...+....+...++.++...  ..+........+
T Consensus        93 ~~~~~~la~~~~~~g~~~~A~~~~~~~~-~--~~~~~--~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~  167 (537)
T 3fp2_A           93 SKALLRRASANESLGNFTDAMFDLSVLS-L--NGDFD--GASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSL  167 (537)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHC----------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHh-c--CCCCC--hHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHH
Confidence            6788899999999999999999997442 2  23222  122334444455677788887775531  111111223334


Q ss_pred             HHHHhCCCHHHHHHHHhhcCCCCcc---cHHHHHHHHHcc--------CCHHHHHHHHHHHHhCCCCCCc--------cc
Q 046221          193 DMYSCLMDLDAAIQIFREMECKDVI---SWTRMMGLFVDF--------EYAGDALKIFREMRKSRIICDT--------VA  253 (572)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~li~~~~~~--------~~~~~a~~~~~~m~~~~~~p~~--------~~  253 (572)
                      ..+....+.+.+...+......+..   ....+...+...        +++++|..+++++.+.  .|+.        .+
T Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~  245 (537)
T 3fp2_A          168 ASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSA--NTVDDPLRENAALA  245 (537)
T ss_dssp             HHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHH
T ss_pred             HHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH--CCCcchhhHHHHHH
Confidence            4555667777777777666654433   333333333322        4678888888888765  3432        13


Q ss_pred             hHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC---CCcchHHHHHHHHHHc
Q 046221          254 LLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE---KSLVSWTAIISGYVQN  330 (572)
Q Consensus       254 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~  330 (572)
                      +..+...+...|+++.|...++.+.+..  |+...+..+...+...|++++|...|+++.+   .+..+|..+...+...
T Consensus       246 ~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  323 (537)
T 3fp2_A          246 LCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFIL  323 (537)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhc
Confidence            4444555666677777777777777654  3355566666666677777777776666542   2345566666666666


Q ss_pred             CChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHH
Q 046221          331 GCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIV  410 (572)
Q Consensus       331 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  410 (572)
                      |++++|...+++.....  +.+...+..+...+...|+++.|...++.+.+.. +.+...+..+...+...|++++|...
T Consensus       324 ~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  400 (537)
T 3fp2_A          324 QDYKNAKEDFQKAQSLN--PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQ  400 (537)
T ss_dssp             TCHHHHHHHHHHHHHHC--TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHH
Confidence            66677766666665222  1223344445555555555555555555555442 33344444555555555555555555


Q ss_pred             HHHc----C----CCCCHhHHHHHHHHHHhc----------CChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCCh
Q 046221          411 FEEM----G----FLRDVVSWNTIIYGYGVN----------GHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLT  471 (572)
Q Consensus       411 ~~~~----~----~~~~~~~~~~l~~~~~~~----------~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~  471 (572)
                      ++++    +    .......+..+...+...          |++++|...|+++.+.  .| +..++..+...+.+.|++
T Consensus       401 ~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~~~g~~  478 (537)
T 3fp2_A          401 YDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACEL--DPRSEQAKIGLAQLKLQMEKI  478 (537)
T ss_dssp             HHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccH
Confidence            5544    0    000111122223334444          5555555555555442  22 234444555555555555


Q ss_pred             HHHHHHHHHhHH
Q 046221          472 NDGLVIFNQMIE  483 (572)
Q Consensus       472 ~~a~~~~~~~~~  483 (572)
                      ++|...|+++++
T Consensus       479 ~~A~~~~~~al~  490 (537)
T 3fp2_A          479 DEAIELFEDSAI  490 (537)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555555555543

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.90  E-value=4.1e-21  Score=188.65  Aligned_cols=310  Identities=12%  Similarity=0.024  Sum_probs=176.6

Q ss_pred             CCChhHHhHHHHHHHhCCCHHHHHHHHhhcCC---CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHH
Q 046221          182 ILDVSVNNSVLDMYSCLMDLDAAIQIFREMEC---KDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLI  258 (572)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll  258 (572)
                      +.+...+..+...+.+.|++++|..+|+++..   .+..+|..+..++...|++++|...|+++.+.+ +.+...+..+.
T Consensus        23 p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  101 (450)
T 2y4t_A           23 MADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRG  101 (450)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHH
Confidence            44556667777777777777777777776653   345666677777777777777777777776653 22344555666


Q ss_pred             HHhcccCChHHHHHHHHHHHHhCCCCCc---chHHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHH
Q 046221          259 SVNAILGDLKRGKQLHAQVVLGGLQSEL---RLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCARE  335 (572)
Q Consensus       259 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  335 (572)
                      .++...|++++|...++.+.+.. +.+.   ..+..++..+...                   .+..+...+...|++++
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~-------------------~~~~~a~~~~~~~~~~~  161 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQ-------------------RLRSQALNAFGSGDYTA  161 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHH-------------------HHHHHHHHHHHHTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHH-------------------HHHHHHHHHHHcCCHHH
Confidence            66666666666666666665543 2222   3333332221000                   01112233455555555


Q ss_pred             HHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-
Q 046221          336 ALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-  414 (572)
Q Consensus       336 a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-  414 (572)
                      |+..|+++...  .+.+...+..+...+...|+++.|...++.+.+.. +.+...+..+..+|...|++++|...|+++ 
T Consensus       162 A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  238 (450)
T 2y4t_A          162 AIAFLDKILEV--CVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECL  238 (450)
T ss_dssp             HHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh--CCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            55555555421  22344455555555555555555555555555443 344555566666666666666666666665 


Q ss_pred             CCCCC-HhHHHHH------------HHHHHhcCChHHHHHHHHHHHhcCCCCC-----HHHHHHHHHHHhccCChHHHHH
Q 046221          415 GFLRD-VVSWNTI------------IYGYGVNGHGETALALYHKMTETGEVPD-----SSTYLSILNACGHAGLTNDGLV  476 (572)
Q Consensus       415 ~~~~~-~~~~~~l------------~~~~~~~~~~~~A~~~~~~~~~~g~~p~-----~~~~~~l~~~~~~~g~~~~a~~  476 (572)
                      ...|+ ...+..+            ...|.+.|++++|...|+++.+  +.|+     ...+..+..++.+.|++++|+.
T Consensus       239 ~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~--~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~  316 (450)
T 2y4t_A          239 KLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMK--TEPSIAEYTVRSKERICHCFSKDEKPVEAIR  316 (450)
T ss_dssp             HHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCCSSHHHHHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             HhCCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCcchHHHHHHHHHHHHHHHHCCCHHHHHH
Confidence            22232 2233332            5566666667777776666666  3343     2355666666666677777777


Q ss_pred             HHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          477 IFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .++++++..  +.+...+..++.+|...|++++|.+.++++.+
T Consensus       317 ~~~~a~~~~--p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  357 (450)
T 2y4t_A          317 VCSEVLQME--PDNVNALKDRAEAYLIEEMYDEAIQDYETAQE  357 (450)
T ss_dssp             HHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHhC--cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            666665432  33455666666666666777777777666655

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.90  E-value=5.6e-21  Score=187.67  Aligned_cols=319  Identities=10%  Similarity=-0.020  Sum_probs=199.5

Q ss_pred             CCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHH
Q 046221          113 PYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVL  192 (572)
Q Consensus       113 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  192 (572)
                      .+...|..+...+.+.|++++|+.+|+++.+.. +.+..++..+..++...|++++|...++.+++.+ +.+..++..+.
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  101 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRG  101 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHH
Confidence            345577888888888899999999998887752 3467778888888888888888888888888875 44567777788


Q ss_pred             HHHHhCCCHHHHHHHHhhcCCCCc------ccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCC
Q 046221          193 DMYSCLMDLDAAIQIFREMECKDV------ISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGD  266 (572)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  266 (572)
                      .+|.+.|++++|...|+++...++      ..+..++..+...+                       +..+...+...|+
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----------------------~~~~a~~~~~~~~  158 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQR-----------------------LRSQALNAFGSGD  158 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHTC
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHcCC
Confidence            888888888888888877765222      34444433311111                       1112223444566


Q ss_pred             hHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC---CCcchHHHHHHHHHHcCChHHHHHHHHHH
Q 046221          267 LKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE---KSLVSWTAIISGYVQNGCAREALNQFIKM  343 (572)
Q Consensus       267 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  343 (572)
                      ++.|...++.+.+.. +.+..++..+..+|.+.|++++|...|+++.+   .+..+|..+...|...|++++|+..|+++
T Consensus       159 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  237 (450)
T 2y4t_A          159 YTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVREC  237 (450)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            666666666666543 34555666677777777777777777776652   34567777777777778888888887777


Q ss_pred             HhcCCCCCCHhHHHHH------------HHHhcccccHHHHHHHHHHHHHhcCCCc----hhHHHHHHHHhhhcCChHHH
Q 046221          344 RQEKTDSVDSITLVSI------------LTASGELAALEICLQLHGIAFEAGFPRY----RSVQNCLISSYSKCGNVDLA  407 (572)
Q Consensus       344 ~~~~~~~~~~~~~~~l------------l~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A  407 (572)
                      ....+  .+...+..+            ...+...|++++|...++.+.+... .+    ...+..+..++.+.|++++|
T Consensus       238 ~~~~p--~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~~~~l~~~~~~~g~~~~A  314 (450)
T 2y4t_A          238 LKLDQ--DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEP-SIAEYTVRSKERICHCFSKDEKPVEA  314 (450)
T ss_dssp             HHHCT--TCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-SSHHHHHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHhCC--ChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-cchHHHHHHHHHHHHHHHHCCCHHHH
Confidence            63221  122222222            4455555666666666655555321 11    23455566666666666666


Q ss_pred             HHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HHHHHHHH
Q 046221          408 YIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD-SSTYLSIL  462 (572)
Q Consensus       408 ~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~  462 (572)
                      ...++++ ...| +...|..+..+|...|++++|...++++.+  +.|+ ...+..+.
T Consensus       315 ~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~  370 (450)
T 2y4t_A          315 IRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQE--HNENDQQIREGLE  370 (450)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TSSSCHHHHHHHH
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCcchHHHHHHHH
Confidence            6666665 2222 455666666666666666666666666665  3443 34444443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.84  E-value=6.2e-18  Score=160.42  Aligned_cols=305  Identities=11%  Similarity=0.005  Sum_probs=185.0

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHh
Q 046221          219 WTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSK  298 (572)
Q Consensus       219 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  298 (572)
                      +..+...+...|++++|...|+++.+.. +.+..++..+..++...|+++.|...++.+.+.. +.+...+..+...+..
T Consensus         6 ~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   83 (359)
T 3ieg_A            6 HLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLK   83 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHH
Confidence            3334444444444444444444444321 1223334444444444444444444444444432 2233344444555555


Q ss_pred             cCChhHHHHHHhccCCCCc------chHH------------HHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHH
Q 046221          299 CGDLDSSRSVFNQITEKSL------VSWT------------AIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSIL  360 (572)
Q Consensus       299 ~~~~~~a~~~~~~~~~~~~------~~~~------------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll  360 (572)
                      .|++++|...|++..+.++      ..+.            .+...+...|++++|+..++++.+.  .+.+...+..+.
T Consensus        84 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~  161 (359)
T 3ieg_A           84 QGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEV--CVWDAELRELRA  161 (359)
T ss_dssp             HTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             cCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCchHHHHHHH
Confidence            5555555555554433211      1122            2245667777788888887777533  234556666777


Q ss_pred             HHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCC-HhHHH------------HH
Q 046221          361 TASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRD-VVSWN------------TI  426 (572)
Q Consensus       361 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~------------~l  426 (572)
                      ..+...|+++.|...++.+.+.. +.+...+..+...+...|++++|...+++. ...|+ ...+.            .+
T Consensus       162 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  240 (359)
T 3ieg_A          162 ECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIES  240 (359)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHHHHHHH
Confidence            77777777777777777776653 456677777788888888888888888777 22232 23222            23


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCH-----HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHH
Q 046221          427 IYGYGVNGHGETALALYHKMTETGEVPDS-----STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLL  501 (572)
Q Consensus       427 ~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  501 (572)
                      ...+.+.|++++|...++++.+.  .|+.     ..+..+..++...|++++|...++++++..  +.+...+..+..++
T Consensus       241 a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~  316 (359)
T 3ieg_A          241 AEELIRDGRYTDATSKYESVMKT--EPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME--PDNVNALKDRAEAY  316 (359)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--cccHHHHHHHHHHH
Confidence            55678888899999988888874  3432     234456778888889999999998887643  44677888888888


Q ss_pred             HhhCChhHHHHHHHhccC-CCC-hHHHHHHHHH
Q 046221          502 ARAGCLSDASGLAGKLLE-GMG-PNIWRALLSG  532 (572)
Q Consensus       502 ~~~g~~~~A~~~~~~~~~-~~~-~~~~~~l~~~  532 (572)
                      .+.|++++|.+.++++.+ .|+ +..+..+...
T Consensus       317 ~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~  349 (359)
T 3ieg_A          317 LIEEMYDEAIQDYEAAQEHNENDQQIREGLEKA  349 (359)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHH
Confidence            889999999999888877 444 4444444433

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.84  E-value=1.4e-17  Score=156.10  Aligned_cols=283  Identities=12%  Similarity=0.017  Sum_probs=184.3

Q ss_pred             chHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC---CCcchHHHHHHHHHH
Q 046221          253 ALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE---KSLVSWTAIISGYVQ  329 (572)
Q Consensus       253 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~  329 (572)
                      .+..+...+...|+++.|..+++.+.+.. +.+...+..++..+...|++++|...++++.+   .+...|..+...+..
T Consensus        24 ~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  102 (330)
T 3hym_B           24 VVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPSNPVSWFAVGCYYLM  102 (330)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHH
Confidence            33333444444444444444444444332 22223333344444445555555555444432   233445555555555


Q ss_pred             cC-ChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHH
Q 046221          330 NG-CAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAY  408 (572)
Q Consensus       330 ~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  408 (572)
                      .| ++++|...|++...  ..+.+...+..+...+...|+++.|...++.+.+.. +.+...+..+...+...|++++|.
T Consensus       103 ~~~~~~~A~~~~~~a~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  179 (330)
T 3hym_B          103 VGHKNEHARRYLSKATT--LEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKLAE  179 (330)
T ss_dssp             SCSCHHHHHHHHHHHHT--TCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHHHH
T ss_pred             hhhhHHHHHHHHHHHHH--hCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHHHH
Confidence            55 56666666665541  122234455555566666666666666666665554 334556666888899999999999


Q ss_pred             HHHHHc-CCC-CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCC--------CCCHHHHHHHHHHHhccCChHHHHHHH
Q 046221          409 IVFEEM-GFL-RDVVSWNTIIYGYGVNGHGETALALYHKMTETGE--------VPDSSTYLSILNACGHAGLTNDGLVIF  478 (572)
Q Consensus       409 ~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~--------~p~~~~~~~l~~~~~~~g~~~~a~~~~  478 (572)
                      ..+++. ... .+...+..+...|...|++++|...++++.+..-        ..+..++..+..++...|++++|...+
T Consensus       180 ~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  259 (330)
T 3hym_B          180 RFFSQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYH  259 (330)
T ss_dssp             HHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            999988 333 4578888899999999999999999999887411        223478889999999999999999999


Q ss_pred             HHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CC-ChHHHHHHHHHHhhhcCCHH
Q 046221          479 NQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GM-GPNIWRALLSGCVLHVGRFQ  541 (572)
Q Consensus       479 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~~~~~~g~~~  541 (572)
                      +++++..  +.+...+..+..++.+.|++++|.+.++++.+ .| ++..+..+...+....|+.+
T Consensus       260 ~~a~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          260 RQALVLI--PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHS--TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHhhC--ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCchh
Confidence            9998654  45677899999999999999999999999988 44 55566666666644436543

>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=1.2e-17  Score=158.45  Aligned_cols=295  Identities=10%  Similarity=0.049  Sum_probs=242.3

Q ss_pred             cchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC---CCcchHHHHHHHHH
Q 046221          252 VALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE---KSLVSWTAIISGYV  328 (572)
Q Consensus       252 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~  328 (572)
                      ..+..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++|...|+++.+   .+...+..+...+.
T Consensus         4 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~   82 (359)
T 3ieg_A            4 EKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLL   82 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHH
Confidence            456667778889999999999999999876 45677888999999999999999999998764   35578889999999


Q ss_pred             HcCChHHHHHHHHHHHhcCCCC---CCHhHHHHH------------HHHhcccccHHHHHHHHHHHHHhcCCCchhHHHH
Q 046221          329 QNGCAREALNQFIKMRQEKTDS---VDSITLVSI------------LTASGELAALEICLQLHGIAFEAGFPRYRSVQNC  393 (572)
Q Consensus       329 ~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~~l------------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  393 (572)
                      ..|++++|...|++.. .. .+   .+...+..+            ...+...|+++.|...++.+.+.. +.+...+..
T Consensus        83 ~~~~~~~A~~~~~~~~-~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  159 (359)
T 3ieg_A           83 KQGKLDEAEDDFKKVL-KS-NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELREL  159 (359)
T ss_dssp             HHTCHHHHHHHHHHHH-TS-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HcCChHHHHHHHHHHH-hc-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHH
Confidence            9999999999999997 22 22   233344333            477889999999999999998875 567788899


Q ss_pred             HHHHhhhcCChHHHHHHHHHc-C-CCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HHHHH-----------
Q 046221          394 LISSYSKCGNVDLAYIVFEEM-G-FLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD-SSTYL-----------  459 (572)
Q Consensus       394 l~~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~-~~~~~-----------  459 (572)
                      +..++...|++++|...+++. . .+.+...+..+...|...|++++|...+++..+.  .|+ ...+.           
T Consensus       160 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~  237 (359)
T 3ieg_A          160 RAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKL  237 (359)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CccchHHHHHHHHHHHHHHH
Confidence            999999999999999999998 3 3346788999999999999999999999999984  454 34333           


Q ss_pred             -HHHHHHhccCChHHHHHHHHHhHHhcCCCCCh----hHHHHHHHHHHhhCChhHHHHHHHhccC-CC-ChHHHHHHHHH
Q 046221          460 -SILNACGHAGLTNDGLVIFNQMIEENKVKPSQ----EHYGCVVDLLARAGCLSDASGLAGKLLE-GM-GPNIWRALLSG  532 (572)
Q Consensus       460 -~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~  532 (572)
                       .+...+.+.|++++|...++++++..  +.+.    ..+..+..++.+.|++++|.+.++++.+ .| ++..|..+...
T Consensus       238 ~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  315 (359)
T 3ieg_A          238 IESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEA  315 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence             23667899999999999999998654  2223    2355678899999999999999999987 44 67778888888


Q ss_pred             HhhhcCCHHHHHHHHHHHHhCCC
Q 046221          533 CVLHVGRFQDAEALRSGSQKKGI  555 (572)
Q Consensus       533 ~~~~~g~~~~A~~~~~~m~~~~~  555 (572)
                      +... |++++|...+++..+..+
T Consensus       316 ~~~~-g~~~~A~~~~~~a~~~~p  337 (359)
T 3ieg_A          316 YLIE-EMYDEAIQDYEAAQEHNE  337 (359)
T ss_dssp             HHHT-TCHHHHHHHHHHHHTTCT
T ss_pred             HHHc-CCHHHHHHHHHHHHhcCC
Confidence            8777 999999999999987654

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.82  E-value=1.8e-15  Score=156.65  Aligned_cols=369  Identities=11%  Similarity=0.016  Sum_probs=193.3

Q ss_pred             hhHHHHHhhcCChhhHHHHhccCCC-C-----ChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHc
Q 046221            9 SKLLSNYFKSGKIKEAENLFDEIPE-K-----NVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAA   82 (572)
Q Consensus         9 ~~l~~~~~~~~~~~~A~~~~~~~~~-~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~   82 (572)
                      ...+++|...|.+.+|+++++++.- +     +....+.++..-.+. +..+..+..+..-..       ....+...+.
T Consensus       989 s~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~-------d~~eIA~Iai 1060 (1630)
T 1xi4_A          989 SVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY-------DAPDIANIAI 1060 (1630)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc-------cHHHHHHHHH
Confidence            4467888888999999999988763 2     234555555544444 334444444433211       1222445555


Q ss_pred             CCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHH-hCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHh
Q 046221           83 GLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFI-NNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCV  161 (572)
Q Consensus        83 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  161 (572)
                      ..|.+++|..+|++...                  +...+..+. ..+++++|.++.++.      -+..+|..+..++.
T Consensus      1061 ~lglyEEAf~IYkKa~~------------------~~~A~~VLie~i~nldrAiE~Aerv------n~p~vWsqLAKAql 1116 (1630)
T 1xi4_A         1061 SNELFEEAFAIFRKFDV------------------NTSAVQVLIEHIGNLDRAYEFAERC------NEPAVWSQLAKAQL 1116 (1630)
T ss_pred             hCCCHHHHHHHHHHcCC------------------HHHHHHHHHHHHhhHHHHHHHHHhc------CCHHHHHHHHHHHH
Confidence            66777777766665421                  111112222 445566666665543      13455556666666


Q ss_pred             ccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCC--CCcccHHHHHHHHHccCCHHHHHHHH
Q 046221          162 ALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMEC--KDVISWTRMMGLFVDFEYAGDALKIF  239 (572)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~  239 (572)
                      ..|++++|...|..      ..|...|..++.++.+.|++++|.+.+.....  +++...+.++.+|.+.+++++...+.
T Consensus      1117 ~~G~~kEAIdsYiK------AdD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~e~~Idt~LafaYAKl~rleele~fI 1190 (1630)
T 1xi4_A         1117 QKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFI 1190 (1630)
T ss_pred             hCCCHHHHHHHHHh------cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCHHHHHHHH
Confidence            66666666666543      13455555566666666666666666654432  23333334566666665555433222


Q ss_pred             HHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcch
Q 046221          240 REMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVS  319 (572)
Q Consensus       240 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  319 (572)
                          +   .++...+..+...|...|+++.|..+|...         ..|..+..+|.+.|++++|.+.+++.  .+..+
T Consensus      1191 ----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA--~n~~a 1252 (1630)
T 1xi4_A         1191 ----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA--NSTRT 1252 (1630)
T ss_pred             ----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh--CCHHH
Confidence                1   233444445555666666666666666653         24555666666666666666666554  33355


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhh
Q 046221          320 WTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYS  399 (572)
Q Consensus       320 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  399 (572)
                      |..+-.+|...|++..|......+      ..++..+..++..|.+.|.+++|+.+++...... +-....|+-+...|+
T Consensus      1253 Wkev~~acve~~Ef~LA~~cgl~I------iv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLya 1325 (1630)
T 1xi4_A         1253 WKEVCFACVDGKEFRLAQMCGLHI------VVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYS 1325 (1630)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHhh------hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHH
Confidence            555555555555555555444322      2334444455555666666666666665444333 233334444444443


Q ss_pred             h--cCChHHHHHHHHHc-CCCC------CHhHHHHHHHHHHhcCChHHHH
Q 046221          400 K--CGNVDLAYIVFEEM-GFLR------DVVSWNTIIYGYGVNGHGETAL  440 (572)
Q Consensus       400 ~--~g~~~~A~~~~~~~-~~~~------~~~~~~~l~~~~~~~~~~~~A~  440 (572)
                      +  .+++.++.+.|..- .++|      +...|..++..|.+.|+++.|.
T Consensus      1326 Ky~peklmEhlk~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~ 1375 (1630)
T 1xi4_A         1326 KFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI 1375 (1630)
T ss_pred             hCCHHHHHHHHHHHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHH
Confidence            3  33444444444433 3322      3445555556666666666555

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.82  E-value=5.5e-15  Score=153.14  Aligned_cols=408  Identities=8%  Similarity=0.007  Sum_probs=272.8

Q ss_pred             CcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCC
Q 046221           70 NSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPN  149 (572)
Q Consensus        70 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~  149 (572)
                      ++.-.....++|...|.+.+|.+++++..-.+.   .|    ..+....+.++....+. +..+..+..+++...     
T Consensus       984 ~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s---~f----s~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~----- 1050 (1630)
T 1xi4_A          984 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNS---VF----SEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY----- 1050 (1630)
T ss_pred             CHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCC---cc----cccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc-----
Confidence            334455667777788888888888888773321   12    12344566666666666 455565655555421     


Q ss_pred             HhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHcc
Q 046221          150 AVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDF  229 (572)
Q Consensus       150 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~  229 (572)
                        ....+...+...|.+++|..+|++..     ......+.++.   ..+++++|.++.++.  .+..+|..+..++...
T Consensus      1051 --d~~eIA~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aerv--n~p~vWsqLAKAql~~ 1118 (1630)
T 1xi4_A         1051 --DAPDIANIAISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERC--NEPAVWSQLAKAQLQK 1118 (1630)
T ss_pred             --cHHHHHHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhc--CCHHHHHHHHHHHHhC
Confidence              12335666777888888888888752     11122223322   567788888888876  3466788888888888


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHH
Q 046221          230 EYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVF  309 (572)
Q Consensus       230 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  309 (572)
                      |++++|.+.|.+.      -|...|..++.++.+.|++++|.+.+....+..  +++...+.++.+|++.+++++...+.
T Consensus      1119 G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI 1190 (1630)
T 1xi4_A         1119 GMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI 1190 (1630)
T ss_pred             CCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH
Confidence            8888888888553      466677788888888888888888888777654  33334445888888888888644443


Q ss_pred             hccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchh
Q 046221          310 NQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRS  389 (572)
Q Consensus       310 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  389 (572)
                         ..++...|..+...|...|++++|..+|....          .|..+...+.+.|+++.|.+.+++.      .+..
T Consensus      1191 ---~~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA~----------ny~rLA~tLvkLge~q~AIEaarKA------~n~~ 1251 (1630)
T 1xi4_A         1191 ---NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS----------NFGRLASTLVHLGEYQAAVDGARKA------NSTR 1251 (1630)
T ss_pred             ---hCCCHHHHHHHHHHHHhcCCHHHHHHHHHhhh----------HHHHHHHHHHHhCCHHHHHHHHHHh------CCHH
Confidence               34455667778888888888888888888752          7888888888888888888888765      4557


Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhc-
Q 046221          390 VQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS-STYLSILNACGH-  467 (572)
Q Consensus       390 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~-  467 (572)
                      +|..+..+|...|+++.|......  +..++..+..++..|.+.|.+++|+.+++..+.  +.|.. ..|+-+...+++ 
T Consensus      1252 aWkev~~acve~~Ef~LA~~cgl~--Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~--LeraH~gmftELaiLyaKy 1327 (1630)
T 1xi4_A         1252 TWKEVCFACVDGKEFRLAQMCGLH--IVVHADELEELINYYQDRGYFEELITMLEAALG--LERAHMGMFTELAILYSKF 1327 (1630)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHh--hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhc--cChhHhHHHHHHHHHHHhC
Confidence            777788888888888888876664  334555667888888888888888888877775  44433 455555555543 


Q ss_pred             -cCChHHHHHHHHHhHHhcCCCC------ChhHHHHHHHHHHhhCChhHHHHHHHh-------------ccC-CCChHHH
Q 046221          468 -AGLTNDGLVIFNQMIEENKVKP------SQEHYGCVVDLLARAGCLSDASGLAGK-------------LLE-GMGPNIW  526 (572)
Q Consensus       468 -~g~~~~a~~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~~~~-------------~~~-~~~~~~~  526 (572)
                       -++..+++++|..   +.+++|      +...|.-++..|.+.|+++.|....-+             ... ..++..|
T Consensus      1328 ~peklmEhlk~f~~---rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~kv~n~ely 1404 (1630)
T 1xi4_A         1328 KPQKMREHLELFWS---RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELY 1404 (1630)
T ss_pred             CHHHHHHHHHHHHH---hcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhcccccHHHH
Confidence             3445555555542   223333      455788888888888888888732222             111 4456666


Q ss_pred             HHHHHHHhhh
Q 046221          527 RALLSGCVLH  536 (572)
Q Consensus       527 ~~l~~~~~~~  536 (572)
                      ...+.-|...
T Consensus      1405 ykai~Fyl~~ 1414 (1630)
T 1xi4_A         1405 YRAIQFYLEF 1414 (1630)
T ss_pred             HHHHHHHHhh
Confidence            6666665544

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.82  E-value=9.6e-19  Score=162.21  Aligned_cols=382  Identities=10%  Similarity=0.010  Sum_probs=173.2

Q ss_pred             CCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhc
Q 046221           83 GLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVA  162 (572)
Q Consensus        83 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  162 (572)
                      +.|++++|.++++++               ++..+|..|+.++.+.|++++|++.|.+      .+|..+|..++.++..
T Consensus        15 ~~~~ld~A~~fae~~---------------~~~~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~   73 (449)
T 1b89_A           15 HIGNLDRAYEFAERC---------------NEPAVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANT   73 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhC---------------CChHHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHh
Confidence            567788898887777               1224899999999999999999999965      3578899999999999


Q ss_pred             cCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHH
Q 046221          163 LGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREM  242 (572)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  242 (572)
                      .|++++|..+++...+.  .+++.+.+.++.+|.+.|+++++.++++.   |+..+|+.+...|...|.+++|..+|..+
T Consensus        74 ~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a  148 (449)
T 1b89_A           74 SGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV  148 (449)
T ss_dssp             -------------------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh
Confidence            99999999988877764  55678899999999999999999988864   77789999999999999999999999976


Q ss_pred             HhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcchHHH
Q 046221          243 RKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTA  322 (572)
Q Consensus       243 ~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  322 (572)
                               ..|..+..++.+.|++++|.+.+..+      .++.+|..++.+|...|+++.|......+. ..+.....
T Consensus       149 ---------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~  212 (449)
T 1b89_A          149 ---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEE  212 (449)
T ss_dssp             ---------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHH
T ss_pred             ---------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHH
Confidence                     48999999999999999999999988      378899999999999999999988777655 34444556


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCC------chhHHHHHHH
Q 046221          323 IISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPR------YRSVQNCLIS  396 (572)
Q Consensus       323 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~l~~  396 (572)
                      ++..|.+.|++++|..+++.............|...++-+-.+.++..+..+.|..  +.+++|      +...|..++.
T Consensus       213 lv~~Yek~G~~eEai~lLe~aL~le~ah~~~ftel~il~~ky~p~k~~ehl~~~~~--~ini~k~~~~~~~~~~w~e~~~  290 (449)
T 1b89_A          213 LINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWS--RVNIPKVLRAAEQAHLWAELVF  290 (449)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHST--TSCHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHHHHHH
Confidence            88999999999999999999863332222333444444444555666666665531  122222      4567788888


Q ss_pred             HhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHH-----------
Q 046221          397 SYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNAC-----------  465 (572)
Q Consensus       397 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~-----------  465 (572)
                      .|.+.++++.|...+-+-+  |+..--..+.....+-.+.+--.+...=-++  -.|.  .++-|+.++           
T Consensus       291 ly~~~~e~d~A~~tm~~h~--~~a~~~~~f~~~~~kv~n~elyYkai~fyl~--~~p~--~l~~ll~~l~~~ld~~r~v~  364 (449)
T 1b89_A          291 LYDKYEEYDNAIITMMNHP--TDAWKEGQFKDIITKVANVELYYRAIQFYLE--FKPL--LLNDLLMVLSPRLDHTRAVN  364 (449)
T ss_dssp             HHHHTTCHHHHHHHHHHST--TTTCCHHHHHHHHHHCSSTHHHHHHHHHHHH--HCGG--GHHHHHHHHGGGCCHHHHHH
T ss_pred             HHHhhchHHHHHHHHHhCC--hhhhhhHHHHHHHhchhHHHHHHHHHHHHHh--cCHH--HHHHHHHHHHhccCcHHHHH
Confidence            8889999998877554431  2211112222222333333222221111111  1222  133333343           


Q ss_pred             --hccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhcc
Q 046221          466 --GHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       466 --~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                        .+.|...-+..++..+. ..   -+..+-.++-+.|....|++.-...++..-
T Consensus       365 ~~~~~~~l~l~~~yl~~v~-~~---n~~~vnealn~l~ieeed~~~lr~si~~~~  415 (449)
T 1b89_A          365 YFSKVKQLPLVKPYLRSVQ-NH---NNKSVNESLNNLFITEEDYQALRTSIDAYD  415 (449)
T ss_dssp             HHHHTTCTTTTHHHHHHHH-TT---CCHHHHHHHHHHHHHTTCHHHHHHHHHHCC
T ss_pred             HHHHcCCcHHHHHHHHHHH-Hh---hHHHHHHHHHHHHHhhhhHHHHHHHHHHhc
Confidence              44444444444444442 11   233445566677778888777766666543

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.82  E-value=5e-18  Score=157.46  Aligned_cols=401  Identities=14%  Similarity=0.092  Sum_probs=205.8

Q ss_pred             hhcCChhhHHHHhccCCCCChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHH
Q 046221           16 FKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHG   95 (572)
Q Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~   95 (572)
                      .+.|++++|.++++++..|  .+|..+..++.+.|++++|++.|.+      .+|..+|..++.++...|++++|...++
T Consensus        14 ~~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~   85 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQ   85 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            3668899999999999665  5999999999999999999999975      3677899999999999999999999888


Q ss_pred             HHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHH
Q 046221           96 LMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGL  175 (572)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  175 (572)
                      ...+..           ++..+.+.++.+|.+.|++.++.++++       .|+..+|..+...|...|.+++|...|..
T Consensus        86 ~ark~~-----------~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~  147 (449)
T 1b89_A           86 MARKKA-----------RESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNN  147 (449)
T ss_dssp             ----------------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHH
T ss_pred             HHHHhC-----------ccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            776642           446688999999999999999988875       37778999999999999999999999997


Q ss_pred             HHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchH
Q 046221          176 TIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALL  255 (572)
Q Consensus       176 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  255 (572)
                      +         ..|..++.++.+.|++++|.+.++++  .++.+|..++.+|...|+++.|......+     ...+....
T Consensus       148 a---------~n~~~LA~~L~~Lg~yq~AVea~~KA--~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L-----~~~ad~l~  211 (449)
T 1b89_A          148 V---------SNFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLAQMCGLHI-----VVHADELE  211 (449)
T ss_dssp             T---------TCHHHHHHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHHHTTCHHHHHHTTTTT-----TTCHHHHH
T ss_pred             h---------hhHHHHHHHHHHhccHHHHHHHHHHc--CCchhHHHHHHHHHHcCcHHHHHHHHHHH-----HhCHhhHH
Confidence            6         57999999999999999999999999  48899999999999999999996655442     23333455


Q ss_pred             HHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhc--CChhHHHHHHhccCC--------CCcchHHHHHH
Q 046221          256 NLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKC--GDLDSSRSVFNQITE--------KSLVSWTAIIS  325 (572)
Q Consensus       256 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~--------~~~~~~~~l~~  325 (572)
                      .++..|.+.|.++++..+++..+... +....+|+-+.-+|++-  +++.+..+.|..-..        .+...|..+..
T Consensus       212 ~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~  290 (449)
T 1b89_A          212 ELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVF  290 (449)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHH
Confidence            78889999999999999999988655 55566777777777764  455666666654432        24578999999


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChH
Q 046221          326 GYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVD  405 (572)
Q Consensus       326 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  405 (572)
                      .|...++++.|...   |.+.....-+...|.-++.-.....-+-+|..++-     +..  +...+-|+.++...=+..
T Consensus       291 ly~~~~e~d~A~~t---m~~h~~~a~~~~~f~~~~~kv~n~elyYkai~fyl-----~~~--p~~l~~ll~~l~~~ld~~  360 (449)
T 1b89_A          291 LYDKYEEYDNAIIT---MMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYL-----EFK--PLLLNDLLMVLSPRLDHT  360 (449)
T ss_dssp             HHHHTTCHHHHHHH---HHHSTTTTCCHHHHHHHHHHCSSTHHHHHHHHHHH-----HHC--GGGHHHHHHHHGGGCCHH
T ss_pred             HHHhhchHHHHHHH---HHhCChhhhhhHHHHHHHhchhHHHHHHHHHHHHH-----hcC--HHHHHHHHHHHHhccCcH
Confidence            99999999998864   33243455566666666665555555555555543     112  334677888888888888


Q ss_pred             HHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHH-HhcCCCCCHHHHHHHHHHHhccCChHHHHH
Q 046221          406 LAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKM-TETGEVPDSSTYLSILNACGHAGLTNDGLV  476 (572)
Q Consensus       406 ~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~-~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~  476 (572)
                      .+.++|++.+.-|-+..|-.-+    +..+....-+.+.++ ++   .-|..+...-|.+|-.-....-|.+
T Consensus       361 r~v~~~~~~~~l~l~~~yl~~v----~~~n~~~vnealn~l~ie---eed~~~lr~si~~~~nfd~~~l~~~  425 (449)
T 1b89_A          361 RAVNYFSKVKQLPLVKPYLRSV----QNHNNKSVNESLNNLFIT---EEDYQALRTSIDAYDNFDNISLAQR  425 (449)
T ss_dssp             HHHHHHHHTTCTTTTHHHHHHH----HTTCCHHHHHHHHHHHHH---TTCHHHHHHHHHHCCCSCHHHHHHH
T ss_pred             HHHHHHHHcCCcHHHHHHHHHH----HHhhHHHHHHHHHHHHHh---hhhHHHHHHHHHHhcCcCHHHHHHH
Confidence            8888888886556655553221    123333443444443 33   3466777777777766665555544

>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=99.79  E-value=2.8e-17  Score=156.60  Aligned_cols=258  Identities=14%  Similarity=0.083  Sum_probs=121.8

Q ss_pred             HHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC---CCcchHHHHHHHHHHcCC
Q 046221          256 NLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE---KSLVSWTAIISGYVQNGC  332 (572)
Q Consensus       256 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~  332 (572)
                      .+...+...|++++|...++.+.+.. +.+...+..+..++.+.|++++|...|+++.+   .+..++..+...+...|+
T Consensus        69 ~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~  147 (368)
T 1fch_A           69 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESL  147 (368)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCC
Confidence            33333334444444444444443332 22333444444445555555555555544331   233455555556666666


Q ss_pred             hHHHHHHHHHHHhcCCCCCCHhHHH-------------HHHHHhcccccHHHHHHHHHHHHHhcCCC-chhHHHHHHHHh
Q 046221          333 AREALNQFIKMRQEKTDSVDSITLV-------------SILTASGELAALEICLQLHGIAFEAGFPR-YRSVQNCLISSY  398 (572)
Q Consensus       333 ~~~a~~~~~~~~~~~~~~~~~~~~~-------------~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~  398 (572)
                      +++|...++++....+..+......             ..+..+...|+++.|...++.+.+..... +..++..+..++
T Consensus       148 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~  227 (368)
T 1fch_A          148 QRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLF  227 (368)
T ss_dssp             HHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHH
Confidence            6666666666552221111111100             01111224555555555555555443111 344555555555


Q ss_pred             hhcCChHHHHHHHHHc-C-CCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHH
Q 046221          399 SKCGNVDLAYIVFEEM-G-FLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGL  475 (572)
Q Consensus       399 ~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~  475 (572)
                      .+.|++++|...++++ . .+.+...|..+...|...|++++|+..|+++.+.  .| +..++..+..+|.+.|++++|.
T Consensus       228 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~  305 (368)
T 1fch_A          228 NLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAV  305 (368)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHH
Confidence            5555565555555555 1 2123445555555555556666666655555553  23 3455555555555556666666


Q ss_pred             HHHHHhHHhcCCC---------CChhHHHHHHHHHHhhCChhHHHHHHHh
Q 046221          476 VIFNQMIEENKVK---------PSQEHYGCVVDLLARAGCLSDASGLAGK  516 (572)
Q Consensus       476 ~~~~~~~~~~~~~---------~~~~~~~~l~~~~~~~g~~~~A~~~~~~  516 (572)
                      ..|+++++...-.         ....+|..+..+|.+.|++++|..++++
T Consensus       306 ~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  355 (368)
T 1fch_A          306 EHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADAR  355 (368)
T ss_dssp             HHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTT
T ss_pred             HHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHH
Confidence            5555554332100         0034555555555555555555555543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.79  E-value=3.2e-16  Score=156.70  Aligned_cols=406  Identities=8%  Similarity=0.008  Sum_probs=251.5

Q ss_pred             CceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHH
Q 046221          114 YLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLD  193 (572)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  193 (572)
                      +...|..++. +.+.|++++|..+|+++.+.. +-+...|...+..+.+.|+++.|..+|+.+++..  |+...|..++.
T Consensus        12 ~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~~   87 (530)
T 2ooe_A           12 DLDAWSILIR-EAQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYLS   87 (530)
T ss_dssp             CHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHHH
T ss_pred             CHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHHH
Confidence            4567777777 467888888888888888752 3355677788888888888888888888887753  56666666664


Q ss_pred             H-HHhCCCHHHHHH----HHhhcCC------CCcccHHHHHHHHHc---------cCCHHHHHHHHHHHHhCCCCCCc--
Q 046221          194 M-YSCLMDLDAAIQ----IFREMEC------KDVISWTRMMGLFVD---------FEYAGDALKIFREMRKSRIICDT--  251 (572)
Q Consensus       194 ~-~~~~~~~~~a~~----~~~~~~~------~~~~~~~~li~~~~~---------~~~~~~a~~~~~~m~~~~~~p~~--  251 (572)
                      . ....|+.+.|.+    +|+....      ++...|...+.....         .|+++.|..+|++..+.   |+.  
T Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~---P~~~~  164 (530)
T 2ooe_A           88 YVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVN---PMINI  164 (530)
T ss_dssp             HHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTS---CCTTH
T ss_pred             HHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhc---hhhhH
Confidence            3 234566665554    5554321      244566666665543         56777777777777662   322  


Q ss_pred             -cchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhc-------cC------CCC-
Q 046221          252 -VALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQ-------IT------EKS-  316 (572)
Q Consensus       252 -~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-------~~------~~~-  316 (572)
                       ..|..........|. ..+..                   ++.  .+.++++.|..++..       +.      .|+ 
T Consensus       165 ~~~~~~~~~~e~~~~~-~~~~~-------------------~l~--~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~  222 (530)
T 2ooe_A          165 EQLWRDYNKYEEGINI-HLAKK-------------------MIE--DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQN  222 (530)
T ss_dssp             HHHHHHHHHHHHHHCH-HHHHH-------------------HHH--TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC-
T ss_pred             HHHHHHHHHHHHhhch-hHHHH-------------------HHH--HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCC
Confidence             111111110000000 00000                   000  012334444443332       11      111 


Q ss_pred             -------cchHHHHHHHHHHc----CCh----HHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcc-------cccHH----
Q 046221          317 -------LVSWTAIISGYVQN----GCA----REALNQFIKMRQEKTDSVDSITLVSILTASGE-------LAALE----  370 (572)
Q Consensus       317 -------~~~~~~l~~~~~~~----~~~----~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~-------~~~~~----  370 (572)
                             ...|...+......    ++.    ..+..+|++....  .+.+...|......+.+       .|+++    
T Consensus       223 ~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~--~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~  300 (530)
T 2ooe_A          223 TPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLV--LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKL  300 (530)
T ss_dssp             -CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHH
T ss_pred             ChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhchhhhhccchhhhhh
Confidence                   12344433322221    122    3666777777633  23345555555555553       57766    


Q ss_pred             ---HHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCC-H-hHHHHHHHHHHhcCChHHHHHHHH
Q 046221          371 ---ICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRD-V-VSWNTIIYGYGVNGHGETALALYH  444 (572)
Q Consensus       371 ---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~-~-~~~~~l~~~~~~~~~~~~A~~~~~  444 (572)
                         .|..++++..+.-.+.+...+..++..+.+.|++++|..+|+++ ...|+ . ..|..++..+.+.|+.++|..+|+
T Consensus       301 ~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~  380 (530)
T 2ooe_A          301 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  380 (530)
T ss_dssp             HHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHH
Confidence               77888887775333456778888888888889999999998887 44454 2 478888888888888899999998


Q ss_pred             HHHhcCCCCC-HHHHHHHHHH-HhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CC
Q 046221          445 KMTETGEVPD-SSTYLSILNA-CGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GM  521 (572)
Q Consensus       445 ~~~~~g~~p~-~~~~~~l~~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~  521 (572)
                      +..+.  .|+ ...|...+.. +...|++++|..+|+.+++..  +.+...|..++..+.+.|+.++|..+|+++.. .|
T Consensus       381 ~Al~~--~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~  456 (530)
T 2ooe_A          381 KARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  456 (530)
T ss_dssp             HHHTC--TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCC
T ss_pred             HHHhc--cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccC
Confidence            88874  343 2333322222 335788999999999888655  34567888888888888999999999988875 22


Q ss_pred             -ChH----HHHHHHHHHhhhcCCHHHHHHHHHHHHhCCC
Q 046221          522 -GPN----IWRALLSGCVLHVGRFQDAEALRSGSQKKGI  555 (572)
Q Consensus       522 -~~~----~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~  555 (572)
                       ++.    .|...+.....+ |+.+.+..+.+++.+.-+
T Consensus       457 ~~~~~~~~lw~~~~~~e~~~-G~~~~~~~~~~r~~~~~p  494 (530)
T 2ooe_A          457 LPPEKSGEIWARFLAFESNI-GDLASILKVEKRRFTAFR  494 (530)
T ss_dssp             SCGGGCHHHHHHHHHHHHHS-SCHHHHHHHHHHHHHHTH
T ss_pred             CCHHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHCc
Confidence             232    677777766666 888888888888876543

>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=99.79  E-value=1.6e-16  Score=148.78  Aligned_cols=280  Identities=11%  Similarity=-0.091  Sum_probs=214.1

Q ss_pred             CChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCC
Q 046221           34 KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNP  113 (572)
Q Consensus        34 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  113 (572)
                      .++..+..+...+...|++++|+++|+++.+.. +.+...+..++.++...|++++|..+++.+.+..+          .
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~----------~   88 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYP----------S   88 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT----------T
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCc----------C
Confidence            466778888888899999999999999988764 45556777788888899999999999999988765          3


Q ss_pred             CceeHHHHHHHHHhCC-ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHH
Q 046221          114 YLVSCNAIVAGFINNK-LFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVL  192 (572)
Q Consensus       114 ~~~~~~~l~~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  192 (572)
                      +...|..+...+...| ++++|.+.|++..+.. +.+...+..+...+...|++++|...++...+.. +.+...+..+.
T Consensus        89 ~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~  166 (330)
T 3hym_B           89 NPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIG  166 (330)
T ss_dssp             STHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHH
Confidence            4568888899999999 9999999999988764 3356678888888999999999999999988875 44566677788


Q ss_pred             HHHHhCCCHHHHHHHHhhcCC---CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCC--------CCCCccchHHHHHHh
Q 046221          193 DMYSCLMDLDAAIQIFREMEC---KDVISWTRMMGLFVDFEYAGDALKIFREMRKSR--------IICDTVALLNLISVN  261 (572)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--------~~p~~~~~~~ll~~~  261 (572)
                      ..+...|++++|...+++...   .+...+..+...+...|++++|...+++..+..        .+.+..++..+..++
T Consensus       167 ~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~  246 (330)
T 3hym_B          167 LEYGLTNNSKLAERFFSQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVC  246 (330)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHH
Confidence            888899999999999888765   355678888888888899998888888876531        122345666777777


Q ss_pred             cccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCC---CcchHHHHHHHH
Q 046221          262 AILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEK---SLVSWTAIISGY  327 (572)
Q Consensus       262 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~  327 (572)
                      ...|++++|...++...+.. +.+...+..+..++.+.|++++|...|++..+-   +...+..+..++
T Consensus       247 ~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  314 (330)
T 3hym_B          247 RKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCI  314 (330)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHH
Confidence            77777777777777777664 345566666777777777777777777766542   234445555544

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.78  E-value=1.1e-15  Score=152.87  Aligned_cols=378  Identities=10%  Similarity=0.063  Sum_probs=244.1

Q ss_pred             CCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHH-hccCChHHHHH----HHHHHHHh-cCCC-Ch
Q 046221          113 PYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGC-VALGSRALCEL----IHGLTIKL-GLIL-DV  185 (572)
Q Consensus       113 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~-~~~~~~~~a~~----~~~~~~~~-~~~~-~~  185 (572)
                      .+...|..++..+.+.|++++|..+|++..+.  .|+...|...+... ...|+.+.|.+    +|+..+.. |..| +.
T Consensus        44 ~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--~p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~  121 (530)
T 2ooe_A           44 SSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--VLHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSY  121 (530)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--CCCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCH
T ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--CCChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccH
Confidence            34567999999999999999999999999986  47877777766533 35577766655    66666653 5443 45


Q ss_pred             hHHhHHHHHHHh---------CCCHHHHHHHHhhcCC-CCc---ccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCcc
Q 046221          186 SVNNSVLDMYSC---------LMDLDAAIQIFREMEC-KDV---ISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTV  252 (572)
Q Consensus       186 ~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~-~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  252 (572)
                      ..|...+....+         .|+++.|..+|++... |..   ..|..........+. ..+..+              
T Consensus       122 ~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~-~~~~~~--------------  186 (530)
T 2ooe_A          122 QIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINI-HLAKKM--------------  186 (530)
T ss_dssp             HHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCH-HHHHHH--------------
T ss_pred             HHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhch-hHHHHH--------------
Confidence            677777776654         6889999999998876 322   122222211100000 000000              


Q ss_pred             chHHHHHHhcccCChHHHHHHHHHHHH------hC---CCCC--------cchHHHHHHHHHhc----CCh----hHHHH
Q 046221          253 ALLNLISVNAILGDLKRGKQLHAQVVL------GG---LQSE--------LRLSNSIIAMYSKC----GDL----DSSRS  307 (572)
Q Consensus       253 ~~~~ll~~~~~~~~~~~a~~~~~~~~~------~~---~~~~--------~~~~~~l~~~~~~~----~~~----~~a~~  307 (572)
                           +.  ...+++..|..++.....      ..   ++|+        ...|...+......    ++.    +.+..
T Consensus       187 -----l~--~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~  259 (530)
T 2ooe_A          187 -----IE--DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMF  259 (530)
T ss_dssp             -----HH--TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHH
T ss_pred             -----HH--HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHH
Confidence                 00  012333444444433211      00   1222        12222222221111    122    24555


Q ss_pred             HHhccCC---CCcchHHHHHHHHHH-------cCChH-------HHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHH
Q 046221          308 VFNQITE---KSLVSWTAIISGYVQ-------NGCAR-------EALNQFIKMRQEKTDSVDSITLVSILTASGELAALE  370 (572)
Q Consensus       308 ~~~~~~~---~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  370 (572)
                      +|++...   .+...|..++..+.+       .|+++       +|..+|++.. ..-.+.+...+..++..+.+.|+++
T Consensus       260 ~y~~al~~~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al-~~~~p~~~~l~~~~~~~~~~~g~~~  338 (530)
T 2ooe_A          260 AYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAI-STLLKKNMLLYFAYADYEESRMKYE  338 (530)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHT-TTTCSSCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHH-HHhCcccHHHHHHHHHHHHhcCCHH
Confidence            6665543   345567666666664       67776       7888888875 2223445667777777788888888


Q ss_pred             HHHHHHHHHHHhcCCCc--hhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCC-HhHHHHHHH-HHHhcCChHHHHHHHHH
Q 046221          371 ICLQLHGIAFEAGFPRY--RSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRD-VVSWNTIIY-GYGVNGHGETALALYHK  445 (572)
Q Consensus       371 ~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~-~~~~~~~~~~A~~~~~~  445 (572)
                      .|..+++.+.+.  .|+  ...|..++..+.+.|++++|.++|++. ...|+ ...|...+. .+...|+.++|..+|++
T Consensus       339 ~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~  416 (530)
T 2ooe_A          339 KVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFEL  416 (530)
T ss_dssp             HHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTCCTHHHHHHHHHHHHHTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHcCChhHHHHHHHH
Confidence            888888888874  343  247888888888899999999999988 44343 222322222 23468999999999999


Q ss_pred             HHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC--hhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          446 MTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS--QEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       446 ~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ..+.  .| +...|..++..+.+.|+.++|..+|+++++.....|+  ...|...+....+.|+.+.+..+.+++.+
T Consensus       417 al~~--~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~  491 (530)
T 2ooe_A          417 GLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  491 (530)
T ss_dssp             HHHH--HTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHH
T ss_pred             HHHH--CCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9884  46 5688889999999999999999999999865444443  34788888888889999999999998876

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.78  E-value=3.9e-15  Score=147.29  Aligned_cols=347  Identities=13%  Similarity=-0.002  Sum_probs=203.5

Q ss_pred             CceeHHHHHHHHHh----CCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhc----cCChHHHHHHHHHHHHhcCCCCh
Q 046221          114 YLVSCNAIVAGFIN----NKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVA----LGSRALCELIHGLTIKLGLILDV  185 (572)
Q Consensus       114 ~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~  185 (572)
                      +...+..+...|..    .+++++|+..|++..+.|   +...+..+-..+..    .++.++|...+++..+.|   +.
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  111 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LP  111 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            34566777777777    788888988888887764   55667777777776    788888888888887754   55


Q ss_pred             hHHhHHHHHHHh----CCCHHHHHHHHhhcCC-CCcccHHHHHHHHHc----cCCHHHHHHHHHHHHhCCCCCCccchHH
Q 046221          186 SVNNSVLDMYSC----LMDLDAAIQIFREMEC-KDVISWTRMMGLFVD----FEYAGDALKIFREMRKSRIICDTVALLN  256 (572)
Q Consensus       186 ~~~~~l~~~~~~----~~~~~~a~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~  256 (572)
                      ..+..|...|..    .++.++|...|++..+ .+...+..+...|..    .+++++|.+.|++..+.|   +...+..
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~  188 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQ  188 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHH
Confidence            666667777777    6788888888877654 355666677777766    677778888887777654   4455555


Q ss_pred             HHHHhcc----cCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHh----cCChhHHHHHHhccCCC-CcchHHHHHHHH
Q 046221          257 LISVNAI----LGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSK----CGDLDSSRSVFNQITEK-SLVSWTAIISGY  327 (572)
Q Consensus       257 ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~-~~~~~~~l~~~~  327 (572)
                      +...+..    .++.++|...++...+.+   +...+..+...|..    .+++++|...|++..+. +...+..+...|
T Consensus       189 Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y  265 (490)
T 2xm6_A          189 LGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYIL  265 (490)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            5555554    677777777777776654   33445555566654    56667777776665442 334555555555


Q ss_pred             HH----cCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhccc-----ccHHHHHHHHHHHHHhcCCCchhHHHHHHHHh
Q 046221          328 VQ----NGCAREALNQFIKMRQEKTDSVDSITLVSILTASGEL-----AALEICLQLHGIAFEAGFPRYRSVQNCLISSY  398 (572)
Q Consensus       328 ~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  398 (572)
                      ..    .+++++|+..|++.. ..+   +...+..+...+...     ++.++|...++...+.+   +...+..+...|
T Consensus       266 ~~g~~~~~d~~~A~~~~~~a~-~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y  338 (490)
T 2xm6_A          266 EQGLAGAKEPLKALEWYRKSA-EQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIY  338 (490)
T ss_dssp             HHTTTSSCCHHHHHHHHHHHH-TTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HCCCCCCCCHHHHHHHHHHHH-HcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHH
Confidence            55    566666666666664 222   222333333333333     45555555555554433   223333344444


Q ss_pred             hhcC---ChHHHHHHHHHcCCCCCHhHHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc----
Q 046221          399 SKCG---NVDLAYIVFEEMGFLRDVVSWNTIIYGYGV----NGHGETALALYHKMTETGEVPDSSTYLSILNACGH----  467 (572)
Q Consensus       399 ~~~g---~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~----  467 (572)
                      ...|   +.++|.+.|++.-...+...+..+...|..    .+++++|...|++..+.|   +...+..|...|..    
T Consensus       339 ~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~  415 (490)
T 2xm6_A          339 FRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGV  415 (490)
T ss_dssp             HHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSS
T ss_pred             HhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCC
Confidence            4333   444555555444111234444444444444    445555555555554432   23344444444443    


Q ss_pred             cCChHHHHHHHHHhH
Q 046221          468 AGLTNDGLVIFNQMI  482 (572)
Q Consensus       468 ~g~~~~a~~~~~~~~  482 (572)
                      .+++++|...|+++.
T Consensus       416 ~~d~~~A~~~~~~A~  430 (490)
T 2xm6_A          416 ERDYVQAWAWFDTAS  430 (490)
T ss_dssp             CCCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHH
Confidence            445555555555544

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.77  E-value=5.5e-15  Score=146.20  Aligned_cols=365  Identities=12%  Similarity=0.010  Sum_probs=280.9

Q ss_pred             HHHHHHHHHHHhCCCCCCHhhHHHHHHHHhc----cCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHh----CCCHHH
Q 046221          132 QQAVLLFNFFRGSGLVPNAVTMLTVIRGCVA----LGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSC----LMDLDA  203 (572)
Q Consensus       132 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~  203 (572)
                      ..+++.+....+.|   +...+..+-..+..    .+++++|...++...+.|   +...+..|...|..    .++.++
T Consensus        24 ~~~~~~~~~~a~~g---~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~   97 (490)
T 2xm6_A           24 NVNLEQLKQKAESG---EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQ   97 (490)
T ss_dssp             -CCHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             hHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHH
Confidence            34567777666644   67777777777777    889999999999998864   56677888888888    899999


Q ss_pred             HHHHHhhcCC-CCcccHHHHHHHHHc----cCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcc----cCChHHHHHHH
Q 046221          204 AIQIFREMEC-KDVISWTRMMGLFVD----FEYAGDALKIFREMRKSRIICDTVALLNLISVNAI----LGDLKRGKQLH  274 (572)
Q Consensus       204 a~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~  274 (572)
                      |...|++..+ .+...+..|...|..    .+++++|...|++..+.|   +...+..+...+..    .++.++|...+
T Consensus        98 A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  174 (490)
T 2xm6_A           98 AVIWYKKAALKGLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWY  174 (490)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            9999988765 466778888888887    789999999999998875   45566666666665    78899999999


Q ss_pred             HHHHHhCCCCCcchHHHHHHHHHh----cCChhHHHHHHhccCC-CCcchHHHHHHHHHH----cCChHHHHHHHHHHHh
Q 046221          275 AQVVLGGLQSELRLSNSIIAMYSK----CGDLDSSRSVFNQITE-KSLVSWTAIISGYVQ----NGCAREALNQFIKMRQ  345 (572)
Q Consensus       275 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~  345 (572)
                      +...+.+   +...+..+...|..    .++.++|...|++..+ .+..++..+...|..    .+++++|..+|++.. 
T Consensus       175 ~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~-  250 (490)
T 2xm6_A          175 SKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSGDELGQLHLADMYYFGIGVTQDYTQSRVLFSQSA-  250 (490)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHH-
T ss_pred             HHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-
Confidence            9988765   56677778888887    7899999999988764 455677777777776    788999999999886 


Q ss_pred             cCCCCCCHhHHHHHHHHhcc----cccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhc-----CChHHHHHHHHHcCC
Q 046221          346 EKTDSVDSITLVSILTASGE----LAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKC-----GNVDLAYIVFEEMGF  416 (572)
Q Consensus       346 ~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----g~~~~A~~~~~~~~~  416 (572)
                      ..+   +...+..+...+..    .++.++|...++...+.+   +...+..+...|...     +++++|...+++.-.
T Consensus       251 ~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~  324 (490)
T 2xm6_A          251 EQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAE  324 (490)
T ss_dssp             TTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHH
T ss_pred             HCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHh
Confidence            432   34455555555555    788999999998887654   445666677777776     889999999988822


Q ss_pred             CCCHhHHHHHHHHHHhcC---ChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHhHHhcCCCC
Q 046221          417 LRDVVSWNTIIYGYGVNG---HGETALALYHKMTETGEVPDSSTYLSILNACGH----AGLTNDGLVIFNQMIEENKVKP  489 (572)
Q Consensus       417 ~~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~  489 (572)
                      ..+...+..+...|...|   ++++|+.+|++..+.   .+...+..+...|..    .+++++|..+|+++.+.    .
T Consensus       325 ~~~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~---~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~----~  397 (490)
T 2xm6_A          325 QGDATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK---GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQ----G  397 (490)
T ss_dssp             TTCHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----T
T ss_pred             cCCHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhC----C
Confidence            234567777777777756   788899999988885   356777788888877    78899999999988653    2


Q ss_pred             ChhHHHHHHHHHHh----hCChhHHHHHHHhccC-CCC
Q 046221          490 SQEHYGCVVDLLAR----AGCLSDASGLAGKLLE-GMG  522 (572)
Q Consensus       490 ~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~-~~~  522 (572)
                      +...+..|..+|.+    .+++++|...|++..+ .|+
T Consensus       398 ~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~  435 (490)
T 2xm6_A          398 LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDMN  435 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCC
T ss_pred             CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCC
Confidence            56677888888887    7899999999998876 433

>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=99.77  E-value=7.3e-17  Score=153.69  Aligned_cols=250  Identities=11%  Similarity=0.017  Sum_probs=122.3

Q ss_pred             hcCChhhHHH-HhccCCC-----C--ChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChH
Q 046221           17 KSGKIKEAEN-LFDEIPE-----K--NVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLE   88 (572)
Q Consensus        17 ~~~~~~~A~~-~~~~~~~-----~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~   88 (572)
                      -.|++++|+. .|++...     |  +...+..+...+...|++++|+..|+++.+.. +.+...+..+..++...|+++
T Consensus        37 ~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  115 (368)
T 1fch_A           37 WLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQEL  115 (368)
T ss_dssp             ---------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHH
Confidence            3355666666 5554332     1  23456666666666666666666666666553 334455666666666666666


Q ss_pred             HHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHH-------------
Q 046221           89 LARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLT-------------  155 (572)
Q Consensus        89 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-------------  155 (572)
                      +|...++.+.+..+          .+..++..+...+...|++++|.+.|+++.+.... +...+..             
T Consensus       116 ~A~~~~~~al~~~~----------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  184 (368)
T 1fch_A          116 LAISALRRCLELKP----------DNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPS  184 (368)
T ss_dssp             HHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC--------------
T ss_pred             HHHHHHHHHHhcCC----------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHH
Confidence            66666666666543          33455666666666666666666666666654311 1111110             


Q ss_pred             --HHHHHhccCChHHHHHHHHHHHHhcCCC-ChhHHhHHHHHHHhCCCHHHHHHHHhhcCC---CCcccHHHHHHHHHcc
Q 046221          156 --VIRGCVALGSRALCELIHGLTIKLGLIL-DVSVNNSVLDMYSCLMDLDAAIQIFREMEC---KDVISWTRMMGLFVDF  229 (572)
Q Consensus       156 --ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~  229 (572)
                        .+..+...|++++|...++.+++..... +..++..+...+.+.|++++|...|++...   .+..+|..+...+...
T Consensus       185 ~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~  264 (368)
T 1fch_A          185 KRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANG  264 (368)
T ss_dssp             -CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHc
Confidence              1222224455555555555555443111 344455555555555555555555554432   2334445555555555


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHH
Q 046221          230 EYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVL  279 (572)
Q Consensus       230 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  279 (572)
                      |++++|...|+++.+.. +.+...+..+..++...|++++|...++.+.+
T Consensus       265 g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  313 (368)
T 1fch_A          265 NQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALN  313 (368)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            55555555555544431 12233444444444444444444444444443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.75  E-value=2.5e-16  Score=143.48  Aligned_cols=225  Identities=9%  Similarity=-0.007  Sum_probs=141.6

Q ss_pred             HHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCC-CHhHHHHHHHHhccccc
Q 046221          290 NSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSV-DSITLVSILTASGELAA  368 (572)
Q Consensus       290 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~  368 (572)
                      ..+.++|...|+++.|...++....++..++..+...+...++.++|++.++++. ..+..| +...+..+...+...|+
T Consensus        38 ~~l~r~yi~~g~~~~al~~~~~~~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll-~~~~~P~~~~~~~~la~~~~~~g~  116 (291)
T 3mkr_A           38 VFLYRAYLAQRKYGVVLDEIKPSSAPELQAVRMFAEYLASHSRRDAIVAELDREM-SRSVDVTNTTFLLMAASIYFYDQN  116 (291)
T ss_dssp             HHHHHHHHHTTCHHHHHHHSCTTSCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHH-HSCCCCSCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHCCCHHHHHHHhcccCChhHHHHHHHHHHHcCCCcHHHHHHHHHHHH-hcccCCCCHHHHHHHHHHHHHCCC
Confidence            3455667777777777766665444444566666667777777777777777765 433323 34445555566667777


Q ss_pred             HHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCHhHH---HHHHHHHHhcCChHHHHHHHH
Q 046221          369 LEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDVVSW---NTIIYGYGVNGHGETALALYH  444 (572)
Q Consensus       369 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~---~~l~~~~~~~~~~~~A~~~~~  444 (572)
                      +++|.+.++.      +.+...+..++..+.+.|++++|.+.++++ ...|+....   ..++..+...|++++|..+|+
T Consensus       117 ~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~  190 (291)
T 3mkr_A          117 PDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAYYIFQ  190 (291)
T ss_dssp             HHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTHHHHHHHHHH
T ss_pred             HHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            7777777665      455666667777777777777777777776 333442211   112233334567777777777


Q ss_pred             HHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhH-HHHHHHhccC-CCC
Q 046221          445 KMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSD-ASGLAGKLLE-GMG  522 (572)
Q Consensus       445 ~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~-~~~  522 (572)
                      ++.+. .+.+...++.+..++.+.|++++|...|+++++..  +-+..++..++..+...|+..+ +.++++++.+ .|+
T Consensus       191 ~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~--p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~  267 (291)
T 3mkr_A          191 EMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD--SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRS  267 (291)
T ss_dssp             HHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCC
Confidence            77765 23455667777777777777777777777776544  3455567777777777777654 4567776665 444


Q ss_pred             hH
Q 046221          523 PN  524 (572)
Q Consensus       523 ~~  524 (572)
                      ..
T Consensus       268 ~~  269 (291)
T 3mkr_A          268 HP  269 (291)
T ss_dssp             CH
T ss_pred             Ch
Confidence            43

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.75  E-value=1.3e-16  Score=151.77  Aligned_cols=266  Identities=11%  Similarity=0.031  Sum_probs=173.2

Q ss_pred             ccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC---CCcchHHHHHHHH
Q 046221          251 TVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE---KSLVSWTAIISGY  327 (572)
Q Consensus       251 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~  327 (572)
                      ...+..+...+...|++++|...++.+.+.. +.+..++..+..+|.+.|++++|...|+++.+   .+..+|..+..+|
T Consensus        65 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  143 (365)
T 4eqf_A           65 WPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVSY  143 (365)
T ss_dssp             CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            3446666666677777777777777776654 34455666666666666666666666665542   2345566666666


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHH
Q 046221          328 VQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLA  407 (572)
Q Consensus       328 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  407 (572)
                      ...|++++|+..|+++....+..+  ..+..+                         ......+..+...+...|++++|
T Consensus       144 ~~~g~~~~A~~~~~~al~~~p~~~--~~~~~~-------------------------~~~~~~~~~l~~~~~~~g~~~~A  196 (365)
T 4eqf_A          144 TNTSHQQDACEALKNWIKQNPKYK--YLVKNK-------------------------KGSPGLTRRMSKSPVDSSVLEGV  196 (365)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCHHHH--CC--------------------------------------------CCHHHHHH
T ss_pred             HccccHHHHHHHHHHHHHhCccch--HHHhhh-------------------------ccchHHHHHHHHHHhhhhhHHHH
Confidence            666666666666666642111000  000000                         01122334456777888888888


Q ss_pred             HHHHHHc-CCCC---CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhH
Q 046221          408 YIVFEEM-GFLR---DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMI  482 (572)
Q Consensus       408 ~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  482 (572)
                      ...++++ ...|   +..++..+...|...|++++|+..|+++.+.  .| +..+|..+..+|...|++++|+..|++++
T Consensus       197 ~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  274 (365)
T 4eqf_A          197 KELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRAL  274 (365)
T ss_dssp             HHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            8888887 2222   5778888888888889999999999888884  44 56888888888999999999999999887


Q ss_pred             HhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CC-------------ChHHHHHHHHHHhhhcCCHHHHHHHHH
Q 046221          483 EENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GM-------------GPNIWRALLSGCVLHVGRFQDAEALRS  548 (572)
Q Consensus       483 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-------------~~~~~~~l~~~~~~~~g~~~~A~~~~~  548 (572)
                      +..  +.+...+..+..+|.+.|++++|.+.++++.. .|             +...|..+...+... |+.+.+..+.+
T Consensus       275 ~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~a~~~~~  351 (365)
T 4eqf_A          275 EIQ--PGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLM-DQPELFQAANL  351 (365)
T ss_dssp             HHC--TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHH-TCHHHHHHHHT
T ss_pred             hcC--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHc-CcHHHHHHHHH
Confidence            654  44577888888899999999999999988776 22             256788888877766 88888877655


Q ss_pred             H
Q 046221          549 G  549 (572)
Q Consensus       549 ~  549 (572)
                      +
T Consensus       352 ~  352 (365)
T 4eqf_A          352 G  352 (365)
T ss_dssp             T
T ss_pred             h
Confidence            4

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.74  E-value=5e-16  Score=147.65  Aligned_cols=274  Identities=11%  Similarity=-0.043  Sum_probs=207.7

Q ss_pred             CcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHH
Q 046221          215 DVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIA  294 (572)
Q Consensus       215 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  294 (572)
                      +...|..+...+.+.|++++|...|+++.+.. +.+..++..+...+...|++++|...++.+.+.. +.+..++..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            55679999999999999999999999998863 3467788899999999999999999999999876 556778999999


Q ss_pred             HHHhcCChhHHHHHHhccCCCCc---chHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHH
Q 046221          295 MYSKCGDLDSSRSVFNQITEKSL---VSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEI  371 (572)
Q Consensus       295 ~~~~~~~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  371 (572)
                      +|...|++++|...|+++.+.++   ..+..+.                          .....+..+...+...|++++
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~--------------------------~~~~~~~~l~~~~~~~g~~~~  195 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNPKYKYLVKNKK--------------------------GSPGLTRRMSKSPVDSSVLEG  195 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHHHHCC---------------------------------------------CCHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCccchHHHhhhc--------------------------cchHHHHHHHHHHhhhhhHHH
Confidence            99999999999999998764221   1111110                          112233344455566666666


Q ss_pred             HHHHHHHHHHhcCC-CchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 046221          372 CLQLHGIAFEAGFP-RYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTE  448 (572)
Q Consensus       372 a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  448 (572)
                      |...++.+.+.... .+...+..+...+...|++++|.+.+++.  ..+.+..+|..+..+|...|++++|+..|+++.+
T Consensus       196 A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  275 (365)
T 4eqf_A          196 VKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALE  275 (365)
T ss_dssp             HHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            66666666665422 15677788888888999999999999887  3334578899999999999999999999999988


Q ss_pred             cCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCC----------CChhHHHHHHHHHHhhCChhHHHHHHHhc
Q 046221          449 TGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVK----------PSQEHYGCVVDLLARAGCLSDASGLAGKL  517 (572)
Q Consensus       449 ~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~----------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  517 (572)
                      .  .| +..++..+..+|...|++++|...|+++++...-.          .+..+|..+..++...|+.+.|..+.++-
T Consensus       276 ~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  353 (365)
T 4eqf_A          276 I--QPGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLGD  353 (365)
T ss_dssp             H--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTTC
T ss_pred             c--CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHhh
Confidence            4  55 46889999999999999999999999987643110          13568999999999999999999888764


Q ss_pred             c
Q 046221          518 L  518 (572)
Q Consensus       518 ~  518 (572)
                      .
T Consensus       354 l  354 (365)
T 4eqf_A          354 L  354 (365)
T ss_dssp             C
T ss_pred             H
Confidence            4

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.74  E-value=1.4e-15  Score=138.52  Aligned_cols=251  Identities=10%  Similarity=0.009  Sum_probs=204.9

Q ss_pred             HHHHHhcCChhHHHHHHhccCCCCc----chHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhccccc
Q 046221          293 IAMYSKCGDLDSSRSVFNQITEKSL----VSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAA  368 (572)
Q Consensus       293 ~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  368 (572)
                      ++.....|+++.|+..++.....++    .....+..+|...|+++.|+..++.     ..+|+..++..+...+...++
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~-----~~~~~~~a~~~la~~~~~~~~   80 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP-----SSAPELQAVRMFAEYLASHSR   80 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT-----TSCHHHHHHHHHHHHHHCSTT
T ss_pred             HHHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc-----cCChhHHHHHHHHHHHcCCCc
Confidence            3455677999999999988765443    2445578899999999999976533     356677888899999999999


Q ss_pred             HHHHHHHHHHHHHhcCCC-chhHHHHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 046221          369 LEICLQLHGIAFEAGFPR-YRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMT  447 (572)
Q Consensus       369 ~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  447 (572)
                      .+.|.+.++.+...+..| +...+..+..++...|++++|++.+++   +.+...+..++..|.+.|++++|.+.|+++.
T Consensus        81 ~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~---~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~  157 (291)
T 3mkr_A           81 RDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ---GDSLECMAMTVQILLKLDRLDLARKELKKMQ  157 (291)
T ss_dssp             HHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT---CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999999998877544 566777788999999999999999998   4678889999999999999999999999999


Q ss_pred             hcCCCCCHHHH---HHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCC
Q 046221          448 ETGEVPDSSTY---LSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMG  522 (572)
Q Consensus       448 ~~g~~p~~~~~---~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~  522 (572)
                      +.  .|+....   ..++..+...|++++|..+|+++++..  +.+...++.+..++.+.|++++|.+.++++..  +.+
T Consensus       158 ~~--~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~--p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~  233 (291)
T 3mkr_A          158 DQ--DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC--SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGH  233 (291)
T ss_dssp             HH--CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             hh--CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            85  5664321   223344556699999999999998764  67888999999999999999999999999887  556


Q ss_pred             hHHHHHHHHHHhhhcCCHHH-HHHHHHHHHhCCCC
Q 046221          523 PNIWRALLSGCVLHVGRFQD-AEALRSGSQKKGII  556 (572)
Q Consensus       523 ~~~~~~l~~~~~~~~g~~~~-A~~~~~~m~~~~~~  556 (572)
                      +.++..+...+... |+.++ +.++++++.+..+.
T Consensus       234 ~~~l~~l~~~~~~~-g~~~eaa~~~~~~~~~~~P~  267 (291)
T 3mkr_A          234 PETLINLVVLSQHL-GKPPEVTNRYLSQLKDAHRS  267 (291)
T ss_dssp             HHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhCCC
Confidence            77888888777776 88876 57899998876654

>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=99.73  E-value=1.7e-15  Score=141.53  Aligned_cols=224  Identities=12%  Similarity=0.011  Sum_probs=124.9

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHhccCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHH-----
Q 046221          288 LSNSIIAMYSKCGDLDSSRSVFNQITE---KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSI-----  359 (572)
Q Consensus       288 ~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l-----  359 (572)
                      .+..+..++...|++++|...|+++.+   .+...+..+...+...|++++|...++++....+..+  ..+..+     
T Consensus        57 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~~~~~~  134 (327)
T 3cv0_A           57 AWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQYE--QLGSVNLQADV  134 (327)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTT--TC---------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccH--HHHHHHhHHHH
Confidence            334444444445555555544444331   2334455555566666666666666666552221111  111111     


Q ss_pred             ---------HH-HhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHH
Q 046221          360 ---------LT-ASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTII  427 (572)
Q Consensus       360 ---------l~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~  427 (572)
                               .. .+...|+++.|...++.+.+.. +.+...+..+...+...|++++|.+.++++  ..+.+...+..+.
T Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  213 (327)
T 3cv0_A          135 DIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLG  213 (327)
T ss_dssp             -----------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHH
Confidence                     11 2556666677777766666554 335556666666666677777777666666  2223455666666


Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCC------------ChhHH
Q 046221          428 YGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKP------------SQEHY  494 (572)
Q Consensus       428 ~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~------------~~~~~  494 (572)
                      ..|...|++++|...++++.+.  .| +..++..+...+...|++++|.+.++++++..  +.            +...+
T Consensus       214 ~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~  289 (327)
T 3cv0_A          214 ATLANGNRPQEALDAYNRALDI--NPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQ--VGGTTPTGEASREATRSMW  289 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--TTSCC-----CCTHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CccccccccchhhcCHHHH
Confidence            6666667777777777666663  23 34666666666666677777777666665433  11            24456


Q ss_pred             HHHHHHHHhhCChhHHHHHHHhcc
Q 046221          495 GCVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       495 ~~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                      ..+..++.+.|++++|..++++..
T Consensus       290 ~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          290 DFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHH
Confidence            666666666666666666666544

>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=99.71  E-value=1.5e-15  Score=142.00  Aligned_cols=265  Identities=9%  Similarity=-0.025  Sum_probs=189.6

Q ss_pred             ChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCC
Q 046221           35 NVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPY  114 (572)
Q Consensus        35 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  114 (572)
                      +...|..+...+...|++++|+.+|+++.+.. +.+...+..+..++...|++++|...++.+.+..+          .+
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~----------~~   88 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP----------KD   88 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TC
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc----------CC
Confidence            44566777778888888888888888887764 44556777777788888888888888888887754          34


Q ss_pred             ceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHH--------------HH-HHhccCChHHHHHHHHHHHHh
Q 046221          115 LVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTV--------------IR-GCVALGSRALCELIHGLTIKL  179 (572)
Q Consensus       115 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l--------------l~-~~~~~~~~~~a~~~~~~~~~~  179 (572)
                      ...+..+...+...|++++|.+.++++.+.... +...+..+              .. .+...|++++|...++.+++.
T Consensus        89 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  167 (327)
T 3cv0_A           89 IAVHAALAVSHTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEM  167 (327)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TTTC--------------------CCTTSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhh
Confidence            567788888888888888888888888775321 22222222              22 266777888888888888876


Q ss_pred             cCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCC---CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHH
Q 046221          180 GLILDVSVNNSVLDMYSCLMDLDAAIQIFREMEC---KDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLN  256 (572)
Q Consensus       180 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  256 (572)
                      . +.+...+..+...+.+.|++++|...+++...   .+..+|..+...+...|++++|...+++..+.. +.+...+..
T Consensus       168 ~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~  245 (327)
T 3cv0_A          168 N-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYN  245 (327)
T ss_dssp             S-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             C-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHH
Confidence            5 44667788888888888888888888887654   345677788888888888888888888877652 234556777


Q ss_pred             HHHHhcccCChHHHHHHHHHHHHhCCCC-----------CcchHHHHHHHHHhcCChhHHHHHHhccC
Q 046221          257 LISVNAILGDLKRGKQLHAQVVLGGLQS-----------ELRLSNSIIAMYSKCGDLDSSRSVFNQIT  313 (572)
Q Consensus       257 ll~~~~~~~~~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  313 (572)
                      +...+...|++++|...++.+.+.....           +...+..+..++.+.|++++|..++++..
T Consensus       246 l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          246 MAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            7777777888888888887777654331           35566667777777777777777776543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.71  E-value=1.2e-14  Score=143.53  Aligned_cols=386  Identities=9%  Similarity=-0.060  Sum_probs=163.6

Q ss_pred             eeHHHHHHHHHhCCChHHHHHHHHHHHhC-----C--CCC-CHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhH
Q 046221          116 VSCNAIVAGFINNKLFQQAVLLFNFFRGS-----G--LVP-NAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSV  187 (572)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-----~--~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  187 (572)
                      ..||.|...+...|++++|++.|++..+.     +  ..| ...+|+.+..+|...|++++|...+++..+..       
T Consensus        52 ~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~-------  124 (472)
T 4g1t_A           52 TMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVC-------  124 (472)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-------
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh-------
Confidence            34666666666666666666666654321     0  011 23345555555555555555555555444321       


Q ss_pred             HhHHHHHHHhCCCHHHHHHHHhhcCC----CCcccHHHHHHHHHc--cCCHHHHHHHHHHHHhCCCCCCcc-chHHHHHH
Q 046221          188 NNSVLDMYSCLMDLDAAIQIFREMEC----KDVISWTRMMGLFVD--FEYAGDALKIFREMRKSRIICDTV-ALLNLISV  260 (572)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~li~~~~~--~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~  260 (572)
                                           .....    ....++..+..++..  .+++++|...|++..+.  .|+.. .+..+..+
T Consensus       125 ---------------------~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~  181 (472)
T 4g1t_A          125 ---------------------EKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAIA  181 (472)
T ss_dssp             ---------------------HHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHHH
T ss_pred             ---------------------HhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence                                 00000    011223322222222  23455555555555543  23322 22222211


Q ss_pred             ---hcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHh----cCChhHHHHHHhccCC---CCcchHHHHHHHHHHc
Q 046221          261 ---NAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSK----CGDLDSSRSVFNQITE---KSLVSWTAIISGYVQN  330 (572)
Q Consensus       261 ---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~  330 (572)
                         +...++.++|...++...+.. +.+..++..+...+..    .|++++|.+.+++...   .+...+..+...|...
T Consensus       182 ~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~  260 (472)
T 4g1t_A          182 SYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRK  260 (472)
T ss_dssp             HHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHT
T ss_pred             HHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHc
Confidence               223344455555555555443 2233333333333322    3455566666655432   2334556666666666


Q ss_pred             CChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHH
Q 046221          331 GCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIV  410 (572)
Q Consensus       331 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  410 (572)
                      |++++|+..+++..+..  +-+..++..+...+...+....+.                ............+..+.|...
T Consensus       261 ~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~y~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~A~~~  322 (472)
T 4g1t_A          261 DEPDKAIELLKKALEYI--PNNAYLHCQIGCCYRAKVFQVMNL----------------RENGMYGKRKLLELIGHAVAH  322 (472)
T ss_dssp             TCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHC----------------------CHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHhC--CChHHHHHHHHHHHHHHHHHhhhH----------------HHHHHHHHHHHHhhHHHHHHH
Confidence            66667666666665222  222333333332221110000000                000000011112234566666


Q ss_pred             HHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH--HHHHHHHH-HHhccCChHHHHHHHHHhHHhc
Q 046221          411 FEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS--STYLSILN-ACGHAGLTNDGLVIFNQMIEEN  485 (572)
Q Consensus       411 ~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~--~~~~~l~~-~~~~~g~~~~a~~~~~~~~~~~  485 (572)
                      +++.  ..+.+...+..+...|...|++++|+..|++..+....|..  ..+..+.. .....|++++|+..|+++++  
T Consensus       323 ~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~--  400 (472)
T 4g1t_A          323 LKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK--  400 (472)
T ss_dssp             HHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH--
T ss_pred             HHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--
Confidence            6665  12233455666777777777777777777777764322211  12222222 23456777777777777764  


Q ss_pred             CCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCCCCCceeE
Q 046221          486 KVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGIIKIPGISF  563 (572)
Q Consensus       486 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~  563 (572)
                       +.|+.......         ...+..++++...  +.++.+|..+...+... |++++|++.|++..+.+...+...+|
T Consensus       401 -i~~~~~~~~~~---------~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~-g~~~~A~~~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          401 -INQKSREKEKM---------KDKLQKIAKMRLSKNGADSEALHVLAFLQELN-EKMQQADEDSERGLESGSLIPSASSW  469 (472)
T ss_dssp             -SCCCCHHHHHH---------HHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHH-HHCC----------------------
T ss_pred             -cCcccHHHHHH---------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhcCCCCCcHhhc
Confidence             33443322211         2233344444433  44555666666666655 77777777777777766655555555

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.71  E-value=1.4e-17  Score=166.91  Aligned_cols=151  Identities=13%  Similarity=0.100  Sum_probs=124.2

Q ss_pred             cchHHHHHHHHcCCCChHHHHHHHHHHHH---hcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCC
Q 046221           71 SFTMVGVLVAAAGLQNLELARSIHGLMVK---FGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLV  147 (572)
Q Consensus        71 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~  147 (572)
                      ..||+++|.+||+.|++++|..+|+.|.+   .|.         .||+.+||+||.+|++.|++++|.++|++|.+.|+.
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~---------~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~  197 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRK---------LLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLT  197 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHT---------TCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCC---------CCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Confidence            34899999999999999999999988764   466         499999999999999999999999999999999999


Q ss_pred             CCHhhHHHHHHHHhccCCh-HHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCC-----CCcccHHH
Q 046221          148 PNAVTMLTVIRGCVALGSR-ALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMEC-----KDVISWTR  221 (572)
Q Consensus       148 p~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~  221 (572)
                      ||..||+++|.++++.|+. +.|.++|++|.+.|+.||..+|+.++....+.+-++...++...+..     +...+...
T Consensus       198 PDvvTYntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~L  277 (1134)
T 3spa_A          198 PDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKL  277 (1134)
T ss_dssp             CCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTT
T ss_pred             CcHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHH
Confidence            9999999999999999985 78999999999999999999999999877665434333333333321     12344455


Q ss_pred             HHHHHHccC
Q 046221          222 MMGLFVDFE  230 (572)
Q Consensus       222 li~~~~~~~  230 (572)
                      |.+.|.+.+
T Consensus       278 L~dl~s~d~  286 (1134)
T 3spa_A          278 LRDVYAKDG  286 (1134)
T ss_dssp             THHHHCCCS
T ss_pred             HHHHHccCC
Confidence            666666655

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.71  E-value=1.2e-17  Score=167.42  Aligned_cols=117  Identities=15%  Similarity=0.151  Sum_probs=89.5

Q ss_pred             chhHHHHHHHHhhhcCChHHHHHHHHHc------CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHH
Q 046221          387 YRSVQNCLISSYSKCGNVDLAYIVFEEM------GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLS  460 (572)
Q Consensus       387 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~  460 (572)
                      -..+|+++|++||+.|++++|.++|++|      |+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||++
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            3457788888888888888888887665      5678888888888888888888888888888888888888888888


Q ss_pred             HHHHHhccCCh-HHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhh
Q 046221          461 ILNACGHAGLT-NDGLVIFNQMIEENKVKPSQEHYGCVVDLLARA  504 (572)
Q Consensus       461 l~~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  504 (572)
                      +|.++++.|+. ++|.++|++|. ..|+.||..+|++++....+.
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~-~kG~~PD~vtY~~ll~~~eR~  249 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMS-QEGLKLQALFTAVLLSEEDRA  249 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHH-HHTCCSHHHHHHSCCCHHHHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHH-HcCCCCChhhcccccChhhHH
Confidence            88888887764 67778888884 667888888887777655544

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.70  E-value=3.6e-15  Score=147.19  Aligned_cols=287  Identities=8%  Similarity=-0.064  Sum_probs=151.4

Q ss_pred             ccHHHHHHHHHccCCHHHHHHHHHHHHhCC------CCC-CccchHHHHHHhc--ccCChHHHHHHHHHHHHhCCCCCcc
Q 046221          217 ISWTRMMGLFVDFEYAGDALKIFREMRKSR------IIC-DTVALLNLISVNA--ILGDLKRGKQLHAQVVLGGLQSELR  287 (572)
Q Consensus       217 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------~~p-~~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~  287 (572)
                      .+|+.+..+|...|++++|...+++..+..      ..+ ...++.....++.  ..+++++|...|+...+.. +.++.
T Consensus        95 ~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~  173 (472)
T 4g1t_A           95 VTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPE  173 (472)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHH
Confidence            456666666666677777666666554320      111 1223333333332  2346777777777777664 22333


Q ss_pred             hHHHHHHH---HHhcCChhHHHHHHhccCC---CCcchHHHHHHHHHH----cCChHHHHHHHHHHHhcCCCCCCHhHHH
Q 046221          288 LSNSIIAM---YSKCGDLDSSRSVFNQITE---KSLVSWTAIISGYVQ----NGCAREALNQFIKMRQEKTDSVDSITLV  357 (572)
Q Consensus       288 ~~~~l~~~---~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~  357 (572)
                      .+..+..+   +...++.++|++.+++..+   .+...+..+...+..    .+++++|.+.+++....  .+.+...+.
T Consensus       174 ~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~--~~~~~~~~~  251 (472)
T 4g1t_A          174 FTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEK--APGVTDVLR  251 (472)
T ss_dssp             HHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHH--CSSCHHHHH
T ss_pred             HHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHh--CccHHHHHH
Confidence            33333333   2334555666666655432   223334333333332    34455666666655422  223344455


Q ss_pred             HHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChH
Q 046221          358 SILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGE  437 (572)
Q Consensus       358 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  437 (572)
                      .+...+...|+++.|...++...+.. |.+...+..+..+|...+....+      ... ..      ........+..+
T Consensus       252 ~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~~~~~~~------~~~-~~------~~~~~~~~~~~~  317 (472)
T 4g1t_A          252 SAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRAKVFQVMN------LRE-NG------MYGKRKLLELIG  317 (472)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHH------C-------------CHHHHHHHHH
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHhhh------HHH-HH------HHHHHHHHhhHH
Confidence            55555555566666666555555443 23333444444333221110000      000 00      000011123467


Q ss_pred             HHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChh----HHHHHHH-HHHhhCChhHHH
Q 046221          438 TALALYHKMTETGEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQE----HYGCVVD-LLARAGCLSDAS  511 (572)
Q Consensus       438 ~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~----~~~~l~~-~~~~~g~~~~A~  511 (572)
                      .|...+++..+.  .|+ ..++..+...+...|++++|+..|+++++..   |+..    .+..+.. .+...|++++|+
T Consensus       318 ~A~~~~~~a~~~--~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~Ai  392 (472)
T 4g1t_A          318 HAVAHLKKADEA--NDNLFRVCSILASLHALADQYEEAEYYFQKEFSKE---LTPVAKQLLHLRYGNFQLYQMKCEDKAI  392 (472)
T ss_dssp             HHHHHHHHHHHH--CTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSC---CCHHHHHHHHHHHHHHHHHTSSCHHHHH
T ss_pred             HHHHHHHHHhhc--CCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcC---CCChHHHHHHHHHHHHHHHHCCCHHHHH
Confidence            888999998884  454 4788889999999999999999999998543   3322    2333333 235789999999


Q ss_pred             HHHHhccC-CCChHH
Q 046221          512 GLAGKLLE-GMGPNI  525 (572)
Q Consensus       512 ~~~~~~~~-~~~~~~  525 (572)
                      ..+++... .|+...
T Consensus       393 ~~y~kal~i~~~~~~  407 (472)
T 4g1t_A          393 HHFIEGVKINQKSRE  407 (472)
T ss_dssp             HHHHHHHHSCCCCHH
T ss_pred             HHHHHHHhcCcccHH
Confidence            99999876 555443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.62  E-value=7.1e-14  Score=125.50  Aligned_cols=218  Identities=13%  Similarity=0.024  Sum_probs=104.8

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCC--Cc----hhHHHH
Q 046221          320 WTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFP--RY----RSVQNC  393 (572)
Q Consensus       320 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~~  393 (572)
                      +..+...+...|++++|+..|++..+..   .+...+..+...+...|+++.|...++...+....  ++    ...+..
T Consensus         8 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (258)
T 3uq3_A            8 EKAEGNKFYKARQFDEAIEHYNKAWELH---KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFAR   84 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS---CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhh---ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHH
Confidence            3334444444444444444444444222   33444444444444445555555444444432211  11    344455


Q ss_pred             HHHHhhhcCChHHHHHHHHHc-CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCCh
Q 046221          394 LISSYSKCGNVDLAYIVFEEM-GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD-SSTYLSILNACGHAGLT  471 (572)
Q Consensus       394 l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~  471 (572)
                      +...+...|++++|...+++. ...|+.       ..+...|++++|...++++..  ..|+ ...+..+...+...|++
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~~~~~-------~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~  155 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTEHRTA-------DILTKLRNAEKELKKAEAEAY--VNPEKAEEARLEGKEYFTKSDW  155 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCCH-------HHHHHHHHHHHHHHHHHHHHH--CCHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCchh-------HHHHHHhHHHHHHHHHHHHHH--cCcchHHHHHHHHHHHHHhcCH
Confidence            555555555555555555555 222332       223334455555555555555  2332 24455555555555555


Q ss_pred             HHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCChHHHHHHHHHHhhhcCCHHHHHHHHHH
Q 046221          472 NDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMGPNIWRALLSGCVLHVGRFQDAEALRSG  549 (572)
Q Consensus       472 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~  549 (572)
                      ++|...++++++..  +.+...+..+..++.+.|++++|...++++..  +.++..|..+...+... |++++|...+++
T Consensus       156 ~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~  232 (258)
T 3uq3_A          156 PNAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAV-KEYASALETLDA  232 (258)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC--cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHH-hhHHHHHHHHHH
Confidence            55555555555432  23344555555555555555555555555544  22334444444444444 555555555555


Q ss_pred             HHh
Q 046221          550 SQK  552 (572)
Q Consensus       550 m~~  552 (572)
                      ..+
T Consensus       233 a~~  235 (258)
T 3uq3_A          233 ART  235 (258)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.62  E-value=2.4e-13  Score=132.26  Aligned_cols=371  Identities=12%  Similarity=0.046  Sum_probs=228.0

Q ss_pred             HHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCH---HHHHHHHhhcCCCCcccHHHHHHHHHccC----
Q 046221          158 RGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDL---DAAIQIFREMECKDVISWTRMMGLFVDFE----  230 (572)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~li~~~~~~~----  230 (572)
                      ..+.+.|++++|.++|++..+.|   +...+..|...|...|+.   ++|...|++..+.++..+..+...+...+    
T Consensus        11 ~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~~~   87 (452)
T 3e4b_A           11 NEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGATE   87 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC----------------------------CHHHHHHHHHTC--CCH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCCCC
Confidence            33445566666666666665554   223333444445555666   77777777776666666777776555544    


Q ss_pred             -CHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChH---HHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCCh----
Q 046221          231 -YAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLK---RGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDL----  302 (572)
Q Consensus       231 -~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----  302 (572)
                       ++++|...|++..+.|.   ...+..+...+...+..+   .+.+.+......|   +......+...|...+.+    
T Consensus        88 ~~~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~~~  161 (452)
T 3e4b_A           88 AEHHEAESLLKKAFANGE---GNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTYDQHL  161 (452)
T ss_dssp             HHHHHHHHHHHHHHHTTC---SSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCGGGGH
T ss_pred             cCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcccCH
Confidence             67788888888877653   235555555555444333   3444444444444   345566677778777744    


Q ss_pred             hHHHHHHhccCCCCcchHHHHHHHHHHcC---ChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhccc----ccHHHHHHH
Q 046221          303 DSSRSVFNQITEKSLVSWTAIISGYVQNG---CAREALNQFIKMRQEKTDSVDSITLVSILTASGEL----AALEICLQL  375 (572)
Q Consensus       303 ~~a~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~----~~~~~a~~~  375 (572)
                      +.+..++......++..+..+...|...|   +.++|++.|++.. ..+ +++...+..+...+...    ++.++|..+
T Consensus       162 ~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa-~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~  239 (452)
T 3e4b_A          162 DDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGV-SRG-TVTAQRVDSVARVLGDATLGTPDEKTAQAL  239 (452)
T ss_dssp             HHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-HTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHH-HCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHH
Confidence            44555666666777778889999999999   8999999999986 433 44555445555566554    689999999


Q ss_pred             HHHHHHhcCCCchhHHHHHHHH-h--hhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcC-----ChHHHHHHHHHHH
Q 046221          376 HGIAFEAGFPRYRSVQNCLISS-Y--SKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNG-----HGETALALYHKMT  447 (572)
Q Consensus       376 ~~~~~~~~~~~~~~~~~~l~~~-~--~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~A~~~~~~~~  447 (572)
                      |+... .   -++..+..+... +  ...+++++|.+.|++.-..-+...+..|...|. .|     ++++|...|++..
T Consensus       240 ~~~aa-~---g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa  314 (452)
T 3e4b_A          240 LEKIA-P---GYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAADQPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV  314 (452)
T ss_dssp             HHHHG-G---GSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT
T ss_pred             HHHHc-C---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh
Confidence            98877 3   345555666665 3  468999999999998822236677777777776 44     8999999999887


Q ss_pred             hcCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh----hCChhHHHHHHHhccC
Q 046221          448 ETGEVPDSSTYLSILNACGH----AGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLAR----AGCLSDASGLAGKLLE  519 (572)
Q Consensus       448 ~~g~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~  519 (572)
                       .   -+...+..|...|..    ..++++|..+|+++.+ .|   +......|..+|..    ..+..+|..++++..+
T Consensus       315 -~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~-~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~  386 (452)
T 3e4b_A          315 -G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAAR-NG---QNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKA  386 (452)
T ss_dssp             -T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHT-TT---CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHT
T ss_pred             -C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHh-hC---hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHH
Confidence             3   356677777777665    4489999999999864 33   34456677777764    4589999999999887


Q ss_pred             CCChHHHHHH--HHHHhhhcCCHHHHHHHHHHHHhC
Q 046221          520 GMGPNIWRAL--LSGCVLHVGRFQDAEALRSGSQKK  553 (572)
Q Consensus       520 ~~~~~~~~~l--~~~~~~~~g~~~~A~~~~~~m~~~  553 (572)
                      ..++..-..+  +..... .++.++|..+.++-.+.
T Consensus       387 ~g~~~a~~~l~~l~~~~~-~~~~~~a~~~~~~~~~~  421 (452)
T 3e4b_A          387 QDTPEANDLATQLEAPLT-PAQRAEGQRLVQQELAA  421 (452)
T ss_dssp             TCCHHHHHHHHHHHTTCC-HHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhCC-HHHHHHHHHHHHHHHHh
Confidence            4444332222  222222 35677777777765543

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.59  E-value=5e-14  Score=122.45  Aligned_cols=192  Identities=16%  Similarity=0.084  Sum_probs=106.7

Q ss_pred             CcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHH
Q 046221          316 SLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLI  395 (572)
Q Consensus       316 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  395 (572)
                      +...+..+...+.+.|++++|+..|++..                                    +.. |.+...+..+.
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al------------------------------------~~~-p~~~~a~~~lg   46 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERAL------------------------------------KEN-PQDPEALYWLA   46 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHH------------------------------------TTS-SSCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHH------------------------------------HhC-CCCHHHHHHHH
Confidence            33455555566666666666666666654                                    221 23344444555


Q ss_pred             HHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhc-----------CChHHHHHHHHHHHhcCCCCC-HHHHHHH
Q 046221          396 SSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVN-----------GHGETALALYHKMTETGEVPD-SSTYLSI  461 (572)
Q Consensus       396 ~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~-----------~~~~~A~~~~~~~~~~g~~p~-~~~~~~l  461 (572)
                      .++.+.|++++|+..+++. ...| +...+..+...+...           |++++|+..|++..+  +.|+ ...+..+
T Consensus        47 ~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~--~~P~~~~~~~~l  124 (217)
T 2pl2_A           47 RTQLKLGLVNPALENGKTLVARTPRYLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAER--VNPRYAPLHLQR  124 (217)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHH--hCcccHHHHHHH
Confidence            5555566666666665555 2222 344555555566665           777777777777766  3453 4666666


Q ss_pred             HHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCChHHHHHHHHHHhhhcCC
Q 046221          462 LNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMGPNIWRALLSGCVLHVGR  539 (572)
Q Consensus       462 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~~g~  539 (572)
                      ..++...|++++|+..|+++++..   .+...+..+..+|...|++++|...++++.+  +.++..+..+...+... |+
T Consensus       125 g~~~~~~g~~~~A~~~~~~al~~~---~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~-g~  200 (217)
T 2pl2_A          125 GLVYALLGERDKAEASLKQALALE---DTPEIRSALAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLK-GK  200 (217)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC---CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC----
T ss_pred             HHHHHHcCChHHHHHHHHHHHhcc---cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHc-cC
Confidence            777777777777777777776443   4566666777777777777777777777665  33444555555555544 77


Q ss_pred             HHHHHHHHHHH
Q 046221          540 FQDAEALRSGS  550 (572)
Q Consensus       540 ~~~A~~~~~~m  550 (572)
                      +++|...+++.
T Consensus       201 ~~~A~~~~~~~  211 (217)
T 2pl2_A          201 AEEAARAAALE  211 (217)
T ss_dssp             -----------
T ss_pred             HHHHHHHHHHH
Confidence            77777766654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.59  E-value=1.8e-13  Score=118.98  Aligned_cols=206  Identities=11%  Similarity=0.009  Sum_probs=133.4

Q ss_pred             CCCcchHHHHHHHHHhcCChhHHHHHHhccCCC---CcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHH
Q 046221          283 QSELRLSNSIIAMYSKCGDLDSSRSVFNQITEK---SLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSI  359 (572)
Q Consensus       283 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  359 (572)
                      +++...+..+...+.+.|++++|...|++..+.   +...+..+...+.+.|++++|+..+++..+..  +.+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART--PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHH
Confidence            567778888999999999999999999987653   45678888999999999999999999987332  2233344444


Q ss_pred             HHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChH
Q 046221          360 LTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGE  437 (572)
Q Consensus       360 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~  437 (572)
                      ...+...+.              . ...         .+...|++++|+..+++. ...| +...|..+...|...|+++
T Consensus        80 g~~~~~~~~--------------~-~~~---------~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~  135 (217)
T 2pl2_A           80 SEAYVALYR--------------Q-AED---------RERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERD  135 (217)
T ss_dssp             HHHHHHHHH--------------T-CSS---------HHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHhhh--------------h-hhh---------hcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChH
Confidence            433333300              0 000         001127777777777766 3233 4566777777788888888


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhc
Q 046221          438 TALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKL  517 (572)
Q Consensus       438 ~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  517 (572)
                      +|+..|++..+..  .+...+..+..++...|++++|+..|+++++..  |.+...+..+..++.+.|++++|.+.+++.
T Consensus       136 ~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          136 KAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQA--PKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            8888888887765  666777778888888888888888888887544  445567777778888888888888777765


Q ss_pred             c
Q 046221          518 L  518 (572)
Q Consensus       518 ~  518 (572)
                      .
T Consensus       212 ~  212 (217)
T 2pl2_A          212 H  212 (217)
T ss_dssp             -
T ss_pred             h
Confidence            3

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.58  E-value=7.8e-13  Score=119.76  Aligned_cols=237  Identities=14%  Similarity=0.030  Sum_probs=169.0

Q ss_pred             HHHHHHHHhcCChhHHHHHHhccCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCC--HhHHHHHHHHhc
Q 046221          290 NSIIAMYSKCGDLDSSRSVFNQITE---KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVD--SITLVSILTASG  364 (572)
Q Consensus       290 ~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~ll~~~~  364 (572)
                      ......+...|++++|...|++..+   .+...+..+..++...|++++|+..+++.. ..+..++  ...+..+...+.
T Consensus         7 ~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~-~~~~~~~~~~~~~~~lg~~~~   85 (272)
T 3u4t_A            7 FRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYF-SKVNATKAKSADFEYYGKILM   85 (272)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHH-TTSCTTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHH-hccCchhHHHHHHHHHHHHHH
Confidence            3445566666777777777666542   234467777777777777777777777776 3322222  223666777777


Q ss_pred             ccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHH
Q 046221          365 ELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALAL  442 (572)
Q Consensus       365 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~  442 (572)
                      ..|+++.|...++...+.. +.+...+..+..+|...|++++|...+++. ...| +...|..+...+...+++++|...
T Consensus        86 ~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  164 (272)
T 3u4t_A           86 KKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKADSS  164 (272)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777788877777777754 446678888999999999999999999988 4444 466677776344445699999999


Q ss_pred             HHHHHhcCCCCC-HHHHHHHHHHHhccCC---hHHHHHHHHHhHHhcCCCCCh------hHHHHHHHHHHhhCChhHHHH
Q 046221          443 YHKMTETGEVPD-SSTYLSILNACGHAGL---TNDGLVIFNQMIEENKVKPSQ------EHYGCVVDLLARAGCLSDASG  512 (572)
Q Consensus       443 ~~~~~~~g~~p~-~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~A~~  512 (572)
                      |+++.+.  .|+ ...+..+..++...|+   +++|...++++++...-.|+.      ..+..+...|.+.|++++|.+
T Consensus       165 ~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  242 (272)
T 3u4t_A          165 FVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADA  242 (272)
T ss_dssp             HHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999984  554 5777788888888888   888999999887654333442      477788889999999999999


Q ss_pred             HHHhccC-CCC-hHHHHHHH
Q 046221          513 LAGKLLE-GMG-PNIWRALL  530 (572)
Q Consensus       513 ~~~~~~~-~~~-~~~~~~l~  530 (572)
                      .++++.+ .|+ +..+..+.
T Consensus       243 ~~~~al~~~p~~~~a~~~l~  262 (272)
T 3u4t_A          243 AWKNILALDPTNKKAIDGLK  262 (272)
T ss_dssp             HHHHHHHHCTTCHHHHHHHC
T ss_pred             HHHHHHhcCccHHHHHHHhh
Confidence            9999887 554 44444443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.58  E-value=4.7e-13  Score=130.17  Aligned_cols=347  Identities=10%  Similarity=-0.009  Sum_probs=233.6

Q ss_pred             HHHHHHhCCCHHHHHHHHhhcCC-CCcccHHHHHHHHHccCCH---HHHHHHHHHHHhCCCCCCccchHHHHHHhcccC-
Q 046221          191 VLDMYSCLMDLDAAIQIFREMEC-KDVISWTRMMGLFVDFEYA---GDALKIFREMRKSRIICDTVALLNLISVNAILG-  265 (572)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~li~~~~~~~~~---~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-  265 (572)
                      +...+.+.|++++|.++|++..+ .+...+..|...|...|++   ++|...|++..+.    ++..+..+...+...+ 
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~~~~   84 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELGYSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAAKPG   84 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTCCTGGGTCC--------------------------------CHHHHHHHHHTC--
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHhCCC
Confidence            45667778899999999998765 4666777777777778888   8999999998754    4555555555343433 


Q ss_pred             ----ChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhH---HHHHHhccC-CCCcchHHHHHHHHHHcCChHHHH
Q 046221          266 ----DLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDS---SRSVFNQIT-EKSLVSWTAIISGYVQNGCAREAL  337 (572)
Q Consensus       266 ----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~  337 (572)
                          +.++|...++...+.|.   ...+..|...|...+..++   +...+.... ..+...+..+...|...+.++++.
T Consensus        85 ~~~~~~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~~~  161 (452)
T 3e4b_A           85 ATEAEHHEAESLLKKAFANGE---GNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQHL  161 (452)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTC---SSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGGGH
T ss_pred             CCCcCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcccCH
Confidence                78899999999998763   2366677788877665444   334444333 245667888888888888655554


Q ss_pred             HHHHHHHhcCCCCCCHhHHHHHHHHhcccc---cHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhc----CChHHHHHH
Q 046221          338 NQFIKMRQEKTDSVDSITLVSILTASGELA---ALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKC----GNVDLAYIV  410 (572)
Q Consensus       338 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~A~~~  410 (572)
                      ....... ..-...++..+..+...+...|   +.++|...++...+.| +++...+..+..+|...    +++++|.+.
T Consensus       162 ~~a~~~~-~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~  239 (452)
T 3e4b_A          162 DDVERIC-KAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQAL  239 (452)
T ss_dssp             HHHHHHH-HHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHH
T ss_pred             HHHHHHH-HHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHH
Confidence            4433332 1111222336777777777788   9999999999999887 44555445566667554    799999999


Q ss_pred             HHHcCCCCCHhHHHHHHHH-H--HhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccC-----ChHHHHHHHHHhH
Q 046221          411 FEEMGFLRDVVSWNTIIYG-Y--GVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAG-----LTNDGLVIFNQMI  482 (572)
Q Consensus       411 ~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g-----~~~~a~~~~~~~~  482 (572)
                      |++.- +-+...+..|... |  ...+++++|+..|++..+.|   +...+..|...|. .|     ++++|..+|+++.
T Consensus       240 ~~~aa-~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa  314 (452)
T 3e4b_A          240 LEKIA-PGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV  314 (452)
T ss_dssp             HHHHG-GGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT
T ss_pred             HHHHc-CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh
Confidence            99987 5567777777776 4  56899999999999999876   6677777777776 55     9999999999885


Q ss_pred             HhcCCCCChhHHHHHHHHHHh----hCChhHHHHHHHhccCCCChHHHHHHHHHHhhh---cCCHHHHHHHHHHHHhCCC
Q 046221          483 EENKVKPSQEHYGCVVDLLAR----AGCLSDASGLAGKLLEGMGPNIWRALLSGCVLH---VGRFQDAEALRSGSQKKGI  555 (572)
Q Consensus       483 ~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~---~g~~~~A~~~~~~m~~~~~  555 (572)
                           +-+...+..|...|..    ..++++|..+|++..+..++.....|...|...   ..+.++|...+++..+.|.
T Consensus       315 -----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~  389 (452)
T 3e4b_A          315 -----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDT  389 (452)
T ss_dssp             -----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCC
T ss_pred             -----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCC
Confidence                 3466778888887766    349999999999998866667777776666532   2589999999999988775


Q ss_pred             C
Q 046221          556 I  556 (572)
Q Consensus       556 ~  556 (572)
                      .
T Consensus       390 ~  390 (452)
T 3e4b_A          390 P  390 (452)
T ss_dssp             H
T ss_pred             H
Confidence            4

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.57  E-value=2.6e-13  Score=121.80  Aligned_cols=119  Identities=13%  Similarity=-0.027  Sum_probs=79.4

Q ss_pred             hhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHH
Q 046221          398 YSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGL  475 (572)
Q Consensus       398 ~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~  475 (572)
                      +.+.|++++|...++++ ...| +...+..+...+...|++++|...++++.+.. +.+..++..+..++...|++++|+
T Consensus       115 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  193 (258)
T 3uq3_A          115 LTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAI  193 (258)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHH
Confidence            44445566666666665 2222 34556667777777777777777777777642 224567777777777777777777


Q ss_pred             HHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          476 VIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ..++++++..  +.+...+..+..++.+.|++++|.+.++++.+
T Consensus       194 ~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  235 (258)
T 3uq3_A          194 ADCNKAIEKD--PNFVRAYIRKATAQIAVKEYASALETLDAART  235 (258)
T ss_dssp             HHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC--HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            7777776543  34456677777777777777777777777665

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.55  E-value=1e-13  Score=125.86  Aligned_cols=244  Identities=8%  Similarity=-0.067  Sum_probs=176.0

Q ss_pred             HHHHHhhcCChhhHHHHhccCCCC-------ChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcC
Q 046221           11 LLSNYFKSGKIKEAENLFDEIPEK-------NVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAG   83 (572)
Q Consensus        11 l~~~~~~~~~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~   83 (572)
                      +...+...|++++|+..|+++.+.       +...|..+...+...|++++|+..|+++.+.. +.+...+..+...+..
T Consensus        11 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~   89 (275)
T 1xnf_A           11 LAVPLQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQ   89 (275)
T ss_dssp             SCCCCCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHH
T ss_pred             eeeccCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHH
Confidence            344556778899999999876652       35678888888999999999999999988764 4456788888888889


Q ss_pred             CCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhcc
Q 046221           84 LQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVAL  163 (572)
Q Consensus        84 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  163 (572)
                      .|++++|...++.+.+..+          .+...|..+...+...|++++|.+.|+++.+.  .|+.......+..+...
T Consensus        90 ~~~~~~A~~~~~~al~~~~----------~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~  157 (275)
T 1xnf_A           90 AGNFDAAYEAFDSVLELDP----------TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQK  157 (275)
T ss_dssp             TTCHHHHHHHHHHHHHHCT----------TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHhcCc----------cccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHh
Confidence            9999999999999888765          34668888889999999999999999988874  45555555555556677


Q ss_pred             CChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCC-------cccHHHHHHHHHccCCHHHHH
Q 046221          164 GSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKD-------VISWTRMMGLFVDFEYAGDAL  236 (572)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~li~~~~~~~~~~~a~  236 (572)
                      |++++|...+....... +++...+. ++..+...++.++|...++.....+       ...|..+...+...|++++|.
T Consensus       158 ~~~~~A~~~~~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  235 (275)
T 1xnf_A          158 LDEKQAKEVLKQHFEKS-DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSAT  235 (275)
T ss_dssp             HCHHHHHHHHHHHHHHS-CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC-CcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHH
Confidence            88899998888877764 34444443 6666777777888888888776532       356777777888888888888


Q ss_pred             HHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHH
Q 046221          237 KIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQL  273 (572)
Q Consensus       237 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  273 (572)
                      ..|++.....  |+.  +.....++...|++++|...
T Consensus       236 ~~~~~al~~~--p~~--~~~~~~~~~~l~~~~~a~~~  268 (275)
T 1xnf_A          236 ALFKLAVANN--VHN--FVEHRYALLELSLLGQDQDD  268 (275)
T ss_dssp             HHHHHHHTTC--CTT--CHHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHhCC--chh--HHHHHHHHHHHHHHHhhHHH
Confidence            8888877642  322  22223344444555554443

>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=99.55  E-value=1.4e-12  Score=116.64  Aligned_cols=197  Identities=11%  Similarity=-0.015  Sum_probs=116.3

Q ss_pred             cchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHH
Q 046221          317 LVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLIS  396 (572)
Q Consensus       317 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  396 (572)
                      ...|..+...+...|++++|...|+++...  .+.+...+..+...+...|+++.|.+.++.+.+.. +.+...+..+..
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~  113 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEI--DPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGG  113 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHH
Confidence            456777777888888888888888887632  23345556666666666666666666666665543 334455555666


Q ss_pred             HhhhcCChHHHHHHHHHc-C--CCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChH
Q 046221          397 SYSKCGNVDLAYIVFEEM-G--FLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTN  472 (572)
Q Consensus       397 ~~~~~g~~~~A~~~~~~~-~--~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~  472 (572)
                      .+...|++++|.+.++++ .  ..| +...+..+...|...|++++|...++++.+.. +.+...+..+...+...|+++
T Consensus       114 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~  192 (252)
T 2ho1_A          114 FLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYV  192 (252)
T ss_dssp             HHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHH
Confidence            666666666666666655 2  233 24445555555666666666666666655531 123455555666666666666


Q ss_pred             HHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          473 DGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       473 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +|..+++++++..  +.+...+..+...+.+.|++++|.+.++++..
T Consensus       193 ~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~  237 (252)
T 2ho1_A          193 PARQYYDLFAQGG--GQNARSLLLGIRLAKVFEDRDTAASYGLQLKR  237 (252)
T ss_dssp             HHHHHHHHHHTTS--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC--cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            6666666654322  33444555555566666666666666666554

>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=2.4e-12  Score=112.73  Aligned_cols=163  Identities=12%  Similarity=-0.043  Sum_probs=81.1

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhc-CChHHHHHHHHHHHhcCCCCC-HHHHHHHHH
Q 046221          388 RSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVN-GHGETALALYHKMTETGEVPD-SSTYLSILN  463 (572)
Q Consensus       388 ~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~  463 (572)
                      ...+..+...+...|++++|.+.++++  -.+.+...+..+...|... |++++|...++++.+.+..|+ ...+..+..
T Consensus        42 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  121 (225)
T 2vq2_A           42 ELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGI  121 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHH
Confidence            334444455555555555555555554  1112344455555555555 555555555555555222332 244555555


Q ss_pred             HHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--C-CChHHHHHHHHHHhhhcCCH
Q 046221          464 ACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--G-MGPNIWRALLSGCVLHVGRF  540 (572)
Q Consensus       464 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~~l~~~~~~~~g~~  540 (572)
                      ++...|++++|+..++++++..  +.+...+..++.++.+.|++++|.+.++++..  + .+...+..+...+... |+.
T Consensus       122 ~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~  198 (225)
T 2vq2_A          122 CSAKQGQFGLAEAYLKRSLAAQ--PQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKAL-GNA  198 (225)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHT-TCH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhc-CcH
Confidence            5555555555555555554332  22344555555555555555555555555544  2 3333343333333333 555


Q ss_pred             HHHHHHHHHHHhC
Q 046221          541 QDAEALRSGSQKK  553 (572)
Q Consensus       541 ~~A~~~~~~m~~~  553 (572)
                      ++|..+++.+.+.
T Consensus       199 ~~a~~~~~~~~~~  211 (225)
T 2vq2_A          199 QAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            5555555555443

>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=99.53  E-value=2.2e-12  Score=115.22  Aligned_cols=196  Identities=11%  Similarity=-0.031  Sum_probs=114.6

Q ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHh
Q 046221          355 TLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGV  432 (572)
Q Consensus       355 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~  432 (572)
                      .+..+...+...|+++.|...++.+.+.. +.+...+..+...+...|++++|.+.++++  ..+.+...+..+...|..
T Consensus        39 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~  117 (252)
T 2ho1_A           39 AYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYE  117 (252)
T ss_dssp             HHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHH
Confidence            44445555566666666666666665543 334555666666666666666666666665  222245556666666666


Q ss_pred             cCChHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHH
Q 046221          433 NGHGETALALYHKMTETGEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDAS  511 (572)
Q Consensus       433 ~~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  511 (572)
                      .|++++|..+++++.+.+..|+ ...+..+...+...|++++|...++++++..  +.+...+..++.++...|++++|.
T Consensus       118 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~g~~~~A~  195 (252)
T 2ho1_A          118 QKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN--RNQPSVALEMADLLYKEREYVPAR  195 (252)
T ss_dssp             TTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHcCCHHHHH
Confidence            6666666666666665333443 3555566666666666666666666665433  234555666666666666666666


Q ss_pred             HHHHhccC--CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCC
Q 046221          512 GLAGKLLE--GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKG  554 (572)
Q Consensus       512 ~~~~~~~~--~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~  554 (572)
                      ..++++..  +.+...+..+...+... |++++|.+.++++.+..
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          196 QYYDLFAQGGGQNARSLLLGIRLAKVF-EDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHTTSCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhCcCcHHHHHHHHHHHHHc-cCHHHHHHHHHHHHHHC
Confidence            66666655  33344444444444444 66666666666665544

>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=99.53  E-value=5.6e-12  Score=114.13  Aligned_cols=217  Identities=15%  Similarity=0.017  Sum_probs=98.0

Q ss_pred             chHHHHHHHHHhcCChhHHHHHHhccCCC-CcchHHHHHHHHHH----cCChHHHHHHHHHHHhcCCCCCCHhHHHHHHH
Q 046221          287 RLSNSIIAMYSKCGDLDSSRSVFNQITEK-SLVSWTAIISGYVQ----NGCAREALNQFIKMRQEKTDSVDSITLVSILT  361 (572)
Q Consensus       287 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~  361 (572)
                      ..+..+...+...|++++|...|++..++ +..++..+...|..    .+++++|+..|++.. ..+   +...+..+..
T Consensus         7 ~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~-~~~---~~~a~~~lg~   82 (273)
T 1ouv_A            7 KELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKAC-DLN---YSNGCHLLGN   82 (273)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHH-HTT---CHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHH-HCC---CHHHHHHHHH
Confidence            34444555555555555555555554433 23344445555555    555555555555554 222   3344444444


Q ss_pred             Hhcc----cccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhh----cCChHHHHHHHHHc-CCCCCHhHHHHHHHHHHh
Q 046221          362 ASGE----LAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSK----CGNVDLAYIVFEEM-GFLRDVVSWNTIIYGYGV  432 (572)
Q Consensus       362 ~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~  432 (572)
                      .+..    .+++++|...++...+.+   +...+..+...|..    .+++++|...+++. .. .+...+..+...|..
T Consensus        83 ~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~-~~~~a~~~lg~~~~~  158 (273)
T 1ouv_A           83 LYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL-NDGDGCTILGSLYDA  158 (273)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHH
T ss_pred             HHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhc-CcHHHHHHHHHHHHc
Confidence            4444    445555555544444432   33344444444444    44444444444444 11 123334444444444


Q ss_pred             ----cCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh-
Q 046221          433 ----NGHGETALALYHKMTETGEVPDSSTYLSILNACGH----AGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLAR-  503 (572)
Q Consensus       433 ----~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-  503 (572)
                          .+++++|+..|++..+.+   +...+..+...|..    .+++++|+..++++++..    +...+..+..+|.+ 
T Consensus       159 ~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~----~~~a~~~l~~~~~~g  231 (273)
T 1ouv_A          159 GRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE----NGGGCFNLGAMQYNG  231 (273)
T ss_dssp             TSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHTT
T ss_pred             CCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC----CHHHHHHHHHHHHcC
Confidence                444444444444444432   23334444444444    444444444444443221    13334444444444 


Q ss_pred             ---hCChhHHHHHHHhcc
Q 046221          504 ---AGCLSDASGLAGKLL  518 (572)
Q Consensus       504 ---~g~~~~A~~~~~~~~  518 (572)
                         .+++++|.+.+++..
T Consensus       232 ~~~~~~~~~A~~~~~~a~  249 (273)
T 1ouv_A          232 EGVTRNEKQAIENFKKGC  249 (273)
T ss_dssp             SSSSCCSTTHHHHHHHHH
T ss_pred             CCcccCHHHHHHHHHHHH
Confidence               444444444444443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.53  E-value=1.1e-12  Score=118.81  Aligned_cols=232  Identities=13%  Similarity=-0.032  Sum_probs=183.8

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCc--hhHHHHHH
Q 046221          318 VSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRY--RSVQNCLI  395 (572)
Q Consensus       318 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~  395 (572)
                      ..+......+...|++++|+..|++..+..  +.+...+..+...+...|+++.|...++.+.+.+..++  ...|..+.
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg   81 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKK--YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYG   81 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTT--CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHH
Confidence            345567788899999999999999997433  33445777888899999999999999999988432222  23478899


Q ss_pred             HHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChH
Q 046221          396 SSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTN  472 (572)
Q Consensus       396 ~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~  472 (572)
                      ..+...|++++|...+++.  ..+.+...|..+...|...|++++|+..+++..+.  .| +...+..+...+...++++
T Consensus        82 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~  159 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELGQAYYYNKEYV  159 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999998  23345678999999999999999999999999985  55 5577777773444556999


Q ss_pred             HHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCC---hhHHHHHHHhccC----CCCh------HHHHHHHHHHhhhcCC
Q 046221          473 DGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGC---LSDASGLAGKLLE----GMGP------NIWRALLSGCVLHVGR  539 (572)
Q Consensus       473 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~----~~~~------~~~~~l~~~~~~~~g~  539 (572)
                      +|...++++++..  +.+...+..+..++...|+   +++|...++++.+    .|++      ..|..+...+... |+
T Consensus       160 ~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~  236 (272)
T 3u4t_A          160 KADSSFVKVLELK--PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTIN-RD  236 (272)
T ss_dssp             HHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHT-TC
T ss_pred             HHHHHHHHHHHhC--ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHc-CC
Confidence            9999999998654  4456788888899998898   8889999988776    2442      3566666666666 99


Q ss_pred             HHHHHHHHHHHHhCCCC
Q 046221          540 FQDAEALRSGSQKKGII  556 (572)
Q Consensus       540 ~~~A~~~~~~m~~~~~~  556 (572)
                      +++|.+.+++..+..+.
T Consensus       237 ~~~A~~~~~~al~~~p~  253 (272)
T 3u4t_A          237 KVKADAAWKNILALDPT  253 (272)
T ss_dssp             HHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHhcCcc
Confidence            99999999999876643

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.53  E-value=1.8e-13  Score=124.25  Aligned_cols=217  Identities=10%  Similarity=-0.069  Sum_probs=125.3

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhh
Q 046221          320 WTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYS  399 (572)
Q Consensus       320 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  399 (572)
                      +..+...+...|++++|...|+++...  .+.+...+..+...+...|+++.|...++.+.+.. +.+...+..+..++.
T Consensus        46 ~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~  122 (275)
T 1xnf_A           46 LYERGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALY  122 (275)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHHHHH
Confidence            333444444444444444444444311  12233444444444455555555555555444432 334566667777777


Q ss_pred             hcCChHHHHHHHHHc-CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHH
Q 046221          400 KCGNVDLAYIVFEEM-GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIF  478 (572)
Q Consensus       400 ~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~  478 (572)
                      ..|++++|...++++ ...|+.......+..+...|++++|...+++.... .+++...+ .++..+...++.++|...+
T Consensus       123 ~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~~a~~~~  200 (275)
T 1xnf_A          123 YGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK-SDKEQWGW-NIVEFYLGNISEQTLMERL  200 (275)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH-SCCCSTHH-HHHHHHTTSSCHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc-CCcchHHH-HHHHHHHHhcCHHHHHHHH
Confidence            888888888888777 33344444444444556668888888888777764 23333333 3666677777788888888


Q ss_pred             HHhHHhcCCCCC-----hhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHHHHHHHHHhhhcCCHHHHHHHH
Q 046221          479 NQMIEENKVKPS-----QEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWRALLSGCVLHVGRFQDAEALR  547 (572)
Q Consensus       479 ~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~~g~~~~A~~~~  547 (572)
                      +++++..   |+     ...+..++.+|.+.|++++|...++++.. .|+.  +......+... |++++|++.+
T Consensus       201 ~~~~~~~---~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~--~~~~~~~~~~l-~~~~~a~~~~  269 (275)
T 1xnf_A          201 KADATDN---TSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHN--FVEHRYALLEL-SLLGQDQDDL  269 (275)
T ss_dssp             HHHCCSH---HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTT--CHHHHHHHHHH-HHHHHC----
T ss_pred             HHHhccc---ccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchh--HHHHHHHHHHH-HHHHhhHHHH
Confidence            8775322   22     45777888888888888888888888876 4432  22222333334 7788877765

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.52  E-value=6.5e-13  Score=118.00  Aligned_cols=196  Identities=14%  Similarity=0.075  Sum_probs=124.5

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHH
Q 046221          318 VSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISS  397 (572)
Q Consensus       318 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  397 (572)
                      ..|..+...+...|++++|...|+++. . ..+.+...+..+...+...|+++.|...++.+.+.. +.+...+..+...
T Consensus        24 ~~~~~~a~~~~~~~~~~~A~~~~~~~l-~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  100 (243)
T 2q7f_A           24 MTGGQQMGRGSEFGDYEKAAEAFTKAI-E-ENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNV  100 (243)
T ss_dssp             ------------------CCTTHHHHH-T-TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCHHHHHHHHHHHH-H-hCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHH
Confidence            344555555666666666666666664 1 223345555555566666666666666666665543 3455666777777


Q ss_pred             hhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHH
Q 046221          398 YSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGL  475 (572)
Q Consensus       398 ~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~  475 (572)
                      +...|++++|.+.++++  ..+.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|+
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  179 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRAGMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEAL  179 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHH
Confidence            78888888888888777  222456677777788888888888888888887742 235677777888888888888888


Q ss_pred             HHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          476 VIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ..++++++..  +.+..++..+..+|.+.|++++|.+.++++.+
T Consensus       180 ~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  221 (243)
T 2q7f_A          180 SQFAAVTEQD--PGHADAFYNAGVTYAYKENREKALEMLDKAID  221 (243)
T ss_dssp             HHHHHHHHHC--TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHhC--cccHHHHHHHHHHHHHccCHHHHHHHHHHHHc
Confidence            8888887543  44566777888888888888888888888776

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.51  E-value=4.5e-12  Score=110.94  Aligned_cols=205  Identities=10%  Similarity=-0.011  Sum_probs=151.7

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHH
Q 046221          318 VSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISS  397 (572)
Q Consensus       318 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  397 (572)
                      ..+..+...+...|++++|...++++...  .+.+...+..+...+...|+++.|...++.+.+.. +.+...+..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            9 NIKTQLAMEYMRGQDYRQATASIEDALKS--DPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            34555666666667777777777666522  22345566666666677777777777777666654 4456677778888


Q ss_pred             hhhc-CChHHHHHHHHHc-C--CCCC-HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCCh
Q 046221          398 YSKC-GNVDLAYIVFEEM-G--FLRD-VVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLT  471 (572)
Q Consensus       398 ~~~~-g~~~~A~~~~~~~-~--~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~  471 (572)
                      +... |++++|...++++ .  ..|+ ...+..+...+...|++++|+..++++.+.  .| +...+..+...+...|++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAA--QPQFPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCchHHHHHHHHHHHcCCH
Confidence            8888 9999999999887 3  3343 567888888899999999999999998885  44 468888889999999999


Q ss_pred             HHHHHHHHHhHHhcCCC-CChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHHHHH
Q 046221          472 NDGLVIFNQMIEENKVK-PSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWRAL  529 (572)
Q Consensus       472 ~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l  529 (572)
                      ++|..+++++++..  + .+...+..+...+...|+.++|..+++.+.. .|+......+
T Consensus       164 ~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  221 (225)
T 2vq2_A          164 GDADYYFKKYQSRV--EVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANFPYSEELQTV  221 (225)
T ss_dssp             HHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhC--CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            99999999987654  3 4666777788888899999999999998875 5655544433

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.50  E-value=1.1e-12  Score=116.56  Aligned_cols=201  Identities=12%  Similarity=0.018  Sum_probs=154.7

Q ss_pred             CCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHH
Q 046221          351 VDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIY  428 (572)
Q Consensus       351 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~  428 (572)
                      .....+..+...+...|+++.|...++.+.+.. +.+...+..+...+...|++++|...++++  ..+.+...+..+..
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~   99 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGN   99 (243)
T ss_dssp             ---------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHH
Confidence            345567777788899999999999999988754 556788888999999999999999999998  33346788899999


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChh
Q 046221          429 GYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLS  508 (572)
Q Consensus       429 ~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  508 (572)
                      .|...|++++|...++++.+.. +.+...+..+...+...|++++|...++++++..  +.+...+..++.++.+.|+++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN--ENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHcCCHH
Confidence            9999999999999999999853 3466888999999999999999999999998654  456778999999999999999


Q ss_pred             HHHHHHHhccC--CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          509 DASGLAGKLLE--GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       509 ~A~~~~~~~~~--~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                      +|.+.++++..  +.+..+|..+...+... |++++|...+++..+....
T Consensus       177 ~A~~~~~~~~~~~~~~~~~~~~la~~~~~~-~~~~~A~~~~~~~~~~~p~  225 (243)
T 2q7f_A          177 EALSQFAAVTEQDPGHADAFYNAGVTYAYK-ENREKALEMLDKAIDIQPD  225 (243)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCTTHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHhCcccHHHHHHHHHHHHHc-cCHHHHHHHHHHHHccCcc
Confidence            99999999877  44566788888878777 9999999999999876543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.50  E-value=4.3e-13  Score=129.35  Aligned_cols=273  Identities=12%  Similarity=0.005  Sum_probs=158.3

Q ss_pred             cHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCc-----cchHHHHHHhcccCChHHHHHHHHHHHHhCCC-CCcchHHH
Q 046221          218 SWTRMMGLFVDFEYAGDALKIFREMRKSRIICDT-----VALLNLISVNAILGDLKRGKQLHAQVVLGGLQ-SELRLSNS  291 (572)
Q Consensus       218 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~  291 (572)
                      .+......+...|++++|...|++..+.+  |+.     ..+..+...+...|+++.|...++........ .+..    
T Consensus        11 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~----   84 (406)
T 3sf4_A           11 ELALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL----   84 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH----
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH----
Confidence            34455566666777777777777766542  221     23444555555566666666665554432100 0000    


Q ss_pred             HHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCC----HhHHHHHHHHhcccc
Q 046221          292 IIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVD----SITLVSILTASGELA  367 (572)
Q Consensus       292 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~  367 (572)
                                             ....++..+...+...|++++|...+++........++    ..++..+...+...|
T Consensus        85 -----------------------~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g  141 (406)
T 3sf4_A           85 -----------------------GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKG  141 (406)
T ss_dssp             -----------------------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHH
T ss_pred             -----------------------HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcC
Confidence                                   00123334444444455555555544444321111111    224444455555555


Q ss_pred             c--------------------HHHHHHHHHHHHHh----cC-CCchhHHHHHHHHhhhcCChHHHHHHHHHc----CCCC
Q 046221          368 A--------------------LEICLQLHGIAFEA----GF-PRYRSVQNCLISSYSKCGNVDLAYIVFEEM----GFLR  418 (572)
Q Consensus       368 ~--------------------~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~  418 (572)
                      +                    ++.|...++...+.    +. +.....+..+...+...|++++|...+++.    ...+
T Consensus       142 ~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  221 (406)
T 3sf4_A          142 KSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFG  221 (406)
T ss_dssp             HTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTT
T ss_pred             CcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcC
Confidence            5                    56666655544332    11 111345666777888888888888888776    1112


Q ss_pred             C----HhHHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCC
Q 046221          419 D----VVSWNTIIYGYGVNGHGETALALYHKMTET----GEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKP  489 (572)
Q Consensus       419 ~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  489 (572)
                      +    ..++..+...|...|++++|...+++..+.    +..+. ..++..+...|...|++++|...++++++...-.+
T Consensus       222 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~  301 (406)
T 3sf4_A          222 DKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELN  301 (406)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             CcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcC
Confidence            2    336777788888888888888888887653    11111 35677788888888999999988888765421112


Q ss_pred             C----hhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          490 S----QEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       490 ~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +    ..++..+..+|.+.|++++|.+.+++..+
T Consensus       302 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          302 DRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2    44677788888888999999888888765

>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=99.49  E-value=1.5e-11  Score=111.35  Aligned_cols=225  Identities=10%  Similarity=-0.042  Sum_probs=167.6

Q ss_pred             CcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcc----cccHHHHHHHHHHHHHhcCCCchhHH
Q 046221          316 SLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGE----LAALEICLQLHGIAFEAGFPRYRSVQ  391 (572)
Q Consensus       316 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~  391 (572)
                      +..++..+...+...|++++|+..|++.. .   +.+...+..+...+..    .+++++|...+++..+.+   +...+
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~-~---~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~   77 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKAC-D---LKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGC   77 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHH-H---TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHH-H---CCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            34566677777888888888888888886 3   2344566667777777    888888888888887765   56677


Q ss_pred             HHHHHHhhh----cCChHHHHHHHHHc-CCCCCHhHHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 046221          392 NCLISSYSK----CGNVDLAYIVFEEM-GFLRDVVSWNTIIYGYGV----NGHGETALALYHKMTETGEVPDSSTYLSIL  462 (572)
Q Consensus       392 ~~l~~~~~~----~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~  462 (572)
                      ..+...|..    .+++++|...|++. .. .+...+..+...|..    .+++++|+..|++..+.+   +...+..+.
T Consensus        78 ~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~-~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg  153 (273)
T 1ouv_A           78 HLLGNLYYSGQGVSQNTNKALQYYSKACDL-KYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILG  153 (273)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHHHhCCCCcccCHHHHHHHHHHHHHc-CCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHH
Confidence            777788887    88888888888877 22 366777778888887    888888888888888754   556666777


Q ss_pred             HHHhc----cCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh----hCChhHHHHHHHhccCCCChHHHHHHHHHHh
Q 046221          463 NACGH----AGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLAR----AGCLSDASGLAGKLLEGMGPNIWRALLSGCV  534 (572)
Q Consensus       463 ~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~  534 (572)
                      ..|..    .+++++|+..|+++.+.    .+...+..+..+|..    .+++++|.+.+++..+..++..+..+...+.
T Consensus       154 ~~~~~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~l~~~~~  229 (273)
T 1ouv_A          154 SLYDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELENGGGCFNLGAMQY  229 (273)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            77776    78888888888888643    245667778888888    8888888888888776444666666666665


Q ss_pred             h----hcCCHHHHHHHHHHHHhCCCC
Q 046221          535 L----HVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       535 ~----~~g~~~~A~~~~~~m~~~~~~  556 (572)
                      .    . +++++|.+.+++..+.+..
T Consensus       230 ~g~~~~-~~~~~A~~~~~~a~~~~~~  254 (273)
T 1ouv_A          230 NGEGVT-RNEKQAIENFKKGCKLGAK  254 (273)
T ss_dssp             TTSSSS-CCSTTHHHHHHHHHHHTCH
T ss_pred             cCCCcc-cCHHHHHHHHHHHHHcCCH
Confidence            5    4 8888888888888776643

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.47  E-value=8e-13  Score=127.71  Aligned_cols=266  Identities=13%  Similarity=0.015  Sum_probs=148.7

Q ss_pred             chHHHHHHhcccCChHHHHHHHHHHHHhCCCCCc----chHHHHHHHHHhcCChhHHHHHHhccCCC---------Ccch
Q 046221          253 ALLNLISVNAILGDLKRGKQLHAQVVLGGLQSEL----RLSNSIIAMYSKCGDLDSSRSVFNQITEK---------SLVS  319 (572)
Q Consensus       253 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~~~  319 (572)
                      .+..+...+...|++++|...++.+.+.... +.    .++..+...|...|++++|...+++..+.         ...+
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  128 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKS  128 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHH
Confidence            3444556677888888888888888876422 22    35677777888888888888887765421         1245


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCC----CCCCHhHHHHHHHHhccccc-----------------HHHHHHHHHH
Q 046221          320 WTAIISGYVQNGCAREALNQFIKMRQEKT----DSVDSITLVSILTASGELAA-----------------LEICLQLHGI  378 (572)
Q Consensus       320 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~~ll~~~~~~~~-----------------~~~a~~~~~~  378 (572)
                      +..+...|...|++++|...+++......    .+....++..+...+...|+                 ++.|...++.
T Consensus       129 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~  208 (411)
T 4a1s_A          129 SGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQE  208 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHH
Confidence            66677777788888888888877653211    11122355555556666666                 6666666555


Q ss_pred             HHHh----cCC-CchhHHHHHHHHhhhcCChHHHHHHHHHc-CCC---CC----HhHHHHHHHHHHhcCChHHHHHHHHH
Q 046221          379 AFEA----GFP-RYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFL---RD----VVSWNTIIYGYGVNGHGETALALYHK  445 (572)
Q Consensus       379 ~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~---~~----~~~~~~l~~~~~~~~~~~~A~~~~~~  445 (572)
                      ..+.    +.. .....+..+...+...|++++|...+++. ...   ++    ...+..+...|...|++++|...+++
T Consensus       209 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  288 (411)
T 4a1s_A          209 NLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKR  288 (411)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            4332    111 11234455555566666666666666555 110   11    12455555556666666666666655


Q ss_pred             HHhcCCC-C----CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHHhhCChhHHHHHHHh
Q 046221          446 MTETGEV-P----DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS----QEHYGCVVDLLARAGCLSDASGLAGK  516 (572)
Q Consensus       446 ~~~~g~~-p----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~  516 (572)
                      ..+.... .    ...++..+...+...|++++|..+++++++...-.++    ..++..+..+|.+.|++++|.+.+++
T Consensus       289 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  368 (411)
T 4a1s_A          289 TLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQ  368 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            5442100 0    1244555555566666666666666655432110011    22455555556666666666666665


Q ss_pred             ccC
Q 046221          517 LLE  519 (572)
Q Consensus       517 ~~~  519 (572)
                      +..
T Consensus       369 al~  371 (411)
T 4a1s_A          369 HLQ  371 (411)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            553

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.46  E-value=1.4e-12  Score=122.06  Aligned_cols=131  Identities=10%  Similarity=-0.012  Sum_probs=60.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC----hh
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTET----GEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS----QE  492 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~----g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~  492 (572)
                      .+..+...|...|++++|...+++..+.    +..+ ...++..+...+...|++++|...++++++...-.++    ..
T Consensus       185 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  264 (338)
T 3ro2_A          185 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ  264 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHH
Confidence            3444444455555555555555444331    0000 1124445555555555555555555554432110111    23


Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHhccC----CCC----hHHHHHHHHHHhhhcCCHHHHHHHHHHHHhC
Q 046221          493 HYGCVVDLLARAGCLSDASGLAGKLLE----GMG----PNIWRALLSGCVLHVGRFQDAEALRSGSQKK  553 (572)
Q Consensus       493 ~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~----~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~  553 (572)
                      ++..+..++...|++++|...++++..    ..+    ..++..+...+... |++++|...+++..+.
T Consensus       265 ~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~-g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          265 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTAL-GNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHc-CChHHHHHHHHHHHHH
Confidence            445555555555666655555555443    111    12344444444444 6666666666665543

>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=99.46  E-value=7.3e-12  Score=117.82  Aligned_cols=227  Identities=9%  Similarity=0.000  Sum_probs=142.4

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhccccc-HHHHHHHHHHHHHhcCCCchhHHHHHHHH
Q 046221          319 SWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAA-LEICLQLHGIAFEAGFPRYRSVQNCLISS  397 (572)
Q Consensus       319 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  397 (572)
                      .|..+...+.+.|++++|+..++++...  .+-+...+..+...+...|+ +++|...++++.+.. +.+...|..+..+
T Consensus        99 a~~~lg~~~~~~g~~~~Al~~~~~al~l--~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~  175 (382)
T 2h6f_A           99 VYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
Confidence            4555555566666666666666666422  22234455555555666664 666666666666654 4456667777777


Q ss_pred             hhhcCChHHHHHHHHHc-C-CCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhc-cCChHH
Q 046221          398 YSKCGNVDLAYIVFEEM-G-FLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGH-AGLTND  473 (572)
Q Consensus       398 ~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~-~g~~~~  473 (572)
                      +...|++++|+..|+++ . .+-+...|..+..++.+.|++++|+..++++++.  .| +...|..+..++.. .|..++
T Consensus       176 ~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcchH
Confidence            77777777777777777 2 2235667777777777777777777777777773  45 44677777777777 555466


Q ss_pred             H-----HHHHHHhHHhcCCCCChhHHHHHHHHHHhhC--ChhHHHHHHHhccC-CCChHHHHHHHHHHhhhcC-------
Q 046221          474 G-----LVIFNQMIEENKVKPSQEHYGCVVDLLARAG--CLSDASGLAGKLLE-GMGPNIWRALLSGCVLHVG-------  538 (572)
Q Consensus       474 a-----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~~g-------  538 (572)
                      |     +..++++++..  +-+...|..+..++.+.|  ++++|.+.+.++.. +.++..+..+...+... |       
T Consensus       254 A~~~~el~~~~~Al~l~--P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~-~~~~~~~~  330 (382)
T 2h6f_A          254 AVLEREVQYTLEMIKLV--PHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDM-LENQCDNK  330 (382)
T ss_dssp             HHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHH-HHTTCSSH
T ss_pred             HHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHH-hcccccch
Confidence            6     46777776543  334556777777777766  57777777777722 33344555555555443 2       


Q ss_pred             --CHHHHHHHHHHH-HhC
Q 046221          539 --RFQDAEALRSGS-QKK  553 (572)
Q Consensus       539 --~~~~A~~~~~~m-~~~  553 (572)
                        ..++|+++++++ .+.
T Consensus       331 ~~~~~~A~~~~~~l~~~~  348 (382)
T 2h6f_A          331 EDILNKALELCEILAKEK  348 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHh
Confidence              247777777776 443

>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=7.6e-12  Score=117.69  Aligned_cols=239  Identities=13%  Similarity=0.053  Sum_probs=170.1

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHhccCC---CCcchHHHHHHHHHHcCC-hHHHHHHHHHHHhcCCCCCCHhHHHHHHHHh
Q 046221          288 LSNSIIAMYSKCGDLDSSRSVFNQITE---KSLVSWTAIISGYVQNGC-AREALNQFIKMRQEKTDSVDSITLVSILTAS  363 (572)
Q Consensus       288 ~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~  363 (572)
                      .+..+...+.+.|++++|+..|+++..   .+...|+.+..++...|+ +++|+..|++....  .+-+...|..+...+
T Consensus        99 a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l--~P~~~~a~~~~g~~~  176 (382)
T 2h6f_A           99 VYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE--QPKNYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHH
Confidence            344555556666666666666666552   234566666666777775 77777777776522  223455666666666


Q ss_pred             cccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCC-CCHhHHHHHHHHHHh-cCChHHH-
Q 046221          364 GELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFL-RDVVSWNTIIYGYGV-NGHGETA-  439 (572)
Q Consensus       364 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~-~~~~~~A-  439 (572)
                      ...|++++|...++++.+.. +.+...|..+..++.+.|++++|+..++++ ... -+...|+.+..++.. .|..++| 
T Consensus       177 ~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~~~~a~~~lg~~l~~l~~~~~eA~  255 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAV  255 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             HHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCcchHHH
Confidence            77777777777777777664 556778888888999999999999999988 333 457889999889888 6665777 


Q ss_pred             ----HHHHHHHHhcCCCC-CHHHHHHHHHHHhccC--ChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhC-------
Q 046221          440 ----LALYHKMTETGEVP-DSSTYLSILNACGHAG--LTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAG-------  505 (572)
Q Consensus       440 ----~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-------  505 (572)
                          +..+++.++  +.| +...|..+...+...|  ++++|++.++++ +.  .+.+...+..++.+|.+.|       
T Consensus       256 ~~~el~~~~~Al~--l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~--~p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          256 LEREVQYTLEMIK--LVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP--SHSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             HHHHHHHHHHHHH--HSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT--TCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             HHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc--CCCCHHHHHHHHHHHHHHhcccccch
Confidence                588988888  467 4578888888898888  689999999887 32  2456678889999998874       


Q ss_pred             --ChhHHHHHHHhc-cC-CCCh-HHHHHHHHHHh
Q 046221          506 --CLSDASGLAGKL-LE-GMGP-NIWRALLSGCV  534 (572)
Q Consensus       506 --~~~~A~~~~~~~-~~-~~~~-~~~~~l~~~~~  534 (572)
                        ..++|.++++++ .+ +|.. ..|..+...+.
T Consensus       331 ~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~  364 (382)
T 2h6f_A          331 EDILNKALELCEILAKEKDTIRKEYWRYIGRSLQ  364 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHH
Confidence              258999999999 55 5543 45665555543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.44  E-value=2e-12  Score=124.84  Aligned_cols=264  Identities=12%  Similarity=0.042  Sum_probs=157.6

Q ss_pred             cHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCc-----cchHHHHHHhcccCChHHHHHHHHHHHHhC-----CCCCcc
Q 046221          218 SWTRMMGLFVDFEYAGDALKIFREMRKSRIICDT-----VALLNLISVNAILGDLKRGKQLHAQVVLGG-----LQSELR  287 (572)
Q Consensus       218 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~  287 (572)
                      .+..+...+...|++++|...|++..+.+  |+.     ..+..+...+...|+++.|...+++.....     .+....
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAG--TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhc--ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            34445566677777777777777776652  322     245556666667777777777777665531     122234


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHhccCCC---------CcchHHHHHHHHHHcCC-----------------hHHHHHHHH
Q 046221          288 LSNSIIAMYSKCGDLDSSRSVFNQITEK---------SLVSWTAIISGYVQNGC-----------------AREALNQFI  341 (572)
Q Consensus       288 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~  341 (572)
                      ++..+...|...|++++|...+++..+.         ...++..+...|...|+                 +++|+..++
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~  207 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQ  207 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            5566666777777777777777665421         12356666667777777                 777777776


Q ss_pred             HHHhcC---CC-CCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCC-Cc----hhHHHHHHHHhhhcCChHHHHHHHH
Q 046221          342 KMRQEK---TD-SVDSITLVSILTASGELAALEICLQLHGIAFEAGFP-RY----RSVQNCLISSYSKCGNVDLAYIVFE  412 (572)
Q Consensus       342 ~~~~~~---~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~~A~~~~~  412 (572)
                      +.....   +. .....++..+...+...|+++.|...++...+.... .+    ...+..+..+|...|++++|...++
T Consensus       208 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  287 (411)
T 4a1s_A          208 ENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYK  287 (411)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            654211   11 112235556666667777777777777666543211 11    2255666677777777777777777


Q ss_pred             Hc-----CCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcC----CCCC-HHHHHHHHHHHhccCChHHHHHHHH
Q 046221          413 EM-----GFL---RDVVSWNTIIYGYGVNGHGETALALYHKMTETG----EVPD-SSTYLSILNACGHAGLTNDGLVIFN  479 (572)
Q Consensus       413 ~~-----~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g----~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~  479 (572)
                      +.     ...   ....++..+...|...|++++|...+++..+..    ..+. ..++..+...|...|++++|...++
T Consensus       288 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  367 (411)
T 4a1s_A          288 RTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAE  367 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            66     110   113456666677777777777777777766521    1111 2356666677777777777777777


Q ss_pred             HhHH
Q 046221          480 QMIE  483 (572)
Q Consensus       480 ~~~~  483 (572)
                      ++++
T Consensus       368 ~al~  371 (411)
T 4a1s_A          368 QHLQ  371 (411)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7764

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.43  E-value=3.4e-12  Score=124.95  Aligned_cols=209  Identities=13%  Similarity=0.031  Sum_probs=161.7

Q ss_pred             hHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccH-HHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHH
Q 046221          333 AREALNQFIKMRQEKTDSVDSITLVSILTASGELAAL-EICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVF  411 (572)
Q Consensus       333 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  411 (572)
                      +++++..+++..  ...+.+...+..+...+...|++ ++|...++...+.. +.+...+..+..+|.+.|++++|.+.|
T Consensus        84 ~~~al~~l~~~~--~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           84 MEKTLQQMEEVL--GSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHH--TTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHh--ccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            455666666553  33344667777777788888888 88888888877764 455778888888999999999999999


Q ss_pred             HHc-CCCCCHhHHHHHHHHHHhc---------CChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhcc--------CChH
Q 046221          412 EEM-GFLRDVVSWNTIIYGYGVN---------GHGETALALYHKMTETGEVP-DSSTYLSILNACGHA--------GLTN  472 (572)
Q Consensus       412 ~~~-~~~~~~~~~~~l~~~~~~~---------~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~--------g~~~  472 (572)
                      ++. ...|+...+..+...|...         |++++|+..|++..+.  .| +...|..+..+|...        |+++
T Consensus       161 ~~al~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          161 SGALTHCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHHTTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHHhhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            888 6668878888888888888         8999999999998884  55 467888888888888        8899


Q ss_pred             HHHHHHHHhHHhcCCC---CChhHHHHHHHHHHhhCChhHHHHHHHhccC-CC-ChHHHHHHHHHHhhhcCCHHHHHHHH
Q 046221          473 DGLVIFNQMIEENKVK---PSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GM-GPNIWRALLSGCVLHVGRFQDAEALR  547 (572)
Q Consensus       473 ~a~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~~~~~~g~~~~A~~~~  547 (572)
                      +|+..|+++++..  +   .+...+..+..+|...|++++|.+.|+++.. .| +...+..+...+... |++++|++.+
T Consensus       239 ~A~~~~~~al~~~--p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~l-g~~~eAi~~~  315 (474)
T 4abn_A          239 QALSAYAQAEKVD--RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFL-SRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHHC--GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH-HHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC--CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH-HHHHHHHHHh
Confidence            9999999987643  2   3677888899999999999999999998877 44 445666666666655 8888887654


Q ss_pred             HH
Q 046221          548 SG  549 (572)
Q Consensus       548 ~~  549 (572)
                      ++
T Consensus       316 ~~  317 (474)
T 4abn_A          316 GK  317 (474)
T ss_dssp             TT
T ss_pred             cc
Confidence            43

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.42  E-value=1.9e-09  Score=108.41  Aligned_cols=422  Identities=10%  Similarity=0.016  Sum_probs=258.0

Q ss_pred             HHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCC---
Q 046221           89 LARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGS---  165 (572)
Q Consensus        89 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~---  165 (572)
                      .....++..+...+          .|...|..++..+.+.+.++.+..+|+.+... .+.+...|..-+..-.+.++   
T Consensus        50 d~i~~lE~~l~~np----------~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~  118 (679)
T 4e6h_A           50 DVIGKLNDMIEEQP----------TDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELD  118 (679)
T ss_dssp             CHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCC
T ss_pred             HHHHHHHHHHHHCc----------CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcch
Confidence            34445566666654          56788999999999999999999999999876 34456677777777777788   


Q ss_pred             hHHHHHHHHHHHHhc-CCCChhHHhHHHHHHHhCCCH--------HHHHHHHhhcC------CC-CcccHHHHHHHHHc-
Q 046221          166 RALCELIHGLTIKLG-LILDVSVNNSVLDMYSCLMDL--------DAAIQIFREME------CK-DVISWTRMMGLFVD-  228 (572)
Q Consensus       166 ~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~--------~~a~~~~~~~~------~~-~~~~~~~li~~~~~-  228 (572)
                      ++.+..+|+..+... .+|++..|...+....+.++.        +...++|+...      .+ +...|...+..... 
T Consensus       119 ~~~v~~lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~  198 (679)
T 4e6h_A          119 AAVIEPVLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHW  198 (679)
T ss_dssp             HHHHHHHHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhc
Confidence            999999999888754 247888888777766554443        22335665432      12 33566666655432 


Q ss_pred             --------cCCHHHHHHHHHHHHhCCCCCCc---cchH---HHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHH
Q 046221          229 --------FEYAGDALKIFREMRKSRIICDT---VALL---NLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIA  294 (572)
Q Consensus       229 --------~~~~~~a~~~~~~m~~~~~~p~~---~~~~---~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  294 (572)
                              +++++.+..+|++....   |..   .+|.   ......   +. ..+.+++.+.                 
T Consensus       199 ~~~~~~eeq~~~~~~R~iy~raL~i---P~~~~~~~w~~Y~~fe~~~---~~-~~a~~~~~e~-----------------  254 (679)
T 4e6h_A          199 KPVNKFEEQQRVQYIRKLYKTLLCQ---PMDCLESMWQRYTQWEQDV---NQ-LTARRHIGEL-----------------  254 (679)
T ss_dssp             CCCSHHHHHHHHHHHHHHHHHHTTS---CCSSHHHHHHHHHHHHHHH---CT-TTHHHHHHHH-----------------
T ss_pred             cccCcHHHHhHHHHHHHHHHHHHhC---ccHHHHHHHHHHHHHHHhc---Cc-chHHHHHHHh-----------------
Confidence                    33466777888887742   221   1111   111110   00 0011111110                 


Q ss_pred             HHHhcCChhHHHHHHhc-------cCC--------------C--C------cchHHHHHHHHHHcC-------ChHHHHH
Q 046221          295 MYSKCGDLDSSRSVFNQ-------ITE--------------K--S------LVSWTAIISGYVQNG-------CAREALN  338 (572)
Q Consensus       295 ~~~~~~~~~~a~~~~~~-------~~~--------------~--~------~~~~~~l~~~~~~~~-------~~~~a~~  338 (572)
                          ..+++.|...+.+       +..              |  +      ...|...+.---..+       ..+.+..
T Consensus       255 ----~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~  330 (679)
T 4e6h_A          255 ----SAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTY  330 (679)
T ss_dssp             ----HHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHH
T ss_pred             ----hHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHH
Confidence                0111112222211       100              0  0      023333333222221       1234456


Q ss_pred             HHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHH-HHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CC
Q 046221          339 QFIKMRQEKTDSVDSITLVSILTASGELAALEICL-QLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GF  416 (572)
Q Consensus       339 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~  416 (572)
                      +|++....  .+-....|.....-+...|+.+.|. .+++..... .|.+...+-.++....+.|+++.|.++|+++ ..
T Consensus       331 ~Ye~aL~~--~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~  407 (679)
T 4e6h_A          331 VYMQAAQH--VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDR  407 (679)
T ss_dssp             HHHHHHHH--TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHH--cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            67777533  3335556666666666677777786 888888763 4556666777788888888888888888877 21


Q ss_pred             -----------CCC------------HhHHHHHHHHHHhcCChHHHHHHHHHHHhc-CCCCCHHHHHHHHHHHhcc-CCh
Q 046221          417 -----------LRD------------VVSWNTIIYGYGVNGHGETALALYHKMTET-GEVPDSSTYLSILNACGHA-GLT  471 (572)
Q Consensus       417 -----------~~~------------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-g~~p~~~~~~~l~~~~~~~-g~~  471 (572)
                                 .|+            ...|...+....+.|+.+.|..+|.++++. + .+....|...+..-.+. ++.
T Consensus       408 l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~~~d~  486 (679)
T 4e6h_A          408 IHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHISKDT  486 (679)
T ss_dssp             HHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTTTSCC
T ss_pred             HHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHhCCCH
Confidence                       132            235777777777888899999999998875 1 11223333333222333 458


Q ss_pred             HHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CC----ChHHHHHHHHHHhhhcCCHHHHHHH
Q 046221          472 NDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GM----GPNIWRALLSGCVLHVGRFQDAEAL  546 (572)
Q Consensus       472 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~----~~~~~~~l~~~~~~~~g~~~~A~~~  546 (572)
                      +.|..+|+.+++..  +-+...+..+++.....|+.+.|..+|+++.. .|    ....|...+.--..+ |+.+.+..+
T Consensus       487 e~Ar~ife~~Lk~~--p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~-G~~~~~~~v  563 (679)
T 4e6h_A          487 KTACKVLELGLKYF--ATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKV-GSLNSVRTL  563 (679)
T ss_dssp             HHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHT-CCSHHHHHH
T ss_pred             HHHHHHHHHHHHHC--CCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHc-CCHHHHHHH
Confidence            89999999988764  44566777888888888999999999998887 33    234577777666666 999999999


Q ss_pred             HHHHHhCCCC
Q 046221          547 RSGSQKKGII  556 (572)
Q Consensus       547 ~~~m~~~~~~  556 (572)
                      .+++.+.-+.
T Consensus       564 ~~R~~~~~P~  573 (679)
T 4e6h_A          564 EKRFFEKFPE  573 (679)
T ss_dssp             HHHHHHHSTT
T ss_pred             HHHHHHhCCC
Confidence            9998877654

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.42  E-value=3.1e-09  Score=106.85  Aligned_cols=149  Identities=7%  Similarity=-0.022  Sum_probs=75.0

Q ss_pred             HHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCC---
Q 046221           54 KSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKL---  130 (572)
Q Consensus        54 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---  130 (572)
                      +.+..|++.+..+ +-|..+|..++..+.+.+.++.+..+++.++..-+          .....|...+..-.+.|+   
T Consensus        50 d~i~~lE~~l~~n-p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~fP----------~~~~lW~~Yi~~E~~~~~~~~  118 (679)
T 4e6h_A           50 DVIGKLNDMIEEQ-PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRFP----------LMANIWCMRLSLEFDKMEELD  118 (679)
T ss_dssp             CHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHTC--CCC
T ss_pred             HHHHHHHHHHHHC-cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHCC----------CCHHHHHHHHHHHHhhCCcch
Confidence            3444444444443 44556666666666666666666666666666543          233455555555556666   


Q ss_pred             hHHHHHHHHHHHhCC-CCCCHhhHHHHHHHHhccCCh--------HHHHHHHHHHHH-hcC-CCC-hhHHhHHHHHHHh-
Q 046221          131 FQQAVLLFNFFRGSG-LVPNAVTMLTVIRGCVALGSR--------ALCELIHGLTIK-LGL-ILD-VSVNNSVLDMYSC-  197 (572)
Q Consensus       131 ~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~--------~~a~~~~~~~~~-~~~-~~~-~~~~~~l~~~~~~-  197 (572)
                      ++.+..+|++..... ..|+...|..-+....+.++.        +.+.++|+..+. .|. .++ ...|...+..... 
T Consensus       119 ~~~v~~lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~  198 (679)
T 4e6h_A          119 AAVIEPVLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHW  198 (679)
T ss_dssp             HHHHHHHHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhc
Confidence            666666666666542 125555555544443333322        223345554443 243 332 3455555544321 


Q ss_pred             --------CCCHHHHHHHHhhcCC
Q 046221          198 --------LMDLDAAIQIFREMEC  213 (572)
Q Consensus       198 --------~~~~~~a~~~~~~~~~  213 (572)
                              .++++.+..+|+....
T Consensus       199 ~~~~~~eeq~~~~~~R~iy~raL~  222 (679)
T 4e6h_A          199 KPVNKFEEQQRVQYIRKLYKTLLC  222 (679)
T ss_dssp             CCCSHHHHHHHHHHHHHHHHHHTT
T ss_pred             cccCcHHHHhHHHHHHHHHHHHHh
Confidence                    2235556666666554

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.42  E-value=8.2e-12  Score=116.81  Aligned_cols=266  Identities=15%  Similarity=0.027  Sum_probs=203.3

Q ss_pred             hHHHHHHhcccCChHHHHHHHHHHHHhCCCCC---cchHHHHHHHHHhcCChhHHHHHHhccCC-----C----CcchHH
Q 046221          254 LLNLISVNAILGDLKRGKQLHAQVVLGGLQSE---LRLSNSIIAMYSKCGDLDSSRSVFNQITE-----K----SLVSWT  321 (572)
Q Consensus       254 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~----~~~~~~  321 (572)
                      +......+...|++++|...++.+.+......   ...+..+...+...|++++|...+++..+     +    ...++.
T Consensus         8 l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   87 (338)
T 3ro2_A            8 LALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASG   87 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHH
Confidence            34455677889999999999999998753211   35677889999999999999999987642     1    235678


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCCCCC----HhHHHHHHHHhccccc--------------------HHHHHHHHH
Q 046221          322 AIISGYVQNGCAREALNQFIKMRQEKTDSVD----SITLVSILTASGELAA--------------------LEICLQLHG  377 (572)
Q Consensus       322 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~--------------------~~~a~~~~~  377 (572)
                      .+...+...|++++|...+++........++    ..++..+...+...|+                    ++.|...++
T Consensus        88 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~  167 (338)
T 3ro2_A           88 NLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYE  167 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHH
Confidence            8889999999999999999987643332233    3377778888889999                    999999987


Q ss_pred             HHHHh----cCC-CchhHHHHHHHHhhhcCChHHHHHHHHHc----CCCCC----HhHHHHHHHHHHhcCChHHHHHHHH
Q 046221          378 IAFEA----GFP-RYRSVQNCLISSYSKCGNVDLAYIVFEEM----GFLRD----VVSWNTIIYGYGVNGHGETALALYH  444 (572)
Q Consensus       378 ~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~  444 (572)
                      .....    +.. .....+..+...+...|++++|...+++.    ...++    ..++..+...+...|++++|...++
T Consensus       168 ~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  247 (338)
T 3ro2_A          168 ENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYK  247 (338)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            76543    211 12346778888999999999999999987    11122    3377888889999999999999999


Q ss_pred             HHHhcCC-CCC----HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHHhhCChhHHHHHHH
Q 046221          445 KMTETGE-VPD----SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS----QEHYGCVVDLLARAGCLSDASGLAG  515 (572)
Q Consensus       445 ~~~~~g~-~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~  515 (572)
                      +..+... .++    ..++..+...+...|++++|...++++++...-..+    ..++..+..+|.+.|++++|.+.++
T Consensus       248 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  327 (338)
T 3ro2_A          248 KTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAE  327 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            9876311 111    467788889999999999999999998754311112    3477889999999999999999999


Q ss_pred             hccC
Q 046221          516 KLLE  519 (572)
Q Consensus       516 ~~~~  519 (572)
                      ++..
T Consensus       328 ~a~~  331 (338)
T 3ro2_A          328 KHLE  331 (338)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8864

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.42  E-value=1e-11  Score=119.67  Aligned_cols=263  Identities=11%  Similarity=0.001  Sum_probs=184.7

Q ss_pred             HHHHHHHHhcCChhHHHHHHhccCC--C-C----cchHHHHHHHHHHcCChHHHHHHHHHHHhc---CCCCC-CHhHHHH
Q 046221          290 NSIIAMYSKCGDLDSSRSVFNQITE--K-S----LVSWTAIISGYVQNGCAREALNQFIKMRQE---KTDSV-DSITLVS  358 (572)
Q Consensus       290 ~~l~~~~~~~~~~~~a~~~~~~~~~--~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~-~~~~~~~  358 (572)
                      ......+...|++++|...|++..+  | +    ...+..+...+...|++++|...+++....   .+..| ....+..
T Consensus        13 ~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~   92 (406)
T 3sf4_A           13 ALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGN   92 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHH
Confidence            3344455555555555555555432  1 1    134556666777777777777777765422   12222 2446777


Q ss_pred             HHHHhcccccHHHHHHHHHHHHHhcCC-C----chhHHHHHHHHhhhcCC--------------------hHHHHHHHHH
Q 046221          359 ILTASGELAALEICLQLHGIAFEAGFP-R----YRSVQNCLISSYSKCGN--------------------VDLAYIVFEE  413 (572)
Q Consensus       359 ll~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~g~--------------------~~~A~~~~~~  413 (572)
                      +...+...|+++.|...++...+.... +    ....+..+...|...|+                    +++|...+++
T Consensus        93 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~  172 (406)
T 3sf4_A           93 LGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEE  172 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHH
Confidence            788889999999999999877654211 1    14477888889999999                    9999998887


Q ss_pred             c-------CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCC-CCC----HHHHHHHHHHHhccCChHHHHHHHHH
Q 046221          414 M-------GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGE-VPD----SSTYLSILNACGHAGLTNDGLVIFNQ  480 (572)
Q Consensus       414 ~-------~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~-~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~  480 (572)
                      .       +..| ...++..+...|...|++++|...+++..+..- .++    ..++..+...+...|++++|...+++
T Consensus       173 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  252 (406)
T 3sf4_A          173 NLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKK  252 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            6       2112 245678888999999999999999999876310 122    24788889999999999999999998


Q ss_pred             hHHhcCCCCC----hhHHHHHHHHHHhhCChhHHHHHHHhccC----CCC----hHHHHHHHHHHhhhcCCHHHHHHHHH
Q 046221          481 MIEENKVKPS----QEHYGCVVDLLARAGCLSDASGLAGKLLE----GMG----PNIWRALLSGCVLHVGRFQDAEALRS  548 (572)
Q Consensus       481 ~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~----~~~~~~l~~~~~~~~g~~~~A~~~~~  548 (572)
                      +++...-.++    ..++..+...|...|++++|.+.++++..    .++    ..++..+...+... |++++|...++
T Consensus       253 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~-g~~~~A~~~~~  331 (406)
T 3sf4_A          253 TLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTAL-GNHDQAMHFAE  331 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH-TCHHHHHHHHH
T ss_pred             HHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHc-CCHHHHHHHHH
Confidence            8754311122    45788899999999999999999998876    222    33566677777666 99999999999


Q ss_pred             HHHhC
Q 046221          549 GSQKK  553 (572)
Q Consensus       549 ~m~~~  553 (572)
                      +..+.
T Consensus       332 ~al~~  336 (406)
T 3sf4_A          332 KHLEI  336 (406)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87643

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.40  E-value=4.3e-11  Score=114.24  Aligned_cols=230  Identities=9%  Similarity=-0.014  Sum_probs=166.7

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCCCC----HhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCC------chhHHH
Q 046221          323 IISGYVQNGCAREALNQFIKMRQEKTDSVD----SITLVSILTASGELAALEICLQLHGIAFEAGFPR------YRSVQN  392 (572)
Q Consensus       323 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~  392 (572)
                      ....+...|++++|+..+++........++    ..++..+...+...|+++.|...+....+.....      ...+++
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            445566778888888888877633222222    3466677777788888888888887766542111      234677


Q ss_pred             HHHHHhhhcCChHHHHHHHHHc----CCCCC----HhHHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCCC-HHHHH
Q 046221          393 CLISSYSKCGNVDLAYIVFEEM----GFLRD----VVSWNTIIYGYGVNGHGETALALYHKMTET----GEVPD-SSTYL  459 (572)
Q Consensus       393 ~l~~~~~~~g~~~~A~~~~~~~----~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----g~~p~-~~~~~  459 (572)
                      .+..+|...|++++|...+++.    ...++    ..++..+...|...|++++|+..+++..+.    +..|+ ..++.
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            8888999999999999999887    11122    247888899999999999999999998772    23244 47888


Q ss_pred             HHHHHHhccCChHHHHHHHHHhHHhcC---CCCChhHHHHHHHHHHhhCC---hhHHHHHHHhccCCCC-hHHHHHHHHH
Q 046221          460 SILNACGHAGLTNDGLVIFNQMIEENK---VKPSQEHYGCVVDLLARAGC---LSDASGLAGKLLEGMG-PNIWRALLSG  532 (572)
Q Consensus       460 ~l~~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~-~~~~~~l~~~  532 (572)
                      .+...+.+.|++++|...++++++...   -+.....+..+...+...|+   .++|..++++....|+ ...+..+...
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~  348 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAIDVAKY  348 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence            999999999999999999998875421   11122345678888889998   8999999998865333 3355666666


Q ss_pred             HhhhcCCHHHHHHHHHHHHhC
Q 046221          533 CVLHVGRFQDAEALRSGSQKK  553 (572)
Q Consensus       533 ~~~~~g~~~~A~~~~~~m~~~  553 (572)
                      +... |++++|...+++..+.
T Consensus       349 y~~~-g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          349 YHER-KNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHT-TCHHHHHHHHHHHHHH
T ss_pred             HHHC-CCHHHHHHHHHHHHHH
Confidence            6666 9999999999998653

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.40  E-value=3.1e-11  Score=101.89  Aligned_cols=125  Identities=10%  Similarity=0.024  Sum_probs=52.2

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHh
Q 046221          390 VQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACG  466 (572)
Q Consensus       390 ~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~  466 (572)
                      .+..+..+|.+.|++++|...+...  ..+.+...+..+...+...++++.|...+.+..+.  .| +...+..+...+.
T Consensus        41 ~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~  118 (184)
T 3vtx_A           41 TLLKLGKTYMDIGLPNDAIESLKKFVVLDTTSAEAYYILGSANFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYD  118 (184)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHH
Confidence            3333444444444444444444443  11122333333344444444444444444444442  22 2334444444444


Q ss_pred             ccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhcc
Q 046221          467 HAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       467 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                      +.|++++|++.|+++++..  +.+...+..+..+|.+.|++++|.+.|+++.
T Consensus       119 ~~g~~~~A~~~~~~~l~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  168 (184)
T 3vtx_A          119 SMGEHDKAIEAYEKTISIK--PGFIRAYQSIGLAYEGKGLRDEAVKYFKKAL  168 (184)
T ss_dssp             HTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HhCCchhHHHHHHHHHHhc--chhhhHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            4444444444444444322  2233344444444444444444444444443

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.40  E-value=4e-11  Score=101.19  Aligned_cols=165  Identities=12%  Similarity=-0.017  Sum_probs=141.5

Q ss_pred             CchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHH
Q 046221          386 RYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSIL  462 (572)
Q Consensus       386 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~  462 (572)
                      .+..+|..+...|.+.|++++|++.|++. ...| +...|..+..+|.+.|++++|...+.+....  .| +...+..+.
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~   80 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYILG   80 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHHH
Confidence            35677888999999999999999999998 3334 5788999999999999999999999999885  44 557788888


Q ss_pred             HHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCChHHHHHHHHHHhhhcCCH
Q 046221          463 NACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMGPNIWRALLSGCVLHVGRF  540 (572)
Q Consensus       463 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~~g~~  540 (572)
                      ..+...++++.|...++++++..  +.+...+..+..+|.+.|++++|++.++++.+  +.++.+|..+...+... |++
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~--~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~-g~~  157 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALN--TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGK-GLR  157 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHC-CCH
Confidence            89999999999999999997654  55677899999999999999999999999887  45666788888888777 999


Q ss_pred             HHHHHHHHHHHhCCC
Q 046221          541 QDAEALRSGSQKKGI  555 (572)
Q Consensus       541 ~~A~~~~~~m~~~~~  555 (572)
                      ++|++.|++..+..+
T Consensus       158 ~~A~~~~~~al~~~p  172 (184)
T 3vtx_A          158 DEAVKYFKKALEKEE  172 (184)
T ss_dssp             HHHHHHHHHHHHTTH
T ss_pred             HHHHHHHHHHHhCCc
Confidence            999999999987654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.39  E-value=1.1e-10  Score=107.43  Aligned_cols=182  Identities=8%  Similarity=-0.016  Sum_probs=81.3

Q ss_pred             HHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCC-Hh-HHHHHHHHHHhcCChHHHHHHHHHH
Q 046221          370 EICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRD-VV-SWNTIIYGYGVNGHGETALALYHKM  446 (572)
Q Consensus       370 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~-~~-~~~~l~~~~~~~~~~~~A~~~~~~~  446 (572)
                      ++|..++++..+.-.+.+...|..++..+.+.|++++|..+|++. ...|+ .. .|..++..+.+.|++++|..+|++.
T Consensus        81 ~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  160 (308)
T 2ond_A           81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKA  160 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            444444444443211223334444555555555555555555554 33332 11 4555555555555555555555555


Q ss_pred             HhcCCCCCHHHHHHHHHHH-hccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC----CC
Q 046221          447 TETGEVPDSSTYLSILNAC-GHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE----GM  521 (572)
Q Consensus       447 ~~~g~~p~~~~~~~l~~~~-~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~  521 (572)
                      .+.. +++...|....... ...|++++|..+|+++++..  +-+...|..++..+.+.|++++|..+|+++..    +|
T Consensus       161 ~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p  237 (308)
T 2ond_A          161 REDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPP  237 (308)
T ss_dssp             HTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCG
T ss_pred             HhcC-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCH
Confidence            5421 11222222222211 12455555555555554433  22344455555555555555555555555443    11


Q ss_pred             --ChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCC
Q 046221          522 --GPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGI  555 (572)
Q Consensus       522 --~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~  555 (572)
                        ....|..++...... |+.++|..+++++.+..+
T Consensus       238 ~~~~~l~~~~~~~~~~~-g~~~~a~~~~~~a~~~~p  272 (308)
T 2ond_A          238 EKSGEIWARFLAFESNI-GDLASILKVEKRRFTAFR  272 (308)
T ss_dssp             GGCHHHHHHHHHHHHHH-SCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHcc
Confidence              122344444444444 555555555555544433

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.35  E-value=4.2e-10  Score=103.58  Aligned_cols=212  Identities=10%  Similarity=0.071  Sum_probs=137.4

Q ss_pred             hHHHHHHhccCC---CCcchHHHHHHHHH-------HcCCh-------HHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcc
Q 046221          303 DSSRSVFNQITE---KSLVSWTAIISGYV-------QNGCA-------REALNQFIKMRQEKTDSVDSITLVSILTASGE  365 (572)
Q Consensus       303 ~~a~~~~~~~~~---~~~~~~~~l~~~~~-------~~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~  365 (572)
                      ++|..+|++...   .+...|..++..+.       +.|++       ++|..+|++.. ..-.+-+...+..+...+..
T Consensus        33 ~~a~~~~~~al~~~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl-~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAI-STLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHH-TTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHH-HHhCcccHHHHHHHHHHHHh
Confidence            344445554442   23345555544443       24554       67777777765 21122334466666666667


Q ss_pred             cccHHHHHHHHHHHHHhcCCCc-hh-HHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHH-HhcCChHHHH
Q 046221          366 LAALEICLQLHGIAFEAGFPRY-RS-VQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGY-GVNGHGETAL  440 (572)
Q Consensus       366 ~~~~~~a~~~~~~~~~~~~~~~-~~-~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~-~~~~~~~~A~  440 (572)
                      .|+++.|..+|+++.+.  .|+ .. .|..++..+.+.|++++|..+|++. ...| +...|....... ...|++++|.
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~a~~~~~~~~~~~~A~  189 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             cCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCHHHHH
Confidence            77777777777776653  333 33 6777778888888888888888887 3323 334443333222 2368888888


Q ss_pred             HHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC--hhHHHHHHHHHHhhCChhHHHHHHHhc
Q 046221          441 ALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS--QEHYGCVVDLLARAGCLSDASGLAGKL  517 (572)
Q Consensus       441 ~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~  517 (572)
                      .+|++..+.  .| +...|..++..+.+.|++++|..+|+++++...++|+  ...|..++..+.+.|+.++|..+++++
T Consensus       190 ~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          190 KIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            888888774  44 4577778888888888888888888888754334553  457778888888888888888888887


Q ss_pred             cC
Q 046221          518 LE  519 (572)
Q Consensus       518 ~~  519 (572)
                      .+
T Consensus       268 ~~  269 (308)
T 2ond_A          268 FT  269 (308)
T ss_dssp             HH
T ss_pred             HH
Confidence            76

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.34  E-value=9.1e-11  Score=111.96  Aligned_cols=225  Identities=8%  Similarity=-0.115  Sum_probs=159.7

Q ss_pred             HHHHHHhcCChhHHHHHHhccCC-----CC----cchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCC-----HhHHH
Q 046221          292 IIAMYSKCGDLDSSRSVFNQITE-----KS----LVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVD-----SITLV  357 (572)
Q Consensus       292 l~~~~~~~~~~~~a~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~  357 (572)
                      ....+...|++++|...|++..+     ++    ..++..+...|...|++++|+..+++..+.....++     ..++.
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            44556677778877777776643     22    246677777788888888888888776533222222     34666


Q ss_pred             HHHHHhcccccHHHHHHHHHHHHHhcCC-C----chhHHHHHHHHhhhcCChHHHHHHHHHc-------CC-CCCHhHHH
Q 046221          358 SILTASGELAALEICLQLHGIAFEAGFP-R----YRSVQNCLISSYSKCGNVDLAYIVFEEM-------GF-LRDVVSWN  424 (572)
Q Consensus       358 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~-~~~~~~~~  424 (572)
                      .+...+...|+++.|...++...+.... +    ...++..+..+|...|++++|.+.+++.       +. +....++.
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            7777788888888888888777654211 1    1246777889999999999999999877       22 22356788


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCC---CCC-HHHHHHHHHHHhccCC---hHHHHHHHHHhHHhcCCCCChhHHHHH
Q 046221          425 TIIYGYGVNGHGETALALYHKMTETGE---VPD-SSTYLSILNACGHAGL---TNDGLVIFNQMIEENKVKPSQEHYGCV  497 (572)
Q Consensus       425 ~l~~~~~~~~~~~~A~~~~~~~~~~g~---~p~-~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~~~l  497 (572)
                      .+...|.+.|++++|...+++..+..-   .|. ...+..+...+...|+   +++|+.++++. ..  .+.....+..+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~--~~~~~~~~~~l  345 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK-ML--YADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT-TC--HHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC-cC--HHHHHHHHHHH
Confidence            889999999999999999998876310   222 2345677888899998   77788887765 11  12334477789


Q ss_pred             HHHHHhhCChhHHHHHHHhccC
Q 046221          498 VDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       498 ~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ...|...|++++|.+.+++...
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            9999999999999999998754

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.34  E-value=5.1e-10  Score=106.47  Aligned_cols=228  Identities=12%  Similarity=0.013  Sum_probs=163.1

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCCCC----HhHHHHHHHHhcccccHHHHHHHHHHHHHhcCC-C-----chhHHH
Q 046221          323 IISGYVQNGCAREALNQFIKMRQEKTDSVD----SITLVSILTASGELAALEICLQLHGIAFEAGFP-R-----YRSVQN  392 (572)
Q Consensus       323 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~-----~~~~~~  392 (572)
                      ....+...|++++|+..|++........++    ..++..+...+...|+++.|...+....+.... +     ...+++
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            344566788888888888887633222233    346667777788888888888888777654211 1     245677


Q ss_pred             HHHHHhhhcCChHHHHHHHHHc-------CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHh-----cCCCCCHHHHH
Q 046221          393 CLISSYSKCGNVDLAYIVFEEM-------GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTE-----TGEVPDSSTYL  459 (572)
Q Consensus       393 ~l~~~~~~~g~~~~A~~~~~~~-------~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~g~~p~~~~~~  459 (572)
                      .+..+|...|++++|.+.+++.       +..+ ...++..+...|...|++++|+..+++..+     .. +....++.
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~  265 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLF  265 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHH
Confidence            7888999999999999988877       1111 135677888899999999999999999877     32 22357788


Q ss_pred             HHHHHHhccCChHHHHHHHHHhHHhcCCCCC---hhHHHHHHHHHHhhCC---hhHHHHHHHhccCCCC-hHHHHHHHHH
Q 046221          460 SILNACGHAGLTNDGLVIFNQMIEENKVKPS---QEHYGCVVDLLARAGC---LSDASGLAGKLLEGMG-PNIWRALLSG  532 (572)
Q Consensus       460 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~-~~~~~~l~~~  532 (572)
                      .+...+.+.|++++|...++++++...-.++   ...+..+...+...|+   +.+|...+++....++ ...+..+...
T Consensus       266 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~  345 (378)
T 3q15_A          266 GLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAAV  345 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHHH
Confidence            8899999999999999999998765422122   3356666677778888   8889999988654333 3345555555


Q ss_pred             HhhhcCCHHHHHHHHHHHHh
Q 046221          533 CVLHVGRFQDAEALRSGSQK  552 (572)
Q Consensus       533 ~~~~~g~~~~A~~~~~~m~~  552 (572)
                      +... |++++|...+++..+
T Consensus       346 y~~~-g~~~~A~~~~~~al~  364 (378)
T 3q15_A          346 FESS-CHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHT-TCHHHHHHHHHHHHH
T ss_pred             HHHC-CCHHHHHHHHHHHHH
Confidence            6555 999999999998764

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.32  E-value=4.2e-11  Score=110.60  Aligned_cols=235  Identities=13%  Similarity=0.083  Sum_probs=165.3

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHhcC------CCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHh------cC-
Q 046221          318 VSWTAIISGYVQNGCAREALNQFIKMRQEK------TDSVDSITLVSILTASGELAALEICLQLHGIAFEA------GF-  384 (572)
Q Consensus       318 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~-  384 (572)
                      .++..+...+...|++++|..+++++.+..      ..+.....+..+...+...|+++.|...++...+.      +- 
T Consensus        28 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  107 (311)
T 3nf1_A           28 RTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDH  107 (311)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCC
Confidence            568888899999999999999999987321      23334567788888899999999999999888765      22 


Q ss_pred             CCchhHHHHHHHHhhhcCChHHHHHHHHHc-C-------C-CC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhc-----
Q 046221          385 PRYRSVQNCLISSYSKCGNVDLAYIVFEEM-G-------F-LR-DVVSWNTIIYGYGVNGHGETALALYHKMTET-----  449 (572)
Q Consensus       385 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-------~-~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----  449 (572)
                      +.....+..+...+...|++++|...+++. .       . .| ....+..+...|...|++++|+.+++++.+.     
T Consensus       108 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~  187 (311)
T 3nf1_A          108 PAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKL  187 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHh
Confidence            234567788899999999999999999887 1       1 12 3556788889999999999999999998874     


Q ss_pred             -CCCCCH-HHHHHHHHHHhccCChHHHHHHHHHhHHhc------CCCCCh-------hHHHHHHHHHHhhCChhHHHHHH
Q 046221          450 -GEVPDS-STYLSILNACGHAGLTNDGLVIFNQMIEEN------KVKPSQ-------EHYGCVVDLLARAGCLSDASGLA  514 (572)
Q Consensus       450 -g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~------~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~  514 (572)
                       +..|+. .++..+...+...|++++|..+++++++..      ...+..       ..+..+...+...+.+.+|...+
T Consensus       188 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  267 (311)
T 3nf1_A          188 GPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWY  267 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHH
Confidence             224433 678888999999999999999999987531      111111       12233334445566677777777


Q ss_pred             HhccC--CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhC
Q 046221          515 GKLLE--GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKK  553 (572)
Q Consensus       515 ~~~~~--~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~  553 (572)
                      ++...  +....++..+...+... |++++|.+.+++..+.
T Consensus       268 ~~~~~~~~~~~~~~~~la~~~~~~-g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          268 KACKVDSPTVTTTLKNLGALYRRQ-GKFEAAETLEEAAMRS  307 (311)
T ss_dssp             ------CHHHHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHH
T ss_pred             hhcCCCCchHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHH
Confidence            77765  33344677777777777 9999999999988654

>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=99.31  E-value=9.1e-11  Score=98.98  Aligned_cols=164  Identities=13%  Similarity=-0.015  Sum_probs=135.1

Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHHc-CC-CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Q 046221          389 SVQNCLISSYSKCGNVDLAYIVFEEM-GF-LRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACG  466 (572)
Q Consensus       389 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~  466 (572)
                      ..+..+...+...|++++|...++++ .. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+.
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   87 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            34566777888999999999999988 33 3457788888999999999999999999998852 335688888899999


Q ss_pred             ccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCChHHHHHHHHHHhhhcCCHHHHH
Q 046221          467 HAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMGPNIWRALLSGCVLHVGRFQDAE  544 (572)
Q Consensus       467 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~~g~~~~A~  544 (572)
                      ..|++++|.+.++++++..  +.+...+..+..++...|++++|.+.++++..  +.++..+..+...+... |++++|.
T Consensus        88 ~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~-~~~~~A~  164 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEAN--PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQM-GRHEEAL  164 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC--cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHc-CCHHHHH
Confidence            9999999999999997654  55677888899999999999999999999877  44566777777777766 9999999


Q ss_pred             HHHHHHHhCCCC
Q 046221          545 ALRSGSQKKGII  556 (572)
Q Consensus       545 ~~~~~m~~~~~~  556 (572)
                      ..+++..+....
T Consensus       165 ~~~~~~~~~~~~  176 (186)
T 3as5_A          165 PHFKKANELDEG  176 (186)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCC
Confidence            999998776543

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.31  E-value=7.1e-11  Score=115.56  Aligned_cols=192  Identities=14%  Similarity=0.052  Sum_probs=121.4

Q ss_pred             CcchHHHHHHHHHhcCCh-hHHHHHHhccCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHH
Q 046221          285 ELRLSNSIIAMYSKCGDL-DSSRSVFNQITE---KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSIL  360 (572)
Q Consensus       285 ~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll  360 (572)
                      +...+..+...+...|++ ++|+..|++..+   .+...|..+..+|...|++++|...|++.. ..  .|+...+..  
T Consensus       101 ~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al-~~--~p~~~~~~~--  175 (474)
T 4abn_A          101 EAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGAL-TH--CKNKVSLQN--  175 (474)
T ss_dssp             CHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH-TT--CCCHHHHHH--
T ss_pred             hHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-hh--CCCHHHHHH--
Confidence            334444455555555555 555555554432   233456666666666777777777776665 21  233344444  


Q ss_pred             HHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhc---------CChHHHHHHHHHc-C-CCCCHhHHHHHHHH
Q 046221          361 TASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKC---------GNVDLAYIVFEEM-G-FLRDVVSWNTIIYG  429 (572)
Q Consensus       361 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---------g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~  429 (572)
                                                       +..++...         |++++|+..+++. . .+.+...|..+..+
T Consensus       176 ---------------------------------lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~  222 (474)
T 4abn_A          176 ---------------------------------LSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNA  222 (474)
T ss_dssp             ---------------------------------HHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             ---------------------------------HHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence                                             44444444         5566666666655 2 22345666677777


Q ss_pred             HHhc--------CChHHHHHHHHHHHhcCCCC----CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHH
Q 046221          430 YGVN--------GHGETALALYHKMTETGEVP----DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCV  497 (572)
Q Consensus       430 ~~~~--------~~~~~A~~~~~~~~~~g~~p----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l  497 (572)
                      |...        |++++|+..|++..+.  .|    +...|..+..+|...|++++|+..|+++++..  +.+...+..+
T Consensus       223 ~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~a~~~l  298 (474)
T 4abn_A          223 YLSLYFNTGQNPKISQQALSAYAQAEKV--DRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD--PAWPEPQQRE  298 (474)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHHHHH--CGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHH
Confidence            7666        7788888888888874  45    56778888888888888888888888887544  3445567778


Q ss_pred             HHHHHhhCChhHHHHHHHhcc
Q 046221          498 VDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       498 ~~~~~~~g~~~~A~~~~~~~~  518 (572)
                      ..++...|++++|.+.+.++.
T Consensus       299 ~~~~~~lg~~~eAi~~~~~~~  319 (474)
T 4abn_A          299 QQLLEFLSRLTSLLESKGKTK  319 (474)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCC
T ss_pred             HHHHHHHHHHHHHHHHhcccc
Confidence            888888888888887766653

>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=99.27  E-value=8.4e-11  Score=119.65  Aligned_cols=159  Identities=13%  Similarity=0.125  Sum_probs=90.0

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HHHHHHHHHH
Q 046221          388 RSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD-SSTYLSILNA  464 (572)
Q Consensus       388 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~  464 (572)
                      ...++.+..+|.+.|++++|++.|++. .+.| +..+|..+..+|.+.|++++|+..|++.++  +.|+ ...|..+..+
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~--l~P~~~~a~~nLg~~   86 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence            445555556666666666666666655 2223 245556666666666666666666666665  3443 3556666666


Q ss_pred             HhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CC-ChHHHHHHHHHHhhhcCCHHH
Q 046221          465 CGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GM-GPNIWRALLSGCVLHVGRFQD  542 (572)
Q Consensus       465 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~~~~~~g~~~~  542 (572)
                      +...|++++|++.|+++++..  +-+...+..+..+|.+.|++++|++.++++.+ .| +...|..+...+... |++++
T Consensus        87 l~~~g~~~~A~~~~~kAl~l~--P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~-g~~~~  163 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQIN--PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIV-CDWTD  163 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHT-TCCTT
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhc-ccHHH
Confidence            666666666666666665433  23344566666666666666666666666555 33 334455555555444 66666


Q ss_pred             HHHHHHHHH
Q 046221          543 AEALRSGSQ  551 (572)
Q Consensus       543 A~~~~~~m~  551 (572)
                      |.+.+++..
T Consensus       164 A~~~~~kal  172 (723)
T 4gyw_A          164 YDERMKKLV  172 (723)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666555554

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.26  E-value=1.1e-10  Score=107.77  Aligned_cols=233  Identities=13%  Similarity=0.074  Sum_probs=166.7

Q ss_pred             CcchHHHHHHHHHhcCChhHHHHHHhccCC--------CC---cchHHHHHHHHHHcCChHHHHHHHHHHHhcC-----C
Q 046221          285 ELRLSNSIIAMYSKCGDLDSSRSVFNQITE--------KS---LVSWTAIISGYVQNGCAREALNQFIKMRQEK-----T  348 (572)
Q Consensus       285 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~  348 (572)
                      ...++..+...+...|++++|...|+++.+        .+   ..++..+...+...|++++|...+++.....     +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            345778889999999999999999988764        22   2467888899999999999999999987431     2


Q ss_pred             -CCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHh------cC-CCchhHHHHHHHHhhhcCChHHHHHHHHHc-CC---
Q 046221          349 -DSVDSITLVSILTASGELAALEICLQLHGIAFEA------GF-PRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GF---  416 (572)
Q Consensus       349 -~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~---  416 (572)
                       .+.....+..+...+...|+++.|...++.+.+.      +. +.....+..+...+...|++++|.+++++. ..   
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             2334567888888999999999999999988765      22 224566788899999999999999999987 11   


Q ss_pred             -----CC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhc-------CCCCCH-------HHHHHHHHHHhccCChHHHHH
Q 046221          417 -----LR-DVVSWNTIIYGYGVNGHGETALALYHKMTET-------GEVPDS-------STYLSILNACGHAGLTNDGLV  476 (572)
Q Consensus       417 -----~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-------g~~p~~-------~~~~~l~~~~~~~g~~~~a~~  476 (572)
                           .| ...++..+...|...|++++|...++++.+.       ...+..       ..+..+...+...+.+.++..
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                 23 2456888899999999999999999999863       122222       122233334455666777777


Q ss_pred             HHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          477 IFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .++......  +....++..+..+|.+.|++++|.+.++++.+
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            777775322  34556888999999999999999999998754

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.22  E-value=8.6e-10  Score=104.89  Aligned_cols=224  Identities=9%  Similarity=0.013  Sum_probs=158.8

Q ss_pred             HHHHHHhcCChhHHHHHHhccCC-----CC----cchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCC-----CHhHHH
Q 046221          292 IIAMYSKCGDLDSSRSVFNQITE-----KS----LVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSV-----DSITLV  357 (572)
Q Consensus       292 l~~~~~~~~~~~~a~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~  357 (572)
                      ....+...|++++|...|++..+     ++    ..++..+...|...|+++.|+..+++..+.....+     ...++.
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            34456677888888877776643     22    23566777788888888888888877653322212     234666


Q ss_pred             HHHHHhcccccHHHHHHHHHHHHHhc--CC---CchhHHHHHHHHhhhcCChHHHHHHHHHc-------CCCCCHhHHHH
Q 046221          358 SILTASGELAALEICLQLHGIAFEAG--FP---RYRSVQNCLISSYSKCGNVDLAYIVFEEM-------GFLRDVVSWNT  425 (572)
Q Consensus       358 ~ll~~~~~~~~~~~a~~~~~~~~~~~--~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~~~~~~~~~  425 (572)
                      .+...+...|+++.|...++...+..  ..   ....++..+..+|...|++++|.+.+++.       +.+....++..
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  266 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFG  266 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHH
Confidence            77778888888888888887776532  11   12346677888999999999999999877       23223567788


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCC---CCCH-HHHHHHHHHHhccCC---hHHHHHHHHHhHHhcCCCCChhHHHHHH
Q 046221          426 IIYGYGVNGHGETALALYHKMTETGE---VPDS-STYLSILNACGHAGL---TNDGLVIFNQMIEENKVKPSQEHYGCVV  498 (572)
Q Consensus       426 l~~~~~~~~~~~~A~~~~~~~~~~g~---~p~~-~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~  498 (572)
                      +...|.+.|++++|...+++..+..-   .|.. ..+..+...+...|+   +.+|+.++++.   ...+.....+..+.
T Consensus       267 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la  343 (378)
T 3q15_A          267 LSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEACARSAA  343 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHHHHHHHH
Confidence            88999999999999999999887421   2322 456666677888888   77788777753   11122334677889


Q ss_pred             HHHHhhCChhHHHHHHHhcc
Q 046221          499 DLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       499 ~~~~~~g~~~~A~~~~~~~~  518 (572)
                      ..|...|++++|...++++.
T Consensus       344 ~~y~~~g~~~~A~~~~~~al  363 (378)
T 3q15_A          344 AVFESSCHFEQAAAFYRKVL  363 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHH
Confidence            99999999999999999875

>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=99.21  E-value=1.2e-09  Score=95.73  Aligned_cols=193  Identities=9%  Similarity=-0.042  Sum_probs=140.5

Q ss_pred             CCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHH
Q 046221          351 VDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIY  428 (572)
Q Consensus       351 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~  428 (572)
                      .|+..+......+...|++++|...++...+...+++...+..+..++...|++++|++.+++. ...| +...|..+..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   84 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSA   84 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHH
Confidence            4567777778888888999999999988888764466666666888888899999999988887 4444 4667888888


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCC-H-------HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC---hhHHHHH
Q 046221          429 GYGVNGHGETALALYHKMTETGEVPD-S-------STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS---QEHYGCV  497 (572)
Q Consensus       429 ~~~~~~~~~~A~~~~~~~~~~g~~p~-~-------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~~l  497 (572)
                      .|...|++++|+..+++..+.  .|+ .       ..|..+...+...|++++|+..|+++++.   .|+   ...+..+
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~~l  159 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV---TSKKWKTDALYSL  159 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS---SCHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc---CCCcccHHHHHHH
Confidence            888889999999999888884  453 3       44777777888888999999999888743   454   4577777


Q ss_pred             HHHHHhhCChhHHHHHHHhccC--CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          498 VDLLARAGCLSDASGLAGKLLE--GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       498 ~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                      ..+|...|+     ..++++..  ..+...|......  . .+.+++|+..+++..+..+.
T Consensus       160 ~~~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~--~-~~~~~~A~~~~~~a~~l~p~  212 (228)
T 4i17_A          160 GVLFYNNGA-----DVLRKATPLASSNKEKYASEKAK--A-DAAFKKAVDYLGEAVTLSPN  212 (228)
T ss_dssp             HHHHHHHHH-----HHHHHHGGGTTTCHHHHHHHHHH--H-HHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHH-----HHHHHHHhcccCCHHHHHHHHHH--H-HHHHHHHHHHHHHHhhcCCC
Confidence            777765553     33444433  3334444444332  2 27789999999999877654

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.20  E-value=2.8e-09  Score=101.17  Aligned_cols=292  Identities=13%  Similarity=0.037  Sum_probs=191.6

Q ss_pred             HHHhcccCChHHHHHHHHHHHHhCCCCCcc----hHHHHHHHHHhcCChhHHHHHHhccCC-----CCc----chHHHHH
Q 046221          258 ISVNAILGDLKRGKQLHAQVVLGGLQSELR----LSNSIIAMYSKCGDLDSSRSVFNQITE-----KSL----VSWTAII  324 (572)
Q Consensus       258 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~----~~~~~l~  324 (572)
                      ...+...|+++.|...++.........+..    .+..+...+...|++++|...+++...     .+.    .++..+.
T Consensus        21 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  100 (373)
T 1hz4_A           21 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQS  100 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            345567899999999999988765322222    455667778889999999998887653     222    2355667


Q ss_pred             HHHHHcCChHHHHHHHHHHHhcC---CCC--CC-HhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCC----chhHHHHH
Q 046221          325 SGYVQNGCAREALNQFIKMRQEK---TDS--VD-SITLVSILTASGELAALEICLQLHGIAFEAGFPR----YRSVQNCL  394 (572)
Q Consensus       325 ~~~~~~~~~~~a~~~~~~~~~~~---~~~--~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l  394 (572)
                      ..+...|++++|...+++.....   +..  |. ...+..+...+...|+++.|...++.........    ....+..+
T Consensus       101 ~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  180 (373)
T 1hz4_A          101 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAML  180 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHH
Confidence            78888999999999998876332   222  22 3355556677788899999999888877654321    23456677


Q ss_pred             HHHhhhcCChHHHHHHHHHc----CCCCCHhHHH-----HHHHHHHhcCChHHHHHHHHHHHhcCCCCC---HHHHHHHH
Q 046221          395 ISSYSKCGNVDLAYIVFEEM----GFLRDVVSWN-----TIIYGYGVNGHGETALALYHKMTETGEVPD---SSTYLSIL  462 (572)
Q Consensus       395 ~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~~-----~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~---~~~~~~l~  462 (572)
                      ...+...|++++|...+++.    ........+.     ..+..+...|++++|...+++.......+.   ...+..+.
T Consensus       181 a~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la  260 (373)
T 1hz4_A          181 IQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIA  260 (373)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHH
Confidence            78888889999998888876    1111111222     223446788999999998888776432111   23456677


Q ss_pred             HHHhccCChHHHHHHHHHhHHhc---CCCCCh-hHHHHHHHHHHhhCChhHHHHHHHhccCCCChHHHHHHHHHHhhhcC
Q 046221          463 NACGHAGLTNDGLVIFNQMIEEN---KVKPSQ-EHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVG  538 (572)
Q Consensus       463 ~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~g  538 (572)
                      ..+...|++++|...++++++..   +.+++. ..+..+..++...|+.++|...+++........   ..+..+... |
T Consensus       261 ~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~~~---g~~~~~~~~-g  336 (373)
T 1hz4_A          261 RAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRT---GFISHFVIE-G  336 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH---CCCHHHHTT-H
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhccc---cHHHHHHHc-c
Confidence            78888899999999888876432   212222 256667778888899999999888887511000   111222223 4


Q ss_pred             CHHHHHHHHHHHHhCCC
Q 046221          539 RFQDAEALRSGSQKKGI  555 (572)
Q Consensus       539 ~~~~A~~~~~~m~~~~~  555 (572)
                        +....+++.+.+...
T Consensus       337 --~~~~~ll~~~~~~~~  351 (373)
T 1hz4_A          337 --EAMAQQLRQLIQLNT  351 (373)
T ss_dssp             --HHHHHHHHHHHHTTC
T ss_pred             --HHHHHHHHHHHhCCC
Confidence              567777777766554

>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=99.19  E-value=1.6e-09  Score=94.90  Aligned_cols=202  Identities=10%  Similarity=0.056  Sum_probs=153.9

Q ss_pred             CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHH
Q 046221          315 KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCL  394 (572)
Q Consensus       315 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  394 (572)
                      .++..+......+...|++++|+..|++.. ....+++...+..+..++...|++++|...++...+.. +.+...+..+
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al-~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   82 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYL-KLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGK   82 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHH-hccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHH
Confidence            355678888899999999999999999997 43333677777778899999999999999999998765 4467788899


Q ss_pred             HHHhhhcCChHHHHHHHHHc-CCCCC-H-------hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--H-HHHHHHH
Q 046221          395 ISSYSKCGNVDLAYIVFEEM-GFLRD-V-------VSWNTIIYGYGVNGHGETALALYHKMTETGEVPD--S-STYLSIL  462 (572)
Q Consensus       395 ~~~~~~~g~~~~A~~~~~~~-~~~~~-~-------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~--~-~~~~~l~  462 (572)
                      ..++...|++++|...+++. ...|+ .       ..|..+...+...|++++|+..|++..+  +.|+  . ..+..+.
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~~~l~  160 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD--VTSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SSCHHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh--cCCCcccHHHHHHHH
Confidence            99999999999999999998 33333 4       4577888889999999999999999998  5676  4 6777888


Q ss_pred             HHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHHHHH
Q 046221          463 NACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWRAL  529 (572)
Q Consensus       463 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l  529 (572)
                      .+|...|     ..+++++....  ..+...+....  ....+.+++|...+++..+ .|+......+
T Consensus       161 ~~~~~~~-----~~~~~~a~~~~--~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~  219 (228)
T 4i17_A          161 VLFYNNG-----ADVLRKATPLA--SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQM  219 (228)
T ss_dssp             HHHHHHH-----HHHHHHHGGGT--TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHH-----HHHHHHHHhcc--cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHH
Confidence            8876544     44556554322  23344444443  3456778999999999887 5554443333

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.19  E-value=8e-09  Score=98.03  Aligned_cols=292  Identities=11%  Similarity=-0.066  Sum_probs=202.6

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCcc----chHHHHHHhcccCChHHHHHHHHHHHHhCCC-CCc----chH
Q 046221          219 WTRMMGLFVDFEYAGDALKIFREMRKSRIICDTV----ALLNLISVNAILGDLKRGKQLHAQVVLGGLQ-SEL----RLS  289 (572)
Q Consensus       219 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~----~~~  289 (572)
                      .......+...|++++|...+++........+..    .+..+...+...|+++.|...+++....... .+.    .++
T Consensus        17 ~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   96 (373)
T 1hz4_A           17 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   96 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            3445556778999999999999988764222221    3445556778889999999999998764321 111    235


Q ss_pred             HHHHHHHHhcCChhHHHHHHhccCC-----CC------cchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC-C--CHhH
Q 046221          290 NSIIAMYSKCGDLDSSRSVFNQITE-----KS------LVSWTAIISGYVQNGCAREALNQFIKMRQEKTDS-V--DSIT  355 (572)
Q Consensus       290 ~~l~~~~~~~~~~~~a~~~~~~~~~-----~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~--~~~~  355 (572)
                      ..+...+...|++++|...+++...     .+      ...+..+...+...|++++|...+++........ +  ...+
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  176 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  176 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHH
Confidence            6677889999999999999887652     11      1345667788899999999999999887433221 1  2345


Q ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHhcCCCch-hHHH-----HHHHHhhhcCChHHHHHHHHHc-CCCCC-----HhHH
Q 046221          356 LVSILTASGELAALEICLQLHGIAFEAGFPRYR-SVQN-----CLISSYSKCGNVDLAYIVFEEM-GFLRD-----VVSW  423 (572)
Q Consensus       356 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~-----~l~~~~~~~g~~~~A~~~~~~~-~~~~~-----~~~~  423 (572)
                      +..+...+...|+++.|...++......-.++. ..+.     ..+..+...|++++|...+++. ...|.     ...+
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  256 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  256 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHH
Confidence            677778888999999999999988765322221 1221     2334577899999999999998 22221     2346


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhc----CCCCCH-HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHH
Q 046221          424 NTIIYGYGVNGHGETALALYHKMTET----GEVPDS-STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVV  498 (572)
Q Consensus       424 ~~l~~~~~~~~~~~~A~~~~~~~~~~----g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  498 (572)
                      ..+...+...|++++|...+++....    |..++. ..+..+..++...|+.++|...++++++..   +..    ..+
T Consensus       257 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~---~~~----g~~  329 (373)
T 1hz4_A          257 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLA---NRT----GFI  329 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH---HHH----CCC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHh---ccc----cHH
Confidence            67788899999999999999987653    222223 366777888999999999999999997543   111    122


Q ss_pred             HHHHhhCChhHHHHHHHhccC
Q 046221          499 DLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       499 ~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ..+...|  +....+++.+..
T Consensus       330 ~~~~~~g--~~~~~ll~~~~~  348 (373)
T 1hz4_A          330 SHFVIEG--EAMAQQLRQLIQ  348 (373)
T ss_dssp             HHHHTTH--HHHHHHHHHHHH
T ss_pred             HHHHHcc--HHHHHHHHHHHh
Confidence            3344444  556666666654

>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=99.18  E-value=2.6e-09  Score=89.86  Aligned_cols=95  Identities=12%  Similarity=-0.001  Sum_probs=41.2

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHH
Q 046221          421 VSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDL  500 (572)
Q Consensus       421 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  500 (572)
                      ..+..+...+...|++++|...++++.+. .+.+...+..+...+...|++++|..+++++++..  +.+...+..++.+
T Consensus        77 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~  153 (186)
T 3as5_A           77 KVATVLGLTYVQVQKYDLAVPLLIKVAEA-NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR--PNEGKVHRAIAFS  153 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhc-CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC--ccchHHHHHHHHH
Confidence            33344444444444444444444444442 11233444444444444444444444444444322  2233344444444


Q ss_pred             HHhhCChhHHHHHHHhcc
Q 046221          501 LARAGCLSDASGLAGKLL  518 (572)
Q Consensus       501 ~~~~g~~~~A~~~~~~~~  518 (572)
                      +...|++++|.+.++++.
T Consensus       154 ~~~~~~~~~A~~~~~~~~  171 (186)
T 3as5_A          154 YEQMGRHEEALPHFKKAN  171 (186)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHH
Confidence            444444444444444443

>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=99.16  E-value=7.8e-10  Score=112.58  Aligned_cols=162  Identities=14%  Similarity=0.148  Sum_probs=123.0

Q ss_pred             HhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHH
Q 046221          353 SITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGY  430 (572)
Q Consensus       353 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~  430 (572)
                      ...++.+...+.+.|++++|...|++..+.. +-+...+..+..+|.+.|++++|++.|++. .+.| +...|..+..+|
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~~~a~~nLg~~l   87 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTL   87 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3455555566666666666666666665553 445667777888888888888888888887 4444 467888888888


Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhH
Q 046221          431 GVNGHGETALALYHKMTETGEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSD  509 (572)
Q Consensus       431 ~~~~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  509 (572)
                      ...|++++|++.|++.++  +.|+ ...|..+..+|...|++++|++.|+++++..  +-+...+..++.+|...|++++
T Consensus        88 ~~~g~~~~A~~~~~kAl~--l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~--P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           88 KEMQDVQGALQCYTRAIQ--INPAFADAHSNLASIHKDSGNIPEAIASYRTALKLK--PDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHhhhhhHHHhcccHHH
Confidence            889999999999988888  4664 5788888888899999999999999888654  3445678888888889999998


Q ss_pred             HHHHHHhccC
Q 046221          510 ASGLAGKLLE  519 (572)
Q Consensus       510 A~~~~~~~~~  519 (572)
                      |.+.++++.+
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8888887654

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.15  E-value=1.5e-09  Score=98.43  Aligned_cols=198  Identities=13%  Similarity=0.089  Sum_probs=118.4

Q ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHHh------cC-CCchhHHHHHHHHhhhcCChHHHHHHHHHc-C---------CC
Q 046221          355 TLVSILTASGELAALEICLQLHGIAFEA------GF-PRYRSVQNCLISSYSKCGNVDLAYIVFEEM-G---------FL  417 (572)
Q Consensus       355 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~---------~~  417 (572)
                      ++..+...+...|+++.|...++.+.+.      +- +.....+..+..+|...|++++|...+++. .         .+
T Consensus        45 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  124 (283)
T 3edt_B           45 MLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHP  124 (283)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCCh
Confidence            4444444444555555555554444432      11 223455667777788888888888877766 1         11


Q ss_pred             CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhc------CCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhc-----
Q 046221          418 RDVVSWNTIIYGYGVNGHGETALALYHKMTET------GEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIEEN-----  485 (572)
Q Consensus       418 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~------g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-----  485 (572)
                      ....++..+...|...|++++|...++++.+.      +-.|+ ..++..+...|...|++++|..+++++++..     
T Consensus       125 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~  204 (283)
T 3edt_B          125 DVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEF  204 (283)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcC
Confidence            23566778888888999999999998888774      11343 3678888888999999999999998887531     


Q ss_pred             -CCCCC-hhHHHHHHHHHHhhCC------hhHHHHHHHhccC-CCC-hHHHHHHHHHHhhhcCCHHHHHHHHHHHHhC
Q 046221          486 -KVKPS-QEHYGCVVDLLARAGC------LSDASGLAGKLLE-GMG-PNIWRALLSGCVLHVGRFQDAEALRSGSQKK  553 (572)
Q Consensus       486 -~~~~~-~~~~~~l~~~~~~~g~------~~~A~~~~~~~~~-~~~-~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~  553 (572)
                       ...+. ...+..+...+...+.      +..+...++.... .|+ ..++..+...+... |++++|...+++..+.
T Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~-g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          205 GSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQ-GKLEAAHTLEDCASRN  281 (283)
T ss_dssp             SSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHTT
T ss_pred             CCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHh
Confidence             11222 2234444444433333      3344444444433 222 33566666667666 9999999999987653

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.07  E-value=3.7e-08  Score=87.72  Aligned_cols=181  Identities=15%  Similarity=0.153  Sum_probs=100.1

Q ss_pred             HHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcC-CCchhHHHHHHHHhhhcCChHHHHHHHHHc
Q 046221          336 ALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGF-PRYRSVQNCLISSYSKCGNVDLAYIVFEEM  414 (572)
Q Consensus       336 a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  414 (572)
                      |+..|++.. ..+ .++..++..+..++...|++++|.+++......+- .-+...+...+..+.+.|+.+.|.+.+++|
T Consensus        85 a~~~l~~l~-~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 NIEELENLL-KDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             CCHHHHHTT-TTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHH-hcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            566666654 222 34444445566666666777777777766544332 134555566666677777777777777666


Q ss_pred             -CCCC-----CHhHHHHHHHHH--HhcC--ChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHh
Q 046221          415 -GFLR-----DVVSWNTIIYGY--GVNG--HGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEE  484 (572)
Q Consensus       415 -~~~~-----~~~~~~~l~~~~--~~~~--~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  484 (572)
                       ...|     +..+...|+.++  ...|  ++++|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.+.
T Consensus       163 ~~~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~  240 (310)
T 3mv2_B          163 TNAIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSD  240 (310)
T ss_dssp             HHHSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSH
T ss_pred             HhcCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             3434     234444444442  2222  667777777776553  354333334444666677777777777655432


Q ss_pred             c----C----CCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCC
Q 046221          485 N----K----VKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMG  522 (572)
Q Consensus       485 ~----~----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~  522 (572)
                      .    .    -+-+..++..+|......|+  +|.++++++.. .|+
T Consensus       241 ~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~  285 (310)
T 3mv2_B          241 YYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHE  285 (310)
T ss_dssp             HHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCC
T ss_pred             cccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCC
Confidence            1    0    02344455455555555565  66666666665 444

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.06  E-value=4.6e-09  Score=95.70  Aligned_cols=160  Identities=9%  Similarity=-0.045  Sum_probs=86.3

Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHHc-------CCCC-CHhHHHHHHHHHHhc-CChHHHHHHHHHHHhcCCCCC-----
Q 046221          389 SVQNCLISSYSKCGNVDLAYIVFEEM-------GFLR-DVVSWNTIIYGYGVN-GHGETALALYHKMTETGEVPD-----  454 (572)
Q Consensus       389 ~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~~-~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~g~~p~-----  454 (572)
                      .+|+.+..+|.+.|++++|+..+++.       +... ...+++.+...|... |++++|+..|++..+.  .|+     
T Consensus        78 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~--~~~~~~~~  155 (292)
T 1qqe_A           78 NTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEW--YAQDQSVA  155 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--HHHTTCHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHH--HHhCCChH
Confidence            45555666666666666666666555       1100 134566666666664 7777777777666652  221     


Q ss_pred             --HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCCh-----hHHHHHHHHHHhhCChhHHHHHHHhccC-CCChH--
Q 046221          455 --SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQ-----EHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPN--  524 (572)
Q Consensus       455 --~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~--  524 (572)
                        ..++..+...+...|++++|+..|+++++...-.+..     ..+..++.++...|++++|...+++... .|+..  
T Consensus       156 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~  235 (292)
T 1qqe_A          156 LSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADS  235 (292)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-------
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCc
Confidence              2346666666777777777777777666433111111     1455566666677777777777777665 33211  


Q ss_pred             ----HHHHHHHHHhh-hcCCHHHHHHHHHHH
Q 046221          525 ----IWRALLSGCVL-HVGRFQDAEALRSGS  550 (572)
Q Consensus       525 ----~~~~l~~~~~~-~~g~~~~A~~~~~~m  550 (572)
                          .+..+...+.. ..+++++|+..|+++
T Consensus       236 ~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~  266 (292)
T 1qqe_A          236 RESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (292)
T ss_dssp             --HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHhccC
Confidence                12233333321 125566666666544

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.05  E-value=2e-08  Score=89.46  Aligned_cols=176  Identities=13%  Similarity=0.096  Sum_probs=114.1

Q ss_pred             HHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC---CHhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 046221          372 CLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR---DVVSWNTIIYGYGVNGHGETALALYHKMT  447 (572)
Q Consensus       372 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  447 (572)
                      +...++.....+ +++......+..++...|++++|++++.+. +..|   +...+..++..+.+.|+.+.|.+.+++|.
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            455565555444 444555557777888888888888888876 4433   45666677788888888888888888887


Q ss_pred             hcCCCC-----CHHHHHHHHHH--HhccC--ChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhcc
Q 046221          448 ETGEVP-----DSSTYLSILNA--CGHAG--LTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       448 ~~g~~p-----~~~~~~~l~~~--~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                      +  ..|     +..+...|+.+  ....|  ++.+|..+|+++.+.   .|+..+...+..++.+.|++++|.+.++.+.
T Consensus       164 ~--~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          164 N--AIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             H--HSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             h--cCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            7  466     34555555555  33334  788888888887532   3543333334447888888888888887655


Q ss_pred             C------------CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          519 E------------GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       519 ~------------~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                      .            +.++.+...++...... |+  +|.++++++.+..+.
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~l-gk--~a~~l~~qL~~~~P~  285 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQ-GL--DTEDLTNQLVKLDHE  285 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHT-TC--TTHHHHHHHHHTTCC
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHh-Ch--HHHHHHHHHHHhCCC
Confidence            4            22344443443333333 65  778888888776643

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.05  E-value=8.4e-09  Score=81.45  Aligned_cols=129  Identities=17%  Similarity=0.247  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHH
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLL  501 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  501 (572)
                      .|..+...+...|++++|..+++++.+.+ +.+...+..+...+...|++++|..+++++++..  +.+...+..+...+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC--CCchHHHHHHHHHH
Confidence            34555666666666777777666666542 2244556666666666677777777776665432  33445566666666


Q ss_pred             HhhCChhHHHHHHHhccC--CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCC
Q 046221          502 ARAGCLSDASGLAGKLLE--GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKG  554 (572)
Q Consensus       502 ~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~  554 (572)
                      ...|++++|.+.++++..  +.+...+..+...+... |++++|...++++.+..
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~-~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQ-GDYDEAIEYYQKALELD  133 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHS
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHH-ccHHHHHHHHHHHHccC
Confidence            677777777777766655  33445555555555555 77777777777665543

>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=99.04  E-value=5.5e-09  Score=94.69  Aligned_cols=199  Identities=14%  Similarity=0.056  Sum_probs=114.7

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHhc------CCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhc-------CC
Q 046221          319 SWTAIISGYVQNGCAREALNQFIKMRQE------KTDSVDSITLVSILTASGELAALEICLQLHGIAFEAG-------FP  385 (572)
Q Consensus       319 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-------~~  385 (572)
                      ++..+...+...|++++|+..+++....      ...+....++..+...+...|+++.|...+....+..       .+
T Consensus        45 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  124 (283)
T 3edt_B           45 MLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHP  124 (283)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCCh
Confidence            3444444555555555555555544322      1112223455555666666666666666665555431       12


Q ss_pred             CchhHHHHHHHHhhhcCChHHHHHHHHHc-CC--------CC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhc------
Q 046221          386 RYRSVQNCLISSYSKCGNVDLAYIVFEEM-GF--------LR-DVVSWNTIIYGYGVNGHGETALALYHKMTET------  449 (572)
Q Consensus       386 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~--------~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~------  449 (572)
                      .....+..+...+...|++++|...+++. ..        .| ...++..+...|...|++++|...++++.+.      
T Consensus       125 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~  204 (283)
T 3edt_B          125 DVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEF  204 (283)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcC
Confidence            23556777888888888888888888877 11        22 2456778888899999999999999888763      


Q ss_pred             -CCCCCH-HHHHHHHHHHhccCC------hHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          450 -GEVPDS-STYLSILNACGHAGL------TNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       450 -g~~p~~-~~~~~l~~~~~~~g~------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                       ...+.. ..+..+...+...+.      +..+...++....  ..+....++..+..+|.+.|++++|..+++++.+
T Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          205 GSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV--DSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             SSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC--CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC--CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             123332 333333333333333      2333333332210  1122334778889999999999999999988653

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.01  E-value=1.1e-08  Score=80.67  Aligned_cols=127  Identities=20%  Similarity=0.226  Sum_probs=93.4

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc
Q 046221          390 VQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGH  467 (572)
Q Consensus       390 ~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~  467 (572)
                      .+..+...+...|++++|..+++++  ..+.+...+..+...+...|++++|...++++.+.+ +.+...+..+...+..
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            3455667777778888888888776  222356667777777888888888888888887752 3345677777888888


Q ss_pred             cCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          468 AGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       468 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .|++++|.++++++++..  +.+...+..++.++.+.|++++|.+.++++..
T Consensus        82 ~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD--PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            888888888888886543  34566777788888888888888888887654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.01  E-value=2e-08  Score=91.44  Aligned_cols=205  Identities=11%  Similarity=-0.014  Sum_probs=140.2

Q ss_pred             ChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhc---CCCCCC-HhHHHHHHHHhcccccHHHHHHHH
Q 046221          301 DLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQE---KTDSVD-SITLVSILTASGELAALEICLQLH  376 (572)
Q Consensus       301 ~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~  376 (572)
                      ++++|...|++.           ...|...|++++|...|.+....   .+.+++ ..++..+...+...|++++|...+
T Consensus        32 ~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~  100 (292)
T 1qqe_A           32 KFEEAADLCVQA-----------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (292)
T ss_dssp             HHHHHHHHHHHH-----------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            366666665543           44566677777777777766422   122222 346777777777788888888777


Q ss_pred             HHHHHhcCCC-----chhHHHHHHHHhhhc-CChHHHHHHHHHc-CCCC---C----HhHHHHHHHHHHhcCChHHHHHH
Q 046221          377 GIAFEAGFPR-----YRSVQNCLISSYSKC-GNVDLAYIVFEEM-GFLR---D----VVSWNTIIYGYGVNGHGETALAL  442 (572)
Q Consensus       377 ~~~~~~~~~~-----~~~~~~~l~~~~~~~-g~~~~A~~~~~~~-~~~~---~----~~~~~~l~~~~~~~~~~~~A~~~  442 (572)
                      +...+.....     ...+++.+..+|... |++++|+..|++. .+.|   +    ..++..+...|.+.|++++|+..
T Consensus       101 ~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~  180 (292)
T 1qqe_A          101 ENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDI  180 (292)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHH
Confidence            7666542111     134677888899996 9999999999987 2111   1    35688889999999999999999


Q ss_pred             HHHHHhcCCCCCH------HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChh------HHHHHHHHHH--hhCChh
Q 046221          443 YHKMTETGEVPDS------STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQE------HYGCVVDLLA--RAGCLS  508 (572)
Q Consensus       443 ~~~~~~~g~~p~~------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~------~~~~l~~~~~--~~g~~~  508 (572)
                      |++..+.......      ..|..+..++...|++++|+..|+++++   +.|+..      .+..++.++.  ..++++
T Consensus       181 ~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~  257 (292)
T 1qqe_A          181 YSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQS---EDPNFADSRESNFLKSLIDAVNEGDSEQLS  257 (292)
T ss_dssp             HHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGC---C---------HHHHHHHHHHHHTTCTTTHH
T ss_pred             HHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCCCCcHHHHHHHHHHHHHHcCCHHHHH
Confidence            9999984322211      1567788889999999999999998874   234322      3445566664  456799


Q ss_pred             HHHHHHHhccC
Q 046221          509 DASGLAGKLLE  519 (572)
Q Consensus       509 ~A~~~~~~~~~  519 (572)
                      +|+..|+++..
T Consensus       258 ~A~~~~~~~~~  268 (292)
T 1qqe_A          258 EHCKEFDNFMR  268 (292)
T ss_dssp             HHHHHHTTSSC
T ss_pred             HHHHHhccCCc
Confidence            99999988874

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.98  E-value=3.1e-09  Score=85.75  Aligned_cols=136  Identities=10%  Similarity=-0.014  Sum_probs=100.9

Q ss_pred             HHHHhhhcCChHHHHHHHHHc-CCCCC-HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCC
Q 046221          394 LISSYSKCGNVDLAYIVFEEM-GFLRD-VVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGL  470 (572)
Q Consensus       394 l~~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~  470 (572)
                      |..++...|++++|+..++.. ...|+ ...+-.+...|.+.|++++|+..|++.++  +.| +..+|..+..+|...|+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~--~~p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYIN--VQERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCc
Confidence            445566778888888888887 44443 45566788889999999999999999988  456 55888899999999999


Q ss_pred             hHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHH-HHhccC-CCC-hHHHHHHHHHH
Q 046221          471 TNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGL-AGKLLE-GMG-PNIWRALLSGC  533 (572)
Q Consensus       471 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~-~~~~~~-~~~-~~~~~~l~~~~  533 (572)
                      +++|+..|+++++..  +-+...+..+..+|.+.|++++|.+. ++++.+ .|+ +.+|......+
T Consensus        81 ~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll  144 (150)
T 4ga2_A           81 TDKAVECYRRSVELN--PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLL  144 (150)
T ss_dssp             HHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHH
Confidence            999999999998654  34567888899999999998776654 577776 454 44555444433

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.96  E-value=1.5e-08  Score=90.64  Aligned_cols=175  Identities=9%  Similarity=-0.039  Sum_probs=96.2

Q ss_pred             CcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCC-HhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHH
Q 046221          316 SLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVD-SITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCL  394 (572)
Q Consensus       316 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  394 (572)
                      +...+..+...+.+.|++++|+..|+++....+..|. ...+..+..++...|+++.|...++...+...          
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p----------   83 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQ----------   83 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCC----------
Confidence            3445555666677777777777777777532222111 33444444444445555555555544444321          


Q ss_pred             HHHhhhcCChHHHHHHHHHcCCCCC-HhHHHHHHHHHHh--------cCChHHHHHHHHHHHhcCCCCCH-HH-------
Q 046221          395 ISSYSKCGNVDLAYIVFEEMGFLRD-VVSWNTIIYGYGV--------NGHGETALALYHKMTETGEVPDS-ST-------  457 (572)
Q Consensus       395 ~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~l~~~~~~--------~~~~~~A~~~~~~~~~~g~~p~~-~~-------  457 (572)
                                           ..|. ...+..+..++..        .|++++|+..|+++.+.  .|+. ..       
T Consensus        84 ---------------------~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~~  140 (261)
T 3qky_A           84 ---------------------IDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDATQKI  140 (261)
T ss_dssp             ---------------------TCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHHHHHH
T ss_pred             ---------------------CCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHHHHHH
Confidence                                 1111 2233334444444        45555555555555442  2321 11       


Q ss_pred             ----------HHHHHHHHhccCChHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhh----------CChhHHHHHHHh
Q 046221          458 ----------YLSILNACGHAGLTNDGLVIFNQMIEENKVKP-SQEHYGCVVDLLARA----------GCLSDASGLAGK  516 (572)
Q Consensus       458 ----------~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~----------g~~~~A~~~~~~  516 (572)
                                +..+...|.+.|++++|+..|+++++...-.+ ....+..+..+|...          |++++|...+++
T Consensus       141 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~  220 (261)
T 3qky_A          141 RELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYER  220 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHH
Confidence                      24566778888888888888888876542111 234666777777765          778888888888


Q ss_pred             ccC-CCCh
Q 046221          517 LLE-GMGP  523 (572)
Q Consensus       517 ~~~-~~~~  523 (572)
                      +.. .|+.
T Consensus       221 ~~~~~p~~  228 (261)
T 3qky_A          221 LLQIFPDS  228 (261)
T ss_dssp             HHHHCTTC
T ss_pred             HHHHCCCC
Confidence            776 4543

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.96  E-value=1.8e-08  Score=86.54  Aligned_cols=103  Identities=17%  Similarity=0.148  Sum_probs=47.6

Q ss_pred             HHHhcccccHHHHHHHHHHHHHhcCCCchhHHHH----------------HHHHhhhcCChHHHHHHHHHc-CCCC-CHh
Q 046221          360 LTASGELAALEICLQLHGIAFEAGFPRYRSVQNC----------------LISSYSKCGNVDLAYIVFEEM-GFLR-DVV  421 (572)
Q Consensus       360 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----------------l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~  421 (572)
                      ...+...|+++.|...++...+.. +.+...+..                +..+|.+.|++++|...|++. ...| +..
T Consensus        11 g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~   89 (208)
T 3urz_A           11 VSAAIEAGQNGQAVSYFRQTIALN-IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKAPNNVD   89 (208)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHH
Confidence            334455666666666666665543 122333333                444444445555555444444 1112 234


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHH
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNAC  465 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~  465 (572)
                      .+..+...|...|++++|+..|++..+  +.| +..++..+..+|
T Consensus        90 ~~~~lg~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~  132 (208)
T 3urz_A           90 CLEACAEMQVCRGQEKDALRMYEKILQ--LEADNLAANIFLGNYY  132 (208)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCCHHHHHHHHHHH
Confidence            444444444444555555555544444  233 224444444444

>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=98.95  E-value=1.3e-08  Score=104.21  Aligned_cols=166  Identities=10%  Similarity=-0.004  Sum_probs=103.3

Q ss_pred             cccccHHHHHHHHHHHHH-------hcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-C-CCCCHhHHHHHHHHHHhcC
Q 046221          364 GELAALEICLQLHGIAFE-------AGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-G-FLRDVVSWNTIIYGYGVNG  434 (572)
Q Consensus       364 ~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~  434 (572)
                      ...+++++|.+.++...+       ...+.+...+..+..++...|++++|.+.+++. . .+.+...|..+..+|...|
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g  481 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTG  481 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHT
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHcC
Confidence            455666666666665551       112344556666666777777777777777766 2 2234566666667777777


Q ss_pred             ChHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHH
Q 046221          435 HGETALALYHKMTETGEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGL  513 (572)
Q Consensus       435 ~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  513 (572)
                      ++++|+..|++..+  +.|+ ...+..+..++.+.|++++ ++.|+++++..  +.+...+..+..++.+.|++++|.+.
T Consensus       482 ~~~~A~~~~~~al~--l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          482 DYDSATKHFTEVLD--TFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTN--DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             CHHHHHHHHHHHHH--HSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC--CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            77777777777776  3453 3666667777777777777 77777776543  33455666777777777777777777


Q ss_pred             HHhccC-CCC-hHHHHHHHHHHh
Q 046221          514 AGKLLE-GMG-PNIWRALLSGCV  534 (572)
Q Consensus       514 ~~~~~~-~~~-~~~~~~l~~~~~  534 (572)
                      ++++.+ .|+ ...|..+..++.
T Consensus       557 ~~~al~l~P~~~~a~~~~~~~~~  579 (681)
T 2pzi_A          557 LDEVPPTSRHFTTARLTSAVTLL  579 (681)
T ss_dssp             HHTSCTTSTTHHHHHHHHHHHTC
T ss_pred             HHhhcccCcccHHHHHHHHHHHH
Confidence            777765 443 334555544443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.94  E-value=4.9e-08  Score=85.01  Aligned_cols=87  Identities=8%  Similarity=0.045  Sum_probs=61.5

Q ss_pred             cCChHHHHHHHHHhHHhcCCCCChh-HH-----------------HHHHHHHHhhCChhHHHHHHHhccC-CCCh----H
Q 046221          468 AGLTNDGLVIFNQMIEENKVKPSQE-HY-----------------GCVVDLLARAGCLSDASGLAGKLLE-GMGP----N  524 (572)
Q Consensus       468 ~g~~~~a~~~~~~~~~~~~~~~~~~-~~-----------------~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~----~  524 (572)
                      .|++++|+..|+++++..   |+.. .+                 ..+...|.+.|++++|...++++.+ .|+.    .
T Consensus       109 ~~~~~~A~~~~~~~l~~~---P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~  185 (225)
T 2yhc_A          109 PQQARAAFSDFSKLVRGY---PNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRD  185 (225)
T ss_dssp             CHHHHHHHHHHHHHHTTC---TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHC---cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHH
Confidence            456666666666665433   2221 11                 3456778899999999999999887 4443    3


Q ss_pred             HHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCCCC
Q 046221          525 IWRALLSGCVLHVGRFQDAEALRSGSQKKGIIKI  558 (572)
Q Consensus       525 ~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~~~  558 (572)
                      .+..+..++... |++++|.+.++.+...++...
T Consensus       186 a~~~l~~~~~~~-g~~~~A~~~~~~l~~~~~~~~  218 (225)
T 2yhc_A          186 ALPLMENAYRQM-QMNAQAEKVAKIIAANSSNTL  218 (225)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHHHCCSCCC
T ss_pred             HHHHHHHHHHHc-CCcHHHHHHHHHHHhhCCCch
Confidence            566677777666 999999999999988877643

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.93  E-value=3.1e-08  Score=89.78  Aligned_cols=162  Identities=10%  Similarity=-0.061  Sum_probs=94.2

Q ss_pred             CCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHH-H
Q 046221          385 PRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLS-I  461 (572)
Q Consensus       385 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~-l  461 (572)
                      +.+...+..+...+...|++++|...+++. ...| +...+..+...+...|++++|...++++...  .|+...... .
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~  191 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVA  191 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHH
Confidence            333444455556666666677776666666 2223 3555666666666677777777777666553  454432222 2


Q ss_pred             HHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCC---hHHHHHHHHHHhhhc
Q 046221          462 LNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMG---PNIWRALLSGCVLHV  537 (572)
Q Consensus       462 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~---~~~~~~l~~~~~~~~  537 (572)
                      ...+...++.++|+..++++++..  +.+...+..+..++...|++++|.+.++++.. .|+   ...+..+...+... 
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~--P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~-  268 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAEN--PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAAL-  268 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHH-
T ss_pred             HHHHHhhcccCccHHHHHHHHhcC--CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHc-
Confidence            223455566666666666666543  44455666666667777777777777766665 333   33555666555555 


Q ss_pred             CCHHHHHHHHHHHH
Q 046221          538 GRFQDAEALRSGSQ  551 (572)
Q Consensus       538 g~~~~A~~~~~~m~  551 (572)
                      |+.++|...+++..
T Consensus       269 g~~~~a~~~~r~al  282 (287)
T 3qou_A          269 GTGDALASXYRRQL  282 (287)
T ss_dssp             CTTCHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHH
Confidence            66666666666543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.93  E-value=5.3e-08  Score=87.10  Aligned_cols=205  Identities=10%  Similarity=0.027  Sum_probs=139.3

Q ss_pred             CCcchHHHHHHHHHhcCChhHHHHHHhccCC--C-C---cchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCC-HhHH
Q 046221          284 SELRLSNSIIAMYSKCGDLDSSRSVFNQITE--K-S---LVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVD-SITL  356 (572)
Q Consensus       284 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~  356 (572)
                      .+...+-.+...+.+.|++++|...|+.+.+  | +   ...+..+..++.+.|++++|+..|++.....+..|. ...+
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            3455666778889999999999999999875  3 2   356778889999999999999999999855443433 4456


Q ss_pred             HHHHHHhcc--------cccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHH
Q 046221          357 VSILTASGE--------LAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIY  428 (572)
Q Consensus       357 ~~ll~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~  428 (572)
                      ..+..++..        .|+++.|...++.+.+.. +.+......+.......+..               ...+..+..
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~~~~~~~~~---------------~~~~~~la~  156 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY-PNHELVDDATQKIRELRAKL---------------ARKQYEAAR  156 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC-TTCTTHHHHHHHHHHHHHHH---------------HHHHHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC-cCchhHHHHHHHHHHHHHHH---------------HHHHHHHHH
Confidence            666666766        888888888888877754 22222222211111000000               112456677


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHhcc----------CChHHHHHHHHHhHHhcCCCCChh--
Q 046221          429 GYGVNGHGETALALYHKMTETGEVPD----SSTYLSILNACGHA----------GLTNDGLVIFNQMIEENKVKPSQE--  492 (572)
Q Consensus       429 ~~~~~~~~~~A~~~~~~~~~~g~~p~----~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~~~--  492 (572)
                      .|.+.|++++|+..|+++.+.  .|+    ...+..+..+|...          |++++|+..|+++++..   |+..  
T Consensus       157 ~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~---p~~~~~  231 (261)
T 3qky_A          157 LYERRELYEAAAVTYEAVFDA--YPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF---PDSPLL  231 (261)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC---TTCTHH
T ss_pred             HHHHccCHHHHHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC---CCChHH
Confidence            888999999999999999884  454    35677777788766          88899999999998654   4432  


Q ss_pred             --HHHHHHHHHHhhCChhH
Q 046221          493 --HYGCVVDLLARAGCLSD  509 (572)
Q Consensus       493 --~~~~l~~~~~~~g~~~~  509 (572)
                        ....+...+.+.+++++
T Consensus       232 ~~a~~~l~~~~~~~~~~~~  250 (261)
T 3qky_A          232 RTAEELYTRARQRLTELEG  250 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHhhh
Confidence              33344444444444443

>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=98.92  E-value=1.6e-08  Score=84.27  Aligned_cols=156  Identities=13%  Similarity=-0.015  Sum_probs=101.9

Q ss_pred             HHHHHHhhhcCChHHHHHHHHHc-C-CCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHH-Hhcc
Q 046221          392 NCLISSYSKCGNVDLAYIVFEEM-G-FLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNA-CGHA  468 (572)
Q Consensus       392 ~~l~~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~-~~~~  468 (572)
                      ......+...|++++|...+++. . .+.+...+..+...+...|++++|+..+++..+.  .|+...+..+... +...
T Consensus        10 ~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~   87 (176)
T 2r5s_A           10 LKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSYKSLIAKLELHQQ   87 (176)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHHHHHHHHHHHhh
Confidence            34556677778888888888876 2 2234566777777788888888888888877663  3444333222211 1222


Q ss_pred             CChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCC---hHHHHHHHHHHhhhcCCHHHHH
Q 046221          469 GLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMG---PNIWRALLSGCVLHVGRFQDAE  544 (572)
Q Consensus       469 g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~---~~~~~~l~~~~~~~~g~~~~A~  544 (572)
                      +...+|+..++++++..  +-+...+..+..++...|++++|...++++.. .|+   ...+..+...+... |+.++|.
T Consensus        88 ~~~~~a~~~~~~al~~~--P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~-g~~~~A~  164 (176)
T 2r5s_A           88 AAESPELKRLEQELAAN--PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSAL-GQGNAIA  164 (176)
T ss_dssp             HTSCHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHH-CSSCHHH
T ss_pred             cccchHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHh-CCCCcHH
Confidence            23334677777777543  33566777788888888888888888888776 443   34666676666655 8888888


Q ss_pred             HHHHHHHh
Q 046221          545 ALRSGSQK  552 (572)
Q Consensus       545 ~~~~~m~~  552 (572)
                      ..+++...
T Consensus       165 ~~y~~al~  172 (176)
T 2r5s_A          165 SKYRRQLY  172 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88776543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.89  E-value=1.2e-06  Score=85.59  Aligned_cols=368  Identities=10%  Similarity=-0.042  Sum_probs=208.5

Q ss_pred             hCC-ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCC-HHHH
Q 046221          127 NNK-LFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMD-LDAA  204 (572)
Q Consensus       127 ~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a  204 (572)
                      +.| +++.|..+|+.+...  -|.              |+++.+..+|+..+..  .|+...|...+....+.++ .+..
T Consensus         6 ~~~~~i~~aR~vyer~l~~--~P~--------------~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i   67 (493)
T 2uy1_A            6 KMGVELSSPSAIMEHARRL--YMS--------------KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKL   67 (493)
T ss_dssp             ------CCHHHHHHHHHHH--HHT--------------TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CT
T ss_pred             HcCcchHHHHHHHHHHHHH--CCC--------------CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHH
Confidence            345 367777777777653  233              8889999999888874  4688888888777766553 2344


Q ss_pred             HHHHhhcCC------CCcccHHHHHHHHHc----cCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhc---ccCChHHHH
Q 046221          205 IQIFREMEC------KDVISWTRMMGLFVD----FEYAGDALKIFREMRKSRIICDTVALLNLISVNA---ILGDLKRGK  271 (572)
Q Consensus       205 ~~~~~~~~~------~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~---~~~~~~~a~  271 (572)
                      ..+|+....      .+...|...+..+..    +++.+.+..+|++....  ++.  .+..+-..|.   ...+...+.
T Consensus        68 ~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~--P~~--~~~~lw~~Y~~fE~~~~~~~~~  143 (493)
T 2uy1_A           68 YEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQT--PMG--SLSELWKDFENFELELNKITGK  143 (493)
T ss_dssp             HHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTS--CCT--THHHHHHHHHHHHHHHCHHHHH
T ss_pred             HHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhC--hhh--hHHHHHHHHHHHHHHhccccHH
Confidence            455554332      244666666665442    35677788888887763  211  1112211111   111111122


Q ss_pred             HHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC----CCcchHHHHHHHHHHcC--C-----hHHHHHHH
Q 046221          272 QLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE----KSLVSWTAIISGYVQNG--C-----AREALNQF  340 (572)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~--~-----~~~a~~~~  340 (572)
                      .++.+..                     +.+..|..+++.+..    .+...|...+.--...+  -     .+.+..+|
T Consensus       144 ~~~~~~~---------------------~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~y  202 (493)
T 2uy1_A          144 KIVGDTL---------------------PIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIH  202 (493)
T ss_dssp             HHHHHHH---------------------HHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHH
T ss_pred             HHHHHHh---------------------HHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHH
Confidence            2221111                     112222222222211    12234544444322211  0     23466788


Q ss_pred             HHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHH-HHHHHHc---C-
Q 046221          341 IKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLA-YIVFEEM---G-  415 (572)
Q Consensus       341 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A-~~~~~~~---~-  415 (572)
                      +++...  .+.+...+...+.-+.+.|+.+.|..++++....  |.+...+..    |+...+.++. ..+.+..   . 
T Consensus       203 e~al~~--~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~~~~l~~~~~~~~~  274 (493)
T 2uy1_A          203 NYILDS--FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAVYGDLKRKYSMGEA  274 (493)
T ss_dssp             HHHHHH--TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHHHHHHHHHTC----
T ss_pred             HHHHHc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHHHHHHHHHHHhhcc
Confidence            887632  3344666666666777788899999999888887  444443332    2221111111 1122211   0 


Q ss_pred             ----CCC---CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc-cCChHHHHHHHHHhHHhcCC
Q 046221          416 ----FLR---DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGH-AGLTNDGLVIFNQMIEENKV  487 (572)
Q Consensus       416 ----~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~-~g~~~~a~~~~~~~~~~~~~  487 (572)
                          ..+   ....|...+..+.+.++.+.|..+|++. .. ...+...|...+..-.. .++.+.|..+|+.+++..  
T Consensus       275 ~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~--  350 (493)
T 2uy1_A          275 ESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH--  350 (493)
T ss_dssp             ------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC--
T ss_pred             chhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC--
Confidence                001   1245666677777788899999999999 32 12244444332222222 336999999999998765  


Q ss_pred             CCChhHHHHHHHHHHhhCChhHHHHHHHhccCCCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHh
Q 046221          488 KPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVGRFQDAEALRSGSQK  552 (572)
Q Consensus       488 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~  552 (572)
                      +-+...+...++...+.|+.+.|..+|+++.  .....|...+.--..+ |+.+.+..+++++.+
T Consensus       351 ~~~~~~~~~yid~e~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~~~-G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          351 PDSTLLKEEFFLFLLRIGDEENARALFKRLE--KTSRMWDSMIEYEFMV-GSMELFRELVDQKMD  412 (493)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHHHH-SCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHH
Confidence            2334566778888889999999999999984  3566788877766666 999999998888874

>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=98.87  E-value=1.2e-07  Score=81.45  Aligned_cols=162  Identities=13%  Similarity=-0.086  Sum_probs=94.6

Q ss_pred             chhHHHHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcC----ChHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 046221          387 YRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNG----HGETALALYHKMTETGEVPDSSTYLSIL  462 (572)
Q Consensus       387 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~A~~~~~~~~~~g~~p~~~~~~~l~  462 (572)
                      ++..+..+...|...+++++|.+.|++.-..-+...+..|...|.. +    ++++|+.+|++..+.|   +...+..|.
T Consensus        17 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~Lg   92 (212)
T 3rjv_A           17 DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIVLA   92 (212)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHH
Confidence            3444555556666666666666666666111344555555555555 4    6667777776666543   445555666


Q ss_pred             HHHhc----cCChHHHHHHHHHhHHhcCCCCC---hhHHHHHHHHHHh----hCChhHHHHHHHhccCC-CChHHHHHHH
Q 046221          463 NACGH----AGLTNDGLVIFNQMIEENKVKPS---QEHYGCVVDLLAR----AGCLSDASGLAGKLLEG-MGPNIWRALL  530 (572)
Q Consensus       463 ~~~~~----~g~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~-~~~~~~~~l~  530 (572)
                      ..|..    .+++++|+.+|+++.+.   .|+   ...+..|..+|..    .+++++|..+|++..+. .++..+..|.
T Consensus        93 ~~y~~g~g~~~d~~~A~~~~~~A~~~---~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~a~~~Lg  169 (212)
T 3rjv_A           93 RVLVNRQAGATDVAHAITLLQDAARD---SESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLSRTGYAEYWAG  169 (212)
T ss_dssp             HHHTCGGGSSCCHHHHHHHHHHHTSS---TTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTSCTTHHHHHHH
T ss_pred             HHHHcCCCCccCHHHHHHHHHHHHHc---CCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcCCCHHHHHHHH
Confidence            66655    66677777777666432   222   4566666666666    56677777777766553 4555555555


Q ss_pred             HHHhhhcC-----CHHHHHHHHHHHHhCCC
Q 046221          531 SGCVLHVG-----RFQDAEALRSGSQKKGI  555 (572)
Q Consensus       531 ~~~~~~~g-----~~~~A~~~~~~m~~~~~  555 (572)
                      ..+....|     +.++|...+++..+.|.
T Consensus       170 ~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          170 MMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            55543222     66777777776666554

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.87  E-value=6.3e-08  Score=83.03  Aligned_cols=156  Identities=11%  Similarity=0.043  Sum_probs=98.8

Q ss_pred             HHHHhhhcCChHHHHHHHHHc-CCCCC-HhHHHH----------------HHHHHHhcCChHHHHHHHHHHHhcCCCC-C
Q 046221          394 LISSYSKCGNVDLAYIVFEEM-GFLRD-VVSWNT----------------IIYGYGVNGHGETALALYHKMTETGEVP-D  454 (572)
Q Consensus       394 l~~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~----------------l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~  454 (572)
                      ....+...|++++|+..|++. ...|+ ...|..                +..+|.+.|++++|+..|++..+.  .| +
T Consensus        10 ~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~   87 (208)
T 3urz_A           10 KVSAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK--APNN   87 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCC
Confidence            344566778888888888776 33343 344555                677777788888888888887773  45 4


Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCC--hhHHHHHHHhccCCCChH--HHHHHH
Q 046221          455 SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGC--LSDASGLAGKLLEGMGPN--IWRALL  530 (572)
Q Consensus       455 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~~~~~--~~~~l~  530 (572)
                      ...+..+..++...|++++|+..|+++++..  |.+...+..+..+|...|+  .+.+...+++... |++.  .+..+.
T Consensus        88 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~a~~~~g  164 (208)
T 3urz_A           88 VDCLEACAEMQVCRGQEKDALRMYEKILQLE--ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS-PTKMQYARYRDG  164 (208)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C-CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC-CCchhHHHHHHH
Confidence            5777777777888888888888888877644  3455577777777665543  3445566666553 3332  233333


Q ss_pred             HHHhhhcCCHHHHHHHHHHHHhCCC
Q 046221          531 SGCVLHVGRFQDAEALRSGSQKKGI  555 (572)
Q Consensus       531 ~~~~~~~g~~~~A~~~~~~m~~~~~  555 (572)
                      .++... |++++|+..|++..+..+
T Consensus       165 ~~~~~~-~~~~~A~~~~~~al~l~P  188 (208)
T 3urz_A          165 LSKLFT-TRYEKARNSLQKVILRFP  188 (208)
T ss_dssp             HHHHHH-HTHHHHHHHHHHHTTTSC
T ss_pred             HHHHHc-cCHHHHHHHHHHHHHhCC
Confidence            333334 778888888887766544

>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=98.86  E-value=2.8e-08  Score=82.77  Aligned_cols=155  Identities=10%  Similarity=0.013  Sum_probs=108.6

Q ss_pred             HHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCHhHHHHHHHH-HHhcCChHH
Q 046221          361 TASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDVVSWNTIIYG-YGVNGHGET  438 (572)
Q Consensus       361 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~-~~~~~~~~~  438 (572)
                      ..+...|+++.|...++...+.. +.+...+..+..++...|++++|...+++. ...|+...+..+... +...++...
T Consensus        14 ~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~   92 (176)
T 2r5s_A           14 SELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEYQDNSYKSLIAKLELHQQAAESP   92 (176)
T ss_dssp             HHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHHHHHHHHHHHHHHHHTSCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccCChHHHHHHHHHHHHhhcccch
Confidence            33444455555555554444332 445667778888899999999999999988 443444333332212 223233445


Q ss_pred             HHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhc
Q 046221          439 ALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKL  517 (572)
Q Consensus       439 A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  517 (572)
                      |+..+++..+  ..| +...+..+..++...|++++|+..|+++++...-..+...+..++.++...|+.++|...+++.
T Consensus        93 a~~~~~~al~--~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~a  170 (176)
T 2r5s_A           93 ELKRLEQELA--ANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQ  170 (176)
T ss_dssp             HHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHH
T ss_pred             HHHHHHHHHH--hCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHH
Confidence            7889999888  456 4688899999999999999999999999854422223558889999999999999999998875


Q ss_pred             c
Q 046221          518 L  518 (572)
Q Consensus       518 ~  518 (572)
                      .
T Consensus       171 l  171 (176)
T 2r5s_A          171 L  171 (176)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.85  E-value=4.1e-06  Score=81.79  Aligned_cols=104  Identities=4%  Similarity=-0.148  Sum_probs=67.5

Q ss_pred             hcC-ChhhHHHHhccCCC--CChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCC-hHHHHH
Q 046221           17 KSG-KIKEAENLFDEIPE--KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQN-LELARS   92 (572)
Q Consensus        17 ~~~-~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~-~~~a~~   92 (572)
                      +.| +++.|+.+|++...  |.              ++++.+..+|++....  .|+...|...+.-..+.++ .+....
T Consensus         6 ~~~~~i~~aR~vyer~l~~~P~--------------~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~   69 (493)
T 2uy1_A            6 KMGVELSSPSAIMEHARRLYMS--------------KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYE   69 (493)
T ss_dssp             ------CCHHHHHHHHHHHHHT--------------TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHH
T ss_pred             HcCcchHHHHHHHHHHHHHCCC--------------CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHH
Confidence            345 36777777766544  33              7899999999998874  5788888877776665553 355677


Q ss_pred             HHHHHHHh-cCCCCcccCCCCCCceeHHHHHHHHH----hCCChHHHHHHHHHHHhC
Q 046221           93 IHGLMVKF-GLESDLFEGLKNPYLVSCNAIVAGFI----NNKLFQQAVLLFNFFRGS  144 (572)
Q Consensus        93 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~m~~~  144 (572)
                      +|+..+.. |..        ..+...|...+..+.    .+++.+.+.++|++....
T Consensus        70 ~fe~al~~vg~d--------~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~  118 (493)
T 2uy1_A           70 VYEFTLGQFENY--------WDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQT  118 (493)
T ss_dssp             HHHHHHHHSTTC--------TTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHcCCC--------cccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhC
Confidence            77777664 322        134567777776654    346788899999999873

>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=98.85  E-value=4.7e-08  Score=100.14  Aligned_cols=185  Identities=11%  Similarity=-0.012  Sum_probs=140.8

Q ss_pred             HHcCChHHHHHHHHHHHh------cCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhc
Q 046221          328 VQNGCAREALNQFIKMRQ------EKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKC  401 (572)
Q Consensus       328 ~~~~~~~~a~~~~~~~~~------~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  401 (572)
                      ...|++++|++.+++...      ....+.+...+..+...+...|++++|...++.+.+.. +.+...+..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHc
Confidence            677888899988888751      03334455677777888888899999999998888765 55677888888899999


Q ss_pred             CChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHH
Q 046221          402 GNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIF  478 (572)
Q Consensus       402 g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~  478 (572)
                      |++++|.+.|++. ...| +...|..+..+|.+.|++++ +..|++..+.  .| +...|..+..++.+.|++++|+..|
T Consensus       481 g~~~~A~~~~~~al~l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTFPGELAPKLALAATAELAGNTDE-HKFYQTVWST--NDGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHh--CCchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999988 3334 46778888889999999999 9999999884  56 4578888999999999999999999


Q ss_pred             HHhHHhcCCCCC-hhHHHHHHHHHHhhCC--------hhHHHHHHHhccC
Q 046221          479 NQMIEENKVKPS-QEHYGCVVDLLARAGC--------LSDASGLAGKLLE  519 (572)
Q Consensus       479 ~~~~~~~~~~~~-~~~~~~l~~~~~~~g~--------~~~A~~~~~~~~~  519 (572)
                      +++++.   .|+ ...+..+..++...|+        +++|.+.+..+..
T Consensus       558 ~~al~l---~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~~~~  604 (681)
T 2pzi_A          558 DEVPPT---SRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEALPP  604 (681)
T ss_dssp             HTSCTT---STTHHHHHHHHHHHTC-------CCHHHHHHHHHHHHTSCT
T ss_pred             Hhhccc---CcccHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhhCCC
Confidence            988643   354 4577777777766444        6666666666643

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.84  E-value=1.4e-07  Score=85.40  Aligned_cols=164  Identities=9%  Similarity=0.027  Sum_probs=126.0

Q ss_pred             CHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCHhHHHHH-HHH
Q 046221          352 DSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDVVSWNTI-IYG  429 (572)
Q Consensus       352 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l-~~~  429 (572)
                      +...+..+...+...|+++.|...++...+.. +.+...+..+..++.+.|++++|...++++ ...|+....... ...
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~~~  194 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQIE  194 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHHHH
Confidence            33445555556666777777777777766654 456677788899999999999999999998 445665443333 333


Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChh
Q 046221          430 YGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLS  508 (572)
Q Consensus       430 ~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  508 (572)
                      +...++.+.|+..+++..+.  .| +...+..+...+...|++++|+..|+++++...-..+...+..++.+|...|+.+
T Consensus       195 l~~~~~~~~a~~~l~~al~~--~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~  272 (287)
T 3qou_A          195 LLXQAADTPEIQQLQQQVAE--NPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGD  272 (287)
T ss_dssp             HHHHHTSCHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTC
T ss_pred             HHhhcccCccHHHHHHHHhc--CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCC
Confidence            66778888899999999884  56 5688999999999999999999999999876522223668999999999999999


Q ss_pred             HHHHHHHhcc
Q 046221          509 DASGLAGKLL  518 (572)
Q Consensus       509 ~A~~~~~~~~  518 (572)
                      +|...+++..
T Consensus       273 ~a~~~~r~al  282 (287)
T 3qou_A          273 ALASXYRRQL  282 (287)
T ss_dssp             HHHHHHHHHH
T ss_pred             cHHHHHHHHH
Confidence            9999888753

>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=98.80  E-value=2.5e-08  Score=80.33  Aligned_cols=141  Identities=14%  Similarity=0.064  Sum_probs=104.5

Q ss_pred             HHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHH
Q 046221          361 TASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGET  438 (572)
Q Consensus       361 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~  438 (572)
                      ..+...|++++|...+....... +.+...+-.+...|.+.|++++|++.|++. .+.| +..+|..+..+|...|++++
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCchHH
Confidence            34455667777777766554321 122334456888899999999999999988 3334 57889999999999999999


Q ss_pred             HHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHH-HHHhHHhcCCCCChhHHHHHHHHHHhhCC
Q 046221          439 ALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVI-FNQMIEENKVKPSQEHYGCVVDLLARAGC  506 (572)
Q Consensus       439 A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  506 (572)
                      |+..|++..+  +.| +..++..+...|.+.|++++|.+. ++++++..  |-+..+|......+...|+
T Consensus        84 A~~~~~~al~--~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~--P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           84 AVECYRRSVE--LNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF--PGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHH--HCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS--TTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHhCc
Confidence            9999999998  467 468899999999999999877665 58887644  3455677777777777664

>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=98.79  E-value=7.5e-08  Score=96.91  Aligned_cols=159  Identities=12%  Similarity=0.024  Sum_probs=118.2

Q ss_pred             cccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHH
Q 046221          366 LAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALY  443 (572)
Q Consensus       366 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~  443 (572)
                      .|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++. ...| +...+..+...|...|++++|...+
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            478899999998887654 456788888999999999999999999998 4445 4778889999999999999999999


Q ss_pred             HHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhh---CChhHHHHHHHhccC
Q 046221          444 HKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARA---GCLSDASGLAGKLLE  519 (572)
Q Consensus       444 ~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~  519 (572)
                      ++..+.  .| +...+..+..++...|++++|.+.++++++..  +.+...+..+..++...   |++++|.+.++++.+
T Consensus        81 ~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           81 QQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL--PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            999985  45 56889999999999999999999999998654  44567888999999999   999999999999887


Q ss_pred             -CCCh-HHHHHH
Q 046221          520 -GMGP-NIWRAL  529 (572)
Q Consensus       520 -~~~~-~~~~~l  529 (572)
                       .|+. ..|..+
T Consensus       157 ~~p~~~~~~~~l  168 (568)
T 2vsy_A          157 QGVGAVEPFAFL  168 (568)
T ss_dssp             HTCCCSCHHHHT
T ss_pred             cCCcccChHHHh
Confidence             4443 344433

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.79  E-value=1.6e-07  Score=81.65  Aligned_cols=185  Identities=11%  Similarity=0.009  Sum_probs=106.9

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCC-HhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCch--hHHHHHH
Q 046221          319 SWTAIISGYVQNGCAREALNQFIKMRQEKTDSVD-SITLVSILTASGELAALEICLQLHGIAFEAGFPRYR--SVQNCLI  395 (572)
Q Consensus       319 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~  395 (572)
                      .+..+...+.+.|++++|+..|+++....+..|. ...+..+..++.+.|+++.|...++.+.+.......  ..+..+.
T Consensus         6 ~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g   85 (225)
T 2yhc_A            6 EIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRG   85 (225)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHH
Confidence            4455666777888888888888888744333332 345666667777777777777777777765422111  1233333


Q ss_pred             HHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HH-----------------
Q 046221          396 SSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS-ST-----------------  457 (572)
Q Consensus       396 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~-----------------  457 (572)
                      .++...|..     .+         ..|..+...+...|++++|+..|+++++.  .|+. ..                 
T Consensus        86 ~~~~~~~~~-----~~---------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~~~~~~~~~~  149 (225)
T 2yhc_A           86 LTNMALDDS-----AL---------QGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLVFLKDRLAKY  149 (225)
T ss_dssp             HHHHHHHC----------------------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhh-----hh---------hhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHHHHH
Confidence            333321100     00         00111111222344555555555555552  3332 11                 


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          458 YLSILNACGHAGLTNDGLVIFNQMIEENKVKPS-QEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       458 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ...+...+.+.|++++|+..|+++++...-.|. ...+..+..+|.+.|++++|.+.++.+..
T Consensus       150 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~  212 (225)
T 2yhc_A          150 EYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAA  212 (225)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHh
Confidence            134566788899999999999999865421111 24677888999999999999999988765

>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=98.78  E-value=3.7e-07  Score=78.61  Aligned_cols=130  Identities=8%  Similarity=-0.122  Sum_probs=106.1

Q ss_pred             HHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCh
Q 046221          392 NCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLT  471 (572)
Q Consensus       392 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~  471 (572)
                      ..+...+...|++++|...|++. +.|+...|..+...|...|++++|+..|++..+.. +.+...+..+..++...|++
T Consensus        10 ~~~g~~~~~~~~~~~A~~~~~~a-~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~   87 (213)
T 1hh8_A           10 WNEGVLAADKKDWKGALDAFSAV-QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   87 (213)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTS-SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHH-cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccH
Confidence            44667788899999999999988 34678889999999999999999999999998852 33568888999999999999


Q ss_pred             HHHHHHHHHhHHhcCCCC--------------ChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCCh
Q 046221          472 NDGLVIFNQMIEENKVKP--------------SQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGP  523 (572)
Q Consensus       472 ~~a~~~~~~~~~~~~~~~--------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~  523 (572)
                      ++|+..|+++++...-.+              ....+..+..+|.+.|++++|.+.++++.. .|+.
T Consensus        88 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A           88 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence            999999999976432111              126788889999999999999999999887 5543

>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=98.77  E-value=1.4e-06  Score=79.33  Aligned_cols=158  Identities=9%  Similarity=-0.078  Sum_probs=112.9

Q ss_pred             HHHHhhhcCChHHHHHHHHHc-C---CCCCH----hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-CC----HHHHHH
Q 046221          394 LISSYSKCGNVDLAYIVFEEM-G---FLRDV----VSWNTIIYGYGVNGHGETALALYHKMTETGEV-PD----SSTYLS  460 (572)
Q Consensus       394 l~~~~~~~g~~~~A~~~~~~~-~---~~~~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~-p~----~~~~~~  460 (572)
                      .+..+...|++++|...+++. .   ..|+.    ..+..+...+...+++++|+..+++..+.... ++    ..+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            366778899999999999987 2   22332    13334666677788999999999998874222 22    236888


Q ss_pred             HHHHHhccCChHHHHHHHHHhHHhc----CCCCC-hhHHHHHHHHHHhhCChhHHHHHHHhccC----C---CC-hHHHH
Q 046221          461 ILNACGHAGLTNDGLVIFNQMIEEN----KVKPS-QEHYGCVVDLLARAGCLSDASGLAGKLLE----G---MG-PNIWR  527 (572)
Q Consensus       461 l~~~~~~~g~~~~a~~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~---~~-~~~~~  527 (572)
                      +...|...|++++|+.+++++++..    +..+. ..++..+..+|.+.|++++|.+.++++.+    .   +. ...|.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            8889999999999999999887421    11122 23778888999999999999999998765    1   11 34566


Q ss_pred             HHHHHHhhhcC-CHHHHHHHHHHHHh
Q 046221          528 ALLSGCVLHVG-RFQDAEALRSGSQK  552 (572)
Q Consensus       528 ~l~~~~~~~~g-~~~~A~~~~~~m~~  552 (572)
                      .+...+... | .+++|.+.+++..+
T Consensus       241 ~lg~~~~~~-g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          241 QRGECLRKL-EYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHT-TCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHh-CCcHHHHHHHHHHHHH
Confidence            666666666 8 46899888887753

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.76  E-value=1.7e-07  Score=72.75  Aligned_cols=99  Identities=14%  Similarity=-0.003  Sum_probs=73.9

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 046221          421 VSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVD  499 (572)
Q Consensus       421 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  499 (572)
                      ..+......|.+.|++++|+..|++.++.  .| +...|..+..++.+.|++++|+..++++++..  +.+...|..+..
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~--p~~~~a~~~lg~   89 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLD--SKFIKGYIRKAA   89 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh--hhhhHHHHHHHH
Confidence            45666777788888888888888887773  45 55777778888888888888888888887644  445667777888


Q ss_pred             HHHhhCChhHHHHHHHhccC-CCCh
Q 046221          500 LLARAGCLSDASGLAGKLLE-GMGP  523 (572)
Q Consensus       500 ~~~~~g~~~~A~~~~~~~~~-~~~~  523 (572)
                      +|...|++++|.+.|++..+ .|+.
T Consensus        90 ~~~~~~~~~~A~~~~~~al~l~P~~  114 (126)
T 4gco_A           90 CLVAMREWSKAQRAYEDALQVDPSN  114 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHCCCHHHHHHHHHHHHHHCcCC
Confidence            88888888888888888776 4443

>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=98.75  E-value=1.7e-07  Score=94.36  Aligned_cols=151  Identities=10%  Similarity=-0.028  Sum_probs=114.9

Q ss_pred             cCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHH
Q 046221          330 NGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYI  409 (572)
Q Consensus       330 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  409 (572)
                      .|++++|+..+++..  ...+.+...+..+...+...|++++|...+++..+.. +.+...+..+..+|...|++++|.+
T Consensus         2 ~g~~~~A~~~~~~al--~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAAV--RHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHH--HhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            478899999999985  2334457788888999999999999999999998764 4567888889999999999999999


Q ss_pred             HHHHc-CCC-CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhcc---CChHHHHHHHHHhHH
Q 046221          410 VFEEM-GFL-RDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHA---GLTNDGLVIFNQMIE  483 (572)
Q Consensus       410 ~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~  483 (572)
                      .+++. ... .+...+..+..+|.+.|++++|.+.|++..+.  .| +...+..+..++...   |++++|.+.++++++
T Consensus        79 ~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           79 LLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQL--LPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            99988 333 45778999999999999999999999999985  45 568888999999999   999999999999987


Q ss_pred             hc
Q 046221          484 EN  485 (572)
Q Consensus       484 ~~  485 (572)
                      ..
T Consensus       157 ~~  158 (568)
T 2vsy_A          157 QG  158 (568)
T ss_dssp             HT
T ss_pred             cC
Confidence            65

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.73  E-value=1.5e-06  Score=79.00  Aligned_cols=157  Identities=9%  Similarity=-0.112  Sum_probs=87.3

Q ss_pred             HHHHHhhhcCChHHHHHHHHHc-CCCC-CH------hHHHHHHHHHHhcCChHHHHHHHHHHHhcCC---CCC--HHHHH
Q 046221          393 CLISSYSKCGNVDLAYIVFEEM-GFLR-DV------VSWNTIIYGYGVNGHGETALALYHKMTETGE---VPD--SSTYL  459 (572)
Q Consensus       393 ~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~---~p~--~~~~~  459 (572)
                      ..+..+...|++++|.+.+++. ...+ ..      ..+..+...+...|++++|+..+++..+...   .+.  ..+|+
T Consensus        80 ~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 2qfc_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHH
Confidence            3455566677777777766654 1111 11      1223344455666677777777776664311   111  23566


Q ss_pred             HHHHHHhccCChHHHHHHHHHhHH---hcCCCCC--hhHHHHHHHHHHhhCChhHHHHHHHhccC-CCC-------hHHH
Q 046221          460 SILNACGHAGLTNDGLVIFNQMIE---ENKVKPS--QEHYGCVVDLLARAGCLSDASGLAGKLLE-GMG-------PNIW  526 (572)
Q Consensus       460 ~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~-------~~~~  526 (572)
                      .+...|...|++++|+..++++++   ..+-.+.  ..++..++.+|.+.|++++|.+.+++... .++       ..+|
T Consensus       160 ~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~  239 (293)
T 2qfc_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            666777777777777777776652   2211111  13666667777777777777777776554 111       3345


Q ss_pred             HHHHHHHhhhcCCHHHH-HHHHHHH
Q 046221          527 RALLSGCVLHVGRFQDA-EALRSGS  550 (572)
Q Consensus       527 ~~l~~~~~~~~g~~~~A-~~~~~~m  550 (572)
                      ..+...+... |++++| ...+++.
T Consensus       240 ~~lg~~y~~~-g~~~~Ai~~~~~~A  263 (293)
T 2qfc_A          240 YQRGECLRKL-EYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHHHT-TCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHc-CCcHHHHHHHHHHH
Confidence            5555555544 777777 5555554

>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=98.71  E-value=5.5e-07  Score=77.51  Aligned_cols=137  Identities=10%  Similarity=-0.087  Sum_probs=112.3

Q ss_pred             hhhHHHHHhhcCChhhHHHHhccCCCCChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCCh
Q 046221            8 SSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNL   87 (572)
Q Consensus         8 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~   87 (572)
                      +..+...+.+.|++++|+..|++...++...|..+...+...|++++|+..|++..+.. +.+...+..+..++...|++
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            45677888899999999999999998899999999999999999999999999998875 45667888899999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCccc--C----CCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 046221           88 ELARSIHGLMVKFGLESDLFE--G----LKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSG  145 (572)
Q Consensus        88 ~~a~~~~~~~~~~~~~~~~~~--~----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  145 (572)
                      ++|...++...+..+......  .    ........+..+...+...|++++|.+.|++..+..
T Consensus        88 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           88 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            999999999998764211000  0    000112578888999999999999999999998764

>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=98.71  E-value=3e-07  Score=84.30  Aligned_cols=197  Identities=10%  Similarity=-0.080  Sum_probs=109.2

Q ss_pred             cCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHH
Q 046221          299 CGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGI  378 (572)
Q Consensus       299 ~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  378 (572)
                      .|++++|.+++++..+.....+      +...+++++|...|.+.                ...+...|+++.|...+..
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~~~------~~~~~~~~~A~~~~~~a----------------~~~~~~~g~~~~A~~~~~~   61 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKTSF------MKWKPDYDSAASEYAKA----------------AVAFKNAKQLEQAKDAYLQ   61 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCCS------SSCSCCHHHHHHHHHHH----------------HHHHHHTTCHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccccc------cCCCCCHHHHHHHHHHH----------------HHHHHHcCCHHHHHHHHHH
Confidence            4667777777765542100000      00034555555555443                2344555666666666655


Q ss_pred             HHHhcCCC-----chhHHHHHHHHhhhcCChHHHHHHHHHc-------CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHH
Q 046221          379 AFEAGFPR-----YRSVQNCLISSYSKCGNVDLAYIVFEEM-------GFLR-DVVSWNTIIYGYGVNGHGETALALYHK  445 (572)
Q Consensus       379 ~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~  445 (572)
                      ..+.....     ....|+.+..+|.+.|++++|+..+++.       +... ...++..+...|.. |++++|+..|++
T Consensus        62 al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~  140 (307)
T 2ifu_A           62 EAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQ  140 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHH
Confidence            54432110     1335566666777777777777766655       1111 13456666666766 777777777777


Q ss_pred             HHhcCC---CC--CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcC---CCCC-hhHHHHHHHHHHhhCChhHHHHHHHh
Q 046221          446 MTETGE---VP--DSSTYLSILNACGHAGLTNDGLVIFNQMIEENK---VKPS-QEHYGCVVDLLARAGCLSDASGLAGK  516 (572)
Q Consensus       446 ~~~~g~---~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~---~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~  516 (572)
                      ..+..-   .+  ...++..+...|...|++++|+..|+++++...   ..+. ...+..++.++...|++++|...+++
T Consensus       141 Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~  220 (307)
T 2ifu_A          141 AAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRE  220 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            665210   00  024566677777777777777777777764321   1111 12455556666667777777777777


Q ss_pred             cc
Q 046221          517 LL  518 (572)
Q Consensus       517 ~~  518 (572)
                      ..
T Consensus       221 al  222 (307)
T 2ifu_A          221 SY  222 (307)
T ss_dssp             HT
T ss_pred             Hh
Confidence            65

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.70  E-value=1.7e-05  Score=71.49  Aligned_cols=179  Identities=8%  Similarity=-0.004  Sum_probs=108.7

Q ss_pred             cHHHHHHHHHHHHHhcCCCchhHHHHHHHHh----hhc---CChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChH-
Q 046221          368 ALEICLQLHGIAFEAGFPRYRSVQNCLISSY----SKC---GNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGE-  437 (572)
Q Consensus       368 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~-  437 (572)
                      ++++++..++.+.... +-+..+|+.-...+    ...   +++++++.+++++  ..+.+..+|+.-...+.+.|.++ 
T Consensus        84 ~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~  162 (306)
T 3dra_A           84 NLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHND  162 (306)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTC
T ss_pred             cHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccCh
Confidence            4555555554444433 23333333322222    333   5677777777777  33345666766666666667666 


Q ss_pred             -HHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCC------hHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhH
Q 046221          438 -TALALYHKMTETGEVP-DSSTYLSILNACGHAGL------TNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSD  509 (572)
Q Consensus       438 -~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  509 (572)
                       ++++.++++.+.  .| |...|+.-...+.+.|+      ++++++.++++++..  +-|...|+.+...+.+.|+..+
T Consensus       163 ~~EL~~~~~~i~~--d~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~--p~n~SaW~y~~~ll~~~~~~~~  238 (306)
T 3dra_A          163 AKELSFVDKVIDT--DLKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKC--PQNPSTWNYLLGIHERFDRSIT  238 (306)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHTTCCGG
T ss_pred             HHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhC--CCCccHHHHHHHHHHhcCCChH
Confidence             777777777774  34 55666666666666665      777777777777654  5566677777777777776433


Q ss_pred             -HHHHHHhccC-----CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHh
Q 046221          510 -ASGLAGKLLE-----GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQK  552 (572)
Q Consensus       510 -A~~~~~~~~~-----~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~  552 (572)
                       +.++.+++.+     ..++..+..+...+... |+.++|+++++.+.+
T Consensus       239 ~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~-~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          239 QLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQ-KKYNESRTVYDLLKS  286 (306)
T ss_dssp             GGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCCCCHHHHHHHHHHHHcc-CCHHHHHHHHHHHHh
Confidence             5556666554     22445566666666555 778888888877764

>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=98.69  E-value=6.7e-07  Score=73.34  Aligned_cols=126  Identities=16%  Similarity=0.003  Sum_probs=85.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 046221          421 VSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVD  499 (572)
Q Consensus       421 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  499 (572)
                      ..+..+...+...|++++|...|++..+.  .| +..++..+..++...|++++|+..++++++..  +.+...+..+..
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~   89 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHHHHH
Confidence            34556666777778888888888777774  34 45777777777778888888888888776543  345667777777


Q ss_pred             HHHhhCChhHHHHHHHhccC-CC-ChHHHHHH--HHHHhhhcCCHHHHHHHHHHHH
Q 046221          500 LLARAGCLSDASGLAGKLLE-GM-GPNIWRAL--LSGCVLHVGRFQDAEALRSGSQ  551 (572)
Q Consensus       500 ~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l--~~~~~~~~g~~~~A~~~~~~m~  551 (572)
                      ++...|++++|...++++.. .| +...+..+  ...+... |++++|+..+++..
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~-~~~~~A~~~~~~~~  144 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQ-KAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHH-HHHHHHHHcccchH
Confidence            78888888888888887766 33 33344322  2224444 78888887777654

>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=98.68  E-value=5.4e-07  Score=82.57  Aligned_cols=194  Identities=11%  Similarity=-0.048  Sum_probs=139.7

Q ss_pred             cCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHH
Q 046221          330 NGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYI  409 (572)
Q Consensus       330 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  409 (572)
                      .|++++|.+++++..+...  ..         .+...++++.|...+...               ...|...|++++|..
T Consensus         4 ~~~~~eA~~~~~~a~k~~~--~~---------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLK--TS---------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHC--CC---------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcc--cc---------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            4677888888887763222  11         011146788887777654               456788999999999


Q ss_pred             HHHHc-------CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCC---CCC--HHHHHHHHHHHhccCChHHHHH
Q 046221          410 VFEEM-------GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGE---VPD--SSTYLSILNACGHAGLTNDGLV  476 (572)
Q Consensus       410 ~~~~~-------~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~---~p~--~~~~~~l~~~~~~~g~~~~a~~  476 (572)
                      .+.+.       +..+ -..+|+.+...|...|++++|+..|++..+.-.   .|.  ..++..+...|.. |++++|+.
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            98877       2211 145788889999999999999999998765311   122  3577888888988 99999999


Q ss_pred             HHHHhHHhcCCCCC----hhHHHHHHHHHHhhCChhHHHHHHHhccC----CCC----hHHHHHHHHHHhhhcCCHHHHH
Q 046221          477 IFNQMIEENKVKPS----QEHYGCVVDLLARAGCLSDASGLAGKLLE----GMG----PNIWRALLSGCVLHVGRFQDAE  544 (572)
Q Consensus       477 ~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~----~~~~~~l~~~~~~~~g~~~~A~  544 (572)
                      .|+++++...-..+    ..++..+..+|.+.|++++|++.++++..    .+.    ...+..+...+... |++++|.
T Consensus       137 ~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~-g~~~~A~  215 (307)
T 2ifu_A          137 LYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHR-ADYVAAQ  215 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT-TCHHHHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHc-CCHHHHH
Confidence            99998754311111    35788899999999999999999999876    222    11344444445444 9999999


Q ss_pred             HHHHHHH
Q 046221          545 ALRSGSQ  551 (572)
Q Consensus       545 ~~~~~m~  551 (572)
                      ..+++..
T Consensus       216 ~~~~~al  222 (307)
T 2ifu_A          216 KCVRESY  222 (307)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHh
Confidence            9999987

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.67  E-value=3e-07  Score=73.57  Aligned_cols=101  Identities=7%  Similarity=-0.048  Sum_probs=71.6

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHH
Q 046221          420 VVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVV  498 (572)
Q Consensus       420 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  498 (572)
                      ...+..+...+.+.|++++|+..|++..+  +.| +...|..+..+|...|++++|+..|+++++..  |.+...+..+.
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~--~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~--P~~~~~~~~lg  111 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCI--YDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG--KNDYTPVFHTG  111 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--SSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC--CCCcHHHHHHH
Confidence            44566666777777778888888777777  345 45677777777777788888888777777544  34455777777


Q ss_pred             HHHHhhCChhHHHHHHHhccC-CCChH
Q 046221          499 DLLARAGCLSDASGLAGKLLE-GMGPN  524 (572)
Q Consensus       499 ~~~~~~g~~~~A~~~~~~~~~-~~~~~  524 (572)
                      .+|.+.|++++|...|+++.. .|+..
T Consensus       112 ~~~~~lg~~~eA~~~~~~al~l~~~~~  138 (151)
T 3gyz_A          112 QCQLRLKAPLKAKECFELVIQHSNDEK  138 (151)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCHH
Confidence            777777888888877777766 55543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.66  E-value=2.4e-07  Score=74.11  Aligned_cols=95  Identities=11%  Similarity=0.006  Sum_probs=70.7

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHHc-CCC-CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HHHHHHHHHH
Q 046221          388 RSVQNCLISSYSKCGNVDLAYIVFEEM-GFL-RDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD-SSTYLSILNA  464 (572)
Q Consensus       388 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~  464 (572)
                      ...+..+...+.+.|++++|...|++. ... .+...|..+..+|...|++++|+..|++..+  +.|+ ...|..+..+
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~--l~P~~~~~~~~lg~~  113 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFA--LGKNDYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSSSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHh--hCCCCcHHHHHHHHH
Confidence            445666677777888888888888877 332 3567777788888888888888888888877  4564 4777778888


Q ss_pred             HhccCChHHHHHHHHHhHHh
Q 046221          465 CGHAGLTNDGLVIFNQMIEE  484 (572)
Q Consensus       465 ~~~~g~~~~a~~~~~~~~~~  484 (572)
                      |...|++++|+..|+++++.
T Consensus       114 ~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            88888888888888888753

>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=98.66  E-value=3.9e-06  Score=76.28  Aligned_cols=166  Identities=11%  Similarity=0.012  Sum_probs=92.3

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcC
Q 046221          323 IISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCG  402 (572)
Q Consensus       323 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  402 (572)
                      .+..+...|++++|..++++........|+...+.                               ..+..+...+...|
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~-------------------------------~~~~~l~~~~~~~~  129 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFL-------------------------------QWQYYVAAYVLKKV  129 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHH-------------------------------HHHHHHHHHHTTSS
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHH-------------------------------HHHHHHHHHHHccc
Confidence            35667788888888888888863222222211100                               01122344444555


Q ss_pred             ChHHHHHHHHHc----CCCCC----HhHHHHHHHHHHhcCChHHHHHHHHHHHhc-----CCCCCH-HHHHHHHHHHhcc
Q 046221          403 NVDLAYIVFEEM----GFLRD----VVSWNTIIYGYGVNGHGETALALYHKMTET-----GEVPDS-STYLSILNACGHA  468 (572)
Q Consensus       403 ~~~~A~~~~~~~----~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----g~~p~~-~~~~~l~~~~~~~  468 (572)
                      ++++|...+++.    ...++    ..+++.+...|...|++++|+..|+++.+.     +..+.. .++..+...|.+.
T Consensus       130 ~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~  209 (293)
T 3u3w_A          130 DYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLD  209 (293)
T ss_dssp             CHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHH
Confidence            555555555554    11112    224666666666777777777766666531     112222 3566667777777


Q ss_pred             CChHHHHHHHHHhHHhc---CCCCC-hhHHHHHHHHHHhhCC-hhHHHHHHHhccC
Q 046221          469 GLTNDGLVIFNQMIEEN---KVKPS-QEHYGCVVDLLARAGC-LSDASGLAGKLLE  519 (572)
Q Consensus       469 g~~~~a~~~~~~~~~~~---~~~~~-~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~  519 (572)
                      |++++|+..++++++..   +..+. ..++..+..+|.+.|+ +++|.+.++++..
T Consensus       210 ~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          210 SRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            77777777777665322   11111 4466677777777773 4777777766554

>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=98.64  E-value=2.1e-06  Score=73.64  Aligned_cols=160  Identities=6%  Similarity=-0.163  Sum_probs=92.3

Q ss_pred             HhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcC----ChHHHHHHHHHcCCCCCHhHHHHHHH
Q 046221          353 SITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCG----NVDLAYIVFEEMGFLRDVVSWNTIIY  428 (572)
Q Consensus       353 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----~~~~A~~~~~~~~~~~~~~~~~~l~~  428 (572)
                      ...+..+...+...+++++|...|+...+.|   ++..+..+...|.. +    ++++|.++|++.-..-+...+..|..
T Consensus        18 ~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g~~~a~~~Lg~   93 (212)
T 3rjv_A           18 RRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAGSKSGEIVLAR   93 (212)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            3344444444444555555555555554443   33444445555555 4    66777777766622234555666666


Q ss_pred             HHHh----cCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhc----cCChHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 046221          429 GYGV----NGHGETALALYHKMTETGEVP-DSSTYLSILNACGH----AGLTNDGLVIFNQMIEENKVKPSQEHYGCVVD  499 (572)
Q Consensus       429 ~~~~----~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  499 (572)
                      .|..    .+++++|+.+|++..+.|... +...+..|...|..    .+++++|+.+|+++.+.   +.+...+..|..
T Consensus        94 ~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~---~~~~~a~~~Lg~  170 (212)
T 3rjv_A           94 VLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL---SRTGYAEYWAGM  170 (212)
T ss_dssp             HHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT---SCTTHHHHHHHH
T ss_pred             HHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc---CCCHHHHHHHHH
Confidence            6665    667777777777777643110 14566666666665    66777777777777543   234445666666


Q ss_pred             HHHhh-C-----ChhHHHHHHHhccC
Q 046221          500 LLARA-G-----CLSDASGLAGKLLE  519 (572)
Q Consensus       500 ~~~~~-g-----~~~~A~~~~~~~~~  519 (572)
                      +|... |     ++++|..++++..+
T Consensus       171 ~y~~g~gg~~~~d~~~A~~~~~~A~~  196 (212)
T 3rjv_A          171 MFQQGEKGFIEPNKQKALHWLNVSCL  196 (212)
T ss_dssp             HHHHCBTTTBCCCHHHHHHHHHHHHH
T ss_pred             HHHcCCCCCCCCCHHHHHHHHHHHHH
Confidence            66543 2     67777777777653

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.64  E-value=3e-07  Score=71.33  Aligned_cols=102  Identities=9%  Similarity=-0.030  Sum_probs=87.9

Q ss_pred             CCCCH-HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCChHHHH
Q 046221          451 EVPDS-STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMGPNIWR  527 (572)
Q Consensus       451 ~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~  527 (572)
                      +.|+. ..+......|.+.|++++|++.|+++++..  +.+...|..+..+|.+.|++++|++.++++.+  +.+...|.
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~   85 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD--PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYI   85 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHH
Confidence            56755 678888999999999999999999998765  55678999999999999999999999999988  45566788


Q ss_pred             HHHHHHhhhcCCHHHHHHHHHHHHhCCC
Q 046221          528 ALLSGCVLHVGRFQDAEALRSGSQKKGI  555 (572)
Q Consensus       528 ~l~~~~~~~~g~~~~A~~~~~~m~~~~~  555 (572)
                      .+...+... |++++|++.|++..+..+
T Consensus        86 ~lg~~~~~~-~~~~~A~~~~~~al~l~P  112 (126)
T 4gco_A           86 RKAACLVAM-REWSKAQRAYEDALQVDP  112 (126)
T ss_dssp             HHHHHHHHT-TCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHC-CCHHHHHHHHHHHHHHCc
Confidence            887777766 999999999999987654

>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=1.2e-05  Score=72.48  Aligned_cols=217  Identities=6%  Similarity=-0.127  Sum_probs=160.9

Q ss_pred             HhhcCC-hhhHHHHhccCCC--C-ChhhHHHHHHHHhhCC--ChHHHHHHHHHHHHcCCCCCcchHHHHHHHH----cCC
Q 046221           15 YFKSGK-IKEAENLFDEIPE--K-NVVSWSIVIHGYSING--FHEKSMKAFSHMMLSGLLPNSFTMVGVLVAA----AGL   84 (572)
Q Consensus        15 ~~~~~~-~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~----~~~   84 (572)
                      ..+.|. .++|+.+++.+..  | +..+|+.--..+...+  +++++++.++.+.... +-+...|+.--..+    ...
T Consensus        42 ~~~~~e~s~~aL~~t~~~L~~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l  120 (306)
T 3dra_A           42 LMKAEEYSERALHITELGINELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELN  120 (306)
T ss_dssp             HHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHT
T ss_pred             HHHcCCCCHHHHHHHHHHHHHCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhc
Confidence            334454 4789999998875  3 3456777777777778  9999999999998864 44445666544444    434


Q ss_pred             ---CChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChH--HHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 046221           85 ---QNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQ--QAVLLFNFFRGSGLVPNAVTMLTVIRG  159 (572)
Q Consensus        85 ---g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~m~~~~~~p~~~~~~~ll~~  159 (572)
                         ++++++..+++.+.+..+          .|-.+|+.-.-.+.+.|.++  ++++.++++.+.... |...|+.-...
T Consensus       121 ~~~~~~~~EL~~~~~~l~~~p----------kny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~l  189 (306)
T 3dra_A          121 NNDFDPYREFDILEAMLSSDP----------KNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFL  189 (306)
T ss_dssp             TTCCCTHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             cccCCHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence               789999999999998876          56678888777788888888  999999999986533 66677766666


Q ss_pred             HhccCC------hHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHH-HHHHHhhcCC------CCcccHHHHHHHH
Q 046221          160 CVALGS------RALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDA-AIQIFREMEC------KDVISWTRMMGLF  226 (572)
Q Consensus       160 ~~~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~------~~~~~~~~li~~~  226 (572)
                      +...+.      ++++.+.++.++... +-|.+.|+-+-..+.+.|+... +..+..++.+      .+...+..+...+
T Consensus       190 l~~l~~~~~~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~  268 (306)
T 3dra_A          190 LFSKKHLATDNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIY  268 (306)
T ss_dssp             HHSSGGGCCHHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHH
T ss_pred             HHhccccchhhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHH
Confidence            666665      788888888888876 6788888888888888877443 4455555433      3556777788888


Q ss_pred             HccCCHHHHHHHHHHHHh
Q 046221          227 VDFEYAGDALKIFREMRK  244 (572)
Q Consensus       227 ~~~~~~~~a~~~~~~m~~  244 (572)
                      .+.|+.++|.++++.+.+
T Consensus       269 ~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          269 TQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HccCCHHHHHHHHHHHHh
Confidence            888888888888888775

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.59  E-value=1.4e-06  Score=68.27  Aligned_cols=111  Identities=12%  Similarity=-0.024  Sum_probs=72.1

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHH
Q 046221          419 DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCV  497 (572)
Q Consensus       419 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l  497 (572)
                      +...|..+...+...|++++|...|++..+.  .| +...+..+...+...|++++|+..++++++..  +.+...+..+
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l   90 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKR--NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE--PTFIKGYTRK   90 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCchHHHHHH
Confidence            3455666677777777777777777777763  34 45667777777777777777777777776543  3445667777


Q ss_pred             HHHHHhhCChhHHHHHHHhccC-CCC-hHHHHHHHHHH
Q 046221          498 VDLLARAGCLSDASGLAGKLLE-GMG-PNIWRALLSGC  533 (572)
Q Consensus       498 ~~~~~~~g~~~~A~~~~~~~~~-~~~-~~~~~~l~~~~  533 (572)
                      ..++.+.|++++|.+.+++... .|+ ...+..+...+
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  128 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCM  128 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            7777777777777777777665 333 33444444333

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.59  E-value=1.2e-06  Score=79.78  Aligned_cols=126  Identities=13%  Similarity=0.032  Sum_probs=88.4

Q ss_pred             HHHHhhhcCChHHHHHHHHHc-CC-----CCC--HhHHHHHHHHHHhcCChHHHHHHHHHHHhc-CCCCC-----HHHHH
Q 046221          394 LISSYSKCGNVDLAYIVFEEM-GF-----LRD--VVSWNTIIYGYGVNGHGETALALYHKMTET-GEVPD-----SSTYL  459 (572)
Q Consensus       394 l~~~~~~~g~~~~A~~~~~~~-~~-----~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-g~~p~-----~~~~~  459 (572)
                      +...+...|++++|...+++. ..     .+.  ..+|+.+...|...|++++|+..|++..+. ...|+     ..++.
T Consensus       121 ~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~  200 (293)
T 2qfc_A          121 VAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRY  200 (293)
T ss_dssp             HHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHH
T ss_pred             HHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHH
Confidence            555667778888888887776 11     111  347778888888888999898888887731 01222     15778


Q ss_pred             HHHHHHhccCChHHHHHHHHHhHHhc---CCCC-ChhHHHHHHHHHHhhCChhHH-HHHHHhccC
Q 046221          460 SILNACGHAGLTNDGLVIFNQMIEEN---KVKP-SQEHYGCVVDLLARAGCLSDA-SGLAGKLLE  519 (572)
Q Consensus       460 ~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~g~~~~A-~~~~~~~~~  519 (572)
                      .+...|...|++++|+..++++++..   +... -..++..+..+|.+.|++++| ...++++..
T Consensus       201 nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          201 NHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            88888889999999999888876432   1111 145778888888899999888 777777654

>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=98.58  E-value=6.2e-07  Score=69.65  Aligned_cols=106  Identities=12%  Similarity=0.037  Sum_probs=78.0

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCC-CCC----hhHH
Q 046221          421 VSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKV-KPS----QEHY  494 (572)
Q Consensus       421 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~----~~~~  494 (572)
                      ..+..+...+.+.|++++|+..|++.++  +.| +...|..+..+|...|++++|+..++++++...- .++    ..+|
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~--~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIE--LDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            4566777888888888888888888887  456 4577888888888888888888888888754311 111    1356


Q ss_pred             HHHHHHHHhhCChhHHHHHHHhccC-CCChHHHHH
Q 046221          495 GCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWRA  528 (572)
Q Consensus       495 ~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~  528 (572)
                      ..+..++...|++++|++.|++... .|++.....
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~~~~~~~~~~  121 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSEFRDPELVKK  121 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSCCHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCcCHHHHHH
Confidence            6777888888888888888888766 666655443

>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=98.58  E-value=5.1e-07  Score=83.75  Aligned_cols=62  Identities=10%  Similarity=-0.007  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          456 STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       456 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .+|..+..+|.+.|++++|+..++++++..  +.+...+..+..+|...|++++|...|+++.+
T Consensus       197 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  258 (336)
T 1p5q_A          197 ASHLNLAMCHLKLQAFSAAIESCNKALELD--SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ  258 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            444444445555555555555555554332  22334444455555555555555555555444

>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=98.58  E-value=4e-07  Score=82.12  Aligned_cols=191  Identities=11%  Similarity=-0.084  Sum_probs=120.0

Q ss_pred             hHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHH
Q 046221          354 ITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYG  431 (572)
Q Consensus       354 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~  431 (572)
                      ..+..+...+...|+++.|...++...+.. +.+...+..+..+|.+.|++++|...+++. ...| +...+..+..+|.
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (281)
T 2c2l_A            5 QELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQL   83 (281)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            344444555555666666666666555543 446677788888999999999999999988 4444 4678888899999


Q ss_pred             hcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHH
Q 046221          432 VNGHGETALALYHKMTETGEVPDS-STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDA  510 (572)
Q Consensus       432 ~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  510 (572)
                      ..|++++|+..|++..+.  .|+. ..+...+....+   ...+.... .. +....+.+......+...  ..|++++|
T Consensus        84 ~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~~~~~~---~~~~~~~~-~~-~~~~~~~~~~i~~~l~~l--~~~~~~~A  154 (281)
T 2c2l_A           84 EMESYDEAIANLQRAYSL--AKEQRLNFGDDIPSALR---IAKKKRWN-SI-EERRIHQESELHSYLTRL--IAAERERE  154 (281)
T ss_dssp             HTTCHHHHHHHHHHHHHH--HHHTTCCCCSHHHHHHH---HHHHHHHH-HH-HHTCCCCCCHHHHHHHHH--HHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh--CccchhhHHHHHHHHHH---HHHHHHHH-HH-HHHHHhhhHHHHHHHHHH--HHHHHHHH
Confidence            999999999999998873  3422 111112222111   11112222 22 223345555555555443  37899999


Q ss_pred             HHHHHhccC-CCChHHH-HHHHHHHhhhcCCHHHHHHHHHHHHhCC
Q 046221          511 SGLAGKLLE-GMGPNIW-RALLSGCVLHVGRFQDAEALRSGSQKKG  554 (572)
Q Consensus       511 ~~~~~~~~~-~~~~~~~-~~l~~~~~~~~g~~~~A~~~~~~m~~~~  554 (572)
                      .+.++++.+ .|+.... ..+...+....+++++|.++|++..+..
T Consensus       155 ~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~~  200 (281)
T 2c2l_A          155 LEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEKR  200 (281)
T ss_dssp             HTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCTT
T ss_pred             HHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence            999998887 5554433 3333333333477889999998876643

>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=98.58  E-value=1.3e-06  Score=71.61  Aligned_cols=125  Identities=9%  Similarity=-0.016  Sum_probs=98.0

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHh
Q 046221          390 VQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACG  466 (572)
Q Consensus       390 ~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~  466 (572)
                      .+..+...+...|++++|...+++.  ..+.+...+..+...+...|++++|...+++..+.  .| +...+..+..++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHH
Confidence            4555677788899999999999887  23345778888888999999999999999999885  44 5678888889999


Q ss_pred             ccCChHHHHHHHHHhHHhcCCCCChhHH--HHHHHHHHhhCChhHHHHHHHhcc
Q 046221          467 HAGLTNDGLVIFNQMIEENKVKPSQEHY--GCVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       467 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                      ..|++++|...++++++..  +.+...+  ...+..+.+.|++++|.+.+.+..
T Consensus        93 ~~~~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            9999999999999998654  2344444  344445778899999998887654

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.57  E-value=2.2e-06  Score=66.14  Aligned_cols=97  Identities=18%  Similarity=0.258  Sum_probs=60.4

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 046221          420 VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVD  499 (572)
Q Consensus       420 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  499 (572)
                      ...|..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|..+++++++..  +.+...+..+..
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~   85 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGN   85 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CccHHHHHHHHH
Confidence            3455556666666666777776666666531 2244566666666666677777777776665432  334556666666


Q ss_pred             HHHhhCChhHHHHHHHhccC
Q 046221          500 LLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       500 ~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ++...|++++|...++++..
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           86 AYYKQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHH
Confidence            66677777777777666655

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.57  E-value=1.9e-06  Score=73.37  Aligned_cols=154  Identities=13%  Similarity=0.028  Sum_probs=89.3

Q ss_pred             cccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-------CCCC-CHhHHHHHHHHHHhcCC
Q 046221          364 GELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-------GFLR-DVVSWNTIIYGYGVNGH  435 (572)
Q Consensus       364 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~~-~~~~~~~l~~~~~~~~~  435 (572)
                      ...|+++.|.+.++.+.. ........+..+...+...|++++|...+++.       +..+ ....+..+...|...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            345677777774444322 11234556666777777777777777777665       1211 23456666667777777


Q ss_pred             hHHHHHHHHHHHhc----CCCC--CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCCh----hHHHHHHHHHHhhC
Q 046221          436 GETALALYHKMTET----GEVP--DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQ----EHYGCVVDLLARAG  505 (572)
Q Consensus       436 ~~~A~~~~~~~~~~----g~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g  505 (572)
                      +++|...+++..+.    +-.|  ....+..+...+...|++++|...+++.++...-..+.    .++..+..++...|
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            77777777766552    1011  12446666667777777777777777765322111121    23456666777777


Q ss_pred             ChhHHHHHHHhcc
Q 046221          506 CLSDASGLAGKLL  518 (572)
Q Consensus       506 ~~~~A~~~~~~~~  518 (572)
                      ++++|.+.+++..
T Consensus       162 ~~~~A~~~~~~al  174 (203)
T 3gw4_A          162 NLLEAQQHWLRAR  174 (203)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            7777777777665

>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=98.56  E-value=3e-07  Score=73.67  Aligned_cols=106  Identities=11%  Similarity=0.042  Sum_probs=87.7

Q ss_pred             HHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcC
Q 046221          410 VFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENK  486 (572)
Q Consensus       410 ~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  486 (572)
                      .++++ ...| +...+..+...+...|++++|+..|++....  .| +...|..+..+|...|++++|+..|+++++.. 
T Consensus         9 ~~~~al~~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-   85 (148)
T 2vgx_A            9 TIAMLNEISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-   85 (148)
T ss_dssp             SHHHHTTCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             hHHHHHcCCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-
Confidence            34444 4444 3556777888899999999999999999884  55 66888889999999999999999999998654 


Q ss_pred             CCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          487 VKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       487 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                       +.+...+..+..+|...|++++|.+.|+++..
T Consensus        86 -p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           86 -IXEPRFPFHAAECLLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             -TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             44667888899999999999999999999877

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.54  E-value=1.7e-06  Score=67.34  Aligned_cols=96  Identities=17%  Similarity=0.044  Sum_probs=53.6

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHH
Q 046221          421 VSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDL  500 (572)
Q Consensus       421 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  500 (572)
                      ..+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++++++..  +.+...+..+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~   89 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID--PAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC--ccCHHHHHHHHHH
Confidence            344455555556666666666666655531 2234555555556666666666666666655432  2334455555666


Q ss_pred             HHhhCChhHHHHHHHhccC
Q 046221          501 LARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       501 ~~~~g~~~~A~~~~~~~~~  519 (572)
                      +.+.|++++|...++++..
T Consensus        90 ~~~~~~~~~A~~~~~~~~~  108 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALE  108 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHh
Confidence            6666666666666666554

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.53  E-value=2.9e-06  Score=66.40  Aligned_cols=118  Identities=10%  Similarity=-0.021  Sum_probs=96.4

Q ss_pred             CCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHH
Q 046221          385 PRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSI  461 (572)
Q Consensus       385 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l  461 (572)
                      +.+...+..+...+...|++++|...+++. ...| +...+..+...|...|++++|+..+++..+.  .| +...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQL--EPTFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCchHHHHHH
Confidence            345566777888899999999999999998 4434 6788888999999999999999999999985  44 56888999


Q ss_pred             HHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCC
Q 046221          462 LNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGC  506 (572)
Q Consensus       462 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  506 (572)
                      ..++...|++++|...++++++..  +.+...+..+..++.+.|+
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLD--SSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--GGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHHhcC
Confidence            999999999999999999998654  3345577777777776653

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.53  E-value=3.2e-06  Score=65.18  Aligned_cols=115  Identities=17%  Similarity=0.214  Sum_probs=89.3

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 046221          388 RSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNAC  465 (572)
Q Consensus       388 ~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  465 (572)
                      ...+..+...+...|++++|.+.++++  ..+.+...+..+...+...|++++|...++++.+.. +.+..++..+...+
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            456667788888899999999999887  233457788888899999999999999999998852 33667888899999


Q ss_pred             hccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhC
Q 046221          466 GHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAG  505 (572)
Q Consensus       466 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  505 (572)
                      ...|++++|...++++++..  +.+...+..+..++.+.|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELD--PNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHhcc
Confidence            99999999999999987654  345556666666655443

>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=98.52  E-value=4.4e-07  Score=72.73  Aligned_cols=97  Identities=11%  Similarity=-0.103  Sum_probs=73.2

Q ss_pred             chhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHH
Q 046221          387 YRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILN  463 (572)
Q Consensus       387 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~  463 (572)
                      +...+..+...+.+.|++++|...|++.  ..+.+...|..+..+|...|++++|+..|++..+.  .| +...+..+..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVM--DIXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCchHHHHHHH
Confidence            3445566777788888888888888877  23245677777888888888888888888888873  45 4477777888


Q ss_pred             HHhccCChHHHHHHHHHhHHhc
Q 046221          464 ACGHAGLTNDGLVIFNQMIEEN  485 (572)
Q Consensus       464 ~~~~~g~~~~a~~~~~~~~~~~  485 (572)
                      ++...|++++|+..|+++++..
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~~  119 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQELI  119 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC
Confidence            8888888888888888887654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.51  E-value=3.9e-06  Score=73.72  Aligned_cols=127  Identities=10%  Similarity=-0.083  Sum_probs=61.0

Q ss_pred             HHHHhhhcCChHHHHHHHHHc-CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHhccCC
Q 046221          394 LISSYSKCGNVDLAYIVFEEM-GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD--SSTYLSILNACGHAGL  470 (572)
Q Consensus       394 l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~--~~~~~~l~~~~~~~g~  470 (572)
                      +...+...|++++|.++|+.+ ...|+....-.+...+.+.+++++|+..|+...... .|.  ...+..+..++...|+
T Consensus       108 yA~~L~~~g~y~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~LG~  186 (282)
T 4f3v_A          108 FAACEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAANLAL  186 (282)
T ss_dssp             HHHHHHHHTCHHHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHHCCC
Confidence            344455555666666665555 222332233333444555556666665555433310 110  1244555555555666


Q ss_pred             hHHHHHHHHHhHHhcCCCCC--hhHHHHHHHHHHhhCChhHHHHHHHhccC-CCC
Q 046221          471 TNDGLVIFNQMIEENKVKPS--QEHYGCVVDLLARAGCLSDASGLAGKLLE-GMG  522 (572)
Q Consensus       471 ~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~  522 (572)
                      +++|+..|+++. .....|.  .........++.+.|+.++|...|+++.. .|+
T Consensus       187 ~~eAl~~l~~a~-~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~  240 (282)
T 4f3v_A          187 FTEAERRLTEAN-DSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE  240 (282)
T ss_dssp             HHHHHHHHHHHH-TSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHh-cCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc
Confidence            666666665553 2212122  22344445555555666666666655554 444

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.51  E-value=7.6e-07  Score=74.02  Aligned_cols=123  Identities=8%  Similarity=0.058  Sum_probs=93.7

Q ss_pred             hhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHH-HhccCCh--
Q 046221          398 YSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNA-CGHAGLT--  471 (572)
Q Consensus       398 ~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~-~~~~g~~--  471 (572)
                      +...|++++|...+++.  ..+.+...|..+...|...|++++|...|++..+.  .| +...+..+..+ +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQL--RGENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcCCcch
Confidence            55678888888888877  33346778888889999999999999999998884  44 56777778887 7788888  


Q ss_pred             HHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChH
Q 046221          472 NDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPN  524 (572)
Q Consensus       472 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~  524 (572)
                      ++|...++++++..  +.+...+..+..+|...|++++|...++++.. .|+..
T Consensus        98 ~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~  149 (177)
T 2e2e_A           98 AQTRAMIDKALALD--SNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRI  149 (177)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTS
T ss_pred             HHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCc
Confidence            99999999988654  44566788888899999999999999998876 44443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.51  E-value=3.3e-06  Score=65.69  Aligned_cols=116  Identities=10%  Similarity=-0.020  Sum_probs=94.7

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHH
Q 046221          388 RSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNA  464 (572)
Q Consensus       388 ~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~  464 (572)
                      ...+..+...+...|++++|...+++.  ..+.+...+..+...+...|++++|...+++..+.  .| +...+..+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICI--DPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhc--CccCHHHHHHHHHH
Confidence            445666778888899999999999987  33346778888899999999999999999999885  45 56888889999


Q ss_pred             HhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCCh
Q 046221          465 CGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCL  507 (572)
Q Consensus       465 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  507 (572)
                      +...|++++|...++++++..  +.+...+..+..++.+.|++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELD--PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHHhcC
Confidence            999999999999999998654  44666788888888887765

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.51  E-value=3.5e-06  Score=73.98  Aligned_cols=130  Identities=11%  Similarity=-0.140  Sum_probs=89.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC--hhHHHHHHH
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS--QEHYGCVVD  499 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~  499 (572)
                      .+-.+...+...|++++|.++|+.+...  .|+......+...+.+.+++++|+..|+...+ .. .|.  ...+..+..
T Consensus       104 l~LayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~-~~-d~~~~~~a~~~LG~  179 (282)
T 4f3v_A          104 ITMGFAACEAAQGNYADAMEALEAAPVA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGK-WP-DKFLAGAAGVAHGV  179 (282)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTSSCCT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGG-CS-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhc-cC-CcccHHHHHHHHHH
Confidence            3445566777888888888888887763  46544555666678888888888888886642 11 121  236777888


Q ss_pred             HHHhhCChhHHHHHHHhccCC---CC--hHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          500 LLARAGCLSDASGLAGKLLEG---MG--PNIWRALLSGCVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       500 ~~~~~g~~~~A~~~~~~~~~~---~~--~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                      ++...|++++|++.|++....   |.  +..+..+...+... |+.++|..+|+++.+..+.
T Consensus       180 al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~l-Gr~deA~~~l~~a~a~~P~  240 (282)
T 4f3v_A          180 AAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQ-GNESAAVALLEWLQTTHPE  240 (282)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhcCCc
Confidence            888888888888888888653   32  12333344444444 8888888888888877654

>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=98.50  E-value=6.1e-07  Score=74.59  Aligned_cols=120  Identities=9%  Similarity=0.039  Sum_probs=85.2

Q ss_pred             hcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-C-CCCCHhHHHHHHHH-HHhcCCh--H
Q 046221          363 SGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-G-FLRDVVSWNTIIYG-YGVNGHG--E  437 (572)
Q Consensus       363 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~-~~~~~~~--~  437 (572)
                      +...|+++.|...++...+.. +.+...+..+..+|...|++++|...|++. . .+.+...+..+..+ |...|++  +
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchH
Confidence            455677788888887777664 456677777888888888888888888877 2 22345667777777 6677887  8


Q ss_pred             HHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhc
Q 046221          438 TALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEEN  485 (572)
Q Consensus       438 ~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  485 (572)
                      +|...++++.+.  .| +...+..+...+...|++++|...|+++++..
T Consensus        99 ~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           99 QTRAMIDKALAL--DSNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            888888888874  45 45777778888888888888888888887543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.50  E-value=1e-06  Score=75.01  Aligned_cols=98  Identities=16%  Similarity=0.065  Sum_probs=41.2

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHh---cCCCC--C
Q 046221          421 VSWNTIIYGYGVNGHGETALALYHKMTET----GEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEE---NKVKP--S  490 (572)
Q Consensus       421 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~--~  490 (572)
                      ..+..+...|...|++++|...+++..+.    +..| ...++..+...+...|++++|...++++++.   .+-.|  .
T Consensus        27 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  106 (203)
T 3gw4_A           27 GARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAA  106 (203)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHH
Confidence            34444444444455555555544444331    1111 1133444444444555555555554444332   11011  1


Q ss_pred             hhHHHHHHHHHHhhCChhHHHHHHHhcc
Q 046221          491 QEHYGCVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       491 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                      ...+..+...+...|++++|.+.+++..
T Consensus       107 ~~~~~~lg~~~~~~g~~~~A~~~~~~al  134 (203)
T 3gw4_A          107 SANAYEVATVALHFGDLAGARQEYEKSL  134 (203)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            2234444444445555555555544443

>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=98.50  E-value=2.2e-06  Score=66.42  Aligned_cols=96  Identities=14%  Similarity=0.016  Sum_probs=74.7

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHH
Q 046221          420 VVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVV  498 (572)
Q Consensus       420 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  498 (572)
                      ...|..+...+.+.|++++|+..|++..+.  .| +...|..+..++.+.|++++|+..++++++..  +.+...+..+.
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg   79 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD--PNFVRAYIRKA   79 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCcHHHHHHHH
Confidence            345666777788888888888888888874  44 56778888888888888888888888887654  44566778888


Q ss_pred             HHHHhhCChhHHHHHHHhccC
Q 046221          499 DLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       499 ~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .++...|++++|.+.++++..
T Consensus        80 ~~~~~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           80 TAQIAVKEYASALETLDAART  100 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCHHHHHHHHHHHHH
Confidence            888888888888888888765

>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=98.48  E-value=2e-07  Score=79.19  Aligned_cols=152  Identities=9%  Similarity=-0.051  Sum_probs=88.7

Q ss_pred             hhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-----------------HHHH
Q 046221          398 YSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD-----------------SSTY  458 (572)
Q Consensus       398 ~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~-----------------~~~~  458 (572)
                      ....|+++.+.+.++..  ........+..+...+...|++++|+..|++..+.  .|+                 ...+
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~~~~~~~~~~~~~~   91 (198)
T 2fbn_A           14 RENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHTEEWDDQILLDKKKNIEISCN   91 (198)
T ss_dssp             --------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTCTTCCCHHHHHHHHHHHHHHH
T ss_pred             hhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--HhcccccchhhHHHHHHHHHHHHH
Confidence            33445555555554432  11112345666677777888888888888887763  221                 2567


Q ss_pred             HHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CC-ChHHHHHHHHHHhhh
Q 046221          459 LSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GM-GPNIWRALLSGCVLH  536 (572)
Q Consensus       459 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~~~~~  536 (572)
                      ..+..+|...|++++|+..++++++..  +.+...+..+..+|...|++++|.+.|+++.. .| +...+..+...+...
T Consensus        92 ~~la~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  169 (198)
T 2fbn_A           92 LNLATCYNKNKDYPKAIDHASKVLKID--KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNKL  169 (198)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHH
Confidence            777888888888888888888887653  44566788888888888888888888888776 44 444555554444433


Q ss_pred             cCCHHHHH-HHHHHHHhCC
Q 046221          537 VGRFQDAE-ALRSGSQKKG  554 (572)
Q Consensus       537 ~g~~~~A~-~~~~~m~~~~  554 (572)
                       ++.+++. ..+..|...+
T Consensus       170 -~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          170 -KEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             -HHHHC-------------
T ss_pred             -HHHHHHHHHHHHHHhccc
Confidence             6666555 4555554433

>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=98.44  E-value=6.9e-06  Score=62.45  Aligned_cols=96  Identities=14%  Similarity=0.012  Sum_probs=73.0

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHH
Q 046221          420 VVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVV  498 (572)
Q Consensus       420 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  498 (572)
                      ...+..+...+...|++++|...+++..+.  .| +...+..+...+...|++++|...++++++..  +.+...+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a   79 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK--PDWGKGYSRKA   79 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC--cccHHHHHHHH
Confidence            455667777778888888888888888774  34 56777777788888888888888888887543  34566777788


Q ss_pred             HHHHhhCChhHHHHHHHhccC
Q 046221          499 DLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       499 ~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .++...|++++|.+.+++..+
T Consensus        80 ~~~~~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           80 AALEFLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            888888888888888888776

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.43  E-value=6.4e-06  Score=65.80  Aligned_cols=97  Identities=12%  Similarity=-0.077  Sum_probs=70.4

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHH
Q 046221          419 DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD----SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHY  494 (572)
Q Consensus       419 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  494 (572)
                      +...+..+...+...|++++|...|++..+  ..|+    ...+..+..++...|++++|+..++++++..  +.+...+
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~  102 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALG--LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD--GGDVKAL  102 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHT--SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--SCCHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHH--HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC--ccCHHHH
Confidence            455666777777777888888888887776  3565    4666777777778888888888888776543  3355667


Q ss_pred             HHHHHHHHhhCChhHHHHHHHhccC
Q 046221          495 GCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       495 ~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ..+..++...|++++|...+++...
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            7777778888888888888887766

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.41  E-value=2.8e-06  Score=67.46  Aligned_cols=96  Identities=10%  Similarity=0.018  Sum_probs=75.1

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHH
Q 046221          420 VVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVV  498 (572)
Q Consensus       420 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  498 (572)
                      ...+..+...+.+.|++++|+..|++....  .| +...|..+..++...|++++|+..|+++++..  +.+...+..+.
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg   93 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMD--INEPRFPFHAA   93 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CCCcHHHHHHH
Confidence            345556677788888888888888888874  45 55777888888888888888888888887654  44556777888


Q ss_pred             HHHHhhCChhHHHHHHHhccC
Q 046221          499 DLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       499 ~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .+|...|++++|.+.++++..
T Consensus        94 ~~~~~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           94 ECHLQLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            888888888888888888776

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.41  E-value=1.6e-06  Score=68.86  Aligned_cols=109  Identities=11%  Similarity=-0.057  Sum_probs=86.2

Q ss_pred             HHHHHHhcCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-
Q 046221          442 LYHKMTETGEVPDS-STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-  519 (572)
Q Consensus       442 ~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  519 (572)
                      .|+++.+  +.|+. ..+..+...+.+.|++++|+..|+++++..  +.+...|..+..+|.+.|++++|...++++.. 
T Consensus         6 ~l~~al~--~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   81 (142)
T 2xcb_A            6 TLAMLRG--LSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLD--HYDARYFLGLGACRQSLGLYEQALQSYSYGALM   81 (142)
T ss_dssp             ---CCTT--CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHc--CCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            3444444  45543 667778888999999999999999998655  45777899999999999999999999999987 


Q ss_pred             -CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCC
Q 046221          520 -GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGI  555 (572)
Q Consensus       520 -~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~  555 (572)
                       +.++..|..+...+... |++++|...|++..+..+
T Consensus        82 ~p~~~~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~p  117 (142)
T 2xcb_A           82 DINEPRFPFHAAECHLQL-GDLDGAESGFYSARALAA  117 (142)
T ss_dssp             CTTCTHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCC
Confidence             44556677777767666 999999999999877654

>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=98.39  E-value=3e-06  Score=78.55  Aligned_cols=127  Identities=10%  Similarity=-0.020  Sum_probs=103.1

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCC----------------HhHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 046221          388 RSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRD----------------VVSWNTIIYGYGVNGHGETALALYHKMTETG  450 (572)
Q Consensus       388 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~----------------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g  450 (572)
                      ...+..+...+.+.|++++|...|++. ...|+                ...|..+..+|.+.|++++|+..+++.++. 
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~-  225 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL-  225 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-
Confidence            445666777888888888888888877 22233                478889999999999999999999999984 


Q ss_pred             CCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHH-HHHHHhcc
Q 046221          451 EVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDA-SGLAGKLL  518 (572)
Q Consensus       451 ~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A-~~~~~~~~  518 (572)
                       .| +...|..+..+|...|++++|+..|+++++..  +.+...+..+..++.+.|+.++| ...+++|.
T Consensus       226 -~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~--P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          226 -DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY--PNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             -CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             55 56889999999999999999999999998654  44567888899999999999988 44555554

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.37  E-value=3.3e-06  Score=63.65  Aligned_cols=97  Identities=12%  Similarity=0.031  Sum_probs=60.7

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCC--ChhHHHHH
Q 046221          420 VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKP--SQEHYGCV  497 (572)
Q Consensus       420 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~~l  497 (572)
                      ...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|+..++++++..  +.  +...+..+
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~l   82 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI--EDEYNKDVWAAK   82 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--CCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--cccchHHHHHHH
Confidence            3445556666666777777777777666631 2244566666666667777777777777665432  22  45566666


Q ss_pred             HHHHHhh-CChhHHHHHHHhccC
Q 046221          498 VDLLARA-GCLSDASGLAGKLLE  519 (572)
Q Consensus       498 ~~~~~~~-g~~~~A~~~~~~~~~  519 (572)
                      ..++.+. |++++|.+.+++...
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGG
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhh
Confidence            6666677 777777777766655

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.36  E-value=1.9e-06  Score=79.96  Aligned_cols=99  Identities=14%  Similarity=0.007  Sum_probs=53.8

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCC-hHHHHHHHHHHh
Q 046221          457 TYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMG-PNIWRALLSGCV  534 (572)
Q Consensus       457 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~-~~~~~~l~~~~~  534 (572)
                      .|..+..+|.+.|++++|+..++++++..  +.+...+..+..+|...|++++|...|+++.. .|+ ...+..+.....
T Consensus       232 ~~~nla~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~  309 (338)
T 2if4_A          232 CHLNIAACLIKLKRYDEAIGHCNIVLTEE--EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAE  309 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            77888889999999999999999998654  44677889999999999999999999999987 444 444555544433


Q ss_pred             hhcCCHHHHHHHHHHHHhCCCCC
Q 046221          535 LHVGRFQDAEALRSGSQKKGIIK  557 (572)
Q Consensus       535 ~~~g~~~~A~~~~~~m~~~~~~~  557 (572)
                      ...+..+.+...+++|.+.....
T Consensus       310 ~~~~~~~~a~~~~~~~l~~~p~~  332 (338)
T 2if4_A          310 QEKALYQKQKEMYKGIFKGKDEG  332 (338)
T ss_dssp             -----------------------
T ss_pred             HHHHHHHHHHHHHHHhhCCCCCC
Confidence            34477888889999887766543

>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=98.34  E-value=4.9e-06  Score=64.72  Aligned_cols=110  Identities=15%  Similarity=0.079  Sum_probs=76.4

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCC-CCC----hhHH
Q 046221          420 VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKV-KPS----QEHY  494 (572)
Q Consensus       420 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~----~~~~  494 (572)
                      ...|..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...++++++...- .++    ..++
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            3456667777778888888888888877742 335567777777888888888888888877654311 111    5567


Q ss_pred             HHHHHHHHhhCChhHHHHHHHhccC-CCChHHHHHHH
Q 046221          495 GCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWRALL  530 (572)
Q Consensus       495 ~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~  530 (572)
                      ..+..++.+.|++++|.+.++++.. .|++..+..+.
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~l~  119 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEHRTPDVLKKCQ  119 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            7777888888888888888888776 55655544443

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.34  E-value=6.7e-06  Score=64.74  Aligned_cols=98  Identities=10%  Similarity=-0.057  Sum_probs=72.3

Q ss_pred             CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHH
Q 046221          418 RDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGC  496 (572)
Q Consensus       418 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  496 (572)
                      .+...|..+...+...|++++|+..|++..+.  .| +...+..+..++...|++++|+..++++++..  +.+...+..
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~   82 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELD--GQSVKAHFF   82 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--chhHHHHHH
Confidence            34566777777778888888888888877774  34 45777777777888888888888888777543  345667777


Q ss_pred             HHHHHHhhCChhHHHHHHHhccC
Q 046221          497 VVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       497 l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +..++...|++++|...++++..
T Consensus        83 l~~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           83 LGQCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHH
Confidence            77888888888888888887765

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.34  E-value=0.00016  Score=69.85  Aligned_cols=164  Identities=10%  Similarity=-0.106  Sum_probs=100.2

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHh----HHHHHHHHhcccccHHHHHHHHHHHHHh----cCC-CchhH
Q 046221          320 WTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSI----TLVSILTASGELAALEICLQLHGIAFEA----GFP-RYRSV  390 (572)
Q Consensus       320 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~  390 (572)
                      +..+...|...|++++|.+.+..+....+..++..    ....+-..+...|+.+.+..++......    +.. .-..+
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            45566666677777777776666553322222221    1222223344556777777776655432    111 22446


Q ss_pred             HHHHHHHhhhcCChHHHHHHHHHc-----CC--CC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhc--CCC-C-C--HH
Q 046221          391 QNCLISSYSKCGNVDLAYIVFEEM-----GF--LR-DVVSWNTIIYGYGVNGHGETALALYHKMTET--GEV-P-D--SS  456 (572)
Q Consensus       391 ~~~l~~~~~~~g~~~~A~~~~~~~-----~~--~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--g~~-p-~--~~  456 (572)
                      +..+...|...|++++|..++++.     +.  .+ ....+..++..|...|++++|..++++....  .+. | .  ..
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  217 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAE  217 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHH
Confidence            667788888888888888888776     11  12 2456777778888888888888888776542  111 1 1  24


Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHhHH
Q 046221          457 TYLSILNACGHAGLTNDGLVIFNQMIE  483 (572)
Q Consensus       457 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  483 (572)
                      .+..+...+...|++++|...|.++.+
T Consensus       218 ~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          218 LDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            456666677788888888887777654

>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=98.33  E-value=0.00037  Score=63.44  Aligned_cols=216  Identities=10%  Similarity=-0.015  Sum_probs=137.1

Q ss_pred             cCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccc-cHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhc-C-ChHH
Q 046221          330 NGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELA-ALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKC-G-NVDL  406 (572)
Q Consensus       330 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g-~~~~  406 (572)
                      .+..++|+++++++....+.  +...++.--..+...+ .+++++.+++.+.... +-+..+|+.-..++.+. + ++++
T Consensus        67 ~e~se~AL~lt~~~L~~nP~--~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~~  143 (349)
T 3q7a_A           67 EEKSERALELTEIIVRMNPA--HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPVS  143 (349)
T ss_dssp             TCCSHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCHH
T ss_pred             CCCCHHHHHHHHHHHHhCch--hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChHH
Confidence            33445666666666532222  2223333333333444 4677777777766544 45566666655556555 6 7889


Q ss_pred             HHHHHHHc--CCCCCHhHHHHHHHHHHhcCChH--------HHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCC-----
Q 046221          407 AYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGE--------TALALYHKMTETGEVP-DSSTYLSILNACGHAGL-----  470 (572)
Q Consensus       407 A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~--------~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~-----  470 (572)
                      ++++++++  ..+.+...|+.-...+.+.|.++        ++++.++++.+.  .| |...|+.....+.+.++     
T Consensus       144 EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~--dp~N~SAW~~R~~lL~~l~~~~~~~  221 (349)
T 3q7a_A          144 EIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRV--DGRNNSAWGWRWYLRVSRPGAETSS  221 (349)
T ss_dssp             HHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHTTSTTCCCCH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccccch
Confidence            99999888  34346777776655555555555        889999999885  44 66888888888777776     


Q ss_pred             --hHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCCh--------------------hHHHHHHHhccC-C-------
Q 046221          471 --TNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCL--------------------SDASGLAGKLLE-G-------  520 (572)
Q Consensus       471 --~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--------------------~~A~~~~~~~~~-~-------  520 (572)
                        ++++++.++++++..  +-|...|+-+-..+.+.|+.                    .+..++..++.. .       
T Consensus       222 ~~~~eELe~~~~aI~~~--P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  299 (349)
T 3q7a_A          222 RSLQDELIYILKSIHLI--PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPL  299 (349)
T ss_dssp             HHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCS
T ss_pred             HHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCC
Confidence              688999999888765  55667777776667666654                    334444444443 2       


Q ss_pred             CChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhC
Q 046221          521 MGPNIWRALLSGCVLHVGRFQDAEALRSGSQKK  553 (572)
Q Consensus       521 ~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~  553 (572)
                      +.+..+..|+..+... |+.++|.++++.+.++
T Consensus       300 ~s~~al~~l~d~~~~~-~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          300 PVPLALEYLADSFIEQ-NRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             CCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhh
Confidence            3444566777777666 9999999999998643

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.33  E-value=1.9e-05  Score=76.39  Aligned_cols=195  Identities=9%  Similarity=-0.093  Sum_probs=136.2

Q ss_pred             HHHHHcCChHHHHHHHHHHHhcCCCCCCH---------------hHHHHHHHHhcccccHHHHHHHHHHHHHhcC-CCch
Q 046221          325 SGYVQNGCAREALNQFIKMRQEKTDSVDS---------------ITLVSILTASGELAALEICLQLHGIAFEAGF-PRYR  388 (572)
Q Consensus       325 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---------------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~  388 (572)
                      ..+.+.|++++|++.|..+.+......+.               ..+..+...|...|++++|.+.+..+....- .+..
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~   91 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS   91 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch
Confidence            34556677777777777776433322221               2367788899999999999999987765321 1221


Q ss_pred             ----hHHHHHHHHhhhcCChHHHHHHHHHc-------CCCCC-HhHHHHHHHHHHhcCChHHHHHHHHHHHhc--CC--C
Q 046221          389 ----SVQNCLISSYSKCGNVDLAYIVFEEM-------GFLRD-VVSWNTIIYGYGVNGHGETALALYHKMTET--GE--V  452 (572)
Q Consensus       389 ----~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--g~--~  452 (572)
                          .+.+.+...+...|+.+.|..+++..       +..+. ..++..+...|...|++++|..+++++...  +.  .
T Consensus        92 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~  171 (434)
T 4b4t_Q           92 KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDK  171 (434)
T ss_dssp             HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCS
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccc
Confidence                23344445556778999999988876       22232 567788899999999999999999887653  11  2


Q ss_pred             CC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC-----hhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          453 PD-SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS-----QEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       453 p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      |. ..++..++..|...|++++|..++++++....-.++     ...+..++..+...|++++|...+.+..+
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            22 367888899999999999999999987643211121     23566777888899999999988877654

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.33  E-value=5.6e-06  Score=67.67  Aligned_cols=94  Identities=10%  Similarity=-0.050  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHH
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDL  500 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  500 (572)
                      .|..+...+...|++++|+..|++..+.  .| +...|..+..+|...|++++|+..++++++..  +.+...|..+..+
T Consensus        13 ~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~   88 (164)
T 3sz7_A           13 KLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVD--PKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHHHHHHHHH
Confidence            3444444444555555555555554442  23 33444444455555555555555555554332  2233444445555


Q ss_pred             HHhhCChhHHHHHHHhccC
Q 046221          501 LARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       501 ~~~~g~~~~A~~~~~~~~~  519 (572)
                      |.+.|++++|.+.|+++..
T Consensus        89 ~~~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHH
Confidence            5555555555555554444

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.32  E-value=5e-06  Score=62.57  Aligned_cols=101  Identities=12%  Similarity=0.090  Sum_probs=82.8

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCC---hHHHHHH
Q 046221          454 DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMG---PNIWRAL  529 (572)
Q Consensus       454 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~---~~~~~~l  529 (572)
                      +...+..+...+...|++++|...++++++..  +.+...+..+..++...|++++|.+.++++.. .|+   ...|..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD--PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHH
Confidence            34677788889999999999999999998654  45677889999999999999999999999887 454   5556555


Q ss_pred             HHHHhhhc-CCHHHHHHHHHHHHhCCCCC
Q 046221          530 LSGCVLHV-GRFQDAEALRSGSQKKGIIK  557 (572)
Q Consensus       530 ~~~~~~~~-g~~~~A~~~~~~m~~~~~~~  557 (572)
                      ...+ ... |++++|.+.+++..+.....
T Consensus        83 ~~~~-~~~~~~~~~A~~~~~~~~~~~p~~  110 (112)
T 2kck_A           83 ADAL-RYIEGKEVEAEIAEARAKLEHHHH  110 (112)
T ss_dssp             HHHH-TTCSSCSHHHHHHHHHHGGGCCCC
T ss_pred             HHHH-HHHhCCHHHHHHHHHHHhhcccCC
Confidence            5444 678 99999999999998877653

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.32  E-value=1e-05  Score=66.05  Aligned_cols=112  Identities=11%  Similarity=-0.040  Sum_probs=91.0

Q ss_pred             chhHHHHHHHHhhhcCChHHHHHHHHHc-CCC-CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHH
Q 046221          387 YRSVQNCLISSYSKCGNVDLAYIVFEEM-GFL-RDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILN  463 (572)
Q Consensus       387 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~  463 (572)
                      +...+..+...+.+.|++++|+..|++. ... .+...|..+..+|...|++++|+..|++.++.  .| +...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVV--DPKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            4567788889999999999999999998 333 36788999999999999999999999999984  56 4688999999


Q ss_pred             HHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHH
Q 046221          464 ACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDL  500 (572)
Q Consensus       464 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  500 (572)
                      +|...|++++|+..|+++++...-.++......+..+
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  124 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAEGNGGSDAMKRGLETT  124 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCCchHHHHHHHHHHH
Confidence            9999999999999999998766433433333344333

>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=98.32  E-value=5.6e-06  Score=64.18  Aligned_cols=103  Identities=13%  Similarity=0.045  Sum_probs=80.9

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--------HHHHH
Q 046221          390 VQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD--------SSTYL  459 (572)
Q Consensus       390 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~--------~~~~~  459 (572)
                      .+..+...+.+.|++++|+..|++. .+.| +...|..+..+|.+.|++++|+..+++.++.  .|+        ..+|.
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEV--GRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHh--CcccchhhHHHHHHHH
Confidence            4456778889999999999999987 3334 5778888999999999999999999998873  232        24677


Q ss_pred             HHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHH
Q 046221          460 SILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCV  497 (572)
Q Consensus       460 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l  497 (572)
                      .+..++...|++++|++.|++.++.   .|+..+...+
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~~---~~~~~~~~~l  122 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLSE---FRDPELVKKV  122 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---SCCHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh---CcCHHHHHHH
Confidence            7888899999999999999998864   4676655443

>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=98.32  E-value=6.9e-06  Score=63.58  Aligned_cols=97  Identities=10%  Similarity=0.021  Sum_probs=82.8

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CC-ChHHHHHHHHH
Q 046221          455 SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GM-GPNIWRALLSG  532 (572)
Q Consensus       455 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~  532 (572)
                      ...+..+...+.+.|++++|+..|+++++..  +.+...+..+..++.+.|++++|...++++.. .| ++..|..+...
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~   81 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            3567778888999999999999999998755  55678899999999999999999999999988 44 56677777777


Q ss_pred             HhhhcCCHHHHHHHHHHHHhCC
Q 046221          533 CVLHVGRFQDAEALRSGSQKKG  554 (572)
Q Consensus       533 ~~~~~g~~~~A~~~~~~m~~~~  554 (572)
                      +... |++++|...+++..+..
T Consensus        82 ~~~~-~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           82 QIAV-KEYASALETLDAARTKD  102 (126)
T ss_dssp             HHHT-TCHHHHHHHHHHHHHHH
T ss_pred             HHHH-hCHHHHHHHHHHHHHhC
Confidence            7766 99999999999987755

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.30  E-value=3.7e-06  Score=64.50  Aligned_cols=91  Identities=7%  Similarity=-0.086  Sum_probs=48.6

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh
Q 046221          425 TIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLAR  503 (572)
Q Consensus       425 ~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  503 (572)
                      .+...+.+.|++++|+..|++..+.  .| +...|..+..++...|++++|+..|+++++..  +-+...+..+..++.+
T Consensus        22 ~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~--P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           22 EEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD--PKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHH
Confidence            3444455555556666555555552  33 33555555555555566666666555555432  2234455555555555


Q ss_pred             hCChhHHHHHHHhccC
Q 046221          504 AGCLSDASGLAGKLLE  519 (572)
Q Consensus       504 ~g~~~~A~~~~~~~~~  519 (572)
                      .|++++|...++++.+
T Consensus        98 ~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           98 EHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5555555555555543

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.30  E-value=5e-06  Score=63.78  Aligned_cols=96  Identities=8%  Similarity=-0.147  Sum_probs=79.4

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CC-ChHHHHHHHHHHh
Q 046221          457 TYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GM-GPNIWRALLSGCV  534 (572)
Q Consensus       457 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~~~  534 (572)
                      .+..+...+.+.|++++|+..++++++..  +.+...|..+..++.+.|++++|+..++++.. .| ++..|..+...+.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            35566778899999999999999998765  45777899999999999999999999999988 44 5667777777777


Q ss_pred             hhcCCHHHHHHHHHHHHhCCC
Q 046221          535 LHVGRFQDAEALRSGSQKKGI  555 (572)
Q Consensus       535 ~~~g~~~~A~~~~~~m~~~~~  555 (572)
                      .. |++++|+..+++..+..+
T Consensus        97 ~~-g~~~~A~~~~~~al~~~P  116 (121)
T 1hxi_A           97 NE-HNANAALASLRAWLLSQP  116 (121)
T ss_dssp             HH-HHHHHHHHHHHHHHC---
T ss_pred             Hc-CCHHHHHHHHHHHHHhCc
Confidence            66 999999999999877654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.30  E-value=5e-06  Score=67.58  Aligned_cols=130  Identities=10%  Similarity=-0.031  Sum_probs=70.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-CC----HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC----hh
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTETGEV-PD----SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS----QE  492 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~-p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~  492 (572)
                      ++..+...|...|++++|+..+++..+..-. ++    ..++..+...+...|++++|...++++++...-.++    ..
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            4455555566666666666666665542100 11    134555666666667777776666665532211111    23


Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHhccC----CCC----hHHHHHHHHHHhhhcCCHHHHHHHHHHHHh
Q 046221          493 HYGCVVDLLARAGCLSDASGLAGKLLE----GMG----PNIWRALLSGCVLHVGRFQDAEALRSGSQK  552 (572)
Q Consensus       493 ~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~----~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~  552 (572)
                      .+..+..++...|++++|.+.+++...    ..+    ...+..+...+... |++++|.+.+++..+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~-g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTAL-GNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHc-cCHHHHHHHHHHHHH
Confidence            455566666677777777776666543    111    12344444444444 777777777776543

>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=98.28  E-value=3.4e-06  Score=75.97  Aligned_cols=158  Identities=8%  Similarity=-0.098  Sum_probs=106.4

Q ss_pred             chhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHH
Q 046221          387 YRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILN  463 (572)
Q Consensus       387 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~  463 (572)
                      +...+..+...+.+.|++++|...|++. ...| +...|..+..+|.+.|++++|+..+++..+  +.| +...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCCCCHHHHHHHHH
Confidence            4456677888899999999999999988 3334 678889999999999999999999999998  456 5588899999


Q ss_pred             HHhccCChHHHHHHHHHhHHhcCCCCCh-hHHHHHHHHHHhhCChhHHHHHHHhccCCCChHHHHHHHHHHhhhcCCHHH
Q 046221          464 ACGHAGLTNDGLVIFNQMIEENKVKPSQ-EHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVGRFQD  542 (572)
Q Consensus       464 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~g~~~~  542 (572)
                      ++...|++++|+..|+++++..   |+. ..+...+....+..+...... ......+.++.....+ ..+. . |++++
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~---p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~l-~~l~-~-~~~~~  153 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLA---KEQRLNFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSYL-TRLI-A-AERER  153 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH---HHTTCCCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHHH-HHHH-H-HHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC---ccchhhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHH-HHHH-H-HHHHH
Confidence            9999999999999999987643   221 111112222222221111111 1222224444443333 3332 3 78888


Q ss_pred             HHHHHHHHHhC
Q 046221          543 AEALRSGSQKK  553 (572)
Q Consensus       543 A~~~~~~m~~~  553 (572)
                      |++.+++..+.
T Consensus       154 A~~~~~~al~~  164 (281)
T 2c2l_A          154 ELEECQRNHEG  164 (281)
T ss_dssp             HHTTTSGGGTT
T ss_pred             HHHHHHhhhcc
Confidence            88777665443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.27  E-value=1.1e-05  Score=62.62  Aligned_cols=96  Identities=10%  Similarity=0.015  Sum_probs=67.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH----HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC---hhHHHH
Q 046221          424 NTIIYGYGVNGHGETALALYHKMTETGEVPDS----STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS---QEHYGC  496 (572)
Q Consensus       424 ~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~~  496 (572)
                      ..+...+...|++++|...|+++.+.  .|+.    ..+..+..++...|++++|+..++++++..  +.+   ...+..
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~   81 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLEL--YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLK   81 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHH--CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHH
Confidence            34556677778888888888887774  3432    366677777888888888888888877543  222   455677


Q ss_pred             HHHHHHhhCChhHHHHHHHhccC-CCCh
Q 046221          497 VVDLLARAGCLSDASGLAGKLLE-GMGP  523 (572)
Q Consensus       497 l~~~~~~~g~~~~A~~~~~~~~~-~~~~  523 (572)
                      +..++.+.|++++|...++++.. .|+.
T Consensus        82 la~~~~~~g~~~~A~~~~~~~~~~~p~~  109 (129)
T 2xev_A           82 LGLSQYGEGKNTEAQQTLQQVATQYPGS  109 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCC
Confidence            77788888888888888887766 4443

>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=98.26  E-value=1.4e-05  Score=62.77  Aligned_cols=101  Identities=12%  Similarity=-0.049  Sum_probs=85.9

Q ss_pred             CCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCChHHHHHHH
Q 046221          453 PDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMGPNIWRALL  530 (572)
Q Consensus       453 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~  530 (572)
                      .+...+..+...+...|++++|+..|+++++..  +.+...+..+..++...|++++|...++++..  +.++..|..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            356888999999999999999999999998654  45677899999999999999999999999887  44566777777


Q ss_pred             HHHhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          531 SGCVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       531 ~~~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                      ..+... |++++|...+++..+....
T Consensus        85 ~~~~~~-~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           85 QCQLEM-ESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHHT-TCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHH-hhHHHHHHHHHHHHHHChh
Confidence            777766 9999999999998765543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=98.25  E-value=7.6e-08  Score=88.44  Aligned_cols=262  Identities=16%  Similarity=0.141  Sum_probs=154.6

Q ss_pred             CCcchhhHHHHHhhcCChhhHHHHhccCCCCChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcC
Q 046221            4 DPYNSSKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAG   83 (572)
Q Consensus         4 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~   83 (572)
                      .+.+|+.|..+..+.|++.+|++.|  +...|+..|..+|.+..+.|.+++-+..+.-.++..-.|  ..=+.|+-+|++
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsy--IkA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~--~IDteLi~ayAk  128 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSY--IKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARES--YVETELIFALAK  128 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSS--CCCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCST--TTTHHHHHHHHT
T ss_pred             CccHHHHHHHHHHccCchHHHHHHH--HhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccc--ccHHHHHHHHHh
Confidence            4566777777777777777766654  333556667777777777777777777666655542222  233456666666


Q ss_pred             CCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhcc
Q 046221           84 LQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVAL  163 (572)
Q Consensus        84 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  163 (572)
                      .++..+...++                ..||+.--..+..-|...|.++.|.-+|..+                      
T Consensus       129 ~~rL~elEefl----------------~~~N~A~iq~VGDrcf~e~lYeAAKilys~i----------------------  170 (624)
T 3lvg_A          129 TNRLAELEEFI----------------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----------------------  170 (624)
T ss_dssp             SCSSSTTTSTT----------------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGS----------------------
T ss_pred             hCcHHHHHHHH----------------cCCCcccHHHHHHHHHHccCHHHHHHHHHhC----------------------
Confidence            66654433221                1244444455555555555555544333322                      


Q ss_pred             CChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHH
Q 046221          164 GSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMR  243 (572)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  243 (572)
                                            .-|..|...+++.|++..|.+.-++.  .++.+|-.+-.+|+..+.+.-|.-.--.+.
T Consensus       171 ----------------------sN~akLAstLV~L~~yq~AVdaArKA--ns~ktWKeV~~ACvd~~EfrLAqicGLniI  226 (624)
T 3lvg_A          171 ----------------------SNFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLAQMCGLHIV  226 (624)
T ss_dssp             ----------------------CCCTTTSSSSSSCSGGGSSTTTTTTC--CSSCSHHHHTHHHHHSCTTTTTTHHHHHHH
T ss_pred             ----------------------ccHHHHHHHHHHHHHHHHHHHHHHhc--CChhHHHHHHHHHhCchHHHHHHHhcchhc
Confidence                                  12333344455555655555433322  567778888888888887776655443333


Q ss_pred             hCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC----C----
Q 046221          244 KSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE----K----  315 (572)
Q Consensus       244 ~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~----  315 (572)
                           ........++..|-..|.+++.+.+++.-.... .....+|+-|.-.|+|- +.++..+.++....    |    
T Consensus       227 -----vhadeL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY-~PeKlmEHlklf~sriNipKvir  299 (624)
T 3lvg_A          227 -----VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLR  299 (624)
T ss_dssp             -----CCSSCCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHH
T ss_pred             -----ccHHHHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHH
Confidence                 223334456667788888888888877665322 45566788888778775 45555555544322    2    


Q ss_pred             ---CcchHHHHHHHHHHcCChHHHHH
Q 046221          316 ---SLVSWTAIISGYVQNGCAREALN  338 (572)
Q Consensus       316 ---~~~~~~~l~~~~~~~~~~~~a~~  338 (572)
                         ....|.-++-.|.+-.+++.|..
T Consensus       300 acE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          300 AAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             HHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHhhHHHHHHHHhcchhHHHHHH
Confidence               33578888888888888887753

>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=98.25  E-value=2.7e-05  Score=59.04  Aligned_cols=107  Identities=12%  Similarity=0.022  Sum_probs=82.3

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHH
Q 046221          388 RSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNA  464 (572)
Q Consensus       388 ~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~  464 (572)
                      ...+..+...+...|++++|...+++.  ..+.+...+..+...+...|++++|...+++..+.  .| +...+..+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDL--KPDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHh--CcccHHHHHHHHHH
Confidence            345566777888899999999999887  33346778888888999999999999999998885  45 56788888899


Q ss_pred             HhccCChHHHHHHHHHhHHhcCCCCChhHHHHHH
Q 046221          465 CGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVV  498 (572)
Q Consensus       465 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  498 (572)
                      +...|++++|...++++++..  +.+...+..+.
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~  113 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKHE--ANNPQLKEGLQ  113 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTC--TTCHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHcC--CCCHHHHHHHH
Confidence            999999999999999887533  23344444443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.25  E-value=3.5e-05  Score=61.35  Aligned_cols=111  Identities=11%  Similarity=0.007  Sum_probs=88.6

Q ss_pred             CchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCC----HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHH
Q 046221          386 RYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRD----VVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYL  459 (572)
Q Consensus       386 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~  459 (572)
                      .+...+..+...+...|++++|...|++. ...|+    ...|..+..+|...|++++|+..+++..+.  .| +...+.
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~  103 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEK--DGGDVKALY  103 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TSCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CccCHHHHH
Confidence            34566777888889999999999999988 65576    677888889999999999999999999884  45 567888


Q ss_pred             HHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHH
Q 046221          460 SILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDL  500 (572)
Q Consensus       460 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  500 (572)
                      .+..++...|++++|...|+++++..  +.+...+..+...
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~~  142 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSLE--PKNKVFQEALRNI  142 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHC--SSCHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC--CCcHHHHHHHHHH
Confidence            89999999999999999999998644  3334444444443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.22  E-value=1.5e-05  Score=64.88  Aligned_cols=108  Identities=9%  Similarity=-0.032  Sum_probs=75.4

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhc--------C--------CCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHH
Q 046221          421 VSWNTIIYGYGVNGHGETALALYHKMTET--------G--------EVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIE  483 (572)
Q Consensus       421 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--------g--------~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  483 (572)
                      ..+......+.+.|++++|+..|.+.++.        .        ..|. ...|..+..+|.+.|++++|+..++++++
T Consensus        12 ~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~   91 (162)
T 3rkv_A           12 EALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLK   91 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            34555566667777777777777776653        0        0232 25677788888888888888888888876


Q ss_pred             hcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChH-HHHHHH
Q 046221          484 ENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPN-IWRALL  530 (572)
Q Consensus       484 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~-~~~~l~  530 (572)
                      ..  +.+...|..+..+|...|++++|...+++... .|+.. .....+
T Consensus        92 ~~--p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l  138 (162)
T 3rkv_A           92 RE--ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREM  138 (162)
T ss_dssp             HS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             cC--CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            54  44566788888888888888888888888877 55544 433333

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.21  E-value=9.3e-06  Score=78.77  Aligned_cols=118  Identities=12%  Similarity=0.007  Sum_probs=57.0

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHHc-CCCCC----------------HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 046221          390 VQNCLISSYSKCGNVDLAYIVFEEM-GFLRD----------------VVSWNTIIYGYGVNGHGETALALYHKMTETGEV  452 (572)
Q Consensus       390 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~----------------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~  452 (572)
                      .+..+...+.+.|++++|...|++. ...|+                ...|..+..+|.+.|++++|+..+++.++.  .
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~--~  347 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL--D  347 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--S
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--C
Confidence            4444555555566666666655555 11111                244455555555555555555555555552  2


Q ss_pred             C-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHH
Q 046221          453 P-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDAS  511 (572)
Q Consensus       453 p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  511 (572)
                      | +...|..+..+|...|++++|+..|+++++..  +-+...+..+..++.+.|+.++|.
T Consensus       348 p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~--P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          348 SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN--PQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC------CHHHHHHHHHHHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            3 33455555555555555555555555554322  222334444555555555554444

>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=98.21  E-value=0.00011  Score=66.79  Aligned_cols=221  Identities=10%  Similarity=-0.055  Sum_probs=147.3

Q ss_pred             HHHHHhhcCChhhHHHHhccCCC---CChhhHHHHHHHHhhCC-ChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCC-C
Q 046221           11 LLSNYFKSGKIKEAENLFDEIPE---KNVVSWSIVIHGYSING-FHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGL-Q   85 (572)
Q Consensus        11 l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-g   85 (572)
                      +.....+.+..++|+++++.+..   .+..+|+.--..+...+ .+++++.+++.+.... +-+...|+.-...+... +
T Consensus        60 ~r~~~~~~e~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~  138 (349)
T 3q7a_A           60 FRAIAAKEEKSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISP  138 (349)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcC
Confidence            33344445566899999998876   34556777777777777 5999999999999864 44556777666666554 5


Q ss_pred             -ChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChH--------HHHHHHHHHHhCCCCCCHhhHHHH
Q 046221           86 -NLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQ--------QAVLLFNFFRGSGLVPNAVTMLTV  156 (572)
Q Consensus        86 -~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~m~~~~~~p~~~~~~~l  156 (572)
                       +++++..+++.+++..+          .|-.+|+--.-.+.+.|.++        ++++.++++.+..+ -|...|+.-
T Consensus       139 ~~~~~EL~~~~k~L~~dp----------kNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R  207 (349)
T 3q7a_A          139 QDPVSEIEYIHGSLLPDP----------KNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG-RNNSAWGWR  207 (349)
T ss_dssp             SCCHHHHHHHHHHTSSCT----------TCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             CChHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC-CCHHHHHHH
Confidence             78999999999887654          55667776655555555555        89999999988643 367778877


Q ss_pred             HHHHhccCC-------hHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCH--------------------HHHHHHHh
Q 046221          157 IRGCVALGS-------RALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDL--------------------DAAIQIFR  209 (572)
Q Consensus       157 l~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--------------------~~a~~~~~  209 (572)
                      ...+.+.+.       ++++.+.+...+... +-|...|+-+-..+.+.|+.                    ........
T Consensus       208 ~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  286 (349)
T 3q7a_A          208 WYLRVSRPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGF  286 (349)
T ss_dssp             HHHHTTSTTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------C
T ss_pred             HHHHHhccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHH
Confidence            777777765       577888888888765 66778887777777666653                    22222222


Q ss_pred             hcCC---------CCcccHHHHHHHHHccCCHHHHHHHHHHHHh
Q 046221          210 EMEC---------KDVISWTRMMGLFVDFEYAGDALKIFREMRK  244 (572)
Q Consensus       210 ~~~~---------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  244 (572)
                      .+..         ++......++..|...|+.++|.++++.+.+
T Consensus       287 ~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          287 PMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             CCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            2221         2334455556666666666666666666543

>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=98.19  E-value=0.00079  Score=61.00  Aligned_cols=78  Identities=10%  Similarity=0.044  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcC--ChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCC-hHHHHHHHH
Q 046221          370 EICLQLHGIAFEAGFPRYRSVQNCLISSYSKCG--NVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGH-GETALALYH  444 (572)
Q Consensus       370 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~-~~~A~~~~~  444 (572)
                      +.+..+++.+.... +-+..+|+.-.-++.+.|  .+++++.+++.+  ..+.+...|+.-...+...|. ++++++.++
T Consensus        91 ~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~  169 (331)
T 3dss_A           91 KAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTD  169 (331)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHH
Confidence            33444444444332 333444443333344444  245555555555  222344444444444444444 355555555


Q ss_pred             HHHh
Q 046221          445 KMTE  448 (572)
Q Consensus       445 ~~~~  448 (572)
                      ++++
T Consensus       170 ~~I~  173 (331)
T 3dss_A          170 SLIT  173 (331)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5555

>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=98.18  E-value=2.7e-05  Score=65.90  Aligned_cols=125  Identities=10%  Similarity=-0.000  Sum_probs=93.2

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHHc-CCCC-C----------------HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 046221          390 VQNCLISSYSKCGNVDLAYIVFEEM-GFLR-D----------------VVSWNTIIYGYGVNGHGETALALYHKMTETGE  451 (572)
Q Consensus       390 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~----------------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~  451 (572)
                      .+..+...+.+.|++++|...|++. ...| +                ...|..+..+|...|++++|+..+++..+.  
T Consensus        40 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--  117 (198)
T 2fbn_A           40 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI--  117 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--
Confidence            3455677788889999999888887 2212 1                267888889999999999999999999985  


Q ss_pred             CC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHH-HHHHhcc
Q 046221          452 VP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDAS-GLAGKLL  518 (572)
Q Consensus       452 ~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~-~~~~~~~  518 (572)
                      .| +...+..+..++...|++++|+..|+++++..  +-+...+..+..++...++.+++. ..+..+.
T Consensus       118 ~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f  184 (198)
T 2fbn_A          118 DKNNVKALYKLGVANMYFGFLEEAKENLYKAASLN--PNNLDIRNSYELCVNKLKEARKKDKLTFGGMF  184 (198)
T ss_dssp             STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHC----------
T ss_pred             CcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45 56888999999999999999999999998654  445667888888888888777776 4444443

>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=98.18  E-value=1.2e-05  Score=62.45  Aligned_cols=111  Identities=15%  Similarity=0.083  Sum_probs=82.4

Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCC--CCC----HHHHHH
Q 046221          389 SVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGE--VPD----SSTYLS  460 (572)
Q Consensus       389 ~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~--~p~----~~~~~~  460 (572)
                      ..+..+...+...|++++|...+++.  ..+.+...+..+...|...|++++|...++++.+...  .++    ..++..
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            34556777788888888888888887  3334567788888888889999999999988877421  122    667888


Q ss_pred             HHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHH
Q 046221          461 ILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLA  502 (572)
Q Consensus       461 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  502 (572)
                      +..++...|++++|...|+++++.   .|+......+..+..
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~l~~~~~  123 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAE---HRTPDVLKKCQQAEK  123 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH---CCCHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHh---CCCHHHHHHHHHHHH
Confidence            888899999999999999988754   356666555555443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.16  E-value=1.3e-05  Score=65.14  Aligned_cols=129  Identities=17%  Similarity=0.068  Sum_probs=90.1

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHHc-C---CCCC----HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCC-CCC----HH
Q 046221          390 VQNCLISSYSKCGNVDLAYIVFEEM-G---FLRD----VVSWNTIIYGYGVNGHGETALALYHKMTETGE-VPD----SS  456 (572)
Q Consensus       390 ~~~~l~~~~~~~g~~~~A~~~~~~~-~---~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~-~p~----~~  456 (572)
                      ++..+...+...|++++|...+++. .   ..++    ...+..+...|...|++++|...+++..+..- .++    ..
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            4455667777788888888877766 1   1111    24677778888888999999988888765310 111    35


Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHHhhCChhHHHHHHHhcc
Q 046221          457 TYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS----QEHYGCVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       457 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                      .+..+...+...|++++|...++++++...-..+    ...+..+...+...|++++|.+.+++..
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  156 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHL  156 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            6777788888999999999998887643211111    3467778888899999999999888765

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.15  E-value=2.2e-06  Score=65.38  Aligned_cols=85  Identities=16%  Similarity=0.158  Sum_probs=57.5

Q ss_pred             cCChHHHHHHHHHHHhcCC-CCC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHH
Q 046221          433 NGHGETALALYHKMTETGE-VPD-SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDA  510 (572)
Q Consensus       433 ~~~~~~A~~~~~~~~~~g~-~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  510 (572)
                      .|++++|+..|++.++.+. .|+ ...+..+..+|...|++++|+..|+++++..  +-+...+..+..++.+.|++++|
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF--PNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHHcCCHHHH
Confidence            4677777788877777321 243 3667777777778888888888888777544  34456777777778888888888


Q ss_pred             HHHHHhccC
Q 046221          511 SGLAGKLLE  519 (572)
Q Consensus       511 ~~~~~~~~~  519 (572)
                      .+.+++...
T Consensus        81 ~~~~~~al~   89 (117)
T 3k9i_A           81 VELLLKIIA   89 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            888777766

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.12  E-value=2.9e-05  Score=75.65  Aligned_cols=117  Identities=9%  Similarity=0.029  Sum_probs=76.9

Q ss_pred             HHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCCh
Q 046221          395 ISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLT  471 (572)
Q Consensus       395 ~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~  471 (572)
                      ...+.+.|++++|.+.+++. ...| +...|..+..+|.+.|++++|+..+++..+.  .| +...+..+..+|...|++
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCH
Confidence            34556677777777777776 2223 4667777777788888888888888887773  45 446777777778888888


Q ss_pred             HHHHHHHHHhHHhcCCCCChhHHHHHHHH--HHhhCChhHHHHHHH
Q 046221          472 NDGLVIFNQMIEENKVKPSQEHYGCVVDL--LARAGCLSDASGLAG  515 (572)
Q Consensus       472 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~  515 (572)
                      ++|++.++++++..  +.+...+..+..+  +.+.|++++|.+.++
T Consensus        91 ~eA~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           91 RAALRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHS--TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            88888888777654  2233344444444  777788888888777

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.06  E-value=6.7e-06  Score=80.13  Aligned_cols=119  Identities=16%  Similarity=-0.009  Sum_probs=92.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhh
Q 046221          426 IIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARA  504 (572)
Q Consensus       426 l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  504 (572)
                      +...+.+.|++++|+..|++..+.  .| +...|..+..+|.+.|++++|+..++++++..  +.+...+..+..+|.+.
T Consensus        12 lg~~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~lg~~~~~~   87 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAASNMAL   87 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHc
Confidence            344567889999999999999984  56 46899999999999999999999999998653  45667899999999999


Q ss_pred             CChhHHHHHHHhccC-CC-ChHHHHHHHHH--HhhhcCCHHHHHHHHHH
Q 046221          505 GCLSDASGLAGKLLE-GM-GPNIWRALLSG--CVLHVGRFQDAEALRSG  549 (572)
Q Consensus       505 g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~--~~~~~g~~~~A~~~~~~  549 (572)
                      |++++|.+.++++.+ .| +...+..+...  +... |++++|++.+++
T Consensus        88 g~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~-g~~~~A~~~~~~  135 (477)
T 1wao_1           88 GKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQ-KAFERAIAGDEH  135 (477)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHH-HHHCCC------
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHH-HHHHHHhccccc
Confidence            999999999999887 44 44455555444  5555 999999998883

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.04  E-value=3.4e-05  Score=60.95  Aligned_cols=95  Identities=13%  Similarity=-0.020  Sum_probs=66.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-------------HHHHHHHHHHHhccCChHHHHHHHHHhHHh----c
Q 046221          423 WNTIIYGYGVNGHGETALALYHKMTETGEVPD-------------SSTYLSILNACGHAGLTNDGLVIFNQMIEE----N  485 (572)
Q Consensus       423 ~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~-------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~  485 (572)
                      +......+.+.|++++|+..|++.++  +.|+             ...|..+..++.+.|++++|+..++++++.    .
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~--l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~   91 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAME--ISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRG   91 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHH--HHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHh--hCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccc
Confidence            34445556667777777777777766  3444             227777888888888888888888888764    1


Q ss_pred             CCCCC-hhHH----HHHHHHHHhhCChhHHHHHHHhccC
Q 046221          486 KVKPS-QEHY----GCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       486 ~~~~~-~~~~----~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .+.|+ ...|    .....++...|++++|+..|++..+
T Consensus        92 e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           92 ELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             CTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            11344 3466    7778888888888888888888765

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.03  E-value=6.6e-06  Score=62.72  Aligned_cols=85  Identities=13%  Similarity=0.061  Sum_probs=66.2

Q ss_pred             hcCChHHHHHHHHHc-CC----CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHH
Q 046221          400 KCGNVDLAYIVFEEM-GF----LRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTND  473 (572)
Q Consensus       400 ~~g~~~~A~~~~~~~-~~----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~  473 (572)
                      ..|++++|+..|++. ..    +.+...+..+..+|...|++++|+..|++..+.  .| +...+..+..++...|++++
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~   79 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQ--FPNHQALRVFYAMVLYNLGRYEQ   79 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHcCCHHH
Confidence            357788888888887 44    234567888888999999999999999999984  45 46888889999999999999


Q ss_pred             HHHHHHHhHHhcC
Q 046221          474 GLVIFNQMIEENK  486 (572)
Q Consensus       474 a~~~~~~~~~~~~  486 (572)
                      |+..++++++...
T Consensus        80 A~~~~~~al~~~p   92 (117)
T 3k9i_A           80 GVELLLKIIAETS   92 (117)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhCC
Confidence            9999999987653

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.02  E-value=0.0001  Score=57.05  Aligned_cols=90  Identities=14%  Similarity=0.094  Sum_probs=71.8

Q ss_pred             HHHHhhhcCChHHHHHHHHHc-CCCCC-H---hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC----HHHHHHHHHH
Q 046221          394 LISSYSKCGNVDLAYIVFEEM-GFLRD-V---VSWNTIIYGYGVNGHGETALALYHKMTETGEVPD----SSTYLSILNA  464 (572)
Q Consensus       394 l~~~~~~~g~~~~A~~~~~~~-~~~~~-~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~----~~~~~~l~~~  464 (572)
                      +...+...|++++|...|++. ...|+ .   ..+..+..++...|++++|...|+++.+.  .|+    ...+..+..+
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSR--YPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHH--CCCCcccHHHHHHHHHH
Confidence            556677889999999999887 22233 2   46777888899999999999999999884  453    5667888889


Q ss_pred             HhccCChHHHHHHHHHhHHhc
Q 046221          465 CGHAGLTNDGLVIFNQMIEEN  485 (572)
Q Consensus       465 ~~~~g~~~~a~~~~~~~~~~~  485 (572)
                      +...|++++|...|+++++..
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHcCCHHHHHHHHHHHHHHC
Confidence            999999999999999998654

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.00  E-value=4e-05  Score=71.81  Aligned_cols=119  Identities=15%  Similarity=-0.048  Sum_probs=73.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhc--------------CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCC
Q 046221          423 WNTIIYGYGVNGHGETALALYHKMTET--------------GEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKV  487 (572)
Q Consensus       423 ~~~l~~~~~~~~~~~~A~~~~~~~~~~--------------g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  487 (572)
                      +..+...+.+.|++++|+..|++.++.              ...| +..+|..+..+|.+.|++++|+..++++++..  
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~--  303 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID--  303 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC--
Confidence            444555555666666666666555541              0223 23667777777788888888888888776432  


Q ss_pred             CCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CC-ChHHHHHHHHHHhhhcCCHHHHH
Q 046221          488 KPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GM-GPNIWRALLSGCVLHVGRFQDAE  544 (572)
Q Consensus       488 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~~~~~~g~~~~A~  544 (572)
                      +.+...+..+..+|.+.|++++|.+.++++.+ .| +...+..+...+... ++.+++.
T Consensus       304 p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~-~~~~~a~  361 (370)
T 1ihg_A          304 PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKI-KAQKDKE  361 (370)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH-HHHHHHH
T ss_pred             chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH-HHHHHHH
Confidence            33456777777788888888888888887766 44 334444444444333 5555543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.92  E-value=3.2e-05  Score=71.59  Aligned_cols=94  Identities=6%  Similarity=-0.059  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHH
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDL  500 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  500 (572)
                      .|..+..+|.+.|++++|+..+++.++.  .| +...|..+..+|...|++++|+..|+++++..  +-+...+..+...
T Consensus       232 ~~~nla~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~--p~~~~a~~~L~~l  307 (338)
T 2if4_A          232 CHLNIAACLIKLKRYDEAIGHCNIVLTE--EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA--PDDKAIRRELRAL  307 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHH
Confidence            7888889999999999999999999984  56 56889999999999999999999999987533  2234455555555


Q ss_pred             -HHhhCChhHHHHHHHhccC
Q 046221          501 -LARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       501 -~~~~g~~~~A~~~~~~~~~  519 (572)
                       ....+..+++...+.++..
T Consensus       308 ~~~~~~~~~~a~~~~~~~l~  327 (338)
T 2if4_A          308 AEQEKALYQKQKEMYKGIFK  327 (338)
T ss_dssp             --------------------
T ss_pred             HHHHHHHHHHHHHHHHHhhC
Confidence             3345677888888888876

>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=97.91  E-value=6.1e-05  Score=73.03  Aligned_cols=146  Identities=9%  Similarity=-0.054  Sum_probs=99.7

Q ss_pred             cCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC----------------HHHHHHHH
Q 046221          401 CGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD----------------SSTYLSIL  462 (572)
Q Consensus       401 ~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~----------------~~~~~~l~  462 (572)
                      .+++++|...|+.. ...| ....|..+...|.+.|++++|+..|++.++.  .|+                ...|..+.
T Consensus       247 l~~~~~A~~~~~~~~~~~~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~~~~~~nla  324 (457)
T 1kt0_A          247 LKSFEKAKESWEMDTKEKLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSW--LEMEYGLSEKESKASESFLLAAFLNLA  324 (457)
T ss_dssp             EEEEECCCCGGGSCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTTCCSCCHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhcccCcchhhcCHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccCChHHHHHHHHHHHHHHHHHH
Confidence            34444444444333 1112 3566777888888888899998888888873  343                47788888


Q ss_pred             HHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CC-ChHHHHHHHHHHhhhcCCH
Q 046221          463 NACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GM-GPNIWRALLSGCVLHVGRF  540 (572)
Q Consensus       463 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~~~~~~g~~  540 (572)
                      .+|.+.|++++|+..++++++..  +.+...|..+..+|...|++++|...|+++.+ .| +...+..+...+... |+.
T Consensus       325 ~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~-~~~  401 (457)
T 1kt0_A          325 MCYLKLREYTKAVECCDKALGLD--SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKA-KEH  401 (457)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHH-HHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH-HHH
Confidence            88888899999999888887654  44667788888888888999999988888877 44 344555555555544 777


Q ss_pred             HHHH-HHHHHHH
Q 046221          541 QDAE-ALRSGSQ  551 (572)
Q Consensus       541 ~~A~-~~~~~m~  551 (572)
                      ++|. ..+++|.
T Consensus       402 ~~a~~~~~~~~f  413 (457)
T 1kt0_A          402 NERDRRIYANMF  413 (457)
T ss_dssp             HHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHH
Confidence            7665 3444443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.90  E-value=7.2e-05  Score=60.77  Aligned_cols=100  Identities=8%  Similarity=-0.017  Sum_probs=81.2

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhHHhc--------C--------CCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          456 STYLSILNACGHAGLTNDGLVIFNQMIEEN--------K--------VKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       456 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--------~--------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ..+......+.+.|++++|+..|+++++..        .        -+.+...|..+..+|.+.|++++|+..++++..
T Consensus        12 ~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~   91 (162)
T 3rkv_A           12 EALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLK   91 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            456777888999999999999999998651        0        022345788899999999999999999999987


Q ss_pred             --CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          520 --GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       520 --~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                        +.+...|..+..++... |++++|...|++..+..+.
T Consensus        92 ~~p~~~~a~~~~g~~~~~~-g~~~~A~~~~~~al~l~p~  129 (162)
T 3rkv_A           92 REETNEKALFRRAKARIAA-WKLDEAEEDLKLLLRNHPA  129 (162)
T ss_dssp             HSTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCGG
T ss_pred             cCCcchHHHHHHHHHHHHH-hcHHHHHHHHHHHHhcCCC
Confidence              44566788888877776 9999999999998876543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.90  E-value=4.1e-05  Score=74.03  Aligned_cols=60  Identities=12%  Similarity=-0.067  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhc-----C-CCCCH-HHHHHHHHHHhccCChHHHHHHHHHh
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTET-----G-EVPDS-STYLSILNACGHAGLTNDGLVIFNQM  481 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----g-~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~  481 (572)
                      +++.|...|...|++++|+.++++.++-     | -.|+. .+++.|...|...|++++|+.+++++
T Consensus       353 ~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~A  419 (490)
T 3n71_A          353 LLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKA  419 (490)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            3444455555555555555555444321     1 01222 33444444444444555544444444

>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=97.87  E-value=0.0058  Score=55.33  Aligned_cols=228  Identities=14%  Similarity=0.001  Sum_probs=138.6

Q ss_pred             HhcCChh-HHHHHHhccCCCCcc---hHHHHHHHHHHcCC----------hHHHHHHHHHHHhcCCCCCCHhHHHHHHHH
Q 046221          297 SKCGDLD-SSRSVFNQITEKSLV---SWTAIISGYVQNGC----------AREALNQFIKMRQEKTDSVDSITLVSILTA  362 (572)
Q Consensus       297 ~~~~~~~-~a~~~~~~~~~~~~~---~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~  362 (572)
                      .+.|.++ +|...++.+..-++.   +|+.--..+...+.          +++++.+++.+....+  -+..++..-...
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~P--Kny~aW~hR~wl  117 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP--KSYGTWHHRCWL  117 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT--TCHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCC--CCHHHHHHHHHH
Confidence            3445544 677777776654442   34332222222221          5677788877763332  344444444444


Q ss_pred             hcccc--cHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCC-hHHHHHHHHHc--CCCCCHhHHHHHHHHHHhc----
Q 046221          363 SGELA--ALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGN-VDLAYIVFEEM--GFLRDVVSWNTIIYGYGVN----  433 (572)
Q Consensus       363 ~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~----  433 (572)
                      +...+  .++.+..+++.+.+.. +-+...|+.-.-++...|. ++++++.++++  ..+-+...|+.....+.+.    
T Consensus       118 L~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~N~SAW~~R~~ll~~l~~~~  196 (331)
T 3dss_A          118 LSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQP  196 (331)
T ss_dssp             HHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHHSCCC
T ss_pred             HhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhhhcc
Confidence            44444  4788888888888765 5667777766666777777 58888888887  3335667777665555443    


Q ss_pred             ----------CChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhcc-----------CChHHHHHHHHHhHHhcCCCCCh
Q 046221          434 ----------GHGETALALYHKMTETGEVP-DSSTYLSILNACGHA-----------GLTNDGLVIFNQMIEENKVKPSQ  491 (572)
Q Consensus       434 ----------~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~-----------g~~~~a~~~~~~~~~~~~~~~~~  491 (572)
                                +.++++++.+++....  .| |...|+.+-..+.+.           +.++++++.++++++..   ||.
T Consensus       197 ~~~~~~~~~~~~~~eEle~~~~ai~~--~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~---pd~  271 (331)
T 3dss_A          197 DSGPQGRLPENVLLKELELVQNAFFT--DPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELE---PEN  271 (331)
T ss_dssp             ------CCCHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHC---TTC
T ss_pred             ccccccccchHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhC---ccc
Confidence                      3477888888888884  56 557776655555444           45788889999888643   554


Q ss_pred             -hHHHHHHH---HHHhhCChhHHHHHHHhccC-CCChHH-HHHHHHH
Q 046221          492 -EHYGCVVD---LLARAGCLSDASGLAGKLLE-GMGPNI-WRALLSG  532 (572)
Q Consensus       492 -~~~~~l~~---~~~~~g~~~~A~~~~~~~~~-~~~~~~-~~~l~~~  532 (572)
                       .++..++.   .....|..+++...+.++.+ +|.... |.-+...
T Consensus       272 ~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~~~~  318 (331)
T 3dss_A          272 KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSK  318 (331)
T ss_dssp             HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHHHHH
T ss_pred             chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHHHHH
Confidence             23222222   22245777888888888876 554443 4444433

>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=97.87  E-value=0.0001  Score=58.17  Aligned_cols=93  Identities=13%  Similarity=-0.010  Sum_probs=74.6

Q ss_pred             HHHHHHhhhcCChHHHHHHHHHc-CCCCC-------------HhHHHHHHHHHHhcCChHHHHHHHHHHHhc-----CCC
Q 046221          392 NCLISSYSKCGNVDLAYIVFEEM-GFLRD-------------VVSWNTIIYGYGVNGHGETALALYHKMTET-----GEV  452 (572)
Q Consensus       392 ~~l~~~~~~~g~~~~A~~~~~~~-~~~~~-------------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----g~~  452 (572)
                      ......+.+.|++++|+..|++. .+.|+             ...|..+..++.+.|++++|+..+++.++.     .+.
T Consensus        15 ~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~   94 (159)
T 2hr2_A           15 LSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN   94 (159)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCC
Confidence            34556677788888888888877 22232             238888999999999999999999999982     117


Q ss_pred             CCH-HHH----HHHHHHHhccCChHHHHHHHHHhHHh
Q 046221          453 PDS-STY----LSILNACGHAGLTNDGLVIFNQMIEE  484 (572)
Q Consensus       453 p~~-~~~----~~l~~~~~~~g~~~~a~~~~~~~~~~  484 (572)
                      |+. ..|    .....++...|++++|+..|+++++-
T Consensus        95 pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           95 QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            876 778    89999999999999999999999754

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.86  E-value=0.0003  Score=55.14  Aligned_cols=112  Identities=12%  Similarity=-0.086  Sum_probs=74.3

Q ss_pred             CChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh----hCChhH
Q 046221          434 GHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLAR----AGCLSD  509 (572)
Q Consensus       434 ~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  509 (572)
                      +++++|+..|++..+.| .|+..    |...|...+.+++|.++|+++.+.    -+...+..|...|..    .+++++
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHcCCCCCccHHH
Confidence            45677777777777765 33333    556666666677777777777542    355566667777766    677777


Q ss_pred             HHHHHHhccCCCChHHHHHHHHHHhh----hcCCHHHHHHHHHHHHhCCC
Q 046221          510 ASGLAGKLLEGMGPNIWRALLSGCVL----HVGRFQDAEALRSGSQKKGI  555 (572)
Q Consensus       510 A~~~~~~~~~~~~~~~~~~l~~~~~~----~~g~~~~A~~~~~~m~~~~~  555 (572)
                      |.++|++..+..++..+..|...+..    . ++.++|...+++..+.|.
T Consensus        80 A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~-~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           80 AAQYYSKACGLNDQDGCLILGYKQYAGKGVV-KNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSC-CCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHCCCCCC-cCHHHHHHHHHHHHHCCC
Confidence            77777777666666666666666654    3 677777777777776664

>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=97.86  E-value=9.5e-05  Score=69.23  Aligned_cols=117  Identities=9%  Similarity=-0.009  Sum_probs=89.1

Q ss_pred             HHHHHHhhhcCChHHHHHHHHHc-C----------------CCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 046221          392 NCLISSYSKCGNVDLAYIVFEEM-G----------------FLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP  453 (572)
Q Consensus       392 ~~l~~~~~~~g~~~~A~~~~~~~-~----------------~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p  453 (572)
                      ..+...+.+.|++++|++.|++. .                ..| +...|..+..+|.+.|++++|+..+++.++  +.|
T Consensus       227 ~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~--~~p  304 (370)
T 1ihg_A          227 KNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALE--IDP  304 (370)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCT
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHH--hCc
Confidence            33455566666666666666554 1                222 356788888999999999999999999998  456


Q ss_pred             -CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHH
Q 046221          454 -DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASG  512 (572)
Q Consensus       454 -~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  512 (572)
                       +...|..+..+|...|++++|+..|+++++..  +.+...+..+..++.+.++.+++.+
T Consensus       305 ~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~--P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          305 SNTKALYRRAQGWQGLKEYDQALADLKKAQEIA--PEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence             56888999999999999999999999998654  3456677788888888887777764

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.83  E-value=3e-05  Score=58.18  Aligned_cols=94  Identities=11%  Similarity=0.002  Sum_probs=63.5

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC-------
Q 046221          419 DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS-------  490 (572)
Q Consensus       419 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-------  490 (572)
                      +...|..+...+...|++++|+..|++..+.  .| +...+..+..++...|++++|+..++++++.   .|+       
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~   77 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITA--QPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY---TSTAEHVAIR   77 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS---CSSTTSHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh---CCCccHHHHH
Confidence            4456666777777788888888888877774  44 4567777777777888888888888777642   344       


Q ss_pred             hhHHHHHHHHHHhhCChhHHHHHHHhc
Q 046221          491 QEHYGCVVDLLARAGCLSDASGLAGKL  517 (572)
Q Consensus       491 ~~~~~~l~~~~~~~g~~~~A~~~~~~~  517 (572)
                      ...+..+..++...|+.+.|.+.++++
T Consensus        78 ~~~~~~~~~~~~~~~~~~~a~~~~~~~  104 (111)
T 2l6j_A           78 SKLQYRLELAQGAVGSVQIPVVEVDEL  104 (111)
T ss_dssp             HHHHHHHHHHHHHHHCCCCCSSSSSSC
T ss_pred             HHHHHHHHHHHHHHHhHhhhHhHHHHh
Confidence            345556666666666666666555544

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.76  E-value=2.1e-05  Score=59.11  Aligned_cols=92  Identities=14%  Similarity=0.047  Sum_probs=69.6

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCCh-------HH
Q 046221          454 DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGP-------NI  525 (572)
Q Consensus       454 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~-------~~  525 (572)
                      +...+..+...+...|++++|+..|+++++..  +.+...+..+..++.+.|++++|.+.++++.. .|+.       ..
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~   80 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ--PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHH
Confidence            45677888899999999999999999998654  45677899999999999999999999999887 5553       33


Q ss_pred             HHHHHHHHhhhcCCHHHHHHHHH
Q 046221          526 WRALLSGCVLHVGRFQDAEALRS  548 (572)
Q Consensus       526 ~~~l~~~~~~~~g~~~~A~~~~~  548 (572)
                      +..+...+... |+.++|+..++
T Consensus        81 ~~~~~~~~~~~-~~~~~a~~~~~  102 (111)
T 2l6j_A           81 QYRLELAQGAV-GSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHHH-HCCCCCSSSSS
T ss_pred             HHHHHHHHHHH-HhHhhhHhHHH
Confidence            44444444333 55555544333

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.73  E-value=9.3e-05  Score=71.55  Aligned_cols=123  Identities=10%  Similarity=-0.021  Sum_probs=73.0

Q ss_pred             hcCChHHHHHHHHHHHhcC---C---CCCH-HHHHHHHHHHhccCChHHHHHHHHHhHHhc----C-CCCCh-hHHHHHH
Q 046221          432 VNGHGETALALYHKMTETG---E---VPDS-STYLSILNACGHAGLTNDGLVIFNQMIEEN----K-VKPSQ-EHYGCVV  498 (572)
Q Consensus       432 ~~~~~~~A~~~~~~~~~~g---~---~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----~-~~~~~-~~~~~l~  498 (572)
                      ..|++++|+.++++.++..   +   .|+. .+++.|..+|...|++++|+.+++++++-.    | -.|+. .+++.|.
T Consensus       321 ~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  400 (490)
T 3n71_A          321 SEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAG  400 (490)
T ss_dssp             TTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHH
T ss_pred             hCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            4566666666665554321   1   2233 567777777888888888887777765321    1 11222 2677777


Q ss_pred             HHHHhhCChhHHHHHHHhccC------CCChH-H--HHHHHHHHhhhcCCHHHHHHHHHHHHhCC
Q 046221          499 DLLARAGCLSDASGLAGKLLE------GMGPN-I--WRALLSGCVLHVGRFQDAEALRSGSQKKG  554 (572)
Q Consensus       499 ~~~~~~g~~~~A~~~~~~~~~------~~~~~-~--~~~l~~~~~~~~g~~~~A~~~~~~m~~~~  554 (572)
                      ..|...|++++|+.+++++..      .|+.. +  ...++..+....+++++|..++.+++++.
T Consensus       401 ~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~  465 (490)
T 3n71_A          401 LTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAA  465 (490)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            788888888888887777654      33322 1  22233333333477788888888777654

>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=97.73  E-value=0.00082  Score=66.68  Aligned_cols=166  Identities=13%  Similarity=0.080  Sum_probs=116.2

Q ss_pred             HHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCC----------hHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcC--C
Q 046221          370 EICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGN----------VDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNG--H  435 (572)
Q Consensus       370 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~--~  435 (572)
                      ++|.+.++.+.... +-+...|+.--.++.+.|+          ++++++.++.+  ..+.+..+|..-...+.+.+  +
T Consensus        46 eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~~~~  124 (567)
T 1dce_A           46 ESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPN  124 (567)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCC
T ss_pred             HHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHccccc
Confidence            44455555555543 3344455554455555555          78888888888  44456778888777788888  6


Q ss_pred             hHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccC-ChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhh---------
Q 046221          436 GETALALYHKMTETGEVP-DSSTYLSILNACGHAG-LTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARA---------  504 (572)
Q Consensus       436 ~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---------  504 (572)
                      +++++..++++.+.  .| +...|+.-...+.+.| .++++++.++++++.+  +-+...|+....++.+.         
T Consensus       125 ~~~el~~~~k~l~~--d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~--p~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          125 WARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN--FSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT--CCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             HHHHHHHHHHHHhh--ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC--CCCccHHHHHHHHHHhhccccccccc
Confidence            69999999999984  45 6688888777778888 8899999999888654  45666777777766653         


Q ss_pred             -----CChhHHHHHHHhccC--CCChHHHHHHHHHHhhhcCCHH
Q 046221          505 -----GCLSDASGLAGKLLE--GMGPNIWRALLSGCVLHVGRFQ  541 (572)
Q Consensus       505 -----g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~~g~~~  541 (572)
                           +.+++|.+.++++..  +.+...|..+...+... ++.+
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~-~~~~  243 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRA-EPHD  243 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCC-CCCS
T ss_pred             ccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcC-CCcc
Confidence                 557889999988876  55667788777666544 5533

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.68  E-value=0.00028  Score=53.25  Aligned_cols=78  Identities=8%  Similarity=-0.029  Sum_probs=55.9

Q ss_pred             HHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHh
Q 046221          438 TALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGK  516 (572)
Q Consensus       438 ~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  516 (572)
                      .|+..|++..+.  .| +...+..+...+...|++++|+..|+++++..  +.+...+..+..+|...|++++|...+++
T Consensus         3 ~a~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~   78 (115)
T 2kat_A            3 AITERLEAMLAQ--GTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD--PTYSVAWKWLGKTLQGQGDRAGARQAWES   78 (115)
T ss_dssp             CHHHHHHHHHTT--TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            466677777663  44 45677777777888888888888888777543  34455777777888888888888888877


Q ss_pred             ccC
Q 046221          517 LLE  519 (572)
Q Consensus       517 ~~~  519 (572)
                      +..
T Consensus        79 al~   81 (115)
T 2kat_A           79 GLA   81 (115)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            764

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.65  E-value=0.00016  Score=52.92  Aligned_cols=62  Identities=24%  Similarity=0.290  Sum_probs=35.4

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHH
Q 046221          420 VVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIE  483 (572)
Q Consensus       420 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  483 (572)
                      ...+..+...|...|++++|+..|++..+.  .|+ ...|..+..+|...|++++|+..|+++++
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVET--DPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            445555555666666666666666666553  332 34555556666666666666666665553

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.63  E-value=0.0001  Score=58.08  Aligned_cols=112  Identities=11%  Similarity=0.037  Sum_probs=76.3

Q ss_pred             hcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCC----------hHHHHHHHHHhHHhcCCCCChhHHHHHHHH
Q 046221          432 VNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGL----------TNDGLVIFNQMIEENKVKPSQEHYGCVVDL  500 (572)
Q Consensus       432 ~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~----------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  500 (572)
                      +.+.+++|...+++..+.  .| +...|..+..++...++          +++|+..|+++++..  +-+...|..+..+
T Consensus        14 r~~~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld--P~~~~A~~~LG~a   89 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID--PKKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC--cCcHHHHHHHHHH
Confidence            344567777777777773  45 55777777777776665          458888888887644  3345678888888


Q ss_pred             HHhhC-----------ChhHHHHHHHhccC-CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCC
Q 046221          501 LARAG-----------CLSDASGLAGKLLE-GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKG  554 (572)
Q Consensus       501 ~~~~g-----------~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~  554 (572)
                      |...|           ++++|.+.|+++.+ +|+...|...+...       +.|-++.-.....+
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y~~al~~~-------~ka~el~~~~~~~~  148 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMT-------AKAPQLHAEAYKQG  148 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH-------HTHHHHHHHHHHSS
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHHHhCCCCHHHHHHHHHH-------HhCHhccCcccccc
Confidence            88764           89999999999888 77777665554433       34555555554443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.59  E-value=0.00026  Score=53.45  Aligned_cols=78  Identities=12%  Similarity=0.005  Sum_probs=60.8

Q ss_pred             HHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhH
Q 046221          406 LAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMI  482 (572)
Q Consensus       406 ~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  482 (572)
                      +|+..+++. ...| +...+..+...|...|++++|+..|++..+.  .| +...|..+..++...|++++|...|++++
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDF--DPTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            455666665 3333 5677888888899999999999999998884  45 45788888889999999999999999887


Q ss_pred             Hhc
Q 046221          483 EEN  485 (572)
Q Consensus       483 ~~~  485 (572)
                      +..
T Consensus        81 ~~~   83 (115)
T 2kat_A           81 AAA   83 (115)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            543

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.58  E-value=0.0009  Score=47.60  Aligned_cols=79  Identities=16%  Similarity=0.280  Sum_probs=41.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 046221          421 VSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVD  499 (572)
Q Consensus       421 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  499 (572)
                      ..+..+...+...|++++|+..+++..+.  .| +...+..+..++...|++++|...++++++..  +.+...+..+..
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--p~~~~~~~~l~~   85 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CCCHHHHHHHHH
Confidence            34445555555666666666666665553  23 34555555556666666666666666655432  223344444444


Q ss_pred             HHHh
Q 046221          500 LLAR  503 (572)
Q Consensus       500 ~~~~  503 (572)
                      ++.+
T Consensus        86 ~~~~   89 (91)
T 1na3_A           86 AKQK   89 (91)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            4433

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.45  E-value=0.00072  Score=49.38  Aligned_cols=64  Identities=17%  Similarity=0.177  Sum_probs=56.5

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          454 DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       454 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +...+..+..+|...|++++|+..|+++++..  +.+...|..+..+|.+.|++++|.+.+++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD--PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            56788899999999999999999999998765  44566899999999999999999999998764

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.44  E-value=0.00096  Score=47.45  Aligned_cols=78  Identities=14%  Similarity=0.138  Sum_probs=62.4

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CC-ChHHHHHHHHH
Q 046221          455 SSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GM-GPNIWRALLSG  532 (572)
Q Consensus       455 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~  532 (572)
                      ...+..+...+...|++++|+..++++++..  +.+...+..+..++.+.|++++|...+++... .| ++..+..+...
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~   86 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNA   86 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            4677888889999999999999999998654  44667888999999999999999999999877 44 45555555544


Q ss_pred             Hh
Q 046221          533 CV  534 (572)
Q Consensus       533 ~~  534 (572)
                      +.
T Consensus        87 ~~   88 (91)
T 1na3_A           87 KQ   88 (91)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=97.44  E-value=0.0028  Score=49.52  Aligned_cols=108  Identities=13%  Similarity=-0.024  Sum_probs=55.6

Q ss_pred             ccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHh----cCChHHHHHH
Q 046221          367 AALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGV----NGHGETALAL  442 (572)
Q Consensus       367 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~  442 (572)
                      ++.++|..++++..+.|. +...    +...|...+.+++|.+.|++.-..-+...+..|...|..    .+++++|..+
T Consensus         9 ~d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~   83 (138)
T 1klx_A            9 KDLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQY   83 (138)
T ss_dssp             HHHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHH
Confidence            345555555555555541 1111    444455555555565555555111344455555555554    5556666666


Q ss_pred             HHHHHhcCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHhH
Q 046221          443 YHKMTETGEVPDSSTYLSILNACGH----AGLTNDGLVIFNQMI  482 (572)
Q Consensus       443 ~~~~~~~g~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~  482 (572)
                      |++..+.|   +...+..|...|..    .+++++|.++|+++.
T Consensus        84 ~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa  124 (138)
T 1klx_A           84 YSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKAC  124 (138)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHH
T ss_pred             HHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHH
Confidence            66665543   34444455555544    555666666666554

>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=97.43  E-value=0.0079  Score=59.65  Aligned_cols=151  Identities=9%  Similarity=-0.037  Sum_probs=118.2

Q ss_pred             cCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhcCC----------hHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhc
Q 046221          401 CGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGVNGH----------GETALALYHKMTETGEVP-DSSTYLSILNACGH  467 (572)
Q Consensus       401 ~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~----------~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~  467 (572)
                      ....++|++.++++ ...| +...|+.--.++...|+          +++++..++++.+.  .| +..+|..-...+.+
T Consensus        42 ~~~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l~~  119 (567)
T 1dce_A           42 GELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSR  119 (567)
T ss_dssp             TCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            34457889999988 4445 45667776666666666          89999999999984  56 56889888888889


Q ss_pred             cC--ChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhC-ChhHHHHHHHhccC--CCChHHHHHHHHHHhhh------
Q 046221          468 AG--LTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAG-CLSDASGLAGKLLE--GMGPNIWRALLSGCVLH------  536 (572)
Q Consensus       468 ~g--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~------  536 (572)
                      .|  +++++++.++++++..  +-+...|+.-..++.+.| .++++.+.++++.+  +.+.+.|+.....+...      
T Consensus       120 l~~~~~~~el~~~~k~l~~d--~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~  197 (567)
T 1dce_A          120 LPEPNWARELELCARFLEAD--ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDS  197 (567)
T ss_dssp             CSSCCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCS
T ss_pred             cccccHHHHHHHHHHHHhhc--cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccc
Confidence            99  6799999999999765  557778888888888889 89999999999988  55677788776665431      


Q ss_pred             -------cCCHHHHHHHHHHHHhCCC
Q 046221          537 -------VGRFQDAEALRSGSQKKGI  555 (572)
Q Consensus       537 -------~g~~~~A~~~~~~m~~~~~  555 (572)
                             .++++++++.+++..+..+
T Consensus       198 ~~~~~~~~~~~~eel~~~~~ai~~~P  223 (567)
T 1dce_A          198 GPQGRLPENVLLKELELVQNAFFTDP  223 (567)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHHHCS
T ss_pred             cccccccHHHHHHHHHHHHHHHhhCC
Confidence                   1567999999988876554

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.32  E-value=0.00028  Score=55.57  Aligned_cols=95  Identities=14%  Similarity=0.003  Sum_probs=61.9

Q ss_pred             hcCChHHHHHHHHHc-C-CCCCHhHHHHHHHHHHhcCC----------hHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHh
Q 046221          400 KCGNVDLAYIVFEEM-G-FLRDVVSWNTIIYGYGVNGH----------GETALALYHKMTETGEVPD-SSTYLSILNACG  466 (572)
Q Consensus       400 ~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~----------~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~  466 (572)
                      +.+.+++|.+.++.. . .+.+...|..+..++...++          +++|+..|++.++  +.|+ ..+|..+..+|.
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 RILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALL--IDPKKDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHH--hCcCcHHHHHHHHHHHH
Confidence            344556666666655 2 22345556656556555544          4588888888888  5674 477888888887


Q ss_pred             ccC-----------ChHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 046221          467 HAG-----------LTNDGLVIFNQMIEENKVKPSQEHYGCVVD  499 (572)
Q Consensus       467 ~~g-----------~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  499 (572)
                      ..|           ++++|++.|+++++.   .|+...|...+.
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~l---~P~~~~y~~al~  132 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVDE---QPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHH
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHHh---CCCCHHHHHHHH
Confidence            664           788999999988863   577655544443

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.25  E-value=0.013  Score=53.37  Aligned_cols=143  Identities=11%  Similarity=-0.027  Sum_probs=77.8

Q ss_pred             cCCCchhHHHHHHHHhhh--c---CChHHHHHHHHHc-CCCCC-HhHHHHHHHHHHh----cCCh-HHHH---HHHHHHH
Q 046221          383 GFPRYRSVQNCLISSYSK--C---GNVDLAYIVFEEM-GFLRD-VVSWNTIIYGYGV----NGHG-ETAL---ALYHKMT  447 (572)
Q Consensus       383 ~~~~~~~~~~~l~~~~~~--~---g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~----~~~~-~~A~---~~~~~~~  447 (572)
                      +.+.+...|...+++...  .   ....+|..+|++. ...|+ ...|..+..+|..    .+.. ....   ..+....
T Consensus       189 ~~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~  268 (372)
T 3ly7_A          189 ILPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIV  268 (372)
T ss_dssp             HSCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHH
Confidence            345566666666655432  2   2346677777776 34454 3444444333321    1111 1111   1111111


Q ss_pred             hcC-CCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHH
Q 046221          448 ETG-EVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNI  525 (572)
Q Consensus       448 ~~g-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~  525 (572)
                      ... ...+..+|..+...+...|++++|...++++++.+   |+...|..+...+.-.|++++|.+.++++.. .|...+
T Consensus       269 a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln---~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~t  345 (372)
T 3ly7_A          269 TLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE---MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGANT  345 (372)
T ss_dssp             TCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHHH
T ss_pred             hcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC---CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcCh
Confidence            111 13355666666666666677777777777776543   5666666667777777777777777777666 666666


Q ss_pred             HHH
Q 046221          526 WRA  528 (572)
Q Consensus       526 ~~~  528 (572)
                      |..
T Consensus       346 ~~~  348 (372)
T 3ly7_A          346 LYW  348 (372)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.16  E-value=0.00042  Score=64.29  Aligned_cols=416  Identities=11%  Similarity=0.056  Sum_probs=243.7

Q ss_pred             CCCcchhhHHHHHhhcCChhhHHHHhccCCC--CChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHH
Q 046221            3 IDPYNSSKLLSNYFKSGKIKEAENLFDEIPE--KNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVA   80 (572)
Q Consensus         3 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~   80 (572)
                      -|+..|..++.+..+.|.+++-++.+.-..+  .++..=+.++-+|++.++..+-.+++       -.|+..-...+..-
T Consensus        81 ~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~IDteLi~ayAk~~rL~elEefl-------~~~N~A~iq~VGDr  153 (624)
T 3lvg_A           81 DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFI-------NGPNNAHIQQVGDR  153 (624)
T ss_dssp             SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTTTTHHHHHHHHTSCSSSTTTSTT-------SCCSSSCTHHHHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccHHHHHHHHHhhCcHHHHHHHH-------cCCCcccHHHHHHH
Confidence            3788899999999999999999999987665  56777789999999999876543332       24677777777888


Q ss_pred             HcCCCChHHHHHHHHHHHHhcCCCCc------c----cCC-CCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCC
Q 046221           81 AAGLQNLELARSIHGLMVKFGLESDL------F----EGL-KNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPN  149 (572)
Q Consensus        81 ~~~~g~~~~a~~~~~~~~~~~~~~~~------~----~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~  149 (572)
                      |...|.++.|+-+|..+....--...      |    +.. +..++.+|-.+-.+|...+.+.-|.-+--.+.-.   | 
T Consensus       154 cf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIvh---a-  229 (624)
T 3lvg_A          154 CYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH---A-  229 (624)
T ss_dssp             HHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC---S-
T ss_pred             HHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhccc---H-
Confidence            88888888777776544322111110      1    111 2366788999999999999888776654444421   1 


Q ss_pred             HhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCC-----------CCccc
Q 046221          150 AVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMEC-----------KDVIS  218 (572)
Q Consensus       150 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----------~~~~~  218 (572)
                       .....++..|-..|.+++...+++.-+.. -......|+-|.-.|++- +.++..+.++..-.           .....
T Consensus       230 -deL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILYsKY-~PeKlmEHlklf~sriNipKviracE~ahL  306 (624)
T 3lvg_A          230 -DELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHL  306 (624)
T ss_dssp             -SCCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTC
T ss_pred             -HHHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhh
Confidence             22234556678888888888888776521 145667888888888876 45555555554433           24567


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHH-----
Q 046221          219 WTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSII-----  293 (572)
Q Consensus       219 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-----  293 (572)
                      |.-++-.|.+...++.|...+   .+.  +|+..--...-....+..+.+---+.+.-.    +.-.+...+-|+     
T Consensus       307 W~ElvfLY~~ydE~DnA~ltM---i~h--~~~Aw~h~~Fkdii~KVaN~EiyYKAi~FY----L~e~P~lL~DLL~vL~p  377 (624)
T 3lvg_A          307 WAELVFLYDKYEEYDNAIITM---MNH--PTDAWKEGQFKDIITKVANVELYYRAIQFY----LEFKPLLLNDLLMVLSP  377 (624)
T ss_dssp             HHHHHHHHHHHTCHHHHHHTT---TSC--HHHHCCGGGGTTTGGGCSCSHHHHHHHHHH----TTSCCTTSHHHHHHHCT
T ss_pred             HHHHHHHHhcchhHHHHHHHH---HhC--ChhhccHHHHHHHHHHcchHHHHHHHHHHH----HHhChHHHHHHHHhccc
Confidence            888888888888888765432   111  111111111111222222222211111111    122222233333     


Q ss_pred             --------HHHHhcCChhHHHHHHhccCCCCcchHH-HHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhc
Q 046221          294 --------AMYSKCGDLDSSRSVFNQITEKSLVSWT-AIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASG  364 (572)
Q Consensus       294 --------~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~  364 (572)
                              +.+.+.|++.-...++......|...-| ++-..|....+++.-..    -. ..-..-|....        
T Consensus       378 rlDh~RvV~~~~k~~~LpLIkpYL~~Vq~~N~~aVNeAln~L~IEEEDy~~LR~----SI-d~ydNFD~i~L--------  444 (624)
T 3lvg_A          378 RLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLNNLFITEEDYQALRT----SI-DAYDNFDNISL--------  444 (624)
T ss_dssp             TCCSTTTHHHHHTTTCGGGGTGGGTSCCCSCCHHHHHHHHHHHHHTTCCHHHHH----TT-SSCCCSCTTHH--------
T ss_pred             cCChHHHHHHHHhcCCchhhHHHHHHHHHhhHHHHHHHHHHHHhhhhhHHHHHH----HH-HHhccccHHHH--------
Confidence                    4444555555555555555555554433 44456666666543221    11 11122222222        


Q ss_pred             ccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHH
Q 046221          365 ELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYH  444 (572)
Q Consensus       365 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  444 (572)
                             |.++    .+   .+-...-..-...|.+.++++++..+.++=+.      |.-.|.....+|+.+-|.++++
T Consensus       445 -------A~rL----Ek---HeL~eFRrIAA~LYkkn~rw~qsi~l~KkDkl------ykDAietAa~S~~~elaeeLL~  504 (624)
T 3lvg_A          445 -------AQRL----EK---HELIEFRRIAAYLFKGNNRWKQSVELCKKDSL------YKDAMQYASESKDTELAEELLQ  504 (624)
T ss_dssp             -------HHHH----HT---CSSHHHHHHHHHHHHTTCHHHHHSSCSSTTCC------TTGGGTTTTTCCCTTHHHHHHH
T ss_pred             -------HHHH----hh---CchHHHHHHHHHHHHhcccHHHHHHHHHhccc------HHHHHHHHHHcCCHHHHHHHHH
Confidence                   2211    11   11122223334557778888888776654433      2223344566888889999999


Q ss_pred             HHHhcCCCCCHHHHHHHHHHHhccCChHHHHHH
Q 046221          445 KMTETGEVPDSSTYLSILNACGHAGLTNDGLVI  477 (572)
Q Consensus       445 ~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~  477 (572)
                      -..+.|   +...|...+-.|...=++|-++++
T Consensus       505 yFv~~g---~~EcF~a~LytCYdLlrpDvVlEl  534 (624)
T 3lvg_A          505 WFLQEE---KRECFGACLFTCYDLLRPDVVLET  534 (624)
T ss_dssp             HHHHHC---STHHHHHHHHHTSSSSSCHHHHHH
T ss_pred             HHHHcC---chHHHHHHHHHHhhccChHHHHHH
Confidence            888865   456677888888888888887765

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.03  E-value=0.015  Score=61.19  Aligned_cols=102  Identities=12%  Similarity=0.060  Sum_probs=56.7

Q ss_pred             hhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHH
Q 046221          398 YSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVI  477 (572)
Q Consensus       398 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~  477 (572)
                      ....|++++|.++.+.+   .+...|..+...+.+.++++.|++.|.++.+         |..+...+...|+.+...++
T Consensus       662 ~l~~~~~~~A~~~~~~~---~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~  729 (814)
T 3mkq_A          662 ALKVGQLTLARDLLTDE---SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTL  729 (814)
T ss_dssp             HHHHTCHHHHHHHHTTC---CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHH
T ss_pred             hhhcCCHHHHHHHHHhh---CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHH
Confidence            44567777777766554   4456777777777777777777777776654         22333344445555554444


Q ss_pred             HHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhcc
Q 046221          478 FNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       478 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                      -+.+. ..|      -++.-..+|.+.|++++|.+++.++.
T Consensus       730 ~~~a~-~~~------~~~~A~~~~~~~g~~~~a~~~~~~~~  763 (814)
T 3mkq_A          730 AKDAE-TTG------KFNLAFNAYWIAGDIQGAKDLLIKSQ  763 (814)
T ss_dssp             HHHHH-HTT------CHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHH-HcC------chHHHHHHHHHcCCHHHHHHHHHHcC
Confidence            44442 221      12333344555566666665555544

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.00  E-value=0.009  Score=54.38  Aligned_cols=141  Identities=8%  Similarity=0.012  Sum_probs=89.3

Q ss_pred             CCCCHhHHHHHHHHhcc-----cccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhh---cC-C-------hHHHHHHHH
Q 046221          349 DSVDSITLVSILTASGE-----LAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSK---CG-N-------VDLAYIVFE  412 (572)
Q Consensus       349 ~~~~~~~~~~ll~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g-~-------~~~A~~~~~  412 (572)
                      .+.+...|...+.+...     ..+..+|..+|++..+.. |-....+..+.-+|.-   .+ .       ...+.+...
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lD-P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~  268 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSS-PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIV  268 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHH
Confidence            45566667776665432     235677888888888764 3333444433333321   11 1       111222111


Q ss_pred             Hc-CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCCh
Q 046221          413 EM-GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQ  491 (572)
Q Consensus       413 ~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  491 (572)
                      .+ ..+.+...|..+...+...|++++|...++++...  .|+...|..+...+.-.|++++|.+.++++++.   .|..
T Consensus       269 a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~L--n~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL---~P~~  343 (372)
T 3ly7_A          269 TLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDL--EMSWLNYVLLGKVYEMKGMNREAADAYLTAFNL---RPGA  343 (372)
T ss_dssp             TCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---SCSH
T ss_pred             hcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCc
Confidence            22 33456777877777777778999999999988885  478777877888888889999999988888754   4666


Q ss_pred             hHHH
Q 046221          492 EHYG  495 (572)
Q Consensus       492 ~~~~  495 (572)
                      .+|.
T Consensus       344 ~t~~  347 (372)
T 3ly7_A          344 NTLY  347 (372)
T ss_dssp             HHHH
T ss_pred             ChHH
Confidence            6653

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.91  E-value=0.011  Score=46.01  Aligned_cols=92  Identities=12%  Similarity=0.011  Sum_probs=70.1

Q ss_pred             hHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccC---ChHHHHHHHHHhHHhcCCCC--ChhHHHHHHHHHHhhCChhHH
Q 046221          436 GETALALYHKMTETGEVPDSSTYLSILNACGHAG---LTNDGLVIFNQMIEENKVKP--SQEHYGCVVDLLARAGCLSDA  510 (572)
Q Consensus       436 ~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A  510 (572)
                      ...+.+-|.+..+.| .++..+...+..++++++   +.++++.+|++.++..  .|  ....+..|.-++.+.|++++|
T Consensus        14 l~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~--~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG--SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS--CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC--CccchHHHHHHHHHHHHHccCHHHH
Confidence            455667777777665 378888888888999988   6669999999998654  34  355777788888999999999


Q ss_pred             HHHHHhccC-CCChHHHHHHH
Q 046221          511 SGLAGKLLE-GMGPNIWRALL  530 (572)
Q Consensus       511 ~~~~~~~~~-~~~~~~~~~l~  530 (572)
                      .+.++.+.+ .|+...-..|.
T Consensus        91 ~~y~~~lL~ieP~n~QA~~Lk  111 (152)
T 1pc2_A           91 LKYVRGLLQTEPQNNQAKELE  111 (152)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHhcCCCCHHHHHHH
Confidence            999999988 77655444443

>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=96.84  E-value=0.0051  Score=58.38  Aligned_cols=87  Identities=8%  Similarity=-0.088  Sum_probs=60.3

Q ss_pred             hcCChHHHHHHHHHHHhc---CCCC---CH-HHHHHHHHHHhccCChHHHHHHHHHhHHhc----C-CCCCh-hHHHHHH
Q 046221          432 VNGHGETALALYHKMTET---GEVP---DS-STYLSILNACGHAGLTNDGLVIFNQMIEEN----K-VKPSQ-EHYGCVV  498 (572)
Q Consensus       432 ~~~~~~~A~~~~~~~~~~---g~~p---~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----~-~~~~~-~~~~~l~  498 (572)
                      ..|++++|+.++++.++.   -+-|   +. .+++.|..+|...|++++|+.+++++++-.    | -.|+. .+++.|.
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            457788888888876652   1223   22 667788888888888888888888776421    1 12332 2677888


Q ss_pred             HHHHhhCChhHHHHHHHhcc
Q 046221          499 DLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       499 ~~~~~~g~~~~A~~~~~~~~  518 (572)
                      ..|..+|++++|+.+++++.
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHH
Confidence            88888888888888888765

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.83  E-value=0.0014  Score=47.55  Aligned_cols=56  Identities=25%  Similarity=0.226  Sum_probs=33.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCC-CHH-HHHHHHHHHhccCChHHHHHHHHHhHHh
Q 046221          427 IYGYGVNGHGETALALYHKMTETGEVP-DSS-TYLSILNACGHAGLTNDGLVIFNQMIEE  484 (572)
Q Consensus       427 ~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~  484 (572)
                      ...+...|++++|+..|++..+.  .| +.. .+..+..++...|++++|+..|+++++.
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            34455566666666666666653  34 334 5666666666666666666666666543

>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=96.75  E-value=0.0085  Score=56.96  Aligned_cols=92  Identities=15%  Similarity=0.104  Sum_probs=54.9

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcC---CCCC----HHHHHHHHHHHhccCChHHHHHHHHHhHHhc-----CCCCCh-hHH
Q 046221          428 YGYGVNGHGETALALYHKMTETG---EVPD----SSTYLSILNACGHAGLTNDGLVIFNQMIEEN-----KVKPSQ-EHY  494 (572)
Q Consensus       428 ~~~~~~~~~~~A~~~~~~~~~~g---~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-----~~~~~~-~~~  494 (572)
                      ..+.+.|++++|+.++++.++..   +.|+    ..+++.|..+|...|++++|+.+++++++-.     .-.|+. .++
T Consensus       295 e~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l  374 (429)
T 3qwp_A          295 EELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQV  374 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHH
Confidence            33445666777777776665421   1222    2456667777777777777777777665321     111222 256


Q ss_pred             HHHHHHHHhhCChhHHHHHHHhccC
Q 046221          495 GCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       495 ~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +.|...|...|++++|+.+++++.+
T Consensus       375 ~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          375 MKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            6777777777777777777776654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.70  E-value=0.01  Score=42.19  Aligned_cols=68  Identities=7%  Similarity=-0.059  Sum_probs=49.2

Q ss_pred             CCHHHHHHHHHHHhccCC---hHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCC
Q 046221          453 PDSSTYLSILNACGHAGL---TNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMG  522 (572)
Q Consensus       453 p~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~  522 (572)
                      +|...+..+..++...++   .++|..+++++++..  +-+......+...+.+.|++++|...|+++.+ .|.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d--p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE--PYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC--cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            456677777777654444   688888888887654  44555777777888888888888888888877 454

>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=96.69  E-value=0.0039  Score=59.17  Aligned_cols=84  Identities=11%  Similarity=-0.109  Sum_probs=65.9

Q ss_pred             hcCChHHHHHHHHHc---------CCCCC-HhHHHHHHHHHHhcCChHHHHHHHHHHHhc-----C-CCCCH-HHHHHHH
Q 046221          400 KCGNVDLAYIVFEEM---------GFLRD-VVSWNTIIYGYGVNGHGETALALYHKMTET-----G-EVPDS-STYLSIL  462 (572)
Q Consensus       400 ~~g~~~~A~~~~~~~---------~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----g-~~p~~-~~~~~l~  462 (572)
                      ..|++++|+.++++.         ...|+ ..+++.|..+|...|++++|+.++++.++-     | -.|+. .+++.|.
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            457888888888766         12233 467889999999999999999999887652     2 23444 6789999


Q ss_pred             HHHhccCChHHHHHHHHHhHH
Q 046221          463 NACGHAGLTNDGLVIFNQMIE  483 (572)
Q Consensus       463 ~~~~~~g~~~~a~~~~~~~~~  483 (572)
                      ..|...|++++|+.+++++++
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999998864

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.56  E-value=0.021  Score=40.60  Aligned_cols=67  Identities=7%  Similarity=-0.057  Sum_probs=51.7

Q ss_pred             CCCHhHHHHHHHHHHhcCC---hHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhc
Q 046221          417 LRDVVSWNTIIYGYGVNGH---GETALALYHKMTETGEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIEEN  485 (572)
Q Consensus       417 ~~~~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  485 (572)
                      +.+...+..+..++...++   .++|..++++.++  +.|+ ......+...+...|++++|+..|+++++..
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~--~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQ--LEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH--HCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            3566677777777654444   6899999999988  4674 4778888888899999999999999987544

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.55  E-value=0.2  Score=40.04  Aligned_cols=130  Identities=14%  Similarity=0.089  Sum_probs=89.5

Q ss_pred             HHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHH
Q 046221          395 ISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDG  474 (572)
Q Consensus       395 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a  474 (572)
                      .......|+++.|.++.+++   .+...|..|.......|+++-|++.|.+..+         +..+.-.|...|+.+..
T Consensus        12 F~LAL~lg~l~~A~e~a~~l---~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L   79 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL---NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKL   79 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH---CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHh---CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHH
Confidence            34456788899998888877   4577899999999999999999999987765         33455556667777776


Q ss_pred             HHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccCCCChHHHHHHHHHHhhhcCCHHHHHHHHHHH
Q 046221          475 LVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVGRFQDAEALRSGS  550 (572)
Q Consensus       475 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m  550 (572)
                      .++-+.+. ..|      -++.-..++.-.|+++++.+++.+...-|..      ......+ |-.+.|.++.+++
T Consensus        80 ~kla~iA~-~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~eA------~~~A~t~-g~~~~a~~~~~~~  141 (177)
T 3mkq_B           80 SKMQNIAQ-TRE------DFGSMLLNTFYNNSTKERSSIFAEGGSLPLA------YAVAKAN-GDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHH-HTT------CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHH------HHHHHHT-TCHHHHHHHHHHT
T ss_pred             HHHHHHHH-HCc------cHHHHHHHHHHcCCHHHHHHHHHHCCChHHH------HHHHHHc-CcHHHHHHHHHHh
Confidence            66665553 222      2445556677889999999998887532211      1111123 7888888888776

>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=96.51  E-value=0.0067  Score=57.69  Aligned_cols=89  Identities=10%  Similarity=0.035  Sum_probs=69.6

Q ss_pred             HHHhhhcCChHHHHHHHHHc------CCCC----CHhHHHHHHHHHHhcCChHHHHHHHHHHHhc-----C-CCCCH-HH
Q 046221          395 ISSYSKCGNVDLAYIVFEEM------GFLR----DVVSWNTIIYGYGVNGHGETALALYHKMTET-----G-EVPDS-ST  457 (572)
Q Consensus       395 ~~~~~~~g~~~~A~~~~~~~------~~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----g-~~p~~-~~  457 (572)
                      +..+.+.|++++|+.++++.      -..|    ...+++.+...|...|++++|+.++++.++-     | -.|+. .+
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            44566788999999999877      1112    2467888999999999999999999987652     2 23444 67


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHhHH
Q 046221          458 YLSILNACGHAGLTNDGLVIFNQMIE  483 (572)
Q Consensus       458 ~~~l~~~~~~~g~~~~a~~~~~~~~~  483 (572)
                      ++.|...|...|++++|+.+++++++
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            88999999999999999999998764

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.42  E-value=0.03  Score=40.24  Aligned_cols=52  Identities=19%  Similarity=0.190  Sum_probs=23.3

Q ss_pred             HhhhcCChHHHHHHHHHc-CCCC-CHh-HHHHHHHHHHhcCChHHHHHHHHHHHh
Q 046221          397 SYSKCGNVDLAYIVFEEM-GFLR-DVV-SWNTIIYGYGVNGHGETALALYHKMTE  448 (572)
Q Consensus       397 ~~~~~g~~~~A~~~~~~~-~~~~-~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~  448 (572)
                      .+.+.|++++|...+++. ...| +.. .|..+..+|...|++++|+..|++..+
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            344444555555544444 1112 233 444444444444555555555544444

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.41  E-value=0.22  Score=52.15  Aligned_cols=155  Identities=10%  Similarity=0.057  Sum_probs=104.9

Q ss_pred             HHHHhCCChHHHHH-HHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCH
Q 046221          123 AGFINNKLFQQAVL-LFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDL  201 (572)
Q Consensus       123 ~~~~~~~~~~~a~~-~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (572)
                      ......+++++|.+ ++..+      |+......++..+.+.|..+.|.++.+.-.            .-.......|++
T Consensus       607 ~~~~~~~~~~~a~~~~l~~i------~~~~~~~~~~~~l~~~~~~~~a~~~~~~~~------------~~f~~~l~~~~~  668 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPNV------EGKDSLTKIARFLEGQEYYEEALNISPDQD------------QKFELALKVGQL  668 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGGC------CCHHHHHHHHHHHHHTTCHHHHHHHCCCHH------------HHHHHHHHHTCH
T ss_pred             hHHHHhCCHHHHHHHHHhcC------CchHHHHHHHHHHHhCCChHHheecCCCcc------------hheehhhhcCCH
Confidence            44456788888877 55221      112233677777888888888877653211            113345667999


Q ss_pred             HHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhC
Q 046221          202 DAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGG  281 (572)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  281 (572)
                      +.|.++.+.+  .+...|..+...+.+.++++.|.+.|..+.+         |..+...+...|+.+...++-+.....|
T Consensus       669 ~~A~~~~~~~--~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~  737 (814)
T 3mkq_A          669 TLARDLLTDE--SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTG  737 (814)
T ss_dssp             HHHHHHHTTC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhh--CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            9999998877  4567899999999999999999999998754         4455555566777777666655555544


Q ss_pred             CCCCcchHHHHHHHHHhcCChhHHHHHHhcc
Q 046221          282 LQSELRLSNSIIAMYSKCGDLDSSRSVFNQI  312 (572)
Q Consensus       282 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  312 (572)
                            -++....+|.+.|++++|.+++.++
T Consensus       738 ------~~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          738 ------KFNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             ------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             ------chHHHHHHHHHcCCHHHHHHHHHHc
Confidence                  2244445566677777777766554

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.31  E-value=0.03  Score=40.84  Aligned_cols=68  Identities=13%  Similarity=0.021  Sum_probs=40.0

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhHHhcC-----CCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCCh
Q 046221          456 STYLSILNACGHAGLTNDGLVIFNQMIEENK-----VKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGP  523 (572)
Q Consensus       456 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~  523 (572)
                      .-+..+...+.+.|++..|...|+.+++...     -.+...++..|..++.+.|++++|...++++.. .|+.
T Consensus         6 ~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~   79 (104)
T 2v5f_A            6 EDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEH   79 (104)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCC
Confidence            3344555666666666666666666654321     123344666666777777777777777776665 4443

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.13  E-value=0.033  Score=48.54  Aligned_cols=79  Identities=11%  Similarity=0.119  Sum_probs=63.6

Q ss_pred             hHHHHHHHHHHHhcCCCCC---HHHHHHHHHHHhcc-----CChHHHHHHHHHhHHhcCCCC--ChhHHHHHHHHHHhh-
Q 046221          436 GETALALYHKMTETGEVPD---SSTYLSILNACGHA-----GLTNDGLVIFNQMIEENKVKP--SQEHYGCVVDLLARA-  504 (572)
Q Consensus       436 ~~~A~~~~~~~~~~g~~p~---~~~~~~l~~~~~~~-----g~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~-  504 (572)
                      ...|...+++.++  +.|+   ...|..+...|...     |+.++|.+.|+++++-+   |  +..++..+.+.+++. 
T Consensus       179 l~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~Ln---P~~~id~~v~YA~~l~~~~  253 (301)
T 3u64_A          179 VHAAVMMLERACD--LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYC---SAHDPDHHITYADALCIPL  253 (301)
T ss_dssp             HHHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHC---CTTCSHHHHHHHHHTTTTT
T ss_pred             HHHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhC---CCCCchHHHHHHHHHHHhc
Confidence            4677788888888  6787   36788888888884     99999999999998654   4  366777788888884 


Q ss_pred             CChhHHHHHHHhccC
Q 046221          505 GCLSDASGLAGKLLE  519 (572)
Q Consensus       505 g~~~~A~~~~~~~~~  519 (572)
                      |+.++|.+.+++...
T Consensus       254 gd~~~a~~~L~kAL~  268 (301)
T 3u64_A          254 NNRAGFDEALDRALA  268 (301)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHc
Confidence            999999999999877

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.01  E-value=0.45  Score=38.06  Aligned_cols=127  Identities=16%  Similarity=0.118  Sum_probs=76.3

Q ss_pred             HHhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHH
Q 046221          195 YSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLH  274 (572)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  274 (572)
                      ....|+++.|.++.+.+  .+...|..|.......|+++-|.+.|....+         +..+.-.|...|+.+...++-
T Consensus        15 AL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~kla   83 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSKMQ   83 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHHHH
Confidence            44556777777766655  3556677777777777777777777776543         344445555566666666555


Q ss_pred             HHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHH
Q 046221          275 AQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKM  343 (572)
Q Consensus       275 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  343 (572)
                      +.....|      -++.....+.-.|+++++.++|.+...     |.--.......|..+.|.++.+++
T Consensus        84 ~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r-----~~eA~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           84 NIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGGS-----LPLAYAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTC-----HHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCCC-----hHHHHHHHHHcCcHHHHHHHHHHh
Confidence            5544444      234445556667888888888876543     111111222355666777776665

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=95.77  E-value=2.2  Score=44.21  Aligned_cols=262  Identities=13%  Similarity=0.030  Sum_probs=133.5

Q ss_pred             hcccCChHHHHHHHHHHHHhCCCCCc--chHHHHHHHHHhcCChhHHHHHHhccCC-CC--------c--chHHHHHHHH
Q 046221          261 NAILGDLKRGKQLHAQVVLGGLQSEL--RLSNSIIAMYSKCGDLDSSRSVFNQITE-KS--------L--VSWTAIISGY  327 (572)
Q Consensus       261 ~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~--------~--~~~~~l~~~~  327 (572)
                      ....|+.+++..++......+-..+.  ..-..+.-+....|..+++..++..... ++        .  ..-..+.-++
T Consensus       384 lIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGl  463 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGL  463 (963)
T ss_dssp             HHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHH
T ss_pred             hhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHH
Confidence            44567777776666554431101122  2223333445555655566665554332 22        1  1112222233


Q ss_pred             HHcCC-hHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHH--HHhhhcCCh
Q 046221          328 VQNGC-AREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLI--SSYSKCGNV  404 (572)
Q Consensus       328 ~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~g~~  404 (572)
                      +-.|. -+++.+.+..+............-.++...+...|+.+....++..+.+..   +..+...+.  -++.-.|+.
T Consensus       464 a~~GS~~eev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~~  540 (963)
T 4ady_A          464 AAMGSANIEVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGRQ  540 (963)
T ss_dssp             HSTTCCCHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTCG
T ss_pred             HhcCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCCh
Confidence            33332 245566666655222110001111223333456677777777777766532   223333333  334467888


Q ss_pred             HHHHHHHHHcCCCCCH-hHHH---HHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 046221          405 DLAYIVFEEMGFLRDV-VSWN---TIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQ  480 (572)
Q Consensus       405 ~~A~~~~~~~~~~~~~-~~~~---~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  480 (572)
                      +.+..+++.+....+. .-|.   ++.-+|+..|+.....+++..+.+. ...+......+.-++...|+.+.+.++++.
T Consensus       541 e~~~~li~~L~~~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d-~~d~VRraAViaLGlI~~g~~e~v~rlv~~  619 (963)
T 4ady_A          541 ELADDLITKMLASDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD-SNDDVRRAAVIALGFVLLRDYTTVPRIVQL  619 (963)
T ss_dssp             GGGHHHHHHHHHCSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTSSSCSSHHHHTTT
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC-CcHHHHHHHHHHHHhhccCCHHHHHHHHHH
Confidence            8887777777211232 2232   2344677788887777788888864 222333333334455566777777777776


Q ss_pred             hHHhcCCCCChhHHHHHHHHHHhhCCh-hHHHHHHHhccCCCChHHHHH
Q 046221          481 MIEENKVKPSQEHYGCVVDLLARAGCL-SDASGLAGKLLEGMGPNIWRA  528 (572)
Q Consensus       481 ~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~  528 (572)
                      +.+ . ..|....-..+.-+....|.. .+|.+.+..+..+++..+-..
T Consensus       620 L~~-~-~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D~d~~Vrq~  666 (963)
T 4ady_A          620 LSK-S-HNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFVRQA  666 (963)
T ss_dssp             GGG-C-SCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTCSSHHHHHH
T ss_pred             HHh-c-CCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccCCCHHHHHH
Confidence            643 2 245544444444444445543 678888888887666665433

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.77  E-value=0.081  Score=39.50  Aligned_cols=91  Identities=12%  Similarity=0.045  Sum_probs=65.1

Q ss_pred             CChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHH---HHHHHHHhHHhcCCCC--ChhHHHHHHHHHHhhCChh
Q 046221          434 GHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTND---GLVIFNQMIEENKVKP--SQEHYGCVVDLLARAGCLS  508 (572)
Q Consensus       434 ~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~---a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~  508 (572)
                      .....+.+-|.+....| .|+..+-..+..++.++.+..+   ++.+++...+..  .|  .......|.-++.+.|+++
T Consensus        15 ~~l~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~--~p~~~Rd~lY~LAvg~yklg~Y~   91 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG--SKEEQRDYVFYLAVGNYRLKEYE   91 (126)
T ss_dssp             HHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS--CHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHhhhHH
Confidence            34455666676666655 3777777788888888887766   888888886432  23  3446666777888999999


Q ss_pred             HHHHHHHhccC-CCChHHHH
Q 046221          509 DASGLAGKLLE-GMGPNIWR  527 (572)
Q Consensus       509 ~A~~~~~~~~~-~~~~~~~~  527 (572)
                      +|.+.++.+.+ .|+..--.
T Consensus        92 ~A~~~~~~lL~~eP~n~QA~  111 (126)
T 1nzn_A           92 KALKYVRGLLQTEPQNNQAK  111 (126)
T ss_dssp             HHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHHHHhCCCCHHHH
Confidence            99999999887 66554333

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.26  E-value=0.2  Score=36.37  Aligned_cols=65  Identities=8%  Similarity=-0.079  Sum_probs=44.4

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhcC------CCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHh
Q 046221          420 VVSWNTIIYGYGVNGHGETALALYHKMTETG------EVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEE  484 (572)
Q Consensus       420 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g------~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  484 (572)
                      ..-+-.+...+.+.|+++.|...|+...+.-      -.+....+..|..++.+.|+++.|+.+++++++.
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            3344566677777778888877777766531      1123466777788888888888888888887653

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=95.21  E-value=0.075  Score=46.33  Aligned_cols=88  Identities=10%  Similarity=0.119  Sum_probs=71.0

Q ss_pred             hHHHHHHHHHhHHhcCCCCC---hhHHHHHHHHHHhh-----CChhHHHHHHHhccC-CCC--hHHHHHHHHHHhhhcCC
Q 046221          471 TNDGLVIFNQMIEENKVKPS---QEHYGCVVDLLARA-----GCLSDASGLAGKLLE-GMG--PNIWRALLSGCVLHVGR  539 (572)
Q Consensus       471 ~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~-----g~~~~A~~~~~~~~~-~~~--~~~~~~l~~~~~~~~g~  539 (572)
                      ...|...++++++.   .|+   -..|..|+..|.+.     |+.++|.+.|+++.+ .|+  ..++..+...++...|+
T Consensus       179 l~~A~a~lerAleL---DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd  255 (301)
T 3u64_A          179 VHAAVMMLERACDL---WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNN  255 (301)
T ss_dssp             HHHHHHHHHHHHHH---CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTC
T ss_pred             HHHHHHHHHHHHHh---CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCC
Confidence            56788888888763   466   55888999999884     999999999999998 663  56666777777664599


Q ss_pred             HHHHHHHHHHHHhCCCCCCCce
Q 046221          540 FQDAEALRSGSQKKGIIKIPGI  561 (572)
Q Consensus       540 ~~~A~~~~~~m~~~~~~~~~~~  561 (572)
                      .++|.+.+++.++..+...|+.
T Consensus       256 ~~~a~~~L~kAL~a~p~~~P~~  277 (301)
T 3u64_A          256 RAGFDEALDRALAIDPESVPHN  277 (301)
T ss_dssp             HHHHHHHHHHHHHCCGGGCSSC
T ss_pred             HHHHHHHHHHHHcCCCCCCCCh
Confidence            9999999999999988866664

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=95.18  E-value=0.21  Score=38.30  Aligned_cols=113  Identities=14%  Similarity=0.100  Sum_probs=71.6

Q ss_pred             CCHhHHHHHHHHHHhcCCh------HHHHHHHHHHHhcCCCCCHH-HHHHHHH------HHhccCChHHHHHHHHHhHHh
Q 046221          418 RDVVSWNTIIYGYGVNGHG------ETALALYHKMTETGEVPDSS-TYLSILN------ACGHAGLTNDGLVIFNQMIEE  484 (572)
Q Consensus       418 ~~~~~~~~l~~~~~~~~~~------~~A~~~~~~~~~~g~~p~~~-~~~~l~~------~~~~~g~~~~a~~~~~~~~~~  484 (572)
                      .|..+|-..+...-+.|++      ++..++|++.... ++|+.. .+...+.      .+...+++++|.++|+.+++.
T Consensus        11 ~~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           11 NNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             CSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            4566777777776666777      7777788877775 566421 1111110      123447888999999988754


Q ss_pred             cCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CC-ChHHHHHHHHHH
Q 046221          485 NKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GM-GPNIWRALLSGC  533 (572)
Q Consensus       485 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~~  533 (572)
                       +-+- ...|....+.-.++|+...|.+++.+... .| +.......+..+
T Consensus        90 -hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~le~a~~nl  138 (161)
T 4h7y_A           90 -CKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEMLEIALRNL  138 (161)
T ss_dssp             -CTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHHHHHHHHH
T ss_pred             -hHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHHHHHHHhh
Confidence             2222 66777777778889999999999988776 22 233444444433

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.07  E-value=0.26  Score=38.36  Aligned_cols=65  Identities=5%  Similarity=-0.027  Sum_probs=42.7

Q ss_pred             CCHhHHHHHHHHHHhcC---ChHHHHHHHHHHHhcCCCC--CHHHHHHHHHHHhccCChHHHHHHHHHhHH
Q 046221          418 RDVVSWNTIIYGYGVNG---HGETALALYHKMTETGEVP--DSSTYLSILNACGHAGLTNDGLVIFNQMIE  483 (572)
Q Consensus       418 ~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~g~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  483 (572)
                      ++..+.-.+..++++.+   +.++++.+|++..+.. .|  +...+-.|.-+|.+.|++++|.++++.+++
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~   99 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ   99 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            56666666666677766   4557777777777653 24  234555566667777777777777777775

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.73  E-value=0.95  Score=33.95  Aligned_cols=140  Identities=12%  Similarity=0.031  Sum_probs=83.4

Q ss_pred             HHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHH
Q 046221          125 FINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAA  204 (572)
Q Consensus       125 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  204 (572)
                      +.-.|..++..++..+....   .+..-||.+|--....-+-+...++++.+   |--.|..          .+|++...
T Consensus        17 ~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~I---GkiFDis----------~C~NlKrV   80 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKI---GSYFDLD----------KCQNLKSV   80 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHH---GGGSCGG----------GCSCTHHH
T ss_pred             HHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHH---hhhcCcH----------hhhcHHHH
Confidence            34567777777777776653   24555665555544444444444444433   3222322          22333333


Q ss_pred             HHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCC
Q 046221          205 IQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGL  282 (572)
Q Consensus       205 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  282 (572)
                      ...+-.+. .+....+..+..+...|.-++-.+++..+.. +.+|++.....+..+|.+.|+..++..++.++-+.|+
T Consensus        81 i~C~~~~n-~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           81 VECGVINN-TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHTT-CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhc-chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            33333321 2334455667777888888888888888543 2467777777788888888888888888887777664

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.52  E-value=1.1  Score=33.65  Aligned_cols=57  Identities=18%  Similarity=0.090  Sum_probs=25.7

Q ss_pred             HHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhcc
Q 046221          460 SILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       460 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                      ..+......|+-|+..+++..++.  +.+|++.....+..+|.+.|+..+|.+++.++.
T Consensus        96 ~ALd~lv~~~KkDqLdki~~~~l~--n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC  152 (172)
T 1wy6_A           96 KALDILVIQGKRDKLEEIGREILK--NNEVSASILVAIANALRRVGDERDATTLLIEAC  152 (172)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHC----CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHhHHHHHHHHHhc--cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence            333444444444444444444322  124444444445555555555555555444443

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.36  E-value=5.7  Score=41.29  Aligned_cols=251  Identities=12%  Similarity=0.022  Sum_probs=131.4

Q ss_pred             HHHhcCChhHHHHHHhccCCC----Ccc--hHHHHHHHHHHcCChHHHHHHHHHHHhcCC-CCC---CHh----HHHHHH
Q 046221          295 MYSKCGDLDSSRSVFNQITEK----SLV--SWTAIISGYVQNGCAREALNQFIKMRQEKT-DSV---DSI----TLVSIL  360 (572)
Q Consensus       295 ~~~~~~~~~~a~~~~~~~~~~----~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~---~~~----~~~~ll  360 (572)
                      +....|+.+++..++..-...    +..  .-..+.-+....|..+++..++........ ..-   +..    ....+.
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            345667888888888776542    111  122233445556666678887776552321 001   111    112222


Q ss_pred             HHhcccccHHHHHHHHHHHHHhcCCCchhHHH--HHHHHhhhcCChHHHHHHHHHcCCCCCHhHHH--HHHHHHHhcCCh
Q 046221          361 TASGELAALEICLQLHGIAFEAGFPRYRSVQN--CLISSYSKCGNVDLAYIVFEEMGFLRDVVSWN--TIIYGYGVNGHG  436 (572)
Q Consensus       361 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~  436 (572)
                      -++.-.++- .+.+.+..+....- +......  ++...+.-.|+-+....++..+....+.....  .+.-++...|+.
T Consensus       463 la~~GS~~e-ev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~  540 (963)
T 4ady_A          463 LAAMGSANI-EVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQ  540 (963)
T ss_dssp             HHSTTCCCH-HHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCG
T ss_pred             HHhcCCCCH-HHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCCh
Confidence            233333443 34444444333221 1111112  23344556677777777777651112323333  333445578888


Q ss_pred             HHHHHHHHHHHhcCCCCCH-HHH---HHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHH
Q 046221          437 ETALALYHKMTETGEVPDS-STY---LSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASG  512 (572)
Q Consensus       437 ~~A~~~~~~~~~~g~~p~~-~~~---~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  512 (572)
                      +.+..+.+.+...   .+. .-|   ..+.-+|+..|+.....+++..+.++.  ..+..-...+.-++.-.|+.+.+.+
T Consensus       541 e~~~~li~~L~~~---~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~--~d~VRraAViaLGlI~~g~~e~v~r  615 (963)
T 4ady_A          541 ELADDLITKMLAS---DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS--NDDVRRAAVIALGFVLLRDYTTVPR  615 (963)
T ss_dssp             GGGHHHHHHHHHC---SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS--CHHHHHHHHHHHHHHTSSSCSSHHH
T ss_pred             HHHHHHHHHHHhC---CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC--cHHHHHHHHHHHHhhccCCHHHHHH
Confidence            8888888888763   333 222   234557889999888888999886432  2233333333334555777777888


Q ss_pred             HHHhccCCCChHHHHHHHHHHhhh-cCC-HHHHHHHHHHHHh
Q 046221          513 LAGKLLEGMGPNIWRALLSGCVLH-VGR-FQDAEALRSGSQK  552 (572)
Q Consensus       513 ~~~~~~~~~~~~~~~~l~~~~~~~-~g~-~~~A~~~~~~m~~  552 (572)
                      +++.+.+..++.+-.....++... .|. ..+|+..+..+..
T Consensus       616 lv~~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          616 IVQLLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             HTTTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            888776644555433322222211 132 2577888888753

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=94.30  E-value=0.29  Score=38.41  Aligned_cols=112  Identities=7%  Similarity=-0.067  Sum_probs=56.3

Q ss_pred             HHHHhhhcCChHHHHHHHHHc----CCCCCH-------hHHHHHHHHHHhcCChHHHHHHHHHHHhcC-CCCCH-HHHHH
Q 046221          394 LISSYSKCGNVDLAYIVFEEM----GFLRDV-------VSWNTIIYGYGVNGHGETALALYHKMTETG-EVPDS-STYLS  460 (572)
Q Consensus       394 l~~~~~~~g~~~~A~~~~~~~----~~~~~~-------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g-~~p~~-~~~~~  460 (572)
                      -+..+...|.++.|+-+.+.+    +..|+.       .++..+..++...+++..|...|++.++.. .-+.. .++..
T Consensus        26 qik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~~  105 (167)
T 3ffl_A           26 HVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRPS  105 (167)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC---------
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCcccc
Confidence            345556667777776666654    222331       234455566666777777777776654321 11111 11111


Q ss_pred             HHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          461 ILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       461 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      +.    .......          .....++.+.-.-+..+|.+.|++++|+.+++.+..
T Consensus       106 ~~----~~ss~p~----------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~  150 (167)
T 3ffl_A          106 TG----NSASTPQ----------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPS  150 (167)
T ss_dssp             -------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCG
T ss_pred             cc----ccCCCcc----------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCc
Confidence            10    0000000          001223444555577888889999999999888865

>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=93.71  E-value=0.57  Score=35.99  Aligned_cols=101  Identities=14%  Similarity=0.124  Sum_probs=72.6

Q ss_pred             CHHHHHHHHHHHhccCCh------HHHHHHHHHhHHhcCCCCChh-HHHHHHH------HHHhhCChhHHHHHHHhccC-
Q 046221          454 DSSTYLSILNACGHAGLT------NDGLVIFNQMIEENKVKPSQE-HYGCVVD------LLARAGCLSDASGLAGKLLE-  519 (572)
Q Consensus       454 ~~~~~~~l~~~~~~~g~~------~~a~~~~~~~~~~~~~~~~~~-~~~~l~~------~~~~~g~~~~A~~~~~~~~~-  519 (572)
                      |..+|...+...-+.|++      ++..++|++++..  ++|+.. .|...+.      .+...++.++|.++|+.+.. 
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            557777777777777888      8889999999753  567642 2222221      23456899999999999865 


Q ss_pred             -CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCCC
Q 046221          520 -GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGIIK  557 (572)
Q Consensus       520 -~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~~  557 (572)
                       +.-...|.....--.++ |+.+.|.+++.+....+.+|
T Consensus        90 hKkFAKiwi~~AqFEiRq-gnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           90 CKKFAFVHISFAQFELSQ-GNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             CTTBHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHTTCBC
T ss_pred             hHHHHHHHHHHHHHHHHc-ccHHHHHHHHHHHhccCCCc
Confidence             33366777666655566 99999999999988877653

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=93.71  E-value=3.6  Score=36.61  Aligned_cols=129  Identities=12%  Similarity=0.135  Sum_probs=75.3

Q ss_pred             hHHHHHHHhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHH----HHHHHhCCCCCCccchHHHHHHhccc
Q 046221          189 NSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKI----FREMRKSRIICDTVALLNLISVNAIL  264 (572)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~----~~~m~~~~~~p~~~~~~~ll~~~~~~  264 (572)
                      .++..-|.+.+++++|++++..-           ...+.+.|+...|-++    ++-..+.+++++......++..+...
T Consensus        37 Rtl~~Ry~~~~~~~eAidlL~~g-----------a~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~~~  105 (312)
T 2wpv_A           37 RTIANRYVRSKSYEHAIELISQG-----------ALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAEL  105 (312)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHC
Confidence            34455577777788877765542           3445556666655543    45555667778877777777666553


Q ss_pred             CCh-HHHHHHHHHHHH----hC--CCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHH
Q 046221          265 GDL-KRGKQLHAQVVL----GG--LQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYV  328 (572)
Q Consensus       265 ~~~-~~a~~~~~~~~~----~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~  328 (572)
                      ..- ..-.++++.+.+    .|  ..-++.....+...|.+.|++.+|+..|-.-...+...+..++.-+.
T Consensus       106 p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~  176 (312)
T 2wpv_A          106 DPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWL  176 (312)
T ss_dssp             CTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHH
T ss_pred             CCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHH
Confidence            211 112333444433    22  23466778888888999999999888776332223444444443333

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=92.64  E-value=3.8  Score=44.55  Aligned_cols=210  Identities=11%  Similarity=-0.012  Sum_probs=118.1

Q ss_pred             HHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhccccc
Q 046221          289 SNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAA  368 (572)
Q Consensus       289 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  368 (572)
                      ...++..+.+.+..+.+.++..-.. .+...--.+..++...|++++|...|++.  ..+...+.....          .
T Consensus       815 ~~~l~~~l~~~~~~~~~~~l~~~~~-~~~~~~yl~g~~~L~~ge~~~A~~~F~ka--a~~~~~~~~l~~----------~  881 (1139)
T 4fhn_B          815 VTELVEKLFLFKQYNACMQLIGWLN-SDPIAVYLKALIYLKSKEAVKAVRCFKTT--SLVLYSHTSQFA----------V  881 (1139)
T ss_dssp             HHHHHHHHHHHSCTTHHHHHHHHSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHTC--CCSCTTCCCSCS----------S
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcc-CCcHHHHHHHHHHHhcCCHHHHHHHHHHH--hhhhcccchhhh----------h
Confidence            4456667777888888777665544 34444455667888999999999999887  333322211000          0


Q ss_pred             HHHHHHHHHHHHHhc--CCCchhHHHHHHHHhhhcCChHHHHHHHHHc----C-CCCC--HhHHHHHHHHHHhcCChHHH
Q 046221          369 LEICLQLHGIAFEAG--FPRYRSVQNCLISSYSKCGNVDLAYIVFEEM----G-FLRD--VVSWNTIIYGYGVNGHGETA  439 (572)
Q Consensus       369 ~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~-~~~~--~~~~~~l~~~~~~~~~~~~A  439 (572)
                      ...    +..+....  ...-..-|..++..+.+.+.++.+.++-...    + ..++  ...|..+.+++...|++++|
T Consensus       882 ~~~----~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~A  957 (1139)
T 4fhn_B          882 LRE----FQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAA  957 (1139)
T ss_dssp             HHH----HHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGG
T ss_pred             hcc----cccccccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHH
Confidence            000    00111110  1112345667777888888888887766654    1 1121  12577788888888899988


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHhccCChH------------HHHHHHHHhHHhc-CCCCChhHHHHHHHHHHhhCC
Q 046221          440 LALYHKMTETGEVPDSSTYLSILNACGHAGLTN------------DGLVIFNQMIEEN-KVKPSQEHYGCVVDLLARAGC  506 (572)
Q Consensus       440 ~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~------------~a~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~  506 (572)
                      ...+-.+.....  -...+..|+..++..|..+            +..+++..-.+.. .....+..|..|-..+...|+
T Consensus       958 y~aL~~~pd~~~--r~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~d 1035 (1139)
T 4fhn_B          958 HVALMVLSTTPL--KKSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQN 1035 (1139)
T ss_dssp             GHHHHHHHHSSS--CHHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHT
T ss_pred             HHHHHhCCCHHH--HHHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCC
Confidence            888877766433  3455566666555555443            3334443221111 112222345666666667777


Q ss_pred             hhHHHHH-HHhc
Q 046221          507 LSDASGL-AGKL  517 (572)
Q Consensus       507 ~~~A~~~-~~~~  517 (572)
                      +.+|-.+ ++.+
T Consensus      1036 yR~AA~vmYe~~ 1047 (1139)
T 4fhn_B         1036 YRDAAAIIYEKL 1047 (1139)
T ss_dssp             TSCHHHHHHHHH
T ss_pred             hHHHHHHHHHHH
Confidence            7665544 4443

>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=92.51  E-value=5.3  Score=37.00  Aligned_cols=158  Identities=10%  Similarity=-0.031  Sum_probs=93.1

Q ss_pred             HHHHHHhhhcCChHHHHHHHHHc----CCCC---CHhHHHHHHHHHHhcCC-hHHHHHHHHHHHhcCCCCCHHHH-----
Q 046221          392 NCLISSYSKCGNVDLAYIVFEEM----GFLR---DVVSWNTIIYGYGVNGH-GETALALYHKMTETGEVPDSSTY-----  458 (572)
Q Consensus       392 ~~l~~~~~~~g~~~~A~~~~~~~----~~~~---~~~~~~~l~~~~~~~~~-~~~A~~~~~~~~~~g~~p~~~~~-----  458 (572)
                      ..+...|.+.|+.++..+++...    +.-|   .......++..+....+ .+.-.++..+..+-. .-+..+|     
T Consensus        23 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a-~~~~r~flr~~l  101 (394)
T 3txn_A           23 LQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWA-KQEKRTFLRQSL  101 (394)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHH-HHTTCHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Confidence            44677788888888888887776    1112   23445666777766433 333344444433310 0111222     


Q ss_pred             -HHHHHHHhccCChHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHHhhCChhHHHHHHHhccC-----CCChHH---
Q 046221          459 -LSILNACGHAGLTNDGLVIFNQMIEENKVKPS----QEHYGCVVDLLARAGCLSDASGLAGKLLE-----GMGPNI---  525 (572)
Q Consensus       459 -~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~---  525 (572)
                       .-++..|...|++.+|.+++.++.+.-.-..|    ..++..-++.|...|+..++...+.+...     .++|..   
T Consensus       102 ~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a~  181 (394)
T 3txn_A          102 EARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGA  181 (394)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHHH
Confidence             25677888899999998888888654321111    12455556778888898888888877654     244433   


Q ss_pred             HHHHHHHHhh-hcCCHHHHHHHHHHH
Q 046221          526 WRALLSGCVL-HVGRFQDAEALRSGS  550 (572)
Q Consensus       526 ~~~l~~~~~~-~~g~~~~A~~~~~~m  550 (572)
                      +...-+.++. ..++|+.|...|-+.
T Consensus       182 i~~~~Gi~~l~~~rdyk~A~~~F~ea  207 (394)
T 3txn_A          182 LDLQSGILHAADERDFKTAFSYFYEA  207 (394)
T ss_dssp             HHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHhccCHHHHHHHHHHH
Confidence            2222333334 348888888877665

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=92.25  E-value=5.9  Score=35.21  Aligned_cols=168  Identities=10%  Similarity=0.058  Sum_probs=98.8

Q ss_pred             hHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHH----HHHHHhCCCCC
Q 046221           73 TMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLL----FNFFRGSGLVP  148 (572)
Q Consensus        73 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~----~~~m~~~~~~p  148 (572)
                      +|.++..-+.+.+++++|..++..-                        ...+.+.|+...|.++    ++.+.+.++++
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~g------------------------a~~ll~~~Q~~sa~DLa~llvev~~~~~~~~   90 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQG------------------------ALSFLKAKQGGSGTDLIFYLLEVYDLAEVKV   90 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH------------------------HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCC
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHH------------------------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCC
Confidence            4455566677788888888874332                        2345566777666554    56666778888


Q ss_pred             CHhhHHHHHHHHhccCC-----hHHHHHHHHHHHHhcC--CCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCcccHHH
Q 046221          149 NAVTMLTVIRGCVALGS-----RALCELIHGLTIKLGL--ILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTR  221 (572)
Q Consensus       149 ~~~~~~~ll~~~~~~~~-----~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  221 (572)
                      +......++..+.....     .+-......+-.+.|-  .-++.....+...|.+.|++.+|+..|-.-...|...+..
T Consensus        91 ~~~~~~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~  170 (312)
T 2wpv_A           91 DDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVD  170 (312)
T ss_dssp             SHHHHHHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHH
Confidence            88888888877765332     1222333333333332  2356777888888999999999888776332224444544


Q ss_pred             HHHHHHcc---CCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHH
Q 046221          222 MMGLFVDF---EYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVL  279 (572)
Q Consensus       222 li~~~~~~---~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  279 (572)
                      ++--+...   |...++--++-+               .+-.+.-.++...|..+++...+
T Consensus       171 ~l~~w~~~~~~~~~~e~dlf~~R---------------aVL~yL~l~n~~~A~~~~~~f~~  216 (312)
T 2wpv_A          171 LLWDWLCQVDDIEDSTVAEFFSR---------------LVFNYLFISNISFAHESKDIFLE  216 (312)
T ss_dssp             HHHHHHHHTTCCCHHHHHHHHHH---------------HHHHHHHTTBHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCcchHHHHHHH---------------HHHHHHHhcCHHHHHHHHHHHHH
Confidence            44433333   333332221111               12234456788888888776653

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.02  E-value=8.5  Score=36.55  Aligned_cols=188  Identities=10%  Similarity=0.059  Sum_probs=109.1

Q ss_pred             CChHHHHHHHHHHHhcC----CCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHH----HhhhcC
Q 046221          331 GCAREALNQFIKMRQEK----TDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLIS----SYSKCG  402 (572)
Q Consensus       331 ~~~~~a~~~~~~~~~~~----~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~----~~~~~g  402 (572)
                      |+++.|++.+..+.+..    ...........++..|...++++...+.+..+.+..-.. ......+++    .+....
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql-k~ai~~~V~~~~~~l~~~~  108 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL-KLSIQYMIQKVMEYLKSSK  108 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS-HHHHHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHhcCC
Confidence            67888888776665332    234445667778888888888888877776655432222 111222332    222233


Q ss_pred             Ch--HHHHHHHHHc-CCCC--------CHhHHHHHHHHHHhcCChHHHHHHHHHHHhc--CCCCC---HHHHHHHHHHHh
Q 046221          403 NV--DLAYIVFEEM-GFLR--------DVVSWNTIIYGYGVNGHGETALALYHKMTET--GEVPD---SSTYLSILNACG  466 (572)
Q Consensus       403 ~~--~~A~~~~~~~-~~~~--------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--g~~p~---~~~~~~l~~~~~  466 (572)
                      ..  +.-..+.+.. .+..        .......|...|...|++.+|..++..+...  |..+.   ...+..-++.|.
T Consensus       109 ~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l  188 (445)
T 4b4t_P          109 SLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSI  188 (445)
T ss_dssp             TTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence            22  2233333333 1111        1122345677788888888888888887643  22221   234556667788


Q ss_pred             ccCChHHHHHHHHHhHHh---cCCCCCh--hHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          467 HAGLTNDGLVIFNQMIEE---NKVKPSQ--EHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       467 ~~g~~~~a~~~~~~~~~~---~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ..+++.+|..+++++...   ...+|+.  ..+...+..+...+++.+|.+.|..+..
T Consensus       189 ~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          189 LKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            888888888888876321   1112221  2456667777778888888877776654

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.96  E-value=0.8  Score=35.95  Aligned_cols=113  Identities=11%  Similarity=0.039  Sum_probs=59.5

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcC-CCCCH-------HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHH-HHH
Q 046221          427 IYGYGVNGHGETALALYHKMTETG-EVPDS-------STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHY-GCV  497 (572)
Q Consensus       427 ~~~~~~~~~~~~A~~~~~~~~~~g-~~p~~-------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~~l  497 (572)
                      +..+...+.++.|+-+.+.+.... ..|+.       .++..+.+++...|++.+|...|+++++....-+....- ..+
T Consensus        27 ik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~~~  106 (167)
T 3ffl_A           27 VRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRPST  106 (167)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC----------
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccccc
Confidence            556667777777777766654321 22331       355666777777888888888888776544322222111 111


Q ss_pred             HHHHHhhCChhHHHHHHHhccCCCChHHHHHHHHHHhhhcCCHHHHHHHHHHH
Q 046221          498 VDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVGRFQDAEALRSGS  550 (572)
Q Consensus       498 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m  550 (572)
                      .   .......       . ...+...-..-.+..|....|++++|+.+++.+
T Consensus       107 ~---~~ss~p~-------s-~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A          107 G---NSASTPQ-------S-QCLPSEIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             ---------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             c---ccCCCcc-------c-ccccchHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence            0   0000000       0 001122233445777777779999999998874

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=91.66  E-value=0.94  Score=33.80  Aligned_cols=66  Identities=5%  Similarity=-0.006  Sum_probs=41.5

Q ss_pred             CCHhHHHHHHHHHHhcCChHH---HHHHHHHHHhcCCCC--CHHHHHHHHHHHhccCChHHHHHHHHHhHHh
Q 046221          418 RDVVSWNTIIYGYGVNGHGET---ALALYHKMTETGEVP--DSSTYLSILNACGHAGLTNDGLVIFNQMIEE  484 (572)
Q Consensus       418 ~~~~~~~~l~~~~~~~~~~~~---A~~~~~~~~~~g~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  484 (572)
                      ++..+--.+..++.+.++...   ++.+++++...+ .|  .....-.|.-++.+.|++++|.+.++.+++.
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~  103 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQT  103 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            555555556666666665544   677777766642 23  2244455556777788888888887777754

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=91.36  E-value=2.5  Score=42.87  Aligned_cols=51  Identities=20%  Similarity=0.107  Sum_probs=36.9

Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHh
Q 046221          429 GYGVNGHGETALALYHKMTETGEVPD-SSTYLSILNACGHAGLTNDGLVIFNQM  481 (572)
Q Consensus       429 ~~~~~~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~  481 (572)
                      .+...|+++.|+.+-++...  ..|+ -.+|..|..+|...|+++.|+-.++.+
T Consensus       346 FLl~K~~~elAL~~Ak~AV~--~aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          346 FLLNRGDYELALGVSNTSTE--LALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHhccCcHHHHHHHHHHHHh--cCchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            35567777888887777777  4564 477778888888888888877777655

>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=91.23  E-value=2  Score=40.05  Aligned_cols=68  Identities=12%  Similarity=0.141  Sum_probs=38.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHH----hcCCCCChhH
Q 046221          424 NTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIE----ENKVKPSQEH  493 (572)
Q Consensus       424 ~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~~~  493 (572)
                      ..++..+...|++++|...+..+...  .| +...+..++.++.+.|+..+|++.|+.+.+    ..|+.|+..+
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~--~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFE--HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            33445555566666666666665552  33 455666666666666666666666655422    2355565544

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=90.39  E-value=9.6  Score=34.16  Aligned_cols=130  Identities=13%  Similarity=0.120  Sum_probs=75.5

Q ss_pred             HhHHHHHHHhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHH----HHHHhCCCCCCccchHHHHHHhcc
Q 046221          188 NNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIF----REMRKSRIICDTVALLNLISVNAI  263 (572)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~----~~m~~~~~~p~~~~~~~ll~~~~~  263 (572)
                      |.++..-|.+.+++++|++++..-           ...+.+.|+...+-++.    +-..+.++++|..+...++..+..
T Consensus        38 ~RTi~~Ry~~~k~y~eAidLL~~G-----------A~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~  106 (336)
T 3lpz_A           38 TRLVAARYSKQGNWAAAVDILASV-----------SQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRL  106 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence            334455577777777777765442           34455556665554443    455566778888777777777665


Q ss_pred             cCCh-HHHHHHHHHHHH----hC--CCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHH
Q 046221          264 LGDL-KRGKQLHAQVVL----GG--LQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYV  328 (572)
Q Consensus       264 ~~~~-~~a~~~~~~~~~----~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~  328 (572)
                      ...- ..-..+.+.+++    .|  ..-|+.....+...|.+.+++.+|+..|-.-.+++...+..++.-+.
T Consensus       107 ~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~  178 (336)
T 3lpz_A          107 FQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWY  178 (336)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHH
T ss_pred             CCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHH
Confidence            5431 122333333333    23  23456677788888888899888888875322222345544443333

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=90.13  E-value=1.3  Score=44.80  Aligned_cols=52  Identities=13%  Similarity=-0.091  Sum_probs=39.0

Q ss_pred             HhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhcc
Q 046221          465 CGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       465 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                      |...|+++-|+++-++++...  |-+..+|..|..+|...|+++.|+-.++.+.
T Consensus       347 Ll~K~~~elAL~~Ak~AV~~a--PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          347 LLNRGDYELALGVSNTSTELA--LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HhccCcHHHHHHHHHHHHhcC--chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            556778888888888776543  4456688888888888888888888888775

>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=90.06  E-value=16  Score=36.27  Aligned_cols=310  Identities=8%  Similarity=-0.046  Sum_probs=161.7

Q ss_pred             HHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhc-CCCChhHHhHHHHHHHhCCCHHH
Q 046221          125 FINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLG-LILDVSVNNSVLDMYSCLMDLDA  203 (572)
Q Consensus       125 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~  203 (572)
                      ..+.|++..+..+...+...-+. .-..|..+..... .....++...++   +.. .+.....-+..+..+.+.+++..
T Consensus        16 a~~~~~~~~~~~l~~~l~~~pL~-~yl~y~~l~~~l~-~~~~~ev~~Fl~---~~~~~p~~~~Lr~~~l~~l~~~~~w~~   90 (618)
T 1qsa_A           16 AWDNRQMDVVEQMMPGLKDYPLY-PYLEYRQITDDLM-NQPAVTVTNFVR---ANPTLPPARTLQSRFVNELARREDWRG   90 (618)
T ss_dssp             HHHTTCHHHHHHHSGGGTTSTTH-HHHHHHHHHHTGG-GCCHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHCCCHHHHHHHHHhhcCCCcH-HHHHHHHHHhCcc-cCCHHHHHHHHH---HCCCChhHHHHHHHHHHHHHhCCCHHH
Confidence            34568888877777666443222 2224444333321 223443333333   321 12222344555677888889998


Q ss_pred             HHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHH--HHHHHHHHHHhC
Q 046221          204 AIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKR--GKQLHAQVVLGG  281 (572)
Q Consensus       204 a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~--a~~~~~~~~~~~  281 (572)
                      ...++.. ...+...-.....+....|+..+|......+-..| ...+.....++..+...|.+..  ...=++.+...+
T Consensus        91 ~l~~~~~-~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~-~~~p~~c~~l~~~~~~~g~lt~~~~~~R~~~al~~~  168 (618)
T 1qsa_A           91 LLAFSPE-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG-KSQPNACDKLFSVWRASGKQDPLAYLERIRLAMKAG  168 (618)
T ss_dssp             HHHHCCS-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS-SCCCTHHHHHHHHHHHTTCSCHHHHHHHHHHHHHTT
T ss_pred             HHHhccC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCC-CCCcHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCC
Confidence            8887776 33455555667778888899888888888877665 3445666777777765554432  222222222222


Q ss_pred             -----------CCCCcc-hHHHHHHHHHhcCChhHHHHHHhccCCCCcc---hHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 046221          282 -----------LQSELR-LSNSIIAMYSKCGDLDSSRSVFNQITEKSLV---SWTAIISGYVQNGCAREALNQFIKMRQE  346 (572)
Q Consensus       282 -----------~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~  346 (572)
                                 ++++.. ....++..+   .+...+....... .++..   .+...+.-+.+ .+.+.|...+......
T Consensus       169 ~~~~a~~l~~~l~~~~~~~a~~~~al~---~~p~~~~~~~~~~-~~~~~~~~~~~~~~~rlar-~d~~~A~~~~~~~~~~  243 (618)
T 1qsa_A          169 NTGLVTVLAGQMPADYQTIASAIISLA---NNPNTVLTFARTT-GATDFTRQMAAVAFASVAR-QDAENARLMIPSLAQA  243 (618)
T ss_dssp             CHHHHHHHHHTCCGGGHHHHHHHHHHH---HCGGGHHHHHHHS-CCCHHHHHHHHHHHHHHHH-HCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHhCCHHHHHHHHHHHHHH---hChHhHHHHHhcc-CCChhhHHHHHHHHHHHHh-cCHHHHHHHHHhhhhc
Confidence                       111111 111111111   1222222222221 11111   11112223333 3778999999888633


Q ss_pred             CCCCCCHh--HHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHcCCCC-C-HhH
Q 046221          347 KTDSVDSI--TLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEMGFLR-D-VVS  422 (572)
Q Consensus       347 ~~~~~~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~-~~~  422 (572)
                      ....+...  ....+.......+....+...+......  ..+.....-.+....+.|+++.|...|+.|...+ + ...
T Consensus       244 ~~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~e~~~r~Alr~~d~~~a~~~~~~l~~~~~~~~r~  321 (618)
T 1qsa_A          244 QQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR--SQSTSLIERRVRMALGTGDRRGLNTWLARLPMEAKEKDEW  321 (618)
T ss_dssp             TTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT--CCCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTGGGSHHH
T ss_pred             cCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc--CCChHHHHHHHHHHHHCCCHHHHHHHHHHccccccccHhH
Confidence            33322222  2222333444445355666666654432  2333334444445557799999999999994332 2 221


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHh
Q 046221          423 WNTIIYGYGVNGHGETALALYHKMTE  448 (572)
Q Consensus       423 ~~~l~~~~~~~~~~~~A~~~~~~~~~  448 (572)
                      .-=+..++...|+.++|..+|..+..
T Consensus       322 ~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          322 RYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            22244566778999999999988865

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=89.02  E-value=12  Score=33.47  Aligned_cols=168  Identities=11%  Similarity=-0.010  Sum_probs=95.9

Q ss_pred             hHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHH----HHHHhCCCCC
Q 046221           73 TMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLF----NFFRGSGLVP  148 (572)
Q Consensus        73 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~----~~m~~~~~~p  148 (572)
                      +|.++..-|.+.+++++|..++-.-                        ...+.+.|+...|-++-    +-+.+.++++
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~G------------------------A~~ll~~~Q~~sg~DL~~llvevy~~~~~~~   92 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILASV------------------------SQTLLRSGQGGSGGDLAVLLVDTFRQAGQRV   92 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH------------------------HHHHHHTTCHHHHHHHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHH------------------------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCC
Confidence            4555666677889999988874332                        23455667776665543    5566678889


Q ss_pred             CHhhHHHHHHHHhccCChH-HHHHHHHHHH----Hhc--CCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCcccHHH
Q 046221          149 NAVTMLTVIRGCVALGSRA-LCELIHGLTI----KLG--LILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTR  221 (572)
Q Consensus       149 ~~~~~~~ll~~~~~~~~~~-~a~~~~~~~~----~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  221 (572)
                      |..+...++..+.....-+ .-..+.+.++    +.|  ..-|+.....+...|.+.+++.+|+..|-.-..+++..+..
T Consensus        93 ~~~~~~rL~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~  172 (336)
T 3lpz_A           93 DGASRGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLAR  172 (336)
T ss_dssp             CHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHH
Confidence            9888888888877655321 1223333333    334  23455666777888888889888888774322222345544


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHH
Q 046221          222 MMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVL  279 (572)
Q Consensus       222 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  279 (572)
                      ++.-+...+...++-              .+. ...+-.|.-.+++..|..+++...+
T Consensus       173 mL~ew~~~~~~~e~d--------------lfi-aRaVL~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          173 MEYEWYKQDESHTAP--------------LYC-ARAVLPYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             HHHHHHHTSCGGGHH--------------HHH-HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCccHH--------------HHH-HHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            443333332221111              111 1222234456677777777666553

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=88.87  E-value=6  Score=29.68  Aligned_cols=78  Identities=14%  Similarity=0.019  Sum_probs=53.8

Q ss_pred             CCCCHHHHHHHHHHHhccCCh---HHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHH
Q 046221          451 EVPDSSTYLSILNACGHAGLT---NDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIW  526 (572)
Q Consensus       451 ~~p~~~~~~~l~~~~~~~g~~---~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~  526 (572)
                      -.|+..|-..+..++.++.+.   .+++.++++..+.. -.-....+.-|.-++.+.|++++|.++.+.+.+ .|+..--
T Consensus        36 ~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~-~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~QA  114 (134)
T 3o48_A           36 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  114 (134)
T ss_dssp             GGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHHH
T ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-cchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHHH
Confidence            356776766677777776654   46788888887543 111345666777788899999999999998887 6665544


Q ss_pred             HHH
Q 046221          527 RAL  529 (572)
Q Consensus       527 ~~l  529 (572)
                      ..|
T Consensus       115 ~~L  117 (134)
T 3o48_A          115 GAL  117 (134)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            444

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=88.75  E-value=5  Score=43.62  Aligned_cols=147  Identities=12%  Similarity=0.035  Sum_probs=90.9

Q ss_pred             hhHHHHHhhcCChhhHHHHhccCCCCChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCC------------------
Q 046221            9 SKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPN------------------   70 (572)
Q Consensus         9 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~------------------   70 (572)
                      ..++..+.+.|..+-|.++...++. ++..--.+..++...|++++|.+.|++.-. |+..+                  
T Consensus       816 ~~l~~~l~~~~~~~~~~~l~~~~~~-~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~~~  893 (1139)
T 4fhn_B          816 TELVEKLFLFKQYNACMQLIGWLNS-DPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEKYH  893 (1139)
T ss_dssp             HHHHHHHHHHSCTTHHHHHHHHSCC-CHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHTTT
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhccC-CcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhccccccccccc
Confidence            3466777788888888887776665 444445566778899999999999977421 11111                  


Q ss_pred             -----cchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCC--ceeHHHHHHHHHhCCChHHHHHHHHHHHh
Q 046221           71 -----SFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPY--LVSCNAIVAGFINNKLFQQAVLLFNFFRG  143 (572)
Q Consensus        71 -----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  143 (572)
                           ..-|..++..+-+.+.++.+.++-...++.....+       ++  ...|..+.+.+...|++++|...+-.+..
T Consensus       894 ~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~-------~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd  966 (1139)
T 4fhn_B          894 HQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDD-------EDLSIAITHETLKTACAAGKFDAAHVALMVLST  966 (1139)
T ss_dssp             SCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCC-------HHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCC-------hhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCC
Confidence                 01245666666677777777777666665433211       11  12567777777777888877777766665


Q ss_pred             CCCCCCHhhHHHHHHHHhccCCh
Q 046221          144 SGLVPNAVTMLTVIRGCVALGSR  166 (572)
Q Consensus       144 ~~~~p~~~~~~~ll~~~~~~~~~  166 (572)
                      ...+  ......++..++..|..
T Consensus       967 ~~~r--~~cLr~LV~~lce~~~~  987 (1139)
T 4fhn_B          967 TPLK--KSCLLDFVNQLTKQGKI  987 (1139)
T ss_dssp             SSSC--HHHHHHHHHHHHHHCCH
T ss_pred             HHHH--HHHHHHHHHHHHhCCCh
Confidence            4322  33444555555544443

>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=88.61  E-value=3.6  Score=38.30  Aligned_cols=57  Identities=12%  Similarity=0.038  Sum_probs=35.4

Q ss_pred             HHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhcc
Q 046221          460 SILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       460 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                      .++.++...|++++|+..++.++...  +.+...+..++.+|.+.|+..+|.+.|++..
T Consensus       176 ~~~~~~l~~g~~~~a~~~l~~~~~~~--P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r  232 (388)
T 2ff4_A          176 AKAEAEIACGRASAVIAELEALTFEH--PYREPLWTQLITAYYLSDRQSDALGAYRRVK  232 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44555566666666666666665444  4455566666666666666666666666543

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=87.02  E-value=21  Score=33.84  Aligned_cols=150  Identities=13%  Similarity=0.052  Sum_probs=71.6

Q ss_pred             cCCHHHHHHHHHHHHhC-----CCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHH----HHHhc
Q 046221          229 FEYAGDALKIFREMRKS-----RIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIA----MYSKC  299 (572)
Q Consensus       229 ~~~~~~a~~~~~~m~~~-----~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~----~~~~~  299 (572)
                      .|+++.|++.+..+.+.     +..........++..|...++++.....+..+.+..-.. ......+++    .....
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql-k~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL-KLSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS-HHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHhcC
Confidence            36788888777666543     122233445667777788888887776665554322111 111122222    22222


Q ss_pred             CChh--HHHHHHhccCC---CCcc-------hHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCH----hHHHHHHHHh
Q 046221          300 GDLD--SSRSVFNQITE---KSLV-------SWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDS----ITLVSILTAS  363 (572)
Q Consensus       300 ~~~~--~a~~~~~~~~~---~~~~-------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~ll~~~  363 (572)
                      ...+  .-..+.+.+..   .-+.       ....|...+...|++.+|.+++..+..+.....+.    ..+...+..|
T Consensus       108 ~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            2222  12222222221   1111       12345566677777777777777765332221111    1333344444


Q ss_pred             cccccHHHHHHHHHHH
Q 046221          364 GELAALEICLQLHGIA  379 (572)
Q Consensus       364 ~~~~~~~~a~~~~~~~  379 (572)
                      ...+++..|..++..+
T Consensus       188 l~~~d~~~a~~~~~ki  203 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKI  203 (445)
T ss_dssp             HHHTCHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHH
Confidence            4555555555554443

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=85.82  E-value=9.9  Score=28.94  Aligned_cols=77  Identities=14%  Similarity=0.021  Sum_probs=51.8

Q ss_pred             CCCHHHHHHHHHHHhccCCh---HHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHHH
Q 046221          452 VPDSSTYLSILNACGHAGLT---NDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWR  527 (572)
Q Consensus       452 ~p~~~~~~~l~~~~~~~g~~---~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~  527 (572)
                      .|+..+-..+..++.++.+.   .+++.++++..+.. -.-......-|.-++.+.|++++|.++.+.+.+ .|+...-.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~-~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~QA~  114 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVG  114 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHC-CSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-ccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHH
Confidence            56776766777777776654   46777888887543 112344556677788889999999988888877 66554433


Q ss_pred             HH
Q 046221          528 AL  529 (572)
Q Consensus       528 ~l  529 (572)
                      .|
T Consensus       115 ~L  116 (144)
T 1y8m_A          115 AL  116 (144)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=85.39  E-value=6.1  Score=33.95  Aligned_cols=115  Identities=16%  Similarity=0.030  Sum_probs=74.8

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChh----HHHHHHHHHH
Q 046221          428 YGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQE----HYGCVVDLLA  502 (572)
Q Consensus       428 ~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~----~~~~l~~~~~  502 (572)
                      ....+.|+++.|+.....-++.  .| |...-..|+..+|-.|++++|.+-++...+.   .|+..    .|..+|.+- 
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~--~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l---~p~~~~~a~~yr~lI~aE-   78 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAA-   78 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHH-
T ss_pred             HHHHhCCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh---CchhhHHHHHHHHHHHHH-
Confidence            4567889999999998888875  45 7788888999999999999999999887643   45544    334443321 


Q ss_pred             hhCChhHHH-HHHHhccC---CCChHHHH-HHHHHHhh-hcCCHHHHHHHHHHHHhCC
Q 046221          503 RAGCLSDAS-GLAGKLLE---GMGPNIWR-ALLSGCVL-HVGRFQDAEALRSGSQKKG  554 (572)
Q Consensus       503 ~~g~~~~A~-~~~~~~~~---~~~~~~~~-~l~~~~~~-~~g~~~~A~~~~~~m~~~~  554 (572)
                            ... ++|.--..   .-.+..|. .++.+... ..|+.++|.++..+..+..
T Consensus        79 ------~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~a  130 (273)
T 1zbp_A           79 ------QARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  130 (273)
T ss_dssp             ------HHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             ------HHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC
Confidence                  111 22222111   12223344 34444332 2599999999999997664

>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=85.33  E-value=31  Score=34.25  Aligned_cols=115  Identities=10%  Similarity=-0.038  Sum_probs=70.1

Q ss_pred             CChHHHHHHHHHHHhcC-CCCCH--HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHH
Q 046221          434 GHGETALALYHKMTETG-EVPDS--STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDA  510 (572)
Q Consensus       434 ~~~~~A~~~~~~~~~~g-~~p~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  510 (572)
                      .+.+.|...+....+.+ +.+..  .....+.......+...++...+..... .  .++.....-.+....+.|+++.|
T Consensus       228 ~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~-~--~~~~~~~e~~~r~Alr~~d~~~a  304 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIM-R--SQSTSLIERRVRMALGTGDRRGL  304 (618)
T ss_dssp             HCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHH-T--CCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cCHHHHHHHHHhhhhccCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccc-c--CCChHHHHHHHHHHHHCCCHHHH
Confidence            47889999998886543 22222  2333444445555645566777766532 2  24444444455555678999999


Q ss_pred             HHHHHhccCCC-C-hHHHHHHHHHHhhhcCCHHHHHHHHHHHHh
Q 046221          511 SGLAGKLLEGM-G-PNIWRALLSGCVLHVGRFQDAEALRSGSQK  552 (572)
Q Consensus       511 ~~~~~~~~~~~-~-~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~  552 (572)
                      ...|+.|...+ + ..-..-+..+.... |+.++|..+|+++.+
T Consensus       305 ~~~~~~l~~~~~~~~r~~YW~~ra~~~~-g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          305 NTWLARLPMEAKEKDEWRYWQADLLLER-GREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHSCTTGGGSHHHHHHHHHHHHHT-TCHHHHHHHHHHHHT
T ss_pred             HHHHHHccccccccHhHHHHHHHHHHHc-CCHHHHHHHHHHHhc
Confidence            99999997632 2 22222333444444 999999999888753

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=85.22  E-value=5.5  Score=29.88  Aligned_cols=67  Identities=9%  Similarity=0.013  Sum_probs=27.4

Q ss_pred             CCCCCHhHHHHHHHHhcccc---cHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc
Q 046221          348 TDSVDSITLVSILTASGELA---ALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM  414 (572)
Q Consensus       348 ~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  414 (572)
                      +..|+..+-.....++.+..   +...++.+++.+.+.+..-.....-.+.-++.+.|+++.|.+..+.+
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~l  104 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTL  104 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            33444444444443333332   33344555555444331111222223334444455555555544444

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=84.98  E-value=17  Score=34.36  Aligned_cols=95  Identities=9%  Similarity=-0.111  Sum_probs=54.2

Q ss_pred             HHHHHHHhhhcCChHHHHHHHHHc-----CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhc---CCCCCHHH--HHH
Q 046221          391 QNCLISSYSKCGNVDLAYIVFEEM-----GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTET---GEVPDSST--YLS  460 (572)
Q Consensus       391 ~~~l~~~~~~~g~~~~A~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---g~~p~~~~--~~~  460 (572)
                      ...+...|.+.|+++.|.+.+.++     +...-...+-..+..+...+++..+...+.++...   +-.|+...  ...
T Consensus       134 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~~  213 (429)
T 4b4t_R          134 WINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKTY  213 (429)
T ss_dssp             CHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHHH
Confidence            344666677777777777777766     22233455566666777777777777777665432   22222211  111


Q ss_pred             HHHHHhccCChHHHHHHHHHhHHhc
Q 046221          461 ILNACGHAGLTNDGLVIFNQMIEEN  485 (572)
Q Consensus       461 l~~~~~~~g~~~~a~~~~~~~~~~~  485 (572)
                      -+..+...+++.+|...|-++....
T Consensus       214 ~gl~~l~~r~f~~Aa~~f~e~~~t~  238 (429)
T 4b4t_R          214 YGIHCLAVRNFKEAAKLLVDSLATF  238 (429)
T ss_dssp             HHHGGGGTSCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHhChHHHHHHHHHHHhccC
Confidence            2223456677777777777665443

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=81.52  E-value=16  Score=27.89  Aligned_cols=73  Identities=8%  Similarity=0.083  Sum_probs=46.9

Q ss_pred             CCCHhHHHHHHHHHHhcCCh---HHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChh
Q 046221          417 LRDVVSWNTIIYGYGVNGHG---ETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQE  492 (572)
Q Consensus       417 ~~~~~~~~~l~~~~~~~~~~---~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  492 (572)
                      .|+..+--.+..++.++.+.   .+++.+++++...+-.-.....-.|.-++.+.|++++|.++.+.+++.   .|+..
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~---eP~n~  111 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH---ERNNK  111 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT---CCCCH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc---CCCcH
Confidence            35655555556666666543   467778888777431112245556666788888888888888888753   45543

>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=81.18  E-value=12  Score=26.40  Aligned_cols=63  Identities=17%  Similarity=0.094  Sum_probs=48.3

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHH
Q 046221          130 LFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLD  193 (572)
Q Consensus       130 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  193 (572)
                      |.-+..+-++.+....+.|+.......+++|.+.+++..|..+++-+...- .+...+|..++.
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHH
Confidence            444666777778788889999999999999999999999999998877653 333455666554

>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=80.57  E-value=36  Score=31.48  Aligned_cols=59  Identities=17%  Similarity=0.013  Sum_probs=29.1

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCCCCCH----hHHHHHHHHhcccccHHHHHHHHHHHH
Q 046221          322 AIISGYVQNGCAREALNQFIKMRQEKTDSVDS----ITLVSILTASGELAALEICLQLHGIAF  380 (572)
Q Consensus       322 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~  380 (572)
                      .++..|...|++.+|.+++.++.+.-....|.    ..+..-+..|...++..++...+....
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~  166 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSAR  166 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            35566666666666666666665322111111    123333344555555555555554443

---

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	572
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.9
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.89
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.54
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.5
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.11
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.11
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.06
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.05
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.99
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.98
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.94
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.8
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.78
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.73
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.7
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.6
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.57
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.56
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.54
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.53
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.44
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.44
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.42
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.39
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.35
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.3
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.27
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.2
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.18
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.1
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.08
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.07
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.05
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.03
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.0
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.99
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.97
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.93
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.93
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.85
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.84
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.83
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.74
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.69
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.64
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.61
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.61
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.38
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.34
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.22
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.2
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.17
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.08
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.79
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.12
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.02
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	94.49
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.45
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	93.05
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	92.38
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	89.17
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	83.34
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	80.92

>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=99.90  E-value=1.7e-20  Score=177.86  Aligned_cols=371  Identities=11%  Similarity=0.060  Sum_probs=213.2

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCC
Q 046221          121 IVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMD  200 (572)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  200 (572)
                      +...+.+.|++++|.+.++++.+.. +-+...+..+...+.+.|++++|...++..++.. +.+..++..+..+|.+.|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcc
Confidence            3456677888888888888887753 2245677777778888888888888888887764 4456677777777888888


Q ss_pred             HHHHHHHHhhcCC---CCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHH
Q 046221          201 LDAAIQIFREMEC---KDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQV  277 (572)
Q Consensus       201 ~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  277 (572)
                      +++|...+.....   .+...+..........+....+........... .................+....+...+...
T Consensus        83 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHHHHHh
Confidence            8888777776654   222333333344444444444444444443332 222233333334444445555555555554


Q ss_pred             HHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHh
Q 046221          278 VLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE---KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSI  354 (572)
Q Consensus       278 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  354 (572)
                      .... +.+...+..+...+...|++++|...++...+   .+..+|..+...+...|++++|+..+++.           
T Consensus       162 ~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~-----------  229 (388)
T d1w3ba_         162 IETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRA-----------  229 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHH-----------
T ss_pred             hccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHh-----------
Confidence            4433 22333444455555555555555555554331   12234444455555555555555555544           


Q ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCC-CHhHHHHHHHHHHh
Q 046221          355 TLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLR-DVVSWNTIIYGYGV  432 (572)
Q Consensus       355 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~  432 (572)
                                               .... +.+...+..+...+.+.|++++|...|++. ...| +..+|..+...+..
T Consensus       230 -------------------------~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  283 (388)
T d1w3ba_         230 -------------------------LSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKE  283 (388)
T ss_dssp             -------------------------HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHH
T ss_pred             -------------------------HHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence                                     3332 233444455556666666666666666665 2223 35556666666666


Q ss_pred             cCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHH
Q 046221          433 NGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASG  512 (572)
Q Consensus       433 ~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  512 (572)
                      .|++++|+..++..... .+.+...+..+...+...|++++|+..++++++..  |-+..++..+..+|.+.|++++|.+
T Consensus       284 ~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~  360 (388)
T d1w3ba_         284 KGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALM  360 (388)
T ss_dssp             HSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC--TTCHHHHHHHHHHHHTTTCCHHHHH
T ss_pred             cCCHHHHHHHHHhhhcc-CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            66666666666666653 23344666666666666667777777666665322  2334456666666666777777777


Q ss_pred             HHHhccC-CC-ChHHHHHHHHHHhh
Q 046221          513 LAGKLLE-GM-GPNIWRALLSGCVL  535 (572)
Q Consensus       513 ~~~~~~~-~~-~~~~~~~l~~~~~~  535 (572)
                      .++++.+ .| ++..|..+...+..
T Consensus       361 ~~~~al~l~P~~~~a~~~lg~~~~~  385 (388)
T d1w3ba_         361 HYKEAIRISPTFADAYSNMGNTLKE  385 (388)
T ss_dssp             HHHHHHTTCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            7766665 33 34456555555543

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=8e-20  Score=173.15  Aligned_cols=353  Identities=12%  Similarity=0.046  Sum_probs=243.5

Q ss_pred             HHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCC--C-CcccHHHHHHHHHccCCHHH
Q 046221          158 RGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMEC--K-DVISWTRMMGLFVDFEYAGD  234 (572)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~  234 (572)
                      ..+.+.|++++|.+.++++++.. +-+...+..+..+|.+.|++++|...|++..+  | +..+|..+...+...|++++
T Consensus         7 ~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~~   85 (388)
T d1w3ba_           7 HREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccccc
Confidence            34556677777777777777653 33456666666677777777777777766543  2 34556666666666666666


Q ss_pred             HHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccC-
Q 046221          235 ALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQIT-  313 (572)
Q Consensus       235 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-  313 (572)
                      |...+....+... .+....                                   ..........+....+........ 
T Consensus        86 A~~~~~~~~~~~~-~~~~~~-----------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~  129 (388)
T d1w3ba_          86 AIEHYRHALRLKP-DFIDGY-----------------------------------INLAAALVAAGDMEGAVQAYVSALQ  129 (388)
T ss_dssp             HHHHHHHHHHHCT-TCHHHH-----------------------------------HHHHHHHHHHSCSSHHHHHHHHHHH
T ss_pred             ccccccccccccc-cccccc-----------------------------------ccccccccccccccccccccccccc
Confidence            6666666655421 111111                                   112222222222222222222111 


Q ss_pred             --CCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHH
Q 046221          314 --EKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQ  391 (572)
Q Consensus       314 --~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  391 (572)
                        .................+....+...+......  .+.+...+..+...+...++.+.|...++...+.. +.+...+
T Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~  206 (388)
T d1w3ba_         130 YNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIET--QPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAY  206 (388)
T ss_dssp             HCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             cccccccccccccccccccchhhhhHHHHHHhhcc--CcchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHH
Confidence              122233334444455555666666666655422  23344566666667777777788877777776654 4456778


Q ss_pred             HHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhcc
Q 046221          392 NCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHA  468 (572)
Q Consensus       392 ~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~  468 (572)
                      ..+...+...|++++|...+++.  ..+.+...+..+...+.+.|++++|+..|++..+  +.| +..++..+...+...
T Consensus       207 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~  284 (388)
T d1w3ba_         207 INLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEK  284 (388)
T ss_dssp             HHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TCSSCHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHc
Confidence            88999999999999999999988  2335677788899999999999999999999998  466 458899999999999


Q ss_pred             CChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CC-ChHHHHHHHHHHhhhcCCHHHHHHH
Q 046221          469 GLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GM-GPNIWRALLSGCVLHVGRFQDAEAL  546 (572)
Q Consensus       469 g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~~~~~~g~~~~A~~~  546 (572)
                      |++++|++.++.+.+..  +.+...+..+..++.+.|++++|.+.++++.+ .| ++.+|..+...+... |++++|...
T Consensus       285 ~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~-g~~~~A~~~  361 (388)
T d1w3ba_         285 GSVAEAEDCYNTALRLC--PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQ-GKLQEALMH  361 (388)
T ss_dssp             SCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTT-TCCHHHHHH
T ss_pred             CCHHHHHHHHHhhhccC--CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc-CCHHHHHHH
Confidence            99999999999997654  66778899999999999999999999999887 44 456677777777776 999999999


Q ss_pred             HHHHHhCCC
Q 046221          547 RSGSQKKGI  555 (572)
Q Consensus       547 ~~~m~~~~~  555 (572)
                      +++..+..+
T Consensus       362 ~~~al~l~P  370 (388)
T d1w3ba_         362 YKEAIRISP  370 (388)
T ss_dssp             HHHHHTTCT
T ss_pred             HHHHHHhCC
Confidence            999887643

>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=99.54  E-value=9.6e-13  Score=120.30  Aligned_cols=116  Identities=9%  Similarity=-0.034  Sum_probs=75.5

Q ss_pred             hcCChHHHHHHHHHc----CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHH
Q 046221          400 KCGNVDLAYIVFEEM----GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDG  474 (572)
Q Consensus       400 ~~g~~~~A~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a  474 (572)
                      ..+.+.+|...+.+.    +..++...+..+...+...|++++|+..|++....  .| +..+|..+..++...|++++|
T Consensus       148 ~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A  225 (323)
T d1fcha_         148 SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEA  225 (323)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccccchhH
Confidence            334455555555554    23344556666667777777777777777777663  34 346677777777777777777


Q ss_pred             HHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          475 LVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       475 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ++.|+++++..  +-+...+..++.+|.+.|++++|++.|+++.+
T Consensus       226 ~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         226 VAAYRRALELQ--PGYIRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh--hccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            77777776543  23445677777777777777777777777654

>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=99.50  E-value=3.3e-12  Score=116.69  Aligned_cols=223  Identities=12%  Similarity=0.017  Sum_probs=141.7

Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChH
Q 046221          326 GYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVD  405 (572)
Q Consensus       326 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  405 (572)
                      .+.+.|++++|+..|+++.+.  .+-+..++..+..++...|+++.|...+.+..+.. +-+...+..+..+|...|+++
T Consensus        28 ~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~  104 (323)
T d1fcha_          28 RRLQEGDLPNAVLLFEAAVQQ--DPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQR  104 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccccc
Confidence            344444444444444444311  12223344444444444444444444444444432 233444455555555666666


Q ss_pred             HHHHHHHHc-CCCCCH----------------hHHHHHHHHHHhcCChHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHhc
Q 046221          406 LAYIVFEEM-GFLRDV----------------VSWNTIIYGYGVNGHGETALALYHKMTETGE-VPDSSTYLSILNACGH  467 (572)
Q Consensus       406 ~A~~~~~~~-~~~~~~----------------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~-~p~~~~~~~l~~~~~~  467 (572)
                      +|.+.+++. ...|+.                ......+..+...+...+|...+.+..+..- .++...+..+...+..
T Consensus       105 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~  184 (323)
T d1fcha_         105 QACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNL  184 (323)
T ss_dssp             HHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHH
T ss_pred             ccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHH
Confidence            666655554 111110                0111122233445667888999988877421 2346778888899999


Q ss_pred             cCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-C-CChHHHHHHHHHHhhhcCCHHHHHH
Q 046221          468 AGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-G-MGPNIWRALLSGCVLHVGRFQDAEA  545 (572)
Q Consensus       468 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-~~~~~~~~l~~~~~~~~g~~~~A~~  545 (572)
                      .|++++|+..++++++..  +-+...|..++.+|.+.|++++|.+.++++.+ . .++.+|..+...+... |++++|+.
T Consensus       185 ~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~-g~~~~A~~  261 (323)
T d1fcha_         185 SGEYDKAVDCFTAALSVR--PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINL-GAHREAVE  261 (323)
T ss_dssp             TTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH-TCHHHHHH
T ss_pred             HHHHhhhhcccccccccc--cccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHHC-CCHHHHHH
Confidence            999999999999998654  44577899999999999999999999999887 4 4566788888888777 99999999


Q ss_pred             HHHHHHhCC
Q 046221          546 LRSGSQKKG  554 (572)
Q Consensus       546 ~~~~m~~~~  554 (572)
                      .|++..+..
T Consensus       262 ~~~~al~l~  270 (323)
T d1fcha_         262 HFLEALNMQ  270 (323)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhC
Confidence            999987743

>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=99.11  E-value=1e-08  Score=94.40  Aligned_cols=270  Identities=13%  Similarity=0.019  Sum_probs=132.4

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCc------cchHHHHHHhcccCChHHHHHHHHHHHHhCCCC-C----cch
Q 046221          220 TRMMGLFVDFEYAGDALKIFREMRKSRIICDT------VALLNLISVNAILGDLKRGKQLHAQVVLGGLQS-E----LRL  288 (572)
Q Consensus       220 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~----~~~  288 (572)
                      ......+...|++++|..++++..+..  |+.      ..+..+..++...|++++|...++......... +    ...
T Consensus        16 ~lrA~~~~~~g~~~~A~~~~~~aL~~~--~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   93 (366)
T d1hz4a_          16 ALRAQVAINDGNPDEAERLAKLALEEL--PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   93 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTC--CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhC--cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHH
Confidence            334556677788888888888776642  322      233444455666677777777666665432111 1    112


Q ss_pred             HHHHHHHHHhcCChhHHHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC--CC-HhHHHHHHHHhcc
Q 046221          289 SNSIIAMYSKCGDLDSSRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDS--VD-SITLVSILTASGE  365 (572)
Q Consensus       289 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~-~~~~~~ll~~~~~  365 (572)
                      +..+...+...|++..+...+.....                        +.   . .....  +. ...+..+...+..
T Consensus        94 ~~~~~~~~~~~~~~~~a~~~~~~al~------------------------~~---~-~~~~~~~~~~~~~~~~la~~~~~  145 (366)
T d1hz4a_          94 LIQQSEILFAQGFLQTAWETQEKAFQ------------------------LI---N-EQHLEQLPMHEFLVRIRAQLLWA  145 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH------------------------HH---H-HTTCTTSTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH------------------------Hh---H-hcccchhhHHHHHHHHHHHHHHH
Confidence            23334444555555555544443221                        00   0 00000  00 1122223333444


Q ss_pred             cccHHHHHHHHHHHHHhcCC----CchhHHHHHHHHhhhcCChHHHHHHHHHc-------CCCC--CHhHHHHHHHHHHh
Q 046221          366 LAALEICLQLHGIAFEAGFP----RYRSVQNCLISSYSKCGNVDLAYIVFEEM-------GFLR--DVVSWNTIIYGYGV  432 (572)
Q Consensus       366 ~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~~--~~~~~~~l~~~~~~  432 (572)
                      .|+++.+...+.........    .....+......+...++...+...+.+.       +..+  ....+..+...+..
T Consensus       146 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  225 (366)
T d1hz4a_         146 WARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQM  225 (366)
T ss_dssp             TTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHH
T ss_pred             hcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHh
Confidence            44444444444444332211    11223333444455556666665555544       1111  12234444555666


Q ss_pred             cCChHHHHHHHHHHHhcCCCCC---HHHHHHHHHHHhccCChHHHHHHHHHhHHh---cCCCCC-hhHHHHHHHHHHhhC
Q 046221          433 NGHGETALALYHKMTETGEVPD---SSTYLSILNACGHAGLTNDGLVIFNQMIEE---NKVKPS-QEHYGCVVDLLARAG  505 (572)
Q Consensus       433 ~~~~~~A~~~~~~~~~~g~~p~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~-~~~~~~l~~~~~~~g  505 (572)
                      .|+++.|...+++........+   ...+..+..++...|++++|...+++++..   .+..|+ ...+..+..+|.+.|
T Consensus       226 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  305 (366)
T d1hz4a_         226 TGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAG  305 (366)
T ss_dssp             TTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             cccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCC
Confidence            6777777777766554321111   234445566677777777777777665422   122232 235566666777777


Q ss_pred             ChhHHHHHHHhccC
Q 046221          506 CLSDASGLAGKLLE  519 (572)
Q Consensus       506 ~~~~A~~~~~~~~~  519 (572)
                      ++++|.+.+++...
T Consensus       306 ~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         306 RKSDAQRVLLDALK  319 (366)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            77777777766543

>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=99.11  E-value=1.1e-08  Score=91.75  Aligned_cols=184  Identities=9%  Similarity=0.003  Sum_probs=141.3

Q ss_pred             ccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCC--HhHHHHHHHHHHhcCChHHHHHHH
Q 046221          367 AALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRD--VVSWNTIIYGYGVNGHGETALALY  443 (572)
Q Consensus       367 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~  443 (572)
                      +..+.+..++++..+...+.+...+...+..+.+.|+++.|..+|+++ ...|.  ...|...+..+.+.|+.+.|.++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            355778888888876655666777888888889999999999999988 54453  446888888899999999999999


Q ss_pred             HHHHhcCCCCCHHHHHHHHHH-HhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CC
Q 046221          444 HKMTETGEVPDSSTYLSILNA-CGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GM  521 (572)
Q Consensus       444 ~~~~~~g~~p~~~~~~~l~~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~  521 (572)
                      +++.+.+ +.+...|...... +...|+.+.|..+|+.+++..  +.+...|..+++.+.+.|+++.|..+|+++.. .|
T Consensus       158 ~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~--p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~  234 (308)
T d2onda1         158 KKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  234 (308)
T ss_dssp             HHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSS
T ss_pred             HHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh--hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC
Confidence            9998853 2233444444432 345688999999999998764  55677899999999999999999999999765 22


Q ss_pred             -C----hHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCC
Q 046221          522 -G----PNIWRALLSGCVLHVGRFQDAEALRSGSQKKG  554 (572)
Q Consensus       522 -~----~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~  554 (572)
                       +    ...|...+.--..+ |+.+.+..+.+++.+.-
T Consensus       235 ~~~~~~~~iw~~~~~fE~~~-G~~~~~~~~~~r~~~~~  271 (308)
T d2onda1         235 LPPEKSGEIWARFLAFESNI-GDLASILKVEKRRFTAF  271 (308)
T ss_dssp             SCGGGCHHHHHHHHHHHHHH-SCHHHHHHHHHHHHHHT
T ss_pred             CChHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHC
Confidence             2    23688777766667 99999999999886654

>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=99.06  E-value=1.9e-08  Score=92.42  Aligned_cols=232  Identities=11%  Similarity=-0.046  Sum_probs=148.6

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCC----HhHHHHHHHHhcccccHHHHHHHHHHHHHh----cCCCc---h
Q 046221          320 WTAIISGYVQNGCAREALNQFIKMRQEKTDSVD----SITLVSILTASGELAALEICLQLHGIAFEA----GFPRY---R  388 (572)
Q Consensus       320 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~---~  388 (572)
                      +..+...+...|++++|+..+++........++    ...+..+...+...+++..+...+......    +....   .
T Consensus        54 ~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~  133 (366)
T d1hz4a_          54 TSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHE  133 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHH
Confidence            444455555566666666666555422111111    123344445556666777776666554432    12221   2


Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHHc-------CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcC--CCCC----H
Q 046221          389 SVQNCLISSYSKCGNVDLAYIVFEEM-------GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETG--EVPD----S  455 (572)
Q Consensus       389 ~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g--~~p~----~  455 (572)
                      ..+..+...+...|+++.+...+...       +.......+..+...+...++...+...+.+.....  ....    .
T Consensus       134 ~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~  213 (366)
T d1hz4a_         134 FLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWIS  213 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHH
T ss_pred             HHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHH
Confidence            34556778889999999999999877       221234455666677888899999988887765421  1111    2


Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCC--ChhHHHHHHHHHHhhCChhHHHHHHHhccC-------CCC-hHH
Q 046221          456 STYLSILNACGHAGLTNDGLVIFNQMIEENKVKP--SQEHYGCVVDLLARAGCLSDASGLAGKLLE-------GMG-PNI  525 (572)
Q Consensus       456 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~~~-~~~  525 (572)
                      ..+..+...+...|++++|...++...+...-.+  ....+..+..++...|++++|...++++..       .|+ ...
T Consensus       214 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  293 (366)
T d1hz4a_         214 NANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRN  293 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHH
Confidence            3456667778899999999999998864332111  123566688899999999999999998753       222 234


Q ss_pred             HHHHHHHHhhhcCCHHHHHHHHHHHHh
Q 046221          526 WRALLSGCVLHVGRFQDAEALRSGSQK  552 (572)
Q Consensus       526 ~~~l~~~~~~~~g~~~~A~~~~~~m~~  552 (572)
                      +..+...+... |++++|.+.+++..+
T Consensus       294 ~~~la~~~~~~-g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         294 LLLLNQLYWQA-GRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHHH-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHC-CCHHHHHHHHHHHHH
Confidence            56666667666 999999999998754

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.05  E-value=1.4e-08  Score=90.93  Aligned_cols=192  Identities=9%  Similarity=0.025  Sum_probs=109.4

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccc-cHHHHHHHHHHHHHhcCCCchhHHHHHHHHh
Q 046221          320 WTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELA-ALEICLQLHGIAFEAGFPRYRSVQNCLISSY  398 (572)
Q Consensus       320 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  398 (572)
                      ++.+...+.+.+.+++|+.+++++.+.  .+-+...|.....++...+ ++++|...++.+.+.. +-+..+|..+...+
T Consensus        46 ~~~~~~~~~~~e~~~~Al~~~~~ai~l--nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          46 YDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCchHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHH
Confidence            334444455555556666665555422  1222333444444444433 3566666665555544 44566666667777


Q ss_pred             hhcCChHHHHHHHHHc-C-CCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCC-----
Q 046221          399 SKCGNVDLAYIVFEEM-G-FLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGL-----  470 (572)
Q Consensus       399 ~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~-----  470 (572)
                      .+.|++++|+..++++ . .+.+...|..+...+.+.|++++|+..++++++  +.| +...|+.+...+.+.+.     
T Consensus       123 ~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~--~~p~n~~a~~~r~~~l~~~~~~~~~~  200 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLK--EDVRNNSVWNQRYFVISNTTGYNDRA  200 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHH--HCCccHHHHHHHHHHHHHccccchhh
Confidence            7777777777777776 2 223466777777777777777777777777777  345 44566655555444333     


Q ss_pred             -hHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          471 -TNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       471 -~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                       +++|++.+.++++..  +.+...|..+...+.. ...+++.+.++...+
T Consensus       201 ~~~~ai~~~~~al~~~--P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~  247 (315)
T d2h6fa1         201 VLEREVQYTLEMIKLV--PHNESAWNYLKGILQD-RGLSKYPNLLNQLLD  247 (315)
T ss_dssp             HHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHH
T ss_pred             hhHHhHHHHHHHHHhC--CCchHHHHHHHHHHHh-cChHHHHHHHHHHHH
Confidence             566777777776543  3345555555554433 334566666665544

>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=98.99  E-value=4.4e-08  Score=87.71  Aligned_cols=186  Identities=10%  Similarity=0.067  Sum_probs=139.8

Q ss_pred             ChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHHHHHHH
Q 046221          332 CAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDLAYIVF  411 (572)
Q Consensus       332 ~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  411 (572)
                      ..++|..+|++.. ....+.+...+...+......|+.+.|..+++.+.+........+|...+..+.+.|+.+.|.++|
T Consensus        79 ~~~~a~~i~~ral-~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          79 FSDEAANIYERAI-STLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHH-TTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             chHHHHHHHHHHH-HHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            3467777888776 433444555666677777788888888888888776543333457888888889999999999999


Q ss_pred             HHc-CCCC-CHhHHHHHHHH-HHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCC
Q 046221          412 EEM-GFLR-DVVSWNTIIYG-YGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVK  488 (572)
Q Consensus       412 ~~~-~~~~-~~~~~~~l~~~-~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  488 (572)
                      +++ ...| +...|...... +...|+.+.|..+|+.+.+. .+.+...|...+..+.+.|+.++|..+|+++++..+..
T Consensus       158 ~~al~~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         158 KKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHHHTSTTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC
Confidence            988 3333 34444443333 34468899999999999985 33356888889999999999999999999998766555


Q ss_pred             CC--hhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          489 PS--QEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       489 ~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      |+  ...|...+..-...|+.+.+..+.+++.+
T Consensus       237 ~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            54  34788888888889999999999998765

>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=98.98  E-value=1.4e-08  Score=91.01  Aligned_cols=195  Identities=8%  Similarity=-0.012  Sum_probs=155.6

Q ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcC-ChHHHHHHHHHc-C-CCCCHhHHHHHHHHHH
Q 046221          355 TLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCG-NVDLAYIVFEEM-G-FLRDVVSWNTIIYGYG  431 (572)
Q Consensus       355 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~  431 (572)
                      .+..+...+.+.+..++|++.++.+++.. |-+...|+....++...| ++++|+..+++. . .+-+..+|..+...+.
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~  123 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVE  123 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHH
Confidence            44455556677889999999999999976 666778888888888876 589999999998 3 3345888999999999


Q ss_pred             hcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCC----
Q 046221          432 VNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGC----  506 (572)
Q Consensus       432 ~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----  506 (572)
                      +.|++++|+..++++.+  +.| +...|..+...+...|++++|++.++++++..  +-+...|+.+..++.+.+.    
T Consensus       124 ~l~~~~eAl~~~~kal~--~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~--p~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         124 WLRDPSQELEFIADILN--QDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED--VRNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHTCCTTHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             hhccHHHHHHHHhhhhh--hhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC--CccHHHHHHHHHHHHHccccchh
Confidence            99999999999999999  466 56999999999999999999999999999765  4566678877777766665    


Q ss_pred             --hhHHHHHHHhccC--CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          507 --LSDASGLAGKLLE--GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       507 --~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                        +++|.+.+.++..  +.+...|..+...+. . ...+++.+.+++..+....
T Consensus       200 ~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~-~-~~~~~~~~~~~~~~~l~~~  251 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLVPHNESAWNYLKGILQ-D-RGLSKYPNLLNQLLDLQPS  251 (315)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHT-T-TCGGGCHHHHHHHHHHTTT
T ss_pred             hhhHHhHHHHHHHHHhCCCchHHHHHHHHHHH-h-cChHHHHHHHHHHHHhCCC
Confidence              5789988888877  446667877766553 4 4567788888877665444

>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=98.94  E-value=1.3e-08  Score=88.88  Aligned_cols=93  Identities=12%  Similarity=-0.049  Sum_probs=45.5

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHh
Q 046221          319 SWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSY  398 (572)
Q Consensus       319 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  398 (572)
                      +|..+..+|.+.|++++|+..|++..+..  +-+..++..+..++...|+++.|...|+.+.+.. +.+...+..+..++
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~  115 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIR--PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIAL  115 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccC--CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHH
Confidence            34444555555555666655555554221  2233444445555555555555555555555443 22333444444555


Q ss_pred             hhcCChHHHHHHHHHc
Q 046221          399 SKCGNVDLAYIVFEEM  414 (572)
Q Consensus       399 ~~~g~~~~A~~~~~~~  414 (572)
                      ...|++++|...|++.
T Consensus       116 ~~~g~~~~A~~~~~~a  131 (259)
T d1xnfa_         116 YYGGRDKLAQDDLLAF  131 (259)
T ss_dssp             HHTTCHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHH
Confidence            5555555555555544

>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=98.80  E-value=1.5e-07  Score=81.86  Aligned_cols=94  Identities=12%  Similarity=-0.048  Sum_probs=63.3

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHhccCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhc
Q 046221          288 LSNSIIAMYSKCGDLDSSRSVFNQITE---KSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASG  364 (572)
Q Consensus       288 ~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~  364 (572)
                      ++..+..+|.+.|++++|...|++..+   .++.+|+.+..++.+.|++++|+..|++..+..+  -+..++..+...+.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p--~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP--TYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHh--hhhhhHHHHHHHHH
Confidence            455566677777777777777776652   3456677777777777777777777777763322  23445666666777


Q ss_pred             ccccHHHHHHHHHHHHHhc
Q 046221          365 ELAALEICLQLHGIAFEAG  383 (572)
Q Consensus       365 ~~~~~~~a~~~~~~~~~~~  383 (572)
                      ..|+++.|...++...+..
T Consensus       117 ~~g~~~~A~~~~~~al~~~  135 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQDD  135 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHHC
T ss_pred             HHhhHHHHHHHHHHHHhhc
Confidence            7777777777777776654

>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=98.78  E-value=2.8e-08  Score=90.30  Aligned_cols=61  Identities=8%  Similarity=-0.127  Sum_probs=28.8

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          457 TYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       457 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .+..+...+...|++++|...+.+.++.+  +.+...+..++.+|.+.|++++|.+.++++.+
T Consensus       244 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~  304 (334)
T d1dcea1         244 RCELSVEKSTVLQSELESCKELQELEPEN--KWCLLTIILLMRALDPLLYEKETLQYFSTLKA  304 (334)
T ss_dssp             SCCCCHHHHHHHHHHHHHHHHHHHHCTTC--HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHhhC--chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            33334444444455555555555443221  12233444455555555555555555555554

>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=98.73  E-value=9.4e-09  Score=93.56  Aligned_cols=255  Identities=10%  Similarity=-0.051  Sum_probs=123.2

Q ss_pred             HHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcch-HHH---HHHHHcCC-------CChHHHHHHHHHHHHhcCCCCcc
Q 046221           39 WSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFT-MVG---VLVAAAGL-------QNLELARSIHGLMVKFGLESDLF  107 (572)
Q Consensus        39 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~---ll~~~~~~-------g~~~~a~~~~~~~~~~~~~~~~~  107 (572)
                      +..++....+.+..++|+++++...+.  .|+..+ |+.   ++..+...       |.+++|..+++.+.+..+     
T Consensus        32 ~~~~~~~~~~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~p-----  104 (334)
T d1dcea1          32 TQAVFQKRQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP-----  104 (334)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCT-----
T ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCC-----
Confidence            344444444445568999999999875  566543 332   22333332       234556666666655543     


Q ss_pred             cCCCCCCceeHHHHHHHHHhCC--ChHHHHHHHHHHHhCCCCCCHhhHHH-HHHHHhccCChHHHHHHHHHHHHhcCCCC
Q 046221          108 EGLKNPYLVSCNAIVAGFINNK--LFQQAVLLFNFFRGSGLVPNAVTMLT-VIRGCVALGSRALCELIHGLTIKLGLILD  184 (572)
Q Consensus       108 ~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  184 (572)
                           .+...|..+..++...+  ++++|+..+++..+.. +++...+.. ....+...+..+.|...++..++.. +-+
T Consensus       105 -----k~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~  177 (334)
T d1dcea1         105 -----KSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSN  177 (334)
T ss_dssp             -----TCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCC
T ss_pred             -----CcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCC
Confidence                 33344555544444433  3556666666655532 112333222 2233444555555555555554443 334


Q ss_pred             hhHHhHHHHHHHhCCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhccc
Q 046221          185 VSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAIL  264 (572)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  264 (572)
                      ...|..+...+.+.|+.++|...++....-....                                    ......+...
T Consensus       178 ~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~------------------------------------~~~~~~~~~l  221 (334)
T d1dcea1         178 YSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKE------------------------------------LELVQNAFFT  221 (334)
T ss_dssp             HHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHH------------------------------------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHhHHhHHHH------------------------------------HHHHHHHHHh
Confidence            4445555555555555544433333221110000                                    0111112222


Q ss_pred             CChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCCCCc---chHHHHHHHHHHcCChHHHHHHHH
Q 046221          265 GDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITEKSL---VSWTAIISGYVQNGCAREALNQFI  341 (572)
Q Consensus       265 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~  341 (572)
                      +..+.+...+....... +++...+..+...+...|+.++|...+.+..+.++   .+|..+...+...|+.++|++.++
T Consensus       222 ~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~  300 (334)
T d1dcea1         222 DPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFS  300 (334)
T ss_dssp             CSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            33333444444443332 23333344445555555666666666666655443   344555566666677777777777


Q ss_pred             HHH
Q 046221          342 KMR  344 (572)
Q Consensus       342 ~~~  344 (572)
                      +..
T Consensus       301 ~ai  303 (334)
T d1dcea1         301 TLK  303 (334)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            665

>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=98.70  E-value=3.5e-07  Score=74.81  Aligned_cols=126  Identities=8%  Similarity=-0.117  Sum_probs=102.9

Q ss_pred             HHHhhhcCChHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHH
Q 046221          395 ISSYSKCGNVDLAYIVFEEMGFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTND  473 (572)
Q Consensus       395 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~  473 (572)
                      ...+...|+++.|++.|.++.. |+..+|..+..+|...|++++|++.|++.++  +.| +...|..+..+|.+.|++++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~-~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~--ldp~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQD-PHSRICFNIGCMYTILKNMTEAEKAFTRSIN--RDKHLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCCchhHHHHHHHHHH--HhhhhhhhHHHHHHHHHhhccHHH
Confidence            4456789999999999998743 6778888999999999999999999999999  456 45889999999999999999


Q ss_pred             HHHHHHHhHHhcCCC-------------CC-hhHHHHHHHHHHhhCChhHHHHHHHhccC-CCCh
Q 046221          474 GLVIFNQMIEENKVK-------------PS-QEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGP  523 (572)
Q Consensus       474 a~~~~~~~~~~~~~~-------------~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~  523 (572)
                      |+..|+++++...-.             ++ ..++..+..++.+.|++++|.+.++++.. .|++
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~  153 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  153 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            999999987532111             11 24566788899999999999999999876 5553

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.60  E-value=6.6e-07  Score=66.29  Aligned_cols=96  Identities=13%  Similarity=-0.009  Sum_probs=76.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhh
Q 046221          426 IIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARA  504 (572)
Q Consensus       426 l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  504 (572)
                      -...+.+.|++++|+..|++.++.  .| +...|..+..++...|++++|+..++.+++..  +.+...|..++.++...
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~g~~~~~~   84 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK--PDWGKGYSRKAAALEFL   84 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhc--cchhhHHHHHHHHHHHc
Confidence            455677888888888888888874  55 55778888888888899999999888888655  56677888888888888


Q ss_pred             CChhHHHHHHHhccC-CCChHH
Q 046221          505 GCLSDASGLAGKLLE-GMGPNI  525 (572)
Q Consensus       505 g~~~~A~~~~~~~~~-~~~~~~  525 (572)
                      |++++|+..+++..+ .|+...
T Consensus        85 ~~~~~A~~~~~~a~~~~p~~~~  106 (117)
T d1elwa_          85 NRFEEAKRTYEEGLKHEANNPQ  106 (117)
T ss_dssp             TCHHHHHHHHHHHHTTCTTCHH
T ss_pred             cCHHHHHHHHHHHHHhCCCCHH
Confidence            999999988888887 555443

>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=98.57  E-value=1.5e-06  Score=70.90  Aligned_cols=138  Identities=11%  Similarity=-0.054  Sum_probs=107.8

Q ss_pred             HHHHhhcCChhhHHHHhccCCCCChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChHHHH
Q 046221           12 LSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLELAR   91 (572)
Q Consensus        12 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~   91 (572)
                      ...+...|++++|++.|+++..+++..|..+..+|...|++++|++.|++..+.+ +-+...|..+..++.+.|++++|.
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            5667888999999999999999999999999999999999999999999999875 556678889999999999999999


Q ss_pred             HHHHHHHHhcCCCCccc--CCC---CC-CceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCH
Q 046221           92 SIHGLMVKFGLESDLFE--GLK---NP-YLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNA  150 (572)
Q Consensus        92 ~~~~~~~~~~~~~~~~~--~~~---~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  150 (572)
                      ..|+..+.........+  ...   .. ...++..+...+.+.|++++|.+.|+...+....+..
T Consensus        91 ~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~  155 (192)
T d1hh8a_          91 KDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRH  155 (192)
T ss_dssp             HHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGG
T ss_pred             HHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcch
Confidence            99999887533211100  000   00 0123456777888999999999999888776444433

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.56  E-value=1.1e-06  Score=77.53  Aligned_cols=26  Identities=15%  Similarity=0.014  Sum_probs=18.4

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHH
Q 046221          319 SWTAIISGYVQNGCAREALNQFIKMR  344 (572)
Q Consensus       319 ~~~~l~~~~~~~~~~~~a~~~~~~~~  344 (572)
                      .|......|...+++++|.+.|.+..
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~   64 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAA   64 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            56666677777777777777777665

>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=98.54  E-value=3.7e-06  Score=74.02  Aligned_cols=200  Identities=10%  Similarity=0.017  Sum_probs=112.6

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHhccCC-----CC----cchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHH
Q 046221          288 LSNSIIAMYSKCGDLDSSRSVFNQITE-----KS----LVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVS  358 (572)
Q Consensus       288 ~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  358 (572)
                      .|......|...|++++|.+.|.+..+     .+    ..+|..+..+|.+.|++++|+..+++....            
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~------------  106 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQI------------  106 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHH------------
Confidence            477888888889999999888876642     11    135566666666666676666666655411            


Q ss_pred             HHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhh-hcCChHHHHHHHHHc-------CCCCC-HhHHHHHHHH
Q 046221          359 ILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYS-KCGNVDLAYIVFEEM-------GFLRD-VVSWNTIIYG  429 (572)
Q Consensus       359 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~A~~~~~~~-------~~~~~-~~~~~~l~~~  429 (572)
                          +...++...+               ..++..+...|. ..|++++|.+.+++.       +..+. ..++..+...
T Consensus       107 ----~~~~~~~~~~---------------~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~  167 (290)
T d1qqea_         107 ----FTHRGQFRRG---------------ANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADL  167 (290)
T ss_dssp             ----HHHTTCHHHH---------------HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ----hhhcccchhH---------------HHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHH
Confidence                1111111111               122233444443 347777777776655       11111 3446667777


Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCC-----CH-HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC---hhHHHHHHHH
Q 046221          430 YGVNGHGETALALYHKMTETGEVP-----DS-STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS---QEHYGCVVDL  500 (572)
Q Consensus       430 ~~~~~~~~~A~~~~~~~~~~g~~p-----~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~  500 (572)
                      |...|++++|+..|+++.......     .. ..+...+..+...|+++.|...++++.+...--++   ......++.+
T Consensus       168 ~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a  247 (290)
T d1qqea_         168 KALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDA  247 (290)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHH
T ss_pred             HHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHH
Confidence            888888888888888877642111     11 12334444566778888888888877532211111   1244555666


Q ss_pred             HHh--hCChhHHHHHHHhcc
Q 046221          501 LAR--AGCLSDASGLAGKLL  518 (572)
Q Consensus       501 ~~~--~g~~~~A~~~~~~~~  518 (572)
                      +..  .+.+++|+..|+++.
T Consensus       248 ~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         248 VNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHTTCTTTHHHHHHHHTTSS
T ss_pred             HHhcCHHHHHHHHHHHHHHh
Confidence            544  234677777777765

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.53  E-value=8.4e-07  Score=70.13  Aligned_cols=120  Identities=16%  Similarity=-0.013  Sum_probs=85.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHH
Q 046221          423 WNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLL  501 (572)
Q Consensus       423 ~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  501 (572)
                      +......|.+.|++++|+..|++.++.  .| +...|..+..+|...|++++|+..|+++++..  +-+...|..++.++
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~--p~~~~a~~~~g~~~   88 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAASN   88 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc--ccchHHHHHHHHHH
Confidence            334456678889999999999988884  56 45788888888889999999999999888654  44556888888889


Q ss_pred             HhhCChhHHHHHHHhccC-CCCh-HHHHHHHHHHh-hhcCCHHHHHHH
Q 046221          502 ARAGCLSDASGLAGKLLE-GMGP-NIWRALLSGCV-LHVGRFQDAEAL  546 (572)
Q Consensus       502 ~~~g~~~~A~~~~~~~~~-~~~~-~~~~~l~~~~~-~~~g~~~~A~~~  546 (572)
                      ...|++++|.+.++++.. .|+. ..+..+..... ...+.+++|...
T Consensus        89 ~~~g~~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          89 MALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            999999999999888877 5543 33333322211 112455555543

>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=98.44  E-value=1.5e-06  Score=71.87  Aligned_cols=98  Identities=10%  Similarity=-0.057  Sum_probs=85.5

Q ss_pred             CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHH
Q 046221          418 RDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGC  496 (572)
Q Consensus       418 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  496 (572)
                      |+...+......|.+.|++++|+..|++.++.  .| +...|..+..+|.+.|++++|+..|+++++..  +-+...|..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~--p~~~~a~~~   77 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELD--GQSVKAHFF   77 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC--TTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC--CCcHHHHHH
Confidence            67777888889999999999999999999984  56 56889999999999999999999999997532  334668899


Q ss_pred             HHHHHHhhCChhHHHHHHHhccC
Q 046221          497 VVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       497 l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ++.+|.+.|++++|...|+++..
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999999999876

>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=98.44  E-value=4e-07  Score=75.52  Aligned_cols=127  Identities=8%  Similarity=-0.090  Sum_probs=97.6

Q ss_pred             CchhHHHHHHHHhhhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HHHHHHHH
Q 046221          386 RYRSVQNCLISSYSKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPD-SSTYLSIL  462 (572)
Q Consensus       386 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~-~~~~~~l~  462 (572)
                      |+...+......|.+.|++++|+..|++.  -.+.+...|..+..+|.+.|++++|+..|++.++  +.|+ ..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~--l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH--hCCCcHHHHHHHH
Confidence            66667777889999999999999999987  3334678899999999999999999999999998  6785 58899999


Q ss_pred             HHHhccCChHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhhCChhHHHHHHHhc
Q 046221          463 NACGHAGLTNDGLVIFNQMIEENKVKPS-QEHYGCVVDLLARAGCLSDASGLAGKL  517 (572)
Q Consensus       463 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~  517 (572)
                      .+|...|++++|+..|+++++..   |+ ...+...+..+...+....+.......
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~---p~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  132 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLA---KEQRLNFGDDIPSALRIAKKKRWNSIEERR  132 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH---HHTTCCCCSHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC---cccHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            99999999999999999987643   22 112333344444444444444444443

>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=98.42  E-value=1.9e-06  Score=63.77  Aligned_cols=93  Identities=15%  Similarity=0.083  Sum_probs=80.4

Q ss_pred             HHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCChHHHHHHHHHHhhhcC
Q 046221          461 ILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMGPNIWRALLSGCVLHVG  538 (572)
Q Consensus       461 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~~g  538 (572)
                      -...+.+.|++++|+..|+++++..  |-+...|..+..+|.+.|++++|++.++++..  +.++..|..+...+... |
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~-~   85 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFL-N   85 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-T
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC--CcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHc-c
Confidence            4567889999999999999999765  56777899999999999999999999999988  56677788887777766 9


Q ss_pred             CHHHHHHHHHHHHhCCCC
Q 046221          539 RFQDAEALRSGSQKKGII  556 (572)
Q Consensus       539 ~~~~A~~~~~~m~~~~~~  556 (572)
                      ++++|+..+++..+..+.
T Consensus        86 ~~~~A~~~~~~a~~~~p~  103 (117)
T d1elwa_          86 RFEEAKRTYEEGLKHEAN  103 (117)
T ss_dssp             CHHHHHHHHHHHHTTCTT
T ss_pred             CHHHHHHHHHHHHHhCCC
Confidence            999999999999876543

>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=98.39  E-value=2.5e-06  Score=67.28  Aligned_cols=115  Identities=10%  Similarity=0.030  Sum_probs=87.0

Q ss_pred             HHHHhhhcCChHHHHHHHHHc-C-CCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCC
Q 046221          394 LISSYSKCGNVDLAYIVFEEM-G-FLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGL  470 (572)
Q Consensus       394 l~~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~  470 (572)
                      ....|.+.|++++|+..|++. . .+.+...|..+..+|...|++++|+..|+++++.  .| +...|..++.++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~--~p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHH--cccchHHHHHHHHHHHHcCC
Confidence            355688999999999999998 3 3345788899999999999999999999999984  56 45899999999999999


Q ss_pred             hHHHHHHHHHhHHhcCCCCChhHHHHHHHH--HHhhCChhHHHH
Q 046221          471 TNDGLVIFNQMIEENKVKPSQEHYGCVVDL--LARAGCLSDASG  512 (572)
Q Consensus       471 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~  512 (572)
                      +++|...++++++..  +-+...+..+..+  ....+.+++|..
T Consensus        94 ~~eA~~~~~~a~~~~--p~~~~~~~~l~~~~~~~~~~~~~~a~~  135 (159)
T d1a17a_          94 FRAALRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIA  135 (159)
T ss_dssp             HHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999998654  2234444444333  223334444443

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.35  E-value=1.2e-06  Score=65.00  Aligned_cols=106  Identities=11%  Similarity=0.025  Sum_probs=74.6

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCCh---HHHHHHHHHhHHhcCCCCC-hhHHHHHHH
Q 046221          424 NTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLT---NDGLVIFNQMIEENKVKPS-QEHYGCVVD  499 (572)
Q Consensus       424 ~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~---~~a~~~~~~~~~~~~~~~~-~~~~~~l~~  499 (572)
                      ..++..+...+++++|.+.|++.+..+ +.+..++..+..++.+.++.   ++|+.+++++++.. ..|+ ..++..++.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~-~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcc-CCchHHHHHHHHHH
Confidence            456777778888888888888888842 33557888888888765544   46888888876422 1122 236777888


Q ss_pred             HHHhhCChhHHHHHHHhccC-CCChHHHHHHHH
Q 046221          500 LLARAGCLSDASGLAGKLLE-GMGPNIWRALLS  531 (572)
Q Consensus       500 ~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~  531 (572)
                      +|.+.|++++|++.|+++.+ .|+..-...+..
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~  113 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQAKELER  113 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHH
Confidence            88888999999988888887 666554444443

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.30  E-value=1.5e-06  Score=63.67  Aligned_cols=88  Identities=6%  Similarity=-0.093  Sum_probs=54.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhh
Q 046221          426 IIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARA  504 (572)
Q Consensus       426 l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  504 (572)
                      +...+.+.|++++|+..|++.++.  .| +..+|..+..++.+.|++++|+..++++++..  |.+...+..+..+|...
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD--PKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccc--ccccchhhhhhhhhhhhhhhHHHhhcccccccccc--cccccchHHHHHHHHHC
Confidence            344556666666666666666663  44 34666666666666666666666666666443  33455666666666666


Q ss_pred             CChhHHHHHHHhc
Q 046221          505 GCLSDASGLAGKL  517 (572)
Q Consensus       505 g~~~~A~~~~~~~  517 (572)
                      |++++|.+.+++.
T Consensus        98 g~~~~A~~~l~~~  110 (112)
T d1hxia_          98 HNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            6666666666653

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.27  E-value=3.6e-06  Score=61.56  Aligned_cols=89  Identities=9%  Similarity=-0.125  Sum_probs=76.3

Q ss_pred             HHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCChHHHHHHHHHHhhh
Q 046221          459 LSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMGPNIWRALLSGCVLH  536 (572)
Q Consensus       459 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~  536 (572)
                      ..+...+.+.|++++|+..|+++++..  +-+...|..++.++.+.|++++|+..++++.+  +.+...|..+...+...
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccc--cccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHC
Confidence            345667889999999999999998765  44677999999999999999999999999988  45567788888777777


Q ss_pred             cCCHHHHHHHHHHH
Q 046221          537 VGRFQDAEALRSGS  550 (572)
Q Consensus       537 ~g~~~~A~~~~~~m  550 (572)
                       |++++|++.+++.
T Consensus        98 -g~~~~A~~~l~~~  110 (112)
T d1hxia_          98 -HNANAALASLRAW  110 (112)
T ss_dssp             -HHHHHHHHHHHHH
T ss_pred             -CCHHHHHHHHHHH
Confidence             9999999999875

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.20  E-value=2.1e-05  Score=62.39  Aligned_cols=66  Identities=9%  Similarity=-0.043  Sum_probs=49.4

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChH
Q 046221          457 TYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPN  524 (572)
Q Consensus       457 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~  524 (572)
                      +|..+..+|.+.|++++|+..++.+++..  |.+...+..++.+|...|++++|...|+++.+ .|+..
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~--p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~  130 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELD--SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNK  130 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcc--ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCH
Confidence            45667777888888888888888887654  44666778888888888888888888888777 55433

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.18  E-value=1.2e-05  Score=60.37  Aligned_cols=103  Identities=17%  Similarity=0.092  Sum_probs=75.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC-----hhHHH
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS-----QEHYG  495 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~~  495 (572)
                      .+..+...|.+.|++++|+..|++.++.  .| +...+..+..+|.+.|++++|+..++++++...-.+.     ..+|.
T Consensus         6 ~~k~~G~~~~~~~~y~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~   83 (128)
T d1elra_           6 KEKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            3455677788889999999999888884  45 5678888888899999999999999888753311122     13566


Q ss_pred             HHHHHHHhhCChhHHHHHHHhccC-CCChHHH
Q 046221          496 CVVDLLARAGCLSDASGLAGKLLE-GMGPNIW  526 (572)
Q Consensus       496 ~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~  526 (572)
                      .+...+...+++++|.+.+++... .+++...
T Consensus        84 ~lg~~~~~~~~~~~A~~~~~kal~~~~~~~~~  115 (128)
T d1elra_          84 RIGNSYFKEEKYKDAIHFYNKSLAEHRTPDVL  115 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHhcCCCHHHH
Confidence            777788888888899988888765 5555443

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.10  E-value=3.1e-05  Score=60.14  Aligned_cols=70  Identities=11%  Similarity=-0.061  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHHH
Q 046221          456 STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIWR  527 (572)
Q Consensus       456 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~  527 (572)
                      .+|..+..+|.+.|++++|++.++.+++..  |.+...|..++.++...|++++|...|++... .|+.....
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~--p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~  138 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID--KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIR  138 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc--chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHH
Confidence            356778888899999999999999998655  55677899999999999999999999999887 66544433

>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=98.08  E-value=0.002  Score=54.99  Aligned_cols=57  Identities=16%  Similarity=0.071  Sum_probs=30.2

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHhccCC-CCcchHHHHHHHHHH----cCChHHHHHHHHHHH
Q 046221          288 LSNSIIAMYSKCGDLDSSRSVFNQITE-KSLVSWTAIISGYVQ----NGCAREALNQFIKMR  344 (572)
Q Consensus       288 ~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~  344 (572)
                      .+..|...+.+.+++++|++.|++..+ .+..++..|...|..    ..+...|...+....
T Consensus         4 ~~~~lG~~~~~~~d~~~A~~~~~kAa~~g~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~   65 (265)
T d1ouva_           4 ELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKAC   65 (265)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcchhHHHHHHhhcccc
Confidence            344455555566666666666665543 233444444444444    345555555555554

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.07  E-value=0.0017  Score=56.74  Aligned_cols=131  Identities=13%  Similarity=0.081  Sum_probs=60.4

Q ss_pred             CcchHHHHHHHHcCCCChHHHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCC
Q 046221           70 NSFTMVGVLVAAAGLQNLELARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPN  149 (572)
Q Consensus        70 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~  149 (572)
                      +..-...+...|.+.|.++.|..++..+                  .-|..++..+.+.++++.|.+++.+.      -+
T Consensus        13 n~~d~~~i~~~c~~~~lye~A~~lY~~~------------------~d~~rl~~~~v~l~~~~~avd~~~k~------~~   68 (336)
T d1b89a_          13 NNAHIQQVGDRCYDEKMYDAAKLLYNNV------------------SNFGRLASTLVHLGEYQAAVDGARKA------NS   68 (336)
T ss_dssp             ----------------CTTTHHHHHHHT------------------TCHHHHHHHHHTTTCHHHHHHHHHHH------TC
T ss_pred             CcCCHHHHHHHHHHCCCHHHHHHHHHhC------------------CCHHHHHHHHHhhccHHHHHHHHHHc------CC
Confidence            3333334445555555555555554432                  13555566666666666666655433      14


Q ss_pred             HhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHHHHHHhhcCC---CCcccHHHHHHHH
Q 046221          150 AVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMEC---KDVISWTRMMGLF  226 (572)
Q Consensus       150 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~  226 (572)
                      ..+|..+...|.+......+     ++...+...+......++..|-..|.+++...+++....   .+...++.++..|
T Consensus        69 ~~~~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~ly  143 (336)
T d1b89a_          69 TRTWKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILY  143 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHH
Confidence            44566666666555444332     111222233444445566666666666666666665432   3444566666666


Q ss_pred             Hcc
Q 046221          227 VDF  229 (572)
Q Consensus       227 ~~~  229 (572)
                      ++.
T Consensus       144 ak~  146 (336)
T d1b89a_         144 SKF  146 (336)
T ss_dssp             HTT
T ss_pred             HHh
Confidence            654

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.05  E-value=1.5e-05  Score=58.92  Aligned_cols=95  Identities=15%  Similarity=-0.044  Sum_probs=76.3

Q ss_pred             HHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhC---ChhHHHHHHHhccC-CCChH---HHHHHHH
Q 046221          459 LSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAG---CLSDASGLAGKLLE-GMGPN---IWRALLS  531 (572)
Q Consensus       459 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~-~~~~~---~~~~l~~  531 (572)
                      ..++..+...+++++|.+.|+++++..  +.+..++..+..++.+.+   ++++|+.+++++.. .|++.   +|..+..
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~--p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG--SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            457788889999999999999998765  567789999999998755   45579999999887 45443   5666777


Q ss_pred             HHhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          532 GCVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       532 ~~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                      +|... |++++|++.|++..+..+.
T Consensus        81 ~y~~~-g~~~~A~~~~~~aL~~~P~  104 (122)
T d1nzna_          81 GNYRL-KEYEKALKYVRGLLQTEPQ  104 (122)
T ss_dssp             HHHHT-TCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHH-hhhHHHHHHHHHHHHhCcC
Confidence            77666 9999999999999886543

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.03  E-value=0.0035  Score=54.79  Aligned_cols=130  Identities=8%  Similarity=0.060  Sum_probs=61.6

Q ss_pred             hhHHHHHhhcCChhhHHHHhccCCCCChhhHHHHHHHHhhCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcCCCChH
Q 046221            9 SKLLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAGLQNLE   88 (572)
Q Consensus         9 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~   88 (572)
                      ..+.+.|-+.|.++.|..+|..     ...|..++..+.+.+++..|.+++.+.      -+..+|..+...|.+.....
T Consensus        18 ~~i~~~c~~~~lye~A~~lY~~-----~~d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~~~~e~~   86 (336)
T d1b89a_          18 QQVGDRCYDEKMYDAAKLLYNN-----VSNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFR   86 (336)
T ss_dssp             -----------CTTTHHHHHHH-----TTCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHh-----CCCHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHHhCcHHH
Confidence            3445555566666666666653     334555666666666666666655442      23345666666665554443


Q ss_pred             HHHHHHHHHHHhcCCCCcccCCCCCCceeHHHHHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccC
Q 046221           89 LARSIHGLMVKFGLESDLFEGLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALG  164 (572)
Q Consensus        89 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  164 (572)
                      .+..+     ....         ..+......++..|-..|.+++...+++..... -.++...++.++..+++.+
T Consensus        87 la~i~-----~~~~---------~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          87 LAQMC-----GLHI---------VVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHHHT-----TTTT---------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC
T ss_pred             HHHHH-----HHHh---------hcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC
Confidence            32111     1111         012223345566666666666666666655432 2344455566666666543

>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=98.00  E-value=0.00044  Score=59.31  Aligned_cols=58  Identities=14%  Similarity=0.096  Sum_probs=31.5

Q ss_pred             chHHHHHHhcccCChHHHHHHHHHHHHhCCCCCcchHHHHHHHHHh----cCChhHHHHHHhccC
Q 046221          253 ALLNLISVNAILGDLKRGKQLHAQVVLGGLQSELRLSNSIIAMYSK----CGDLDSSRSVFNQIT  313 (572)
Q Consensus       253 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~  313 (572)
                      .+..|-..+...+++++|.+.|+...+.|   +...+..|...|..    ..+...|...+....
T Consensus         4 ~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~   65 (265)
T d1ouva_           4 ELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKAC   65 (265)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccc
Confidence            34444445556667777777777766654   33334445555544    345555555555443

>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=97.99  E-value=9.2e-05  Score=58.56  Aligned_cols=108  Identities=10%  Similarity=-0.041  Sum_probs=77.4

Q ss_pred             HHHHhhhcCChHHHHHHHHHc----CCCC-------------CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CH
Q 046221          394 LISSYSKCGNVDLAYIVFEEM----GFLR-------------DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DS  455 (572)
Q Consensus       394 l~~~~~~~g~~~~A~~~~~~~----~~~~-------------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~  455 (572)
                      ....+.+.|++++|+..|.+.    +..+             -..+|+.+..+|.+.|++++|+..+++.++.  .| +.
T Consensus        19 ~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~--~p~~~   96 (170)
T d1p5qa1          19 RGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL--DSNNE   96 (170)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhc--cccch
Confidence            344566666777776666655    1111             1245677888899999999999999999984  66 66


Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhC
Q 046221          456 STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAG  505 (572)
Q Consensus       456 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  505 (572)
                      .+|..+..+|...|++++|+..|+++++..  |-+......+..+..+.+
T Consensus        97 ~a~~~~g~~~~~~g~~~~A~~~~~~al~l~--P~n~~~~~~l~~~~~~~~  144 (170)
T d1p5qa1          97 KGLSRRGEAHLAVNDFELARADFQKVLQLY--PNNKAAKTQLAVCQQRIR  144 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHhhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHH
Confidence            899999999999999999999999998644  234445555544444333

>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=97.97  E-value=4e-05  Score=60.64  Aligned_cols=67  Identities=9%  Similarity=0.008  Sum_probs=49.7

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHH
Q 046221          457 TYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNI  525 (572)
Q Consensus       457 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~  525 (572)
                      +|..+..+|.+.|++++|+..++.+++..  +.+...|..+..++...|++++|...|+++.. .|+...
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~--p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~  133 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLD--SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKA  133 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcc--cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH
Confidence            45556677788888888888888887654  55666777888888888888888888888776 444443

>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=97.93  E-value=2.8e-05  Score=58.24  Aligned_cols=93  Identities=11%  Similarity=0.063  Sum_probs=74.7

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCChH-------HHHH
Q 046221          458 YLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMGPN-------IWRA  528 (572)
Q Consensus       458 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~-------~~~~  528 (572)
                      +..+...+...|++++|+..|+++++..  +.+...+..+..+|.+.|++++|.+.++++.+  +.++.       +|..
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~   84 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD--PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            4567788999999999999999998765  55677899999999999999999999999887  22222       3444


Q ss_pred             HHHHHhhhcCCHHHHHHHHHHHHhC
Q 046221          529 LLSGCVLHVGRFQDAEALRSGSQKK  553 (572)
Q Consensus       529 l~~~~~~~~g~~~~A~~~~~~m~~~  553 (572)
                      +...+... +++++|++.+++....
T Consensus        85 lg~~~~~~-~~~~~A~~~~~kal~~  108 (128)
T d1elra_          85 IGNSYFKE-EKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHHT-TCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHh-CCHHHHHHHHHHHHhc
Confidence            55555555 9999999999887654

>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=97.93  E-value=1.3e-06  Score=83.40  Aligned_cols=115  Identities=11%  Similarity=0.014  Sum_probs=67.5

Q ss_pred             CchhHHHHHHHHhhhcCChHHHHHHHHHc-CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHH
Q 046221          386 RYRSVQNCLISSYSKCGNVDLAYIVFEEM-GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS-STYLSILN  463 (572)
Q Consensus       386 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~  463 (572)
                      ++...+..+...+.+.|+.++|...+... ...| ..++..+...+...|++++|...|++..+  +.|+. .+|+.|..
T Consensus       118 ~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~--l~P~~~~~~~~Lg~  194 (497)
T d1ya0a1         118 PCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYIC-QHCLVHLGDIARYRNQTSQAESYYRHAAQ--LVPSNGQPYNQLAI  194 (497)
T ss_dssp             -------------------------CCHHHHHHH-HHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTBSHHHHHHHH
T ss_pred             hhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCH-HHHHHHHHHHHHHcccHHHHHHHHHHHHH--HCCCchHHHHHHHH
Confidence            34455566677777788888877666554 1111 34566778888888899999999998888  56765 78888888


Q ss_pred             HHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhC
Q 046221          464 ACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAG  505 (572)
Q Consensus       464 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  505 (572)
                      .+...|+..+|+..|.+++...  +|-...+..|...+.+..
T Consensus       195 ~~~~~~~~~~A~~~y~ral~~~--~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         195 LASSKGDHLTTIFYYCRSIAVK--FPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHTTCHHHHHHHHHHHHSSS--BCCHHHHHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHHHhCC--CCCHHHHHHHHHHHHHhh
Confidence            8888999999999988887543  566777888887776544

>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=97.85  E-value=7.5e-05  Score=59.12  Aligned_cols=62  Identities=11%  Similarity=-0.133  Sum_probs=38.3

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          456 STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       456 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      ..|..+..++.+.|++++|+..++++++..  +.+...|..++.+|.+.|++++|.+.|+++.+
T Consensus        78 ~~~~nla~~~~~~~~~~~Ai~~~~~al~~~--p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~  139 (169)
T d1ihga1          78 SCVLNIGACKLKMSDWQGAVDSCLEALEID--PSNTKALYRRAQGWQGLKEYDQALADLKKAQE  139 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcccchhhhhhhhhhhhh--hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHH
Confidence            445555666666666666666666666433  33445666666666666666666666666665

>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=97.84  E-value=7.3e-05  Score=59.21  Aligned_cols=113  Identities=8%  Similarity=-0.024  Sum_probs=83.6

Q ss_pred             HHHHHHHhhhcCChHHHHHHHHHc-C----------------CCC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 046221          391 QNCLISSYSKCGNVDLAYIVFEEM-G----------------FLR-DVVSWNTIIYGYGVNGHGETALALYHKMTETGEV  452 (572)
Q Consensus       391 ~~~l~~~~~~~g~~~~A~~~~~~~-~----------------~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~  452 (572)
                      +......+.+.|++++|+..|.+. .                ..| ....|..+..+|.+.|++++|+..++++++  +.
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~--~~  107 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALE--ID  107 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TC
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhh--hh
Confidence            455667788899999998888765 0                111 344566778889999999999999999998  45


Q ss_pred             C-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCCh
Q 046221          453 P-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCL  507 (572)
Q Consensus       453 p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  507 (572)
                      | +..+|..+..++...|++++|+..|+++++..  +.+......+..+..+....
T Consensus       108 p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~--p~n~~~~~~l~~~~~~l~~~  161 (169)
T d1ihga1         108 PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA--PEDKAIQAELLKVKQKIKAQ  161 (169)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHH
Confidence            6 45889999999999999999999999998654  34455555555554444333

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.83  E-value=3.4e-05  Score=59.15  Aligned_cols=114  Identities=11%  Similarity=0.050  Sum_probs=76.6

Q ss_pred             HhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhcc----------CChHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 046221          431 GVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHA----------GLTNDGLVIFNQMIEENKVKPSQEHYGCVVD  499 (572)
Q Consensus       431 ~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  499 (572)
                      -+.+.+++|+..|+...+  +.| +..++..+..++...          +.+++|+..|+++++..  |.+...|..++.
T Consensus         8 ~r~~~fe~A~~~~e~al~--~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~--P~~~~a~~~lG~   83 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYK--SNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID--PKKDEAVWCIGN   83 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHh--hCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc--chhhHHHhhHHH
Confidence            344556777777777777  345 446666666665533          44567888888887654  445567777887


Q ss_pred             HHHhhC-----------ChhHHHHHHHhccC-CCChHHHHHHHHHHhhhcCCHHHHHHHHHHHHhCCC
Q 046221          500 LLARAG-----------CLSDASGLAGKLLE-GMGPNIWRALLSGCVLHVGRFQDAEALRSGSQKKGI  555 (572)
Q Consensus       500 ~~~~~g-----------~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~  555 (572)
                      +|...|           .+++|.+.|+++.+ .|+...+...+..+       ..|.+++.+..+.|+
T Consensus        84 ~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~-------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          84 AYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMT-------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH-------HTHHHHHHHHHHSSS
T ss_pred             HHHHcccchhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHHH-------HHHHHHHHHHHHHhc
Confidence            776654           36888899998887 78777766555443       466777777777665

>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=97.74  E-value=0.00031  Score=54.19  Aligned_cols=89  Identities=12%  Similarity=0.048  Sum_probs=69.9

Q ss_pred             HHHhhhcCChHHHHHHHHHc-------CCCCC-----------HhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CH
Q 046221          395 ISSYSKCGNVDLAYIVFEEM-------GFLRD-----------VVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DS  455 (572)
Q Consensus       395 ~~~~~~~g~~~~A~~~~~~~-------~~~~~-----------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~  455 (572)
                      ...+.+.|++.+|+..|.+.       ...++           ..+|..+..+|.+.|++++|+..+++.++.  .| +.
T Consensus        24 G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~--~p~~~  101 (153)
T d2fbna1          24 GNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI--DKNNV  101 (153)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhccccc--cchhh
Confidence            34556677777777777665       11111           235677888899999999999999999984  56 66


Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhHHhc
Q 046221          456 STYLSILNACGHAGLTNDGLVIFNQMIEEN  485 (572)
Q Consensus       456 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  485 (572)
                      .+|..+..++...|++++|+..|+++++..
T Consensus       102 ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1         102 KALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             hhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999999999999999999999999998643

>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=97.69  E-value=0.00061  Score=53.94  Aligned_cols=70  Identities=13%  Similarity=0.156  Sum_probs=47.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHH----hcCCCCChhH
Q 046221          422 SWNTIIYGYGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIE----ENKVKPSQEH  493 (572)
Q Consensus       422 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~~~  493 (572)
                      .+..+...+...|++++|+..++++.+  +.| +...|..++.+|.+.|+.++|++.|+++.+    ..|+.|+..+
T Consensus        69 a~~~la~~~~~~g~~~~Al~~~~~al~--~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          69 AHTAKAEAEIACGRASAVIAELEALTF--EHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHCCCchHHHHHHHHHHH--hCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            455666667777777777777777776  345 456777777777777777777777776532    3466676654

>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=97.64  E-value=0.00068  Score=53.24  Aligned_cols=107  Identities=12%  Similarity=-0.020  Sum_probs=77.0

Q ss_pred             HHHHhhhcCChHHHHHHHHHc----CCCC-------------CHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CH
Q 046221          394 LISSYSKCGNVDLAYIVFEEM----GFLR-------------DVVSWNTIIYGYGVNGHGETALALYHKMTETGEVP-DS  455 (572)
Q Consensus       394 l~~~~~~~g~~~~A~~~~~~~----~~~~-------------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p-~~  455 (572)
                      ....+.+.|++.+|...|++.    ...+             ....|+.+..+|.+.|++++|+..+++.++.  .| +.
T Consensus        21 ~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l--~p~~~   98 (168)
T d1kt1a1          21 KGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL--DSANE   98 (168)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhc--ccchH
Confidence            455667777777777777665    1111             1234556778899999999999999999984  45 56


Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhh
Q 046221          456 STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARA  504 (572)
Q Consensus       456 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  504 (572)
                      .+|..+..++...|++++|+..|+++++..  |.+......+..+..+.
T Consensus        99 ~a~~~~~~~~~~l~~~~~A~~~~~~al~l~--P~n~~~~~~l~~~~~~~  145 (168)
T d1kt1a1          99 KGLYRRGEAQLLMNEFESAKGDFEKVLEVN--PQNKAARLQIFMCQKKA  145 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHH
Confidence            899999999999999999999999998533  33444544444443333

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.61  E-value=0.00016  Score=61.47  Aligned_cols=121  Identities=14%  Similarity=0.000  Sum_probs=83.5

Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhhCCh
Q 046221          430 YGVNGHGETALALYHKMTETGEVP-DSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPS-QEHYGCVVDLLARAGCL  507 (572)
Q Consensus       430 ~~~~~~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~  507 (572)
                      ..+.|++++|+..+++.++.  .| |...+..+...++..|++++|...++.+++..   |+ ...+..+...+...+..
T Consensus         6 aL~~G~l~eAl~~l~~al~~--~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~---P~~~~~~~~l~~ll~a~~~~   80 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIKLF---PEYLPGASQLRHLVKAAQAR   80 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---GGGHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHhcccc
Confidence            45679999999999999984  66 56899999999999999999999999997643   54 44555566666555555


Q ss_pred             hHHHHHHHhccC--CCChHH-HHHHHHHHhhhcCCHHHHHHHHHHHHhCCCC
Q 046221          508 SDASGLAGKLLE--GMGPNI-WRALLSGCVLHVGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       508 ~~A~~~~~~~~~--~~~~~~-~~~l~~~~~~~~g~~~~A~~~~~~m~~~~~~  556 (572)
                      +++..-......  +|+... +......+... |+.++|.+.++++.+....
T Consensus        81 ~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~-gd~~~A~~~~~~a~e~~p~  131 (264)
T d1zbpa1          81 KDFAQGAATAKVLGENEELTKSLVSFNLSMVS-QDYEQVSELALQIEELRQE  131 (264)
T ss_dssp             HHHTTSCCCEECCCSCHHHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCCC
T ss_pred             HHHHHHhhhhhcccCchHHHHHHHHHHHHHhC-CCHHHHHHHHHHHHhcCCC
Confidence            554433322222  232222 22223334444 9999999999999877654

>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=97.61  E-value=0.00089  Score=52.93  Aligned_cols=61  Identities=11%  Similarity=0.009  Sum_probs=50.9

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhcc
Q 046221          456 STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLL  518 (572)
Q Consensus       456 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  518 (572)
                      ..+..+..++.+.|++++|+..++++++..  +-+...|..++.+|.+.|+..+|++.|+++.
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~--P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~  128 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH--PYREPLWTQLITAYYLSDRQSDALGAYRRVK  128 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC--CccHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            456778888889999999999999988765  5677788899999999999999999988863

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.38  E-value=0.00027  Score=54.84  Aligned_cols=99  Identities=13%  Similarity=0.032  Sum_probs=68.6

Q ss_pred             hHHHHH--HHHHHhcCChHHHHHHHHHHHhcCC-CCC----------HHHHHHHHHHHhccCChHHHHHHHHHhHHhc--
Q 046221          421 VSWNTI--IYGYGVNGHGETALALYHKMTETGE-VPD----------SSTYLSILNACGHAGLTNDGLVIFNQMIEEN--  485 (572)
Q Consensus       421 ~~~~~l--~~~~~~~~~~~~A~~~~~~~~~~g~-~p~----------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--  485 (572)
                      .+|..+  ...+...|++++|+..|++.++..- .|+          ..+|+.+..+|.+.|++++|...++++++-.  
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~   87 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   87 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccc
Confidence            345555  3445667888888888888776210 111          3567788888999999999998888876431  


Q ss_pred             --CCCCC-----hhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          486 --KVKPS-----QEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       486 --~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                        ...++     ...+..+..+|...|++++|.+.|+++.+
T Consensus        88 ~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          88 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence              11122     22567778899999999999999998765

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.34  E-value=0.0013  Score=50.70  Aligned_cols=97  Identities=15%  Similarity=0.039  Sum_probs=72.1

Q ss_pred             HHHHHH--HHHHhccCChHHHHHHHHHhHHhcCCCCC----------hhHHHHHHHHHHhhCChhHHHHHHHhccC----
Q 046221          456 STYLSI--LNACGHAGLTNDGLVIFNQMIEENKVKPS----------QEHYGCVVDLLARAGCLSDASGLAGKLLE----  519 (572)
Q Consensus       456 ~~~~~l--~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----  519 (572)
                      .+|..+  ...+...|++++|++.|+++++-..-.|+          ...|+.+..+|...|++++|.+.+++...    
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~   87 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   87 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccc
Confidence            355555  45577889999999999999875433333          35788899999999999999999888764    


Q ss_pred             ----CCC-----hHHHHHHHHHHhhhcCCHHHHHHHHHHHHhC
Q 046221          520 ----GMG-----PNIWRALLSGCVLHVGRFQDAEALRSGSQKK  553 (572)
Q Consensus       520 ----~~~-----~~~~~~l~~~~~~~~g~~~~A~~~~~~m~~~  553 (572)
                          .++     ...+..+..++... |++++|+..|++..+.
T Consensus        88 ~~~~~~~~~~~~~~a~~~~g~~~~~l-g~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          88 RGELNQDEGKLWISAVYSRALALDGL-GRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHH
T ss_pred             cccccccccchhHHHHhhhHHHHHHH-HHHHHHHHHHHHHHHh
Confidence                111     11355566666666 9999999999997653

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.22  E-value=0.00021  Score=60.74  Aligned_cols=118  Identities=14%  Similarity=-0.026  Sum_probs=72.0

Q ss_pred             hhcCChHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHhccCChHHHH
Q 046221          399 SKCGNVDLAYIVFEEM--GFLRDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDS-STYLSILNACGHAGLTNDGL  475 (572)
Q Consensus       399 ~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~a~  475 (572)
                      .+.|++++|+..+++.  ..+.+...+..+...|+..|++++|...|+...+  +.|+. ..+..+...+...+..+++.
T Consensus         7 L~~G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~--l~P~~~~~~~~l~~ll~a~~~~~~a~   84 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIK--LFPEYLPGASQLRHLVKAAQARKDFA   84 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCGGGHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHhccccHHHH
Confidence            4568888888888877  4434577788888888888888888888888887  46654 44444444444333333332


Q ss_pred             HHHHHhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          476 VIFNQMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .-..... ..+-+++...+......+.+.|+.++|.+.++++.+
T Consensus        85 ~~~~~~~-~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e  127 (264)
T d1zbpa1          85 QGAATAK-VLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  127 (264)
T ss_dssp             TSCCCEE-CCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhhhhh-cccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Confidence            2211110 011112222334445667778888888888887765

>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=97.20  E-value=0.00072  Score=63.93  Aligned_cols=129  Identities=7%  Similarity=-0.094  Sum_probs=77.7

Q ss_pred             CChHHHHHHHHHc-CCC-CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHH
Q 046221          402 GNVDLAYIVFEEM-GFL-RDVVSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFN  479 (572)
Q Consensus       402 g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  479 (572)
                      +.++.|+..+... +.. ++...+..+...+.+.|+.+.|...+.+....  .| ..++..+...+...|++++|+..|+
T Consensus       100 ~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~~-~~~~~~LG~l~~~~~~~~~A~~~y~  176 (497)
T d1ya0a1         100 GFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY--IC-QHCLVHLGDIARYRNQTSQAESYYR  176 (497)
T ss_dssp             HHHHHHHHHHTC-------------------------------CCHHHHH--HH-HHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC--CH-HHHHHHHHHHHHHcccHHHHHHHHH
Confidence            4445555555444 333 34566777888888999999999888776652  12 3677888999999999999999999


Q ss_pred             HhHHhcCCCCChhHHHHHHHHHHhhCChhHHHHHHHhccC--CCChHHHHHHHHHHhh
Q 046221          480 QMIEENKVKPSQEHYGCVVDLLARAGCLSDASGLAGKLLE--GMGPNIWRALLSGCVL  535 (572)
Q Consensus       480 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~  535 (572)
                      ++++..  |-+...|+.|+..+...|+..+|...|.+...  +|.+.++..|...+..
T Consensus       177 ~A~~l~--P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         177 HAAQLV--PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHHHHC--TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHH
T ss_pred             HHHHHC--CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence            998654  45567999999999999999999999999887  7777778877766543

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.17  E-value=0.0004  Score=52.90  Aligned_cols=114  Identities=12%  Similarity=-0.026  Sum_probs=73.7

Q ss_pred             hCCChHHHHHHHHHHHHcCCCCCcchHHHHHHHHcC----------CCChHHHHHHHHHHHHhcCCCCcccCCCCCCcee
Q 046221           48 INGFHEKSMKAFSHMMLSGLLPNSFTMVGVLVAAAG----------LQNLELARSIHGLMVKFGLESDLFEGLKNPYLVS  117 (572)
Q Consensus        48 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----------~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (572)
                      +.+.+++|+..|+...+.. |.+...+..+..++..          .+.+++|...++.+++..+          .+..+
T Consensus         9 r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P----------~~~~a   77 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDP----------KKDEA   77 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT----------TCHHH
T ss_pred             HHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcc----------hhhHH
Confidence            3445667777777766653 4444455555555442          2445788899999988876          45678


Q ss_pred             HHHHHHHHHhCC-----------ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhc
Q 046221          118 CNAIVAGFINNK-----------LFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLG  180 (572)
Q Consensus       118 ~~~l~~~~~~~~-----------~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  180 (572)
                      |+.+..+|...|           .+++|.+.|++..+  +.|+...|...+..+      .++.+++.+..+.|
T Consensus        78 ~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~------~ka~~~~~e~~k~~  143 (145)
T d1zu2a1          78 VWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT------AKAPQLHAEAYKQG  143 (145)
T ss_dssp             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH------HTHHHHHHHHHHSS
T ss_pred             HhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH------HHHHHHHHHHHHHh
Confidence            888888887654           35777788877776  467777766655544      34556666665554

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.08  E-value=0.0014  Score=45.45  Aligned_cols=60  Identities=15%  Similarity=0.030  Sum_probs=30.0

Q ss_pred             HHHHHHhccCChHHHHHHHHHhHHhcCC----CCC-hhHHHHHHHHHHhhCChhHHHHHHHhccC
Q 046221          460 SILNACGHAGLTNDGLVIFNQMIEENKV----KPS-QEHYGCVVDLLARAGCLSDASGLAGKLLE  519 (572)
Q Consensus       460 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~----~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  519 (572)
                      .+...+.+.|++++|+..|+++++...-    .++ ..++..|..++.+.|++++|.+.++++.+
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~   74 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH
Confidence            4444555555555555555555432210    111 23455555555555666666655555554

>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=96.79  E-value=0.01  Score=40.76  Aligned_cols=63  Identities=10%  Similarity=-0.079  Sum_probs=44.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhc-----CCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhHHhc
Q 046221          423 WNTIIYGYGVNGHGETALALYHKMTET-----GEVPD-SSTYLSILNACGHAGLTNDGLVIFNQMIEEN  485 (572)
Q Consensus       423 ~~~l~~~~~~~~~~~~A~~~~~~~~~~-----g~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  485 (572)
                      +-.+...+.+.|++++|+..|++..+.     ...++ ..++..+..++.+.|++++|+..++++++..
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            345666777788888888888777653     11223 3567778888888888888888888887643

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.12  E-value=0.063  Score=39.40  Aligned_cols=113  Identities=15%  Similarity=-0.025  Sum_probs=67.3

Q ss_pred             ChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh----hCChhHH
Q 046221          435 HGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQEHYGCVVDLLAR----AGCLSDA  510 (572)
Q Consensus       435 ~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A  510 (572)
                      |+++|+++|++..+.|. |.  ....|.  .....+.++|.+++++..+. |   +......|...|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g~-~~--a~~~l~--~~~~~~~~~a~~~~~~aa~~-g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE-MF--GCLSLV--SNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC-TT--HHHHHH--TCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCCC-hh--hhhhhc--cccccCHHHHHHHHhhhhcc-c---chhhhhhHHHhhhhccccchhhHHH
Confidence            56777777777777652 22  222222  23455677777777777532 2   34445555555543    3467778


Q ss_pred             HHHHHhccCCCChHHHHHHHHHHhhh---cCCHHHHHHHHHHHHhCCCC
Q 046221          511 SGLAGKLLEGMGPNIWRALLSGCVLH---VGRFQDAEALRSGSQKKGII  556 (572)
Q Consensus       511 ~~~~~~~~~~~~~~~~~~l~~~~~~~---~g~~~~A~~~~~~m~~~~~~  556 (572)
                      .++|++..+.-++.....|...+..-   ..+.++|.+++++..+.|..
T Consensus        79 ~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~~  127 (133)
T d1klxa_          79 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  127 (133)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCCH
Confidence            88888776655555555555444431   25677888888887777653

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=95.02  E-value=1.2  Score=40.32  Aligned_cols=386  Identities=9%  Similarity=-0.054  Sum_probs=185.9

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhc--cCChHHHHHHHHHHHHhcCCC-ChhHHhHHHHHHHh
Q 046221          121 IVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVA--LGSRALCELIHGLTIKLGLIL-DVSVNNSVLDMYSC  197 (572)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~  197 (572)
                      .+.-..+.|+...+..+...+...   | ...|...-..-..  .....+...++   .+..-.| ........+..+.+
T Consensus        12 ~a~~a~~~~~~~~~~~~~~~L~dy---p-L~pYl~~~~l~~~~~~~~~~~i~~Fl---~~~p~~P~~~~lr~~~l~~L~~   84 (450)
T d1qsaa1          12 QIKQAWDNRQMDVVEQMMPGLKDY---P-LYPYLEYRQITDDLMNQPAVTVTNFV---RANPTLPPARTLQSRFVNELAR   84 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHSGGGTTS---T-THHHHHHHHHHHTGGGCCHHHHHHHH---HHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHhhhcCC---C-CHHHHHHHHHHhccccCCHHHHHHHH---HHCCCChhHHHHHHHHHHHHHh
Confidence            344566788888888888877432   3 3344433332222  23444433333   2321111 11223444667788


Q ss_pred             CCCHHHHHHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHH
Q 046221          198 LMDLDAAIQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQV  277 (572)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  277 (572)
                      .+++......+..-+ .+...-.....+....|+...|...+..+-..|. ..+.....+...+...|.+.         
T Consensus        85 ~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~-~~p~~c~~l~~~~~~~~~lt---------  153 (450)
T d1qsaa1          85 REDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGK-SQPNACDKLFSVWRASGKQD---------  153 (450)
T ss_dssp             TTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSS-CCCTHHHHHHHHHHHTTCSC---------
T ss_pred             ccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC-CCchHHHHHHHHHHhcCCCC---------
Confidence            888887666554321 2444455677888889999999988888766652 22333344444333333221         


Q ss_pred             HHhCCCCCcchHHHHHHHHHhcCChhHHHHHHhccCC---------------------------CCcchHHHHHHHHHH-
Q 046221          278 VLGGLQSELRLSNSIIAMYSKCGDLDSSRSVFNQITE---------------------------KSLVSWTAIISGYVQ-  329 (572)
Q Consensus       278 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---------------------------~~~~~~~~l~~~~~~-  329 (572)
                              ...+-.-+......|+...|..+...+..                           .+......+..++.+ 
T Consensus       154 --------~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~l~rl  225 (450)
T d1qsaa1         154 --------PLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNPNTVLTFARTTGATDFTRQMAAVAFASV  225 (450)
T ss_dssp             --------HHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGGGHHHHHHHSCCCHHHHHHHHHHHHHH
T ss_pred             --------HHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhChHhHHHHHhcCCCChhhhHHHHHHHHHH
Confidence                    11111122222333333333333333221                           111111222222222 


Q ss_pred             -cCChHHHHHHHHHHHhcCCCCCCHhH-HH-HHHHHhcccccHHHHHHHHHHHHHhcCCCchhHHHHHHHHhhhcCChHH
Q 046221          330 -NGCAREALNQFIKMRQEKTDSVDSIT-LV-SILTASGELAALEICLQLHGIAFEAGFPRYRSVQNCLISSYSKCGNVDL  406 (572)
Q Consensus       330 -~~~~~~a~~~~~~~~~~~~~~~~~~~-~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  406 (572)
                       ..+.+.+..++..........++... .. .+.......+..+.+....+.....+  .+.......+......+++..
T Consensus       226 a~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~~~~  303 (450)
T d1qsaa1         226 ARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRG  303 (450)
T ss_dssp             HHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHH
T ss_pred             hccChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCChHH
Confidence             23556666666666533333222221 11 11222233444555555555444333  233333334444455667777


Q ss_pred             HHHHHHHcCCCCCH--hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhHHh
Q 046221          407 AYIVFEEMGFLRDV--VSWNTIIYGYGVNGHGETALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMIEE  484 (572)
Q Consensus       407 A~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  484 (572)
                      +...+..+...+..  ...-=+..++...|+.+.|...|.....   .++  -|..|...  +.|..-.       + ..
T Consensus       304 ~~~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~---~~~--fYG~LAa~--~Lg~~~~-------~-~~  368 (450)
T d1qsaa1         304 LNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ---QRG--FYPMVAAQ--RIGEEYE-------L-KI  368 (450)
T ss_dssp             HHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT---SCS--HHHHHHHH--HTTCCCC-------C-CC
T ss_pred             HHHHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc---CCC--hHHHHHHH--HcCCCCC-------C-Cc
Confidence            77777666322211  1111234556666777777777766653   232  22222211  1111000       0 00


Q ss_pred             cCCC--CChh----HHHHHHHHHHhhCChhHHHHHHHhccCCCChHHHHHHHHHHhhhcCCHHHHHHHHHHH
Q 046221          485 NKVK--PSQE----HYGCVVDLLARAGCLSDASGLAGKLLEGMGPNIWRALLSGCVLHVGRFQDAEALRSGS  550 (572)
Q Consensus       485 ~~~~--~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~m  550 (572)
                      ...+  +...    .-..-+..+...|....|...+..+....++.....+....... |.++.|+....+.
T Consensus       369 ~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~~~~~~~~la~lA~~~-g~~~~aI~a~~~~  439 (450)
T d1qsaa1         369 DKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSKSKTEQAQLARYAFNN-QWWDLSVQATIAG  439 (450)
T ss_dssp             CCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHT-TCHHHHHHHHHHT
T ss_pred             CCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCCCHHHHHHHHHHHHHC-CChhHHHHHHHHH
Confidence            0000  0000    01123456778899999999888887755666666665555555 9999988766654

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=94.49  E-value=0.48  Score=34.29  Aligned_cols=15  Identities=20%  Similarity=0.113  Sum_probs=7.3

Q ss_pred             ChHHHHHHHHHHHhc
Q 046221          435 HGETALALYHKMTET  449 (572)
Q Consensus       435 ~~~~A~~~~~~~~~~  449 (572)
                      +.++|.++|++..+.
T Consensus        74 d~~~A~~~~~~aa~~   88 (133)
T d1klxa_          74 DLRKAAQYYSKACGL   88 (133)
T ss_dssp             CHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHhhhhcc
Confidence            344555555554443

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.45  E-value=0.32  Score=34.39  Aligned_cols=77  Identities=14%  Similarity=0.030  Sum_probs=53.1

Q ss_pred             CCCHHHHHHHHHHHhccC---ChHHHHHHHHHhHHhcCCCCCh-hHHHHHHHHHHhhCChhHHHHHHHhccC-CCChHHH
Q 046221          452 VPDSSTYLSILNACGHAG---LTNDGLVIFNQMIEENKVKPSQ-EHYGCVVDLLARAGCLSDASGLAGKLLE-GMGPNIW  526 (572)
Q Consensus       452 ~p~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~  526 (572)
                      .|...|-.....++.++.   +.++++.+++++.+..  +.+. ..+..|.-+|.+.|++++|.+.++++.+ .|+....
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~--p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA  109 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA--ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  109 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC--chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHH
Confidence            355566666666766554   4567888888887543  2333 4667778888899999999999999887 6665544


Q ss_pred             HHHH
Q 046221          527 RALL  530 (572)
Q Consensus       527 ~~l~  530 (572)
                      ..|.
T Consensus       110 ~~L~  113 (124)
T d2pqrb1         110 GALK  113 (124)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=93.05  E-value=0.93  Score=31.71  Aligned_cols=140  Identities=12%  Similarity=0.032  Sum_probs=82.2

Q ss_pred             HHhCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHHHHHhCCCHHHH
Q 046221          125 FINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAA  204 (572)
Q Consensus       125 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  204 (572)
                      +...|..++..+++.+....   .+..-||.+|--....-+-+...+.++.+   |--.|..          +++++...
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~I---G~~FDls----------~C~Nlk~v   75 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKI---GSYFDLD----------KCQNLKSV   75 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHH---GGGSCGG----------GCSCTHHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHH---hhhcCch----------hhhcHHHH
Confidence            44567777777777776653   24555666665555555555544444443   2222221          12223333


Q ss_pred             HHHHhhcCCCCcccHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHhCC
Q 046221          205 IQIFREMECKDVISWTRMMGLFVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLGGL  282 (572)
Q Consensus       205 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  282 (572)
                      ...+-.+. .+....+..++.+..+|+-++-.++++.+.+. -.|++.....+..+|.+.|+..++..++.+.-+.|+
T Consensus        76 v~C~~~~n-~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          76 VECGVINN-TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHTT-CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhc-chHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            32222221 23334555667778888888888888886664 356677777777888888888888888777776664

>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=92.38  E-value=1.2  Score=31.19  Aligned_cols=139  Identities=17%  Similarity=0.002  Sum_probs=84.7

Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCccchHHHHHHhcccCChHHHHHHHHHHHHh-CCCCCcchHHHHHHHHHhcCChhH
Q 046221          226 FVDFEYAGDALKIFREMRKSRIICDTVALLNLISVNAILGDLKRGKQLHAQVVLG-GLQSELRLSNSIIAMYSKCGDLDS  304 (572)
Q Consensus       226 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~  304 (572)
                      +...|..++..+++.+...+   .+..-|+.++-.....-+-+...++++.+-+. ++.|-. -...++.++...+.   
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~-Nlk~vv~C~~~~n~---   84 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQ-NLKSVVECGVINNT---   84 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCS-CTHHHHHHHHHTTC---
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCchhhh-cHHHHHHHHHHhcc---
Confidence            34456677777777766653   24445555555444445555555554443221 111111 12334444444432   


Q ss_pred             HHHHHhccCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCCHhHHHHHHHHhcccccHHHHHHHHHHHHHhcC
Q 046221          305 SRSVFNQITEKSLVSWTAIISGYVQNGCAREALNQFIKMRQEKTDSVDSITLVSILTASGELAALEICLQLHGIAFEAGF  384 (572)
Q Consensus       305 a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  384 (572)
                                 +....+..++.+.+.|+-+.-.++++.+.  ....|++.....+..+|.+.|+..++.+++.+.-+.|+
T Consensus        85 -----------~se~vdlALd~lv~~~kkd~Ld~i~~~l~--kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          85 -----------LNEHVNKALDILVIQGKRDKLEEIGREIL--KNNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             -----------CCHHHHHHHHHHHHTTCHHHHHHHHHHHC----CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             -----------hHHHHHHHHHHHHHhccHHHHHHHHHHHH--hcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence                       22345556777888898888888888874  36677788888888888888888888888888877774

>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=89.17  E-value=1.2  Score=31.25  Aligned_cols=70  Identities=7%  Similarity=0.092  Sum_probs=44.5

Q ss_pred             CCHhHHHHHHHHHHhcC---ChHHHHHHHHHHHhcCCCC-CH-HHHHHHHHHHhccCChHHHHHHHHHhHHhcCCCCChh
Q 046221          418 RDVVSWNTIIYGYGVNG---HGETALALYHKMTETGEVP-DS-STYLSILNACGHAGLTNDGLVIFNQMIEENKVKPSQE  492 (572)
Q Consensus       418 ~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~g~~p-~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  492 (572)
                      ++..+--....++.++.   +.++++.+++++.+.  .| +. ..+..|.-+|.+.|++++|.+.++.+++.   .|+..
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~--~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i---eP~n~  107 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKE--AESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH---ERNNK  107 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CTTCH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhc--CchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc---CCCcH
Confidence            44444334444555443   356788888887764  34 33 45666777788888888888888888753   45544

>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=83.34  E-value=4.4  Score=26.66  Aligned_cols=63  Identities=17%  Similarity=0.094  Sum_probs=47.9

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCChhHHhHHHH
Q 046221          130 LFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCVALGSRALCELIHGLTIKLGLILDVSVNNSVLD  193 (572)
Q Consensus       130 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  193 (572)
                      +.-++.+-++.+....+.|+.....+.+++|.+.+++..|..+++...... .++...|..++.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHHH
Confidence            444666777777778889999999999999999999999999998877653 334556665543

>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=80.92  E-value=5.6  Score=26.18  Aligned_cols=45  Identities=13%  Similarity=0.118  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhH
Q 046221          438 TALALYHKMTETGEVPDSSTYLSILNACGHAGLTNDGLVIFNQMI  482 (572)
Q Consensus       438 ~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  482 (572)
                      ++.+-++.+....+.|++......+++|-+.+++..|.++|+-..
T Consensus        24 e~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK   68 (105)
T d1v54e_          24 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   68 (105)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            344445555555555666666666666666666666666665553