Citrus Sinensis ID: 048179

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------59
Protein Sequence
MIKTNLSAYGNSVGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMRAISSWLQGHMEEHEEHDPLSTAAQYAPTYYLKIRL
Secondary Structure (PSIPRED)
cEEccccccHHHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHcccccHHHHHHHHHHHHcccccccEEHHHHHHHHHcccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHcccccccEEEHHHHHHHHHHcccccHHHHHHHHHHHccccccHHHHHHHHHHHccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccEEEHHHHHHHHHcccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHccccHHHHHHHHccccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHcccccHHHHHHHHHHHcHHcccccccccHHHHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHHHcccccHHHHHHHHHHccccccccHHHHHHHHHHHccccHHHHHHHHHHHHccccccccccEEEEccEEEEEEccccccccHHHHHHHHHHHHHHHHHccccccccccHHHHHccccccHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
cccccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEHHHHHHHHHHcHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccEEEEEccEEEEEEEccccccHHHHHHHHHHHHHHHHHHcccEEccccHHHHHHHHHHccHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MIKTNLSAYGNSVGRIIALYGGKNDIVSARKLFeelplrgvdtYNSIIIAYsrkespfeVLGLYNQMikedvrpdsstFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMInglvfngqprEAVDAYKRMKKEGIDADEVVMMGLIQACADlgdsrfglsvhgYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQscgfepdsVSLVSALLACAQIGFLKlgksihgytvrrfdfnLVLGTSVIdmyskcgvpscARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGchnhkkfsiGEKVAKKVLklnpddlgiHALVSNFFAMEQKWEEVAGVRKTMRksgmkkvpgysvVEVNGELHAFIMedkshnqyEDIVYVLKKLYLEMRAISSWLQghmeeheehdplstaaqyapTYYLKIRL
Flexible Loop (DISEMBL)
MIKTNLSAYGNSVGRIIALYGGKNDIVSARKLFeelplrgvDTYNSIIIAysrkespfEVLGLYNQMIKEdvrpdsstFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTmrksgmkkvpgySVVEVNGELHAFimedkshnqYEDIVYVLKKLYLEMRAISSWLQGHMEEHeehdplstaaqyapTYYLKIRL
Low Complexity Region (SEG)
MIKTNLSAYGNSVGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFasllsalshsglVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMRAISSWLQGHMEEHEEHDPLSTAAQYAPTYYLKIRL
Disordered region (IsUnstruct)
*******AYGNSVGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMRAISSWLQGH**************QYAPTYYLK***
Disordered Region (DISOPRED)
MIKTNLSAYGNSVGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMRAISSWLQGHMEEHEEHDPLSTAAQYAPTYYLKIRL
Disordered Region (DISEMBL)
MIKTNLSAYGNSVGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMRAISSWLQGHM**********TAAQYAPTYYLKIRL
Disordered Region (DISPRO)
*I*TNLSAYGNSVGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMRAISSWLQGHMEEHEEHDPLSTAAQYAPTYYLKIRL
Transmembrane Helix (TMHMM)
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Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MIKTNLSAYGNSVGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMRAISSWLQGHMEEHEEHDPLSTAAQYAPTYYLKIRL
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	589	2.2.26 [Sep-21-2011]
Q9LJR6	601	Putative pentatricopeptid	yes	no	0.937	0.918	0.547	0.0
Q9LTV8	694	Pentatricopeptide repeat-	no	no	0.901	0.765	0.364	1e-106
Q3E6Q1	809	Pentatricopeptide repeat-	no	no	0.910	0.662	0.359	1e-104
O81767	823	Pentatricopeptide repeat-	no	no	0.923	0.660	0.348	1e-101
O82380	738	Pentatricopeptide repeat-	no	no	0.872	0.696	0.348	1e-100
Q9SUH6	792	Pentatricopeptide repeat-	no	no	0.908	0.675	0.341	1e-100
Q9SN39	871	Pentatricopeptide repeat-	no	no	0.928	0.628	0.353	2e-99
P0C899	686	Putative pentatricopeptid	no	no	0.864	0.741	0.360	2e-98
Q9SIT7	697	Pentatricopeptide repeat-	no	no	0.893	0.754	0.341	8e-98
Q9M9E2	866	Pentatricopeptide repeat-	no	no	0.918	0.624	0.359	5e-96

>sp|Q9LJR6|PP253_ARATH Putative pentatricopeptide repeat-containing protein At3g25060, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E96 PE=3 SV=1

 Score =  649 bits (1674), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 303/553 (54%), Positives = 415/553 (75%), Gaps = 1/553 (0%)

Query: 10  GNSVGR-IIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMI 68
           G+S+ R +IA  G   +I  ARK+F+ELP RGV  YNS+I+ YSR ++P EVL LY+QMI
Sbjct: 49  GSSISRDLIASCGRIGEISYARKVFDELPQRGVSVYNSMIVVYSRGKNPDEVLRLYDQMI 108

Query: 69  KEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMN 128
            E ++PDSSTFT+ +KAC+S + L+ GE +W KAV+ GY NDVFV SS+LNLY+KCGKM+
Sbjct: 109 AEKIQPDSSTFTMTIKACLSGLVLEKGEAVWCKAVDFGYKNDVFVCSSVLNLYMKCGKMD 168

Query: 129 EAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACA 188
           EA V F KM ++D++CW++M+ G    G+  +AV+ Y+ M+ EG   D VVM+GL+QA  
Sbjct: 169 EAEVLFGKMAKRDVICWTTMVTGFAQAGKSLKAVEFYREMQNEGFGRDRVVMLGLLQASG 228

Query: 189 DLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGA 248
           DLGD++ G SVHGY  R  L ++V V+TSLVDMYAK G +++AS VF  M     V+WG+
Sbjct: 229 DLGDTKMGRSVHGYLYRTGLPMNVVVETSLVDMYAKVGFIEVASRVFSRMMFKTAVSWGS 288

Query: 249 LISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRF 308
           LISGFAQNGLA    E ++EMQS GF+PD V+LV  L+AC+Q+G LK G+ +H Y ++R 
Sbjct: 289 LISGFAQNGLANKAFEAVVEMQSLGFQPDLVTLVGVLVACSQVGSLKTGRLVHCYILKRH 348

Query: 309 DFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQ 368
             + V  T+++DMYSKCG  S +R +F+ +  +DL+ WN +I+ YGIHG+G+E +SLFL+
Sbjct: 349 VLDRVTATALMDMYSKCGALSSSREIFEHVGRKDLVCWNTMISCYGIHGNGQEVVSLFLK 408

Query: 369 MIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAG 428
           M E+ ++PDH+TFASLLSALSHSGLVE+G++WF +M++KYKIQP+EKHY C++DLLARAG
Sbjct: 409 MTESNIEPDHATFASLLSALSHSGLVEQGQHWFSVMINKYKIQPSEKHYVCLIDLLARAG 468

Query: 429 EVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSN 488
            VEEAL +++S   +  L +WVALLSGC NH+  S+G+  A K+L+LNPD +GI  LVSN
Sbjct: 469 RVEEALDMINSEKLDNALPIWVALLSGCINHRNLSVGDIAANKILQLNPDSIGIQTLVSN 528

Query: 489 FFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKK 548
           FFA   KW+EVA VRK MR   M+KVPGYS +EVNGEL  F+MED SH+++  ++ VL+ 
Sbjct: 529 FFATANKWKEVAKVRKLMRNGAMEKVPGYSAIEVNGELRTFLMEDLSHHEHYHMLQVLRN 588

Query: 549 LYLEMRAISSWLQ 561
           L  E+R + S ++
Sbjct: 589 LKTEIRDVCSGVE 601

Arabidopsis thaliana (taxid: 3702)

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

 Score =  385 bits (990), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 196/537 (36%), Positives = 320/537 (59%), Gaps = 6/537 (1%)

Query: 10  GNSVGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIK 69
           G  + ++I       DI  AR++F++LP   +  +N+II  YSR     + L +Y+ M  
Sbjct: 53  GFLITKLIHASSSFGDITFARQVFDDLPRPQIFPWNAIIRGYSRNNHFQDALLMYSNMQL 112

Query: 70  EDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNE 129
             V PDS TF   LKAC  L  L+MG  +  +   LG+  DVFV + ++ LY KC ++  
Sbjct: 113 ARVSPDSFTFPHLLKACSGLSHLQMGRFVHAQVFRLGFDADVFVQNGLIALYAKCRRLGS 172

Query: 130 AMVAFE--KMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQAC 187
           A   FE   +  + +V W+++++    NG+P EA++ + +M+K  +  D V ++ ++ A 
Sbjct: 173 ARTVFEGLPLPERTIVSWTAIVSAYAQNGEPMEALEIFSQMRKMDVKPDWVALVSVLNAF 232

Query: 188 ADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWG 247
             L D + G S+H   ++  L ++  +  SL  MYAK G +  A  +F  M   N++ W 
Sbjct: 233 TCLQDLKQGRSIHASVVKMGLEIEPDLLISLNTMYAKCGQVATAKILFDKMKSPNLILWN 292

Query: 248 ALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRR 307
           A+ISG+A+NG A   +++  EM +    PD++S+ SA+ ACAQ+G L+  +S++ Y V R
Sbjct: 293 AMISGYAKNGYAREAIDMFHEMINKDVRPDTISITSAISACAQVGSLEQARSMYEY-VGR 351

Query: 308 FDF--NLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSL 365
            D+  ++ + +++IDM++KCG    AR +FD+   RD++ W+ +I  YG+HG   EA+SL
Sbjct: 352 SDYRDDVFISSALIDMFAKCGSVEGARLVFDRTLDRDVVVWSAMIVGYGLHGRAREAISL 411

Query: 366 FLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLA 425
           +  M    V P+  TF  LL A +HSG+V EG +WF   ++ +KI P ++HYAC++DLL 
Sbjct: 412 YRAMERGGVHPNDVTFLGLLMACNHSGMVREG-WWFFNRMADHKINPQQQHYACVIDLLG 470

Query: 426 RAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHAL 485
           RAG +++A +++  M  +PG+ VW ALLS C  H+   +GE  A+++  ++P + G +  
Sbjct: 471 RAGHLDQAYEVIKCMPVQPGVTVWGALLSACKKHRHVELGEYAAQQLFSIDPSNTGHYVQ 530

Query: 486 VSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDI 542
           +SN +A  + W+ VA VR  M++ G+ K  G S VEV G L AF + DKSH +YE+I
Sbjct: 531 LSNLYAAARLWDRVAEVRVRMKEKGLNKDVGCSWVEVRGRLEAFRVGDKSHPRYEEI 587

Arabidopsis thaliana (taxid: 3702)

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

 Score =  378 bits (971), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 193/537 (35%), Positives = 308/537 (57%), Gaps = 1/537 (0%)

Query: 19  LYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSST 78
           +Y     +  ARK+F+ +P R + ++N+I+  YS+       L +   M +E+++P   T
Sbjct: 179 MYAKCRQVNEARKVFDRMPERDLVSWNTIVAGYSQNGMARMALEMVKSMCEENLKPSFIT 238

Query: 79  FTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQ 138
               L A  +L  + +G+EI   A+  G+ + V + ++++++Y KCG +  A   F+ M 
Sbjct: 239 IVSVLPAVSALRLISVGKEIHGYAMRSGFDSLVNISTALVDMYAKCGSLETARQLFDGML 298

Query: 139 RKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLS 198
            +++V W+SMI+  V N  P+EA+  +++M  EG+   +V +MG + ACADLGD   G  
Sbjct: 299 ERNVVSWNSMIDAYVQNENPKEAMLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRF 358

Query: 199 VHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGL 258
           +H  S+   L+ +V V  SL+ MY K   +D A+ +F  +    +V+W A+I GFAQNG 
Sbjct: 359 IHKLSVELGLDRNVSVVNSLISMYCKCKEVDTAASMFGKLQSRTLVSWNAMILGFAQNGR 418

Query: 259 AGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRR-FDFNLVLGTS 317
               L    +M+S   +PD+ + VS + A A++      K IHG  +R   D N+ + T+
Sbjct: 419 PIDALNYFSQMRSRTVKPDTFTYVSVITAIAELSITHHAKWIHGVVMRSCLDKNVFVTTA 478

Query: 318 VIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPD 377
           ++DMY+KCG    AR +FD M  R + +WN +I  YG HG G+ AL LF +M +  +KP+
Sbjct: 479 LVDMYAKCGAIMIARLIFDMMSERHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPN 538

Query: 378 HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIV 437
             TF S++SA SHSGLVE G   F +M   Y I+ +  HY  MVDLL RAG + EA   +
Sbjct: 539 GVTFLSVISACSHSGLVEAGLKCFYMMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFI 598

Query: 438 DSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWE 497
             M  +P + V+ A+L  C  HK  +  EK A+++ +LNPDD G H L++N +     WE
Sbjct: 599 MQMPVKPAVNVYGAMLGACQIHKNVNFAEKAAERLFELNPDDGGYHVLLANIYRAASMWE 658

Query: 498 EVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMR 554
           +V  VR +M + G++K PG S+VE+  E+H+F     +H   + I   L+KL   ++
Sbjct: 659 KVGQVRVSMLRQGLRKTPGCSMVEIKNEVHSFFSGSTAHPDSKKIYAFLEKLICHIK 715

Arabidopsis thaliana (taxid: 3702)

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

 Score =  369 bits (947), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 194/556 (34%), Positives = 322/556 (57%), Gaps = 12/556 (2%)

Query: 16  IIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPD 75
           +I LY     + +AR LF+E+P+R + ++N++I  Y +  +  E L L N +   D    
Sbjct: 191 LIHLYSRYKAVGNARILFDEMPVRDMGSWNAMISGYCQSGNAKEALTLSNGLRAMD---- 246

Query: 76  SSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFE 135
           S T    L AC    D   G  I   +++ G  +++FV + +++LY + G++ +    F+
Sbjct: 247 SVTVVSLLSACTEAGDFNRGVTIHSYSIKHGLESELFVSNKLIDLYAEFGRLRDCQKVFD 306

Query: 136 KMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRF 195
           +M  +DL+ W+S+I     N QP  A+  ++ M+   I  D + ++ L    + LGD R 
Sbjct: 307 RMYVRDLISWNSIIKAYELNEQPLRAISLFQEMRLSRIQPDCLTLISLASILSQLGDIRA 366

Query: 196 GLSVHGYSIRRHLNL-DVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFA 254
             SV G+++R+   L D+ +  ++V MYAK G +D A  VF  +   ++++W  +ISG+A
Sbjct: 367 CRSVQGFTLRKGWFLEDITIGNAVVVMYAKLGLVDSARAVFNWLPNTDVISWNTIISGYA 426

Query: 255 QNGLAGSTLELLMEMQSCG-FEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRR-FDFNL 312
           QNG A   +E+   M+  G    +  + VS L AC+Q G L+ G  +HG  ++     ++
Sbjct: 427 QNGFASEAIEMYNIMEEEGEIAANQGTWVSVLPACSQAGALRQGMKLHGRLLKNGLYLDV 486

Query: 313 VLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIET 372
            + TS+ DMY KCG    A +LF Q+   + + WN +IA +G HGHGE+A+ LF +M++ 
Sbjct: 487 FVVTSLADMYGKCGRLEDALSLFYQIPRVNSVPWNTLIACHGFHGHGEKAVMLFKEMLDE 546

Query: 373 MVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEE 432
            VKPDH TF +LLSA SHSGLV+EG++ F++M + Y I P+ KHY CMVD+  RAG++E 
Sbjct: 547 GVKPDHITFVTLLSACSHSGLVDEGQWCFEMMQTDYGITPSLKHYGCMVDMYGRAGQLET 606

Query: 433 ALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAM 492
           ALK + SMS +P  ++W ALLS C  H    +G+  ++ + ++ P+ +G H L+SN +A 
Sbjct: 607 ALKFIKSMSLQPDASIWGALLSACRVHGNVDLGKIASEHLFEVEPEHVGYHVLLSNMYAS 666

Query: 493 EQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLE 552
             KWE V  +R      G++K PG+S +EV+ ++  F   +++H  YE++   L  L  +
Sbjct: 667 AGKWEGVDEIRSIAHGKGLRKTPGWSSMEVDNKVEVFYTGNQTHPMYEEMYRELTALQAK 726

Query: 553 MRAISSWLQGHMEEHE 568
           ++ I     G++ +H 
Sbjct: 727 LKMI-----GYVPDHR 737

Arabidopsis thaliana (taxid: 3702)

>sp|O82380|PP175_ARATH Pentatricopeptide repeat-containing protein At2g29760, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H33 PE=2 SV=1

 Score =  367 bits (943), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 191/548 (34%), Positives = 306/548 (55%), Gaps = 34/548 (6%)

Query: 29  ARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKE-DVRPDSSTFTVALKACV 87
           ARK+F+E+P      +N++I AY+    P   +  +  M+ E    P+  TF   +KA  
Sbjct: 83  ARKVFDEIPKPNSFAWNTLIRAYASGPDPVLSIWAFLDMVSESQCYPNKYTFPFLIKAAA 142

Query: 88  SLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSS 147
            +  L +G+ +   AV+   G+DVFV +S+++ Y  CG ++ A   F  ++ KD+V W+S
Sbjct: 143 EVSSLSLGQSLHGMAVKSAVGSDVFVANSLIHCYFSCGDLDSACKVFTTIKEKDVVSWNS 202

Query: 148 MINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRH 207
           MING V  G P +A++ +K+M+ E + A  V M+G++ ACA + +  FG  V  Y     
Sbjct: 203 MINGFVQKGSPDKALELFKKMESEDVKASHVTMVGVLSACAKIRNLEFGRQVCSYIEENR 262

Query: 208 LNLDVKVQTSLVDMYAKTGHLDLASHVF-------------------------------K 236
           +N+++ +  +++DMY K G ++ A  +F                                
Sbjct: 263 VNVNLTLANAMLDMYTKCGSIEDAKRLFDAMEEKDNVTWTTMLDGYAISEDYEAAREVLN 322

Query: 237 NMSRINIVTWGALISGFAQNGLAGSTLELLMEMQ-SCGFEPDSVSLVSALLACAQIGFLK 295
           +M + +IV W ALIS + QNG     L +  E+Q     + + ++LVS L ACAQ+G L+
Sbjct: 323 SMPQKDIVAWNALISAYEQNGKPNEALIVFHELQLQKNMKLNQITLVSTLSACAQVGALE 382

Query: 296 LGKSIHGYTVRR-FDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYG 354
           LG+ IH Y  +     N  + +++I MYSKCG    +R +F+ ++ RD+  W+ +I    
Sbjct: 383 LGRWIHSYIKKHGIRMNFHVTSALIHMYSKCGDLEKSREVFNSVEKRDVFVWSAMIGGLA 442

Query: 355 IHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTE 414
           +HG G EA+ +F +M E  VKP+  TF ++  A SH+GLV+E    F  M S Y I P E
Sbjct: 443 MHGCGNEAVDMFYKMQEANVKPNGVTFTNVFCACSHTGLVDEAESLFHQMESNYGIVPEE 502

Query: 415 KHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLK 474
           KHYAC+VD+L R+G +E+A+K +++M   P  +VW ALL  C  H   ++ E    ++L+
Sbjct: 503 KHYACIVDVLGRSGYLEKAVKFIEAMPIPPSTSVWGALLGACKIHANLNLAEMACTRLLE 562

Query: 475 LNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDK 534
           L P + G H L+SN +A   KWE V+ +RK MR +G+KK PG S +E++G +H F+  D 
Sbjct: 563 LEPRNDGAHVLLSNIYAKLGKWENVSELRKHMRVTGLKKEPGCSSIEIDGMIHEFLSGDN 622

Query: 535 SHNQYEDI 542
           +H   E +
Sbjct: 623 AHPMSEKV 630

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SUH6|PP341_ARATH Pentatricopeptide repeat-containing protein At4g30700 OS=Arabidopsis thaliana GN=DYW9 PE=2 SV=1

 Score =  366 bits (939), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 185/542 (34%), Positives = 315/542 (58%), Gaps = 7/542 (1%)

Query: 16  IIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKED-VRP 74
           I+ +Y     +  ARK+F+ +P +    +N++I  Y + E   E + ++  +I E   R 
Sbjct: 160 IVKMYFKFWRVEDARKVFDRMPEKDTILWNTMISGYRKNEMYVESIQVFRDLINESCTRL 219

Query: 75  DSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAF 134
           D++T    L A   L +L++G +I   A + G  +  +V +  ++LY KCGK+      F
Sbjct: 220 DTTTLLDILPAVAELQELRLGMQIHSLATKTGCYSHDYVLTGFISLYSKCGKIKMGSALF 279

Query: 135 EKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSR 194
            + ++ D+V +++MI+G   NG+   ++  +K +   G       ++ L+     L    
Sbjct: 280 REFRKPDIVAYNAMIHGYTSNGETELSLSLFKELMLSGARLRSSTLVSLVPVSGHL---M 336

Query: 195 FGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFA 254
              ++HGY ++ +      V T+L  +Y+K   ++ A  +F      ++ +W A+ISG+ 
Sbjct: 337 LIYAIHGYCLKSNFLSHASVSTALTTVYSKLNEIESARKLFDESPEKSLPSWNAMISGYT 396

Query: 255 QNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDF--NL 312
           QNGL    + L  EMQ   F P+ V++   L ACAQ+G L LGK +H   VR  DF  ++
Sbjct: 397 QNGLTEDAISLFREMQKSEFSPNPVTITCILSACAQLGALSLGKWVHDL-VRSTDFESSI 455

Query: 313 VLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIET 372
            + T++I MY+KCG  + AR LFD M  ++ ++WN +I+ YG+HG G+EAL++F +M+ +
Sbjct: 456 YVSTALIGMYAKCGSIAEARRLFDLMTKKNEVTWNTMISGYGLHGQGQEALNIFYEMLNS 515

Query: 373 MVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEE 432
            + P   TF  +L A SH+GLV+EG   F+ M+ +Y  +P+ KHYACMVD+L RAG ++ 
Sbjct: 516 GITPTPVTFLCVLYACSHAGLVKEGDEIFNSMIHRYGFEPSVKHYACMVDILGRAGHLQR 575

Query: 433 ALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAM 492
           AL+ +++MS EPG +VW  LL  C  HK  ++   V++K+ +L+PD++G H L+SN  + 
Sbjct: 576 ALQFIEAMSIEPGSSVWETLLGACRIHKDTNLARTVSEKLFELDPDNVGYHVLLSNIHSA 635

Query: 493 EQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLE 552
           ++ + + A VR+T +K  + K PGY+++E+    H F   D+SH Q ++I   L+KL  +
Sbjct: 636 DRNYPQAATVRQTAKKRKLAKAPGYTLIEIGETPHVFTSGDQSHPQVKEIYEKLEKLEGK 695

Query: 553 MR 554
           MR
Sbjct: 696 MR 697

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 =  363 bits (933), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 195/552 (35%), Positives = 315/552 (57%), Gaps = 5/552 (0%)

Query: 7   SAYG--NSVGR-IIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGL 63
           S +G  NSVG  ++A Y     + SARK+F+E+  R V ++NSII  Y       + L +
Sbjct: 224 SGFGERNSVGNSLVAFYLKNQRVDSARKVFDEMTERDVISWNSIINGYVSNGLAEKGLSV 283

Query: 64  YNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVK 123
           + QM+   +  D +T       C     + +G  +    V+  +  +    +++L++Y K
Sbjct: 284 FVQMLVSGIEIDLATIVSVFAGCADSRLISLGRAVHSIGVKACFSREDRFCNTLLDMYSK 343

Query: 124 CGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGL 183
           CG ++ A   F +M  + +V ++SMI G    G   EAV  ++ M++EGI  D   +  +
Sbjct: 344 CGDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEGISPDVYTVTAV 403

Query: 184 IQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINI 243
           +  CA       G  VH +     L  D+ V  +L+DMYAK G +  A  VF  M   +I
Sbjct: 404 LNCCARYRLLDEGKRVHEWIKENDLGFDIFVSNALMDMYAKCGSMQEAELVFSEMRVKDI 463

Query: 244 VTWGALISGFAQNGLAGSTLELL-MEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHG 302
           ++W  +I G+++N  A   L L  + ++   F PD  ++   L ACA +     G+ IHG
Sbjct: 464 ISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASLSAFDKGREIHG 523

Query: 303 YTVRRFDF-NLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEE 361
           Y +R   F +  +  S++DMY+KCG    A  LFD + S+DL+SW V+IA YG+HG G+E
Sbjct: 524 YIMRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSWTVMIAGYGMHGFGKE 583

Query: 362 ALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMV 421
           A++LF QM +  ++ D  +F SLL A SHSGLV+EG  +F++M  + KI+PT +HYAC+V
Sbjct: 584 AIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHECKIEPTVEHYACIV 643

Query: 422 DLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLG 481
           D+LAR G++ +A + +++M   P   +W ALL GC  H    + EKVA+KV +L P++ G
Sbjct: 644 DMLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKLAEKVAEKVFELEPENTG 703

Query: 482 IHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYED 541
            + L++N +A  +KWE+V  +RK + + G++K PG S +E+ G ++ F+  D S+ + E+
Sbjct: 704 YYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKGRVNIFVAGDSSNPETEN 763

Query: 542 IVYVLKKLYLEM 553
           I   L+K+   M
Sbjct: 764 IEAFLRKVRARM 775

Arabidopsis thaliana (taxid: 3702)

>sp|P0C899|PP271_ARATH Putative pentatricopeptide repeat-containing protein At3g49142 OS=Arabidopsis thaliana GN=PCMP-H77 PE=3 SV=1

 Score =  360 bits (923), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 196/543 (36%), Positives = 304/543 (55%), Gaps = 34/543 (6%)

Query: 15  RIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRP 74
           +++  Y    D+ SARK+F+E+P R V   N +I +Y       E + ++  M   +VRP
Sbjct: 79  KLMRAYASLKDVASARKVFDEIPERNVIIINVMIRSYVNNGFYGEGVKVFGTMCGCNVRP 138

Query: 75  DSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAF 134
           D  TF   LKAC     + +G +I   A ++G  + +FVG+ ++++Y KCG ++EA +  
Sbjct: 139 DHYTFPCVLKACSCSGTIVIGRKIHGSATKVGLSSTLFVGNGLVSMYGKCGFLSEARLVL 198

Query: 135 EKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSR 194
           ++M R+D+V W+S++ G   N +  +A++  + M+   I  D   M  L+ A ++     
Sbjct: 199 DEMSRRDVVSWNSLVVGYAQNQRFDDALEVCREMESVKISHDAGTMASLLPAVSN----- 253

Query: 195 FGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFA 254
                                T+   MY K         +F  M + ++V+W  +I  + 
Sbjct: 254 --------------------TTTENVMYVK--------DMFFKMGKKSLVSWNVMIGVYM 285

Query: 255 QNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVR-RFDFNLV 313
           +N +    +EL   M++ GFEPD+VS+ S L AC     L LGK IHGY  R +   NL+
Sbjct: 286 KNAMPVEAVELYSRMEADGFEPDAVSITSVLPACGDTSALSLGKKIHGYIERKKLIPNLL 345

Query: 314 LGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETM 373
           L  ++IDMY+KCG    AR +F+ M+SRD++SW  +I++YG  G G +A++LF ++ ++ 
Sbjct: 346 LENALIDMYAKCGCLEKARDVFENMKSRDVVSWTAMISAYGFSGRGCDAVALFSKLQDSG 405

Query: 374 VKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEA 433
           + PD   F + L+A SH+GL+EEGR  F LM   YKI P  +H ACMVDLL RAG+V+EA
Sbjct: 406 LVPDSIAFVTTLAACSHAGLLEEGRSCFKLMTDHYKITPRLEHLACMVDLLGRAGKVKEA 465

Query: 434 LKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAME 493
            + +  MS EP   VW ALL  C  H    IG   A K+ +L P+  G + L+SN +A  
Sbjct: 466 YRFIQDMSMEPNERVWGALLGACRVHSDTDIGLLAADKLFQLAPEQSGYYVLLSNIYAKA 525

Query: 494 QKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEM 553
            +WEEV  +R  M+  G+KK PG S VEVN  +H F++ D+SH Q ++I   L  L  +M
Sbjct: 526 GRWEEVTNIRNIMKSKGLKKNPGASNVEVNRIIHTFLVGDRSHPQSDEIYRELDVLVKKM 585

Query: 554 RAI 556
           + +
Sbjct: 586 KEL 588

Arabidopsis thaliana (taxid: 3702)

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

 Score =  358 bits (918), Expect = 8e-98,   Method: Compositional matrix adjust.
 Identities = 193/565 (34%), Positives = 307/565 (54%), Gaps = 39/565 (6%)

Query: 29  ARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVS 88
           A  LF  +P R   T+NS++  +++ +   E L  +  M KE    +  +F   L AC  
Sbjct: 105 ADSLFRSMPERDQCTWNSMVSGFAQHDRCEEALCYFAMMHKEGFVLNEYSFASVLSACSG 164

Query: 89  LMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSM 148
           L D+  G ++     +  + +DV++GS+++++Y KCG +N+A   F++M  +++V W+S+
Sbjct: 165 LNDMNKGVQVHSLIAKSPFLSDVYIGSALVDMYSKCGNVNDAQRVFDEMGDRNVVSWNSL 224

Query: 149 INGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRR-H 207
           I     NG   EA+D ++ M +  ++ DEV +  +I ACA L   + G  VHG  ++   
Sbjct: 225 ITCFEQNGPAVEALDVFQMMLESRVEPDEVTLASVISACASLSAIKVGQEVHGRVVKNDK 284

Query: 208 LNLDVKVQTSLVDMYAKTGHLDLASHVFKNM----------------------------- 238
           L  D+ +  + VDMYAK   +  A  +F +M                             
Sbjct: 285 LRNDIILSNAFVDMYAKCSRIKEARFIFDSMPIRNVIAETSMISGYAMAASTKAARLMFT 344

Query: 239 --SRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKL 296
             +  N+V+W ALI+G+ QNG     L L   ++     P   S  + L ACA +  L L
Sbjct: 345 KMAERNVVSWNALIAGYTQNGENEEALSLFCLLKRESVCPTHYSFANILKACADLAELHL 404

Query: 297 GKSIHGYTVRR-FDF------NLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVI 349
           G   H + ++  F F      ++ +G S+IDMY KCG       +F +M  RD +SWN +
Sbjct: 405 GMQAHVHVLKHGFKFQSGEEDDIFVGNSLIDMYVKCGCVEEGYLVFRKMMERDCVSWNAM 464

Query: 350 IASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYK 409
           I  +  +G+G EAL LF +M+E+  KPDH T   +LSA  H+G VEEGR++F  M   + 
Sbjct: 465 IIGFAQNGYGNEALELFREMLESGEKPDHITMIGVLSACGHAGFVEEGRHYFSSMTRDFG 524

Query: 410 IQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVA 469
           + P   HY CMVDLL RAG +EEA  +++ M  +P   +W +LL+ C  H+  ++G+ VA
Sbjct: 525 VAPLRDHYTCMVDLLGRAGFLEEAKSMIEEMPMQPDSVIWGSLLAACKVHRNITLGKYVA 584

Query: 470 KKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAF 529
           +K+L++ P + G + L+SN +A   KWE+V  VRK+MRK G+ K PG S +++ G  H F
Sbjct: 585 EKLLEVEPSNSGPYVLLSNMYAELGKWEDVMNVRKSMRKEGVTKQPGCSWIKIQGHDHVF 644

Query: 530 IMEDKSHNQYEDIVYVLKKLYLEMR 554
           +++DKSH + + I  +L  L  EMR
Sbjct: 645 MVKDKSHPRKKQIHSLLDILIAEMR 669

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 =  352 bits (903), Expect = 5e-96,   Method: Compositional matrix adjust.
 Identities = 196/545 (35%), Positives = 314/545 (57%), Gaps = 4/545 (0%)

Query: 13  VGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDV 72
           V  +I +Y    D+ SAR LF+ +P R + ++N++I  Y       E L L+  M    V
Sbjct: 234 VNALITMYVKCGDVKSARLLFDRMPRRDIISWNAMISGYFENGMCHEGLELFFAMRGLSV 293

Query: 73  RPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMV 132
            PD  T T  + AC  L D ++G +I    +  G+  D+ V +S+  +Y+  G   EA  
Sbjct: 294 DPDLMTLTSVISACELLGDRRLGRDIHAYVITTGFAVDISVCNSLTQMYLNAGSWREAEK 353

Query: 133 AFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGD 192
            F +M+RKD+V W++MI+G  +N  P +A+D Y+ M ++ +  DE+ +  ++ ACA LGD
Sbjct: 354 LFSRMERKDIVSWTTMISGYEYNFLPDKAIDTYRMMDQDSVKPDEITVAAVLSACATLGD 413

Query: 193 SRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISG 252
              G+ +H  +I+  L   V V  +L++MY+K   +D A  +F N+ R N+++W ++I+G
Sbjct: 414 LDTGVELHKLAIKARLISYVIVANNLINMYSKCKCIDKALDIFHNIPRKNVISWTSIIAG 473

Query: 253 FAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRR-FDFN 311
              N      L  L +M+    +P++++L +AL ACA+IG L  GK IH + +R     +
Sbjct: 474 LRLNNRCFEALIFLRQMKM-TLQPNAITLTAALAACARIGALMCGKEIHAHVLRTGVGLD 532

Query: 312 LVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIE 371
             L  +++DMY +CG  + A + F+  Q +D+ SWN+++  Y   G G   + LF +M++
Sbjct: 533 DFLPNALLDMYVRCGRMNTAWSQFNS-QKKDVTSWNILLTGYSERGQGSMVVELFDRMVK 591

Query: 372 TMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVE 431
           + V+PD  TF SLL   S S +V +G  +F  M   Y + P  KHYAC+VDLL RAGE++
Sbjct: 592 SRVRPDEITFISLLCGCSKSQMVRQGLMYFSKM-EDYGVTPNLKHYACVVDLLGRAGELQ 650

Query: 432 EALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA 491
           EA K +  M   P  AVW ALL+ C  H K  +GE  A+ + +L+   +G + L+ N +A
Sbjct: 651 EAHKFIQKMPVTPDPAVWGALLNACRIHHKIDLGELSAQHIFELDKKSVGYYILLCNLYA 710

Query: 492 MEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYL 551
              KW EVA VR+ M+++G+    G S VEV G++HAF+ +DK H Q ++I  VL+  Y 
Sbjct: 711 DCGKWREVAKVRRMMKENGLTVDAGCSWVEVKGKVHAFLSDDKYHPQTKEINTVLEGFYE 770

Query: 552 EMRAI 556
           +M  +
Sbjct: 771 KMSEV 775

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	589
359495515	678	PREDICTED: putative pentatricopeptide re	0.943	0.820	0.661	0.0
255560101	579	pentatricopeptide repeat-containing prot	0.923	0.939	0.616	0.0
224065397	602	predicted protein [Populus trichocarpa]	0.932	0.911	0.629	0.0
15230248	601	pentatricopeptide repeat-containing prot	0.937	0.918	0.547	0.0
297791795	590	predicted protein [Arabidopsis lyrata su	0.911	0.910	0.529	1e-174
242035229	684	hypothetical protein SORBIDRAFT_01g03041	0.870	0.75	0.540	1e-167
414867547	677	TPA: hypothetical protein ZEAMMB73_77239	0.869	0.756	0.541	1e-164
125532805	681	hypothetical protein OsI_34497 [Oryza sa	0.853	0.738	0.547	1e-162
12039323	787	hypothetical protein [Oryza sativa Japon	0.853	0.639	0.545	1e-161
115483184	681	Os10g0540100 [Oryza sativa Japonica Grou	0.853	0.738	0.545	1e-161

>gi|359495515|ref|XP_002265720.2| PREDICTED: putative pentatricopeptide repeat-containing protein At3g25060, mitochondrial-like [Vitis vinifera]

 Score =  775 bits (2001), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 368/556 (66%), Positives = 456/556 (82%)

Query: 1   MIKTNLSAYGNSVGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEV 60
           MI T +  +GNS  ++I  Y     I SAR++F++ P  GVD +N++IIAYSR+ + FE 
Sbjct: 30  MILTGIFGHGNSNAKLIQSYARLGHIESARQVFDKSPQCGVDAWNAMIIAYSRRGAMFEA 89

Query: 61  LGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNL 120
           L LY++M  E VRPDSST+TV LKAC   +DL+ GEE WR+AV+ GYG+DVFVG+++LNL
Sbjct: 90  LSLYHRMASEGVRPDSSTYTVVLKACTRSLDLRSGEETWRQAVDQGYGDDVFVGAAVLNL 149

Query: 121 YVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVM 180
           Y KCGKM+EAM  F+KM R+DLVCW++MI GL  NGQ REAVD Y++M K+ ++ D VVM
Sbjct: 150 YAKCGKMDEAMRVFDKMGRRDLVCWTTMITGLAQNGQAREAVDIYRQMHKKRVEGDGVVM 209

Query: 181 MGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR 240
           +GLIQAC  LG S+ GLS+HGY IR+ + +DV VQTSLVDMYAK GHL+LAS VF+ M  
Sbjct: 210 LGLIQACTTLGHSKMGLSIHGYMIRKDIIMDVIVQTSLVDMYAKNGHLELASCVFRRMLY 269

Query: 241 INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSI 300
            N+++W ALISGFAQNG AG+ L+L+++MQS G++PDSVSLVS LLAC+Q+GFLKLGKS+
Sbjct: 270 KNVISWSALISGFAQNGFAGNALQLVVDMQSFGYKPDSVSLVSVLLACSQVGFLKLGKSV 329

Query: 301 HGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGE 360
           HGY VRR  F+ V  T+VIDMYSKCG  S AR +FDQ+  RD ISWN IIASYGIHG GE
Sbjct: 330 HGYIVRRLHFDCVSSTAVIDMYSKCGSLSFARTVFDQISFRDSISWNAIIASYGIHGSGE 389

Query: 361 EALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACM 420
           EALSLFLQM ET VKPDH+TFASLLSA SHSGLVE+GRYWF +MV++YKIQP+EKHYACM
Sbjct: 390 EALSLFLQMRETNVKPDHATFASLLSAFSHSGLVEKGRYWFSIMVNEYKIQPSEKHYACM 449

Query: 421 VDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDL 480
           VDLL+RAG VEEA ++++SM TEPG+A+WVALLSGC NH KF IGE  AKKVL+LNPDD 
Sbjct: 450 VDLLSRAGRVEEAQELIESMITEPGIAIWVALLSGCLNHGKFLIGEMAAKKVLELNPDDP 509

Query: 481 GIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYE 540
           GI++LVSNFFA  ++W+EVA VRK M+K+GMKKVPGYSV+EVNG+LHAF+MEDKSH+QYE
Sbjct: 510 GIYSLVSNFFATARRWDEVAEVRKIMKKTGMKKVPGYSVMEVNGKLHAFLMEDKSHHQYE 569

Query: 541 DIVYVLKKLYLEMRAI 556
           +I+ VL KL  EM+A+
Sbjct: 570 EIMQVLGKLDYEMKAM 585

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255560101|ref|XP_002521068.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223539637|gb|EEF41219.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  726 bits (1873), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 337/547 (61%), Positives = 438/547 (80%)

Query: 10  GNSVGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIK 69
            NS+ ++IA YG  N+I+ AR +FE++P R ++ +NS+IIAYSR   P EVL LY +MI 
Sbjct: 18  ANSIAQLIASYGRINNIIPARNVFEKMPQRSINAWNSMIIAYSRTNYPDEVLNLYYRMIS 77

Query: 70  EDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNE 129
           E ++PDSSTFTV LKAC SLMDL MGE IW +AV+ GYG DVFV SS+LNLY K GKM++
Sbjct: 78  EGIKPDSSTFTVTLKACSSLMDLDMGEIIWNQAVDFGYGFDVFVVSSVLNLYAKSGKMDK 137

Query: 130 AMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACAD 189
           A + F+KM ++D+V W++MI G   +G+P +A+D Y+ M+KE  + D VVM+GLIQAC  
Sbjct: 138 AKIVFDKMVKRDVVSWTTMITGFAQSGRPLDAIDIYRTMQKERTEGDGVVMVGLIQACTS 197

Query: 190 LGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGAL 249
           LGDS+FGLSVHG+ +RR +N+D  +QTSL+DMYAK G L+LAS VF+ +   ++++WGAL
Sbjct: 198 LGDSKFGLSVHGHMVRREMNMDNVLQTSLIDMYAKNGKLELASRVFEGIPYKSVISWGAL 257

Query: 250 ISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFD 309
           ISGFAQNG A  TL  L+EMQ+ GF+PD VSL+S+L ACAQ+G LK+GKS+HG+ V+R  
Sbjct: 258 ISGFAQNGFANKTLASLVEMQNSGFKPDLVSLISSLSACAQVGNLKVGKSLHGHIVKRLY 317

Query: 310 FNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQM 369
            + V GT++IDMY+KCG  + ARALFDQ++ RDLI WN +I+SYGIHG G EALSLFL+M
Sbjct: 318 LDKVSGTALIDMYAKCGALTFARALFDQIEPRDLILWNAMISSYGIHGDGIEALSLFLKM 377

Query: 370 IETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGE 429
            ET + PDH+TFASLLSA SHSGLVEEG+YWF +++ K KIQP+EKHYACMVDLL+RAG+
Sbjct: 378 KETNITPDHATFASLLSACSHSGLVEEGQYWFHVLIDKSKIQPSEKHYACMVDLLSRAGQ 437

Query: 430 VEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNF 489
           VEEA ++++SM  +PGLA+WVALLSGC NHK   IGE VAKK+L+ NPDDLGI+ LVSNF
Sbjct: 438 VEEAYQLIESMHIKPGLAIWVALLSGCLNHKNLLIGEMVAKKILESNPDDLGIYVLVSNF 497

Query: 490 FAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKL 549
           F+M +KW++ A  RK M+ +GM+KVPGYS VEVNG+L AF+MEDK+HNQY+DI+ +L  L
Sbjct: 498 FSMAKKWDDAAVFRKIMKNTGMRKVPGYSAVEVNGDLQAFLMEDKNHNQYQDILQILDIL 557

Query: 550 YLEMRAI 556
             EMR+I
Sbjct: 558 DNEMRSI 564

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224065397|ref|XP_002301797.1| predicted protein [Populus trichocarpa] gi|222843523|gb|EEE81070.1| predicted protein [Populus trichocarpa]

 Score =  724 bits (1869), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 346/550 (62%), Positives = 442/550 (80%), Gaps = 1/550 (0%)

Query: 8   AYGNSVGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQM 67
           A  N  G +IA Y     I SAR LF++LP RGVD +N++I+AYSR+    EVL LY+QM
Sbjct: 38  ANSNFNGLVIASYARIGGITSARHLFDKLPQRGVDAWNAMIVAYSRRYHLTEVLNLYHQM 97

Query: 68  IKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKM 127
           + E  +PDSSTFTVA+KA  SL DL+ GE IWR+AV+ GYG DVFVGSS+LNLYVKCGK+
Sbjct: 98  VNEGGKPDSSTFTVAIKASSSLKDLEAGERIWRRAVDFGYGCDVFVGSSVLNLYVKCGKI 157

Query: 128 NEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQAC 187
           +EA + F+KM ++D+VCW++MI GLV NG   EAVD ++RM+KEGI+ D V+M+GL+QAC
Sbjct: 158 DEAKLVFDKMVKRDVVCWATMITGLVQNGNVLEAVDMFRRMRKEGIEGDGVLMLGLVQAC 217

Query: 188 ADLGDSRFGLSVHGYSIRRHLNLD-VKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTW 246
           A+LG+ + GLSVHG+++RR + +D V +QTSLVDMYAK G L+LAS VF+ M R N V+W
Sbjct: 218 ANLGELKLGLSVHGHAVRREMLMDDVILQTSLVDMYAKIGDLELASRVFEQMPRKNAVSW 277

Query: 247 GALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVR 306
           GALISGFAQNG A   L+LL+EMQS  F+PD+  LVSALLAC+Q+G LKLGKSIHGY VR
Sbjct: 278 GALISGFAQNGFAEYALDLLVEMQSLEFKPDTAVLVSALLACSQVGHLKLGKSIHGYIVR 337

Query: 307 RFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLF 366
           R  F LVLGT++IDMY+KCG  SCA A+FD++ SRD+I WN +IASYGIHG G+E LSLF
Sbjct: 338 RLGFELVLGTALIDMYAKCGSLSCAHAIFDRVDSRDVILWNTMIASYGIHGDGKEVLSLF 397

Query: 367 LQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLAR 426
           L+M E  + PDH+TFASLLSALSHSG V+ G+YWF+ MV++ KI P+EKHYACMVDL +R
Sbjct: 398 LKMKEANISPDHATFASLLSALSHSGQVDVGQYWFNAMVNECKIPPSEKHYACMVDLFSR 457

Query: 427 AGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALV 486
           AG VEEA ++++SM+TEPGLA+WVALLSGCHN++    GE  AKK+L LNPDDLGI+ALV
Sbjct: 458 AGRVEEAYQLIESMNTEPGLAIWVALLSGCHNYRNLLFGEVAAKKILDLNPDDLGIYALV 517

Query: 487 SNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVL 546
           SNFF++ + W+ V+ +RK M+++GMKKVPGYS VEVNG+  AF++EDK+H+QYE+I+ +L
Sbjct: 518 SNFFSLARMWDRVSILRKIMKETGMKKVPGYSAVEVNGKHEAFLVEDKNHHQYEEILQML 577

Query: 547 KKLYLEMRAI 556
             L  EMR I
Sbjct: 578 DSLDNEMRVI 587

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15230248|ref|NP_189142.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75273633|sp|Q9LJR6.1|PP253_ARATH RecName: Full=Putative pentatricopeptide repeat-containing protein At3g25060, mitochondrial; Flags: Precursor gi|9293988|dbj|BAB01891.1| unnamed protein product [Arabidopsis thaliana] gi|332643452|gb|AEE76973.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  649 bits (1674), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 303/553 (54%), Positives = 415/553 (75%), Gaps = 1/553 (0%)

Query: 10  GNSVGR-IIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMI 68
           G+S+ R +IA  G   +I  ARK+F+ELP RGV  YNS+I+ YSR ++P EVL LY+QMI
Sbjct: 49  GSSISRDLIASCGRIGEISYARKVFDELPQRGVSVYNSMIVVYSRGKNPDEVLRLYDQMI 108

Query: 69  KEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMN 128
            E ++PDSSTFT+ +KAC+S + L+ GE +W KAV+ GY NDVFV SS+LNLY+KCGKM+
Sbjct: 109 AEKIQPDSSTFTMTIKACLSGLVLEKGEAVWCKAVDFGYKNDVFVCSSVLNLYMKCGKMD 168

Query: 129 EAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACA 188
           EA V F KM ++D++CW++M+ G    G+  +AV+ Y+ M+ EG   D VVM+GL+QA  
Sbjct: 169 EAEVLFGKMAKRDVICWTTMVTGFAQAGKSLKAVEFYREMQNEGFGRDRVVMLGLLQASG 228

Query: 189 DLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGA 248
           DLGD++ G SVHGY  R  L ++V V+TSLVDMYAK G +++AS VF  M     V+WG+
Sbjct: 229 DLGDTKMGRSVHGYLYRTGLPMNVVVETSLVDMYAKVGFIEVASRVFSRMMFKTAVSWGS 288

Query: 249 LISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRF 308
           LISGFAQNGLA    E ++EMQS GF+PD V+LV  L+AC+Q+G LK G+ +H Y ++R 
Sbjct: 289 LISGFAQNGLANKAFEAVVEMQSLGFQPDLVTLVGVLVACSQVGSLKTGRLVHCYILKRH 348

Query: 309 DFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQ 368
             + V  T+++DMYSKCG  S +R +F+ +  +DL+ WN +I+ YGIHG+G+E +SLFL+
Sbjct: 349 VLDRVTATALMDMYSKCGALSSSREIFEHVGRKDLVCWNTMISCYGIHGNGQEVVSLFLK 408

Query: 369 MIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAG 428
           M E+ ++PDH+TFASLLSALSHSGLVE+G++WF +M++KYKIQP+EKHY C++DLLARAG
Sbjct: 409 MTESNIEPDHATFASLLSALSHSGLVEQGQHWFSVMINKYKIQPSEKHYVCLIDLLARAG 468

Query: 429 EVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSN 488
            VEEAL +++S   +  L +WVALLSGC NH+  S+G+  A K+L+LNPD +GI  LVSN
Sbjct: 469 RVEEALDMINSEKLDNALPIWVALLSGCINHRNLSVGDIAANKILQLNPDSIGIQTLVSN 528

Query: 489 FFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKK 548
           FFA   KW+EVA VRK MR   M+KVPGYS +EVNGEL  F+MED SH+++  ++ VL+ 
Sbjct: 529 FFATANKWKEVAKVRKLMRNGAMEKVPGYSAIEVNGELRTFLMEDLSHHEHYHMLQVLRN 588

Query: 549 LYLEMRAISSWLQ 561
           L  E+R + S ++
Sbjct: 589 LKTEIRDVCSGVE 601

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297791795|ref|XP_002863782.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297309617|gb|EFH40041.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  617 bits (1592), Expect = e-174,   Method: Compositional matrix adjust.
 Identities = 290/548 (52%), Positives = 395/548 (72%), Gaps = 11/548 (2%)

Query: 10  GNSVGR-IIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMI 68
           G+S+ R ++ALYG   +I  ARK+F++LP R V  YNS+I+ YSR  +P EVL LY+QMI
Sbjct: 41  GSSISRDLVALYGRIGEISYARKVFDQLPQRSVSVYNSMIVVYSRGNNPNEVLKLYDQMI 100

Query: 69  KEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMN 128
            E V+PDSSTFT+ +KAC+S M L+ GE +W KAVE GY NDVFV SS+LNLY+KCGKMN
Sbjct: 101 SERVKPDSSTFTITIKACLSGMALEKGEAVWSKAVEFGYKNDVFVCSSVLNLYMKCGKMN 160

Query: 129 EAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACA 188
           EA V F KM ++D++CW++M+ G    G+  +AV+ Y+ M+ EG   D VVM+GL+QA  
Sbjct: 161 EAEVLFRKMTKRDVICWTTMVTGFAQGGKSMKAVEFYREMQNEGFGRDRVVMLGLLQASG 220

Query: 189 DLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGA 248
           DLGD + G SVHGY IR  L ++  V+TSLVDMYAK G +++A  +F  M     VTWG+
Sbjct: 221 DLGDPKMGRSVHGYLIRTGLPMNTVVETSLVDMYAKVGFIEVAFRMFSRMMFKTAVTWGS 280

Query: 249 LISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRF 308
           LISGFAQNGLA    E ++EMQS GF+ D  +LV  L+AC+Q+G L  G S+H Y ++R 
Sbjct: 281 LISGFAQNGLANYAFEAVLEMQSLGFQLDLATLVGVLVACSQVGSLTTGISVHCYILKRH 340

Query: 309 DFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQ 368
             + +  T+++DMYSKCG  S +R +F+ +  +DL+ WN +I+           +S+FL+
Sbjct: 341 VLDRITATALMDMYSKCGALSSSRVIFEHVGRKDLVCWNTMIS----------FVSMFLK 390

Query: 369 MIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAG 428
           M ET ++PDH+TFASLLSALSHSGLVE+G++WF +M++KY IQP+EKHY C++DLLARAG
Sbjct: 391 MTETNIEPDHATFASLLSALSHSGLVEQGQHWFSVMINKYNIQPSEKHYVCLIDLLARAG 450

Query: 429 EVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSN 488
            VEEAL +++S   +  L +WVALLSGC NH+  S+G+  A K+L+LNPD  GI  LV N
Sbjct: 451 RVEEALDMINSAKLDNALPIWVALLSGCINHRNLSVGDIAANKILQLNPDSTGIQTLVCN 510

Query: 489 FFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKK 548
           FFA  +KW EVA VRK MR   M+KVPG SV+E+NG+L  F+MED +H+++  I+ VL+ 
Sbjct: 511 FFATARKWTEVAKVRKLMRNGAMEKVPGQSVIEMNGQLRTFLMEDLNHHEHAHILQVLRN 570

Query: 549 LYLEMRAI 556
           L  EM+ +
Sbjct: 571 LNSEMKNV 578

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242035229|ref|XP_002465009.1| hypothetical protein SORBIDRAFT_01g030410 [Sorghum bicolor] gi|241918863|gb|EER92007.1| hypothetical protein SORBIDRAFT_01g030410 [Sorghum bicolor]

 Score =  594 bits (1531), Expect = e-167,   Method: Compositional matrix adjust.
 Identities = 278/514 (54%), Positives = 378/514 (73%), Gaps = 1/514 (0%)

Query: 41  VDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWR 100
           +  +N+++ A SR  SP   L ++ + +    RPDS+TFT+AL AC  L DL   E +  
Sbjct: 77  IPAWNALLAARSRAGSPGAALRVF-RALPSSARPDSTTFTLALTACARLGDLDAAEAVRV 135

Query: 101 KAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPRE 160
           +A   GYG DVFV S++L++Y +CG M +A+  F+ M RKD V WS+M+ G V  G+P E
Sbjct: 136 RAFAAGYGRDVFVCSALLHVYSRCGAMGDAIRVFDGMPRKDHVAWSTMVAGFVSAGRPVE 195

Query: 161 AVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVD 220
           A+  Y RM++ G+  DEVVM+G+IQAC   G++R G SVHG  +R  + +DV + TSLVD
Sbjct: 196 ALGMYSRMREHGVAEDEVVMVGVIQACTLTGNTRMGASVHGRFLRHGMRMDVVIATSLVD 255

Query: 221 MYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVS 280
           MYAK GH D+A  VF+ M   N V+W ALISGFAQNG A   L+L  EM + G +PDS +
Sbjct: 256 MYAKNGHFDVARQVFRMMPYRNAVSWNALISGFAQNGHADEALDLFREMSTSGLQPDSGA 315

Query: 281 LVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS 340
           LVSALLACA +GFLKLGKSIHG+ +RR +F  +LGT+V+DMYSKCG    AR LF+++ S
Sbjct: 316 LVSALLACADVGFLKLGKSIHGFILRRLEFQCILGTAVLDMYSKCGSLESARKLFNKLSS 375

Query: 341 RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYW 400
           RDL+ WN +IA  G HG G +AL+LF ++ ET +KPDH+TFASLLSALSHSGLVEEG++W
Sbjct: 376 RDLVLWNAMIACCGTHGCGHDALALFQELNETGIKPDHATFASLLSALSHSGLVEEGKFW 435

Query: 401 FDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHK 460
           FD M++++ I+PTEKH  C+VDLLAR+G VEEA +++ SM TEP + +WVALLSGC N+K
Sbjct: 436 FDRMITEFGIEPTEKHCVCVVDLLARSGLVEEANEMLASMHTEPTIPIWVALLSGCLNNK 495

Query: 461 KFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVV 520
           K  +GE +AKK+L+  P+D+G+ ALVSN +A  +KW++V  +RK M+ SG KKVPGYS++
Sbjct: 496 KLELGETIAKKILESQPEDIGVLALVSNLYAAAKKWDKVREIRKLMKDSGSKKVPGYSLI 555

Query: 521 EVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMR 554
           EV+G  HAF+MED+SH Q+++I+ ++ KL  EMR
Sbjct: 556 EVHGTRHAFVMEDQSHPQHQEILKMISKLSFEMR 589

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|414867547|tpg|DAA46104.1| TPA: hypothetical protein ZEAMMB73_772392 [Zea mays]

 Score =  586 bits (1510), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 278/513 (54%), Positives = 374/513 (72%), Gaps = 1/513 (0%)

Query: 44  YNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAV 103
           +N ++ A+SR  +P   L ++ + +    RP+S+TFT+ L AC  L DL   E +  +A 
Sbjct: 76  WNGLLSAHSRAGAPGAALRVF-RALPSSARPNSTTFTLTLTACARLGDLDAAESVRVRAF 134

Query: 104 ELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVD 163
             GYG+DVFV S++L+LY +CG M EA+  F+ M RKD V WS+M+ G V  G+P EA+ 
Sbjct: 135 AAGYGHDVFVCSALLHLYSRCGAMEEAIRVFDGMPRKDRVAWSTMVAGFVTAGRPVEALA 194

Query: 164 AYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYA 223
            Y RM++ G+  DEVVM+G+IQAC   G++R G SVHG  +R  + +DV   TSLV MYA
Sbjct: 195 MYSRMREHGVSDDEVVMVGVIQACMSTGNARIGASVHGRLLRHCMRMDVVTTTSLVSMYA 254

Query: 224 KTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVS 283
           K GHLD+A  VF+ M   N VTW ALISGFAQNG A   L+L  E+Q+ G +P S +LVS
Sbjct: 255 KNGHLDVACQVFRMMPYRNDVTWSALISGFAQNGRAVEALDLFRELQADGLQPCSWALVS 314

Query: 284 ALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDL 343
           ALLACA +GFLKLGKSIHG+ +RR ++  +LGT+V+DMYSKCG    AR LF+++ SRDL
Sbjct: 315 ALLACASVGFLKLGKSIHGFILRRLEWQCILGTAVLDMYSKCGSLESARKLFNKLSSRDL 374

Query: 344 ISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDL 403
           + WN IIA  G HG G +AL+LF ++ ET +KPDH+TFASLLSALSHSGLVEEG++WFD 
Sbjct: 375 VLWNAIIACCGTHGCGHDALALFQELNETGIKPDHATFASLLSALSHSGLVEEGKFWFDR 434

Query: 404 MVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFS 463
           M+ ++ I+P EKHY C+VDLLAR+G VEEA  ++ SM TEP +A+WV LLSGC N+KK  
Sbjct: 435 MIKEFGIEPAEKHYVCIVDLLARSGLVEEANDMLASMQTEPTIAIWVILLSGCLNNKKLE 494

Query: 464 IGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVN 523
           +GE +AKK+L+L P+D+G+ ALVSN +A  +KW++V  +RK M+ SG KKVPGYS++EV 
Sbjct: 495 LGETIAKKILELRPEDIGVLALVSNLYAAAKKWDKVREIRKLMKDSGSKKVPGYSLIEVK 554

Query: 524 GELHAFIMEDKSHNQYEDIVYVLKKLYLEMRAI 556
           G  HAF+MED+SH Q+ +I+ ++ KL  EMR +
Sbjct: 555 GTRHAFVMEDQSHPQHREILKMVAKLNSEMRKL 587

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125532805|gb|EAY79370.1| hypothetical protein OsI_34497 [Oryza sativa Indica Group]

 Score =  578 bits (1490), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 276/504 (54%), Positives = 366/504 (72%), Gaps = 1/504 (0%)

Query: 51  YSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGND 110
           +SR+ SP   L ++ + +    RPDS+TFT+AL AC  L DL+ GE +  +A + GY +D
Sbjct: 84  HSRRGSPASALRVF-RALPPAARPDSTTFTLALSACARLGDLRGGESVRDRAFDAGYKDD 142

Query: 111 VFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKK 170
           VFV SS+L+LY + G M +A+  F++M R+D V WS+M+ G V  GQP +A+  Y+RM++
Sbjct: 143 VFVCSSLLHLYARWGAMGDAVKVFDRMPRRDRVTWSTMVAGFVSAGQPLDAIQMYRRMRE 202

Query: 171 EGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDL 230
           +G+  DEVVM+G+IQAC    + R G SVHG+ +R  + +DV   TSLVDMYAK G LD+
Sbjct: 203 DGVKGDEVVMIGVIQACTAARNVRMGASVHGHLLRHGMRMDVVTATSLVDMYAKNGLLDV 262

Query: 231 ASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQ 290
           A  VF  M   N V+W A+ISGFAQNG +   L L   MQ+ G +PDS +LVSALLAC+ 
Sbjct: 263 ACRVFGLMVHRNDVSWSAMISGFAQNGQSDEALRLFRNMQASGIQPDSGALVSALLACSN 322

Query: 291 IGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVII 350
           IGFLKLG+S+HG+ VRRFDFN +LGT+ IDMYSKCG  + A+ LF+ +  RDLI WN +I
Sbjct: 323 IGFLKLGRSVHGFIVRRFDFNCILGTAAIDMYSKCGSLASAQMLFNMISDRDLILWNAMI 382

Query: 351 ASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKI 410
           A  G HG G++AL+LF +M ET ++PDH+TFASLLSALSHSGLVEEG+ WF  MV+ +KI
Sbjct: 383 ACCGAHGRGQDALTLFQEMNETGMRPDHATFASLLSALSHSGLVEEGKLWFGCMVNHFKI 442

Query: 411 QPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAK 470
            P EKHY C+VDLLAR+G VEEA  ++ SM  EP +A+WVALLSGC N+KK  +GE +A 
Sbjct: 443 TPAEKHYVCLVDLLARSGLVEEASDLLTSMKAEPTVAIWVALLSGCLNNKKLELGESIAD 502

Query: 471 KVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFI 530
            +L+L PDD+G+ ALVSN +A  +KW++V  VRK M+ SG KK+PG S +E+ G  HAF+
Sbjct: 503 NILELQPDDVGVLALVSNLYAATKKWDKVRQVRKLMKDSGSKKMPGCSSIEIRGTRHAFL 562

Query: 531 MEDKSHNQYEDIVYVLKKLYLEMR 554
           MED+SH Q E+IV  + KL LEMR
Sbjct: 563 MEDQSHPQREEIVSKVAKLDLEMR 586

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|12039323|gb|AAG46111.1|AC073166_9 hypothetical protein [Oryza sativa Japonica Group]

 Score =  576 bits (1485), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 275/504 (54%), Positives = 364/504 (72%), Gaps = 1/504 (0%)

Query: 51  YSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGND 110
           +SR+ SP   L ++ + +    RPDS+TFT+AL AC  L DL+ GE +  +A + GY +D
Sbjct: 84  HSRRGSPASALRVF-RALPPAARPDSTTFTLALSACARLGDLRGGESVRDRAFDAGYKDD 142

Query: 111 VFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKK 170
           VFV SS+L+LY + G M +A+  F +M R+D V WS+M+ G V  GQP +A+  Y+RM++
Sbjct: 143 VFVCSSLLHLYARWGAMGDAVKVFVRMPRRDRVTWSTMVAGFVSAGQPLDAIQMYRRMRE 202

Query: 171 EGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDL 230
           +G+  DEVVM+G+IQAC    + R G SVHG+ +R  + +DV   TSLVDMYAK G LD+
Sbjct: 203 DGVKGDEVVMIGVIQACTAARNVRMGASVHGHLLRHGMRMDVVTATSLVDMYAKNGLLDV 262

Query: 231 ASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQ 290
           A  VF  M   N V+W A+ISGFAQNG +   L L   MQ+ G +PDS +LVSALLAC+ 
Sbjct: 263 ACRVFGLMVHRNDVSWSAMISGFAQNGQSDEALRLFRNMQASGIQPDSGALVSALLACSN 322

Query: 291 IGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVII 350
           IGFLKLG+S+HG+ VRRFDFN +LGT+ IDMYSKCG  + A+ LF+ +  RDLI WN +I
Sbjct: 323 IGFLKLGRSVHGFIVRRFDFNCILGTAAIDMYSKCGSLASAQMLFNMISDRDLILWNAMI 382

Query: 351 ASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKI 410
           A  G HG G++AL+LF +M ET ++PDH+TFASLLSALSHSGLVEEG+ WF  MV+ +KI
Sbjct: 383 ACCGAHGRGQDALTLFQEMNETGMRPDHATFASLLSALSHSGLVEEGKLWFGRMVNHFKI 442

Query: 411 QPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAK 470
            P EKHY C+VDLLAR+G VEEA  ++ SM  EP +A+WVALLSGC N+KK  +GE +A 
Sbjct: 443 TPAEKHYVCLVDLLARSGLVEEASDLLTSMKAEPTVAIWVALLSGCLNNKKLELGESIAD 502

Query: 471 KVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFI 530
            +L+L PDD+G+ ALVSN +A  +KW++V  VRK M+ SG KK+PG S +E+ G  H F+
Sbjct: 503 NILELQPDDVGVLALVSNLYAATKKWDKVRQVRKLMKDSGSKKMPGCSSIEIRGTRHVFV 562

Query: 531 MEDKSHNQYEDIVYVLKKLYLEMR 554
           MED+SH Q E+IV  + KL LEMR
Sbjct: 563 MEDQSHPQREEIVSKVAKLDLEMR 586

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115483184|ref|NP_001065185.1| Os10g0540100 [Oryza sativa Japonica Group] gi|78708963|gb|ABB47938.1| PPR986-12, putative, expressed [Oryza sativa Japonica Group] gi|113639794|dbj|BAF27099.1| Os10g0540100 [Oryza sativa Japonica Group] gi|125575555|gb|EAZ16839.1| hypothetical protein OsJ_32311 [Oryza sativa Japonica Group] gi|215704329|dbj|BAG93763.1| unnamed protein product [Oryza sativa Japonica Group]

 Score =  575 bits (1482), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 275/504 (54%), Positives = 364/504 (72%), Gaps = 1/504 (0%)

Query: 51  YSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGND 110
           +SR+ SP   L ++ + +    RPDS+TFT+AL AC  L DL+ GE +  +A + GY +D
Sbjct: 84  HSRRGSPASALRVF-RALPPAARPDSTTFTLALSACARLGDLRGGESVRDRAFDAGYKDD 142

Query: 111 VFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKK 170
           VFV SS+L+LY + G M +A+  F +M R+D V WS+M+ G V  GQP +A+  Y+RM++
Sbjct: 143 VFVCSSLLHLYARWGAMGDAVKVFVRMPRRDRVTWSTMVAGFVSAGQPLDAIQMYRRMRE 202

Query: 171 EGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDL 230
           +G+  DEVVM+G+IQAC    + R G SVHG+ +R  + +DV   TSLVDMYAK G LD+
Sbjct: 203 DGVKGDEVVMIGVIQACTAARNVRMGASVHGHLLRHGMRMDVVTATSLVDMYAKNGLLDV 262

Query: 231 ASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQ 290
           A  VF  M   N V+W A+ISGFAQNG +   L L   MQ+ G +PDS +LVSALLAC+ 
Sbjct: 263 ACRVFGLMVHRNDVSWSAMISGFAQNGQSDEALRLFRNMQASGIQPDSGALVSALLACSN 322

Query: 291 IGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVII 350
           IGFLKLG+S+HG+ VRRFDFN +LGT+ IDMYSKCG  + A+ LF+ +  RDLI WN +I
Sbjct: 323 IGFLKLGRSVHGFIVRRFDFNCILGTAAIDMYSKCGSLASAQMLFNMISDRDLILWNAMI 382

Query: 351 ASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKI 410
           A  G HG G++AL+LF +M ET ++PDH+TFASLLSALSHSGLVEEG+ WF  MV+ +KI
Sbjct: 383 ACCGAHGRGQDALTLFQEMNETGMRPDHATFASLLSALSHSGLVEEGKLWFGRMVNHFKI 442

Query: 411 QPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAK 470
            P EKHY C+VDLLAR+G VEEA  ++ SM  EP +A+WVALLSGC N+KK  +GE +A 
Sbjct: 443 TPAEKHYVCLVDLLARSGLVEEASDLLTSMKAEPTVAIWVALLSGCLNNKKLELGESIAD 502

Query: 471 KVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFI 530
            +L+L PDD+G+ ALVSN +A  +KW++V  VRK M+ SG KK+PG S +E+ G  H F+
Sbjct: 503 NILELQPDDVGVLALVSNLYAATKKWDKVRQVRKLMKDSGSKKMPGCSSIEIRGTRHVFV 562

Query: 531 MEDKSHNQYEDIVYVLKKLYLEMR 554
           MED+SH Q E+IV  + KL LEMR
Sbjct: 563 MEDQSHPQREEIVSKVAKLDLEMR 586

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	589
TAIR|locus:2086964	601	MEF25 "mitochondrial RNA editi	0.952	0.933	0.521	9.3e-162
TAIR|locus:2196583	866	ECB2 "EARLY CHLOROPLAST BIOGEN	0.918	0.624	0.350	6.3e-92
TAIR|locus:2202074	809	CRR22 "CHLORORESPIRATORY REDUC	0.910	0.662	0.344	2.1e-91
TAIR|locus:2131939	792	MEF29 "AT4G30700" [Arabidopsis	0.906	0.674	0.333	8.3e-90
TAIR|locus:2118964	823	EMB2758 "embryo defective 2758	0.921	0.659	0.333	1.7e-89
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.928	0.628	0.336	2e-88
TAIR|locus:2134842	729	AT4G04370 [Arabidopsis thalian	0.916	0.740	0.333	1.8e-87
TAIR|locus:2080727	623	MEF10 "mitochondrial RNA editi	0.877	0.829	0.346	3e-85
TAIR|locus:2063771	689	AT2G03380 [Arabidopsis thalian	0.857	0.732	0.355	3.8e-85
TAIR|locus:2175653	677	AT5G39350 "AT5G39350" [Arabido	0.860	0.748	0.328	3.4e-84

TAIR|locus:2086964 MEF25 "mitochondrial RNA editing factor 25" [Arabidopsis thaliana (taxid:3702)]

 Score = 1575 (559.5 bits), Expect = 9.3e-162, P = 9.3e-162
 Identities = 293/562 (52%), Positives = 406/562 (72%)

Query:     1 MIKTNLSAYGNSVGR-IIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFE 59
             +I T     G+S+ R +IA  G   +I  ARK+F+ELP RGV  YNS+I+ YSR ++P E
Sbjct:    40 VISTGNLLNGSSISRDLIASCGRIGEISYARKVFDELPQRGVSVYNSMIVVYSRGKNPDE 99

Query:    60 VLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLN 119
             VL LY+QMI E ++PDSSTFT+ +KAC+S + L+ GE +W KAV+ GY NDVFV SS+LN
Sbjct:   100 VLRLYDQMIAEKIQPDSSTFTMTIKACLSGLVLEKGEAVWCKAVDFGYKNDVFVCSSVLN 159

Query:   120 LYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVV 179
             LY+KCGKM+EA V F KM ++D++CW++M+ G    G+  +AV+ Y+ M+ EG   D VV
Sbjct:   160 LYMKCGKMDEAEVLFGKMAKRDVICWTTMVTGFAQAGKSLKAVEFYREMQNEGFGRDRVV 219

Query:   180 MMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMS 239
             M+GL+QA  DLGD++ G SVHGY  R  L ++V V+TSLVDMYAK G +++AS VF  M 
Sbjct:   220 MLGLLQASGDLGDTKMGRSVHGYLYRTGLPMNVVVETSLVDMYAKVGFIEVASRVFSRMM 279

Query:   240 RINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKS 299
                 V+WG+LISGFAQNGLA    E ++EMQS GF+PD V+LV  L+AC+Q+G LK G+ 
Sbjct:   280 FKTAVSWGSLISGFAQNGLANKAFEAVVEMQSLGFQPDLVTLVGVLVACSQVGSLKTGRL 339

Query:   300 IHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHG 359
             +H Y ++R   + V  T+++DMYSKCG  S +R +F+ +  +DL+ WN +I+ YGIHG+G
Sbjct:   340 VHCYILKRHVLDRVTATALMDMYSKCGALSSSREIFEHVGRKDLVCWNTMISCYGIHGNG 399

Query:   360 EEALSLFLQMIETMVKPDHSTFXXXXXXXXXXXXVEEGRYWFDLMVSKYKIQPTEKHYAC 419
             +E +SLFL+M E+ ++PDH+TF            VE+G++WF +M++KYKIQP+EKHY C
Sbjct:   400 QEVVSLFLKMTESNIEPDHATFASLLSALSHSGLVEQGQHWFSVMINKYKIQPSEKHYVC 459

Query:   420 MVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD 479
             ++DLLARAG VEEAL +++S   +  L +WVALLSGC NH+  S+G+  A K+L+LNPD 
Sbjct:   460 LIDLLARAGRVEEALDMINSEKLDNALPIWVALLSGCINHRNLSVGDIAANKILQLNPDS 519

Query:   480 LGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQY 539
             +GI  LVSNFFA   KW+EVA VRK MR   M+KVPGYS +EVNGEL  F+MED SH+++
Sbjct:   520 IGIQTLVSNFFATANKWKEVAKVRKLMRNGAMEKVPGYSAIEVNGELRTFLMEDLSHHEH 579

Query:   540 EDIVYVLKKLYLEMRAISSWLQ 561
               ++ VL+ L  E+R + S ++
Sbjct:   580 YHMLQVLRNLKTEIRDVCSGVE 601

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2196583 ECB2 "EARLY CHLOROPLAST BIOGENESIS2" [Arabidopsis thaliana (taxid:3702)]

 Score = 916 (327.5 bits), Expect = 6.3e-92, P = 6.3e-92
 Identities = 191/545 (35%), Positives = 308/545 (56%)

Query:    13 VGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDV 72
             V  +I +Y    D+ SAR LF+ +P R + ++N++I  Y       E L L+  M    V
Sbjct:   234 VNALITMYVKCGDVKSARLLFDRMPRRDIISWNAMISGYFENGMCHEGLELFFAMRGLSV 293

Query:    73 RPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMV 132
              PD  T T  + AC  L D ++G +I    +  G+  D+ V +S+  +Y+  G   EA  
Sbjct:   294 DPDLMTLTSVISACELLGDRRLGRDIHAYVITTGFAVDISVCNSLTQMYLNAGSWREAEK 353

Query:   133 AFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGD 192
              F +M+RKD+V W++MI+G  +N  P +A+D Y+ M ++ +  DE+ +  ++ ACA LGD
Sbjct:   354 LFSRMERKDIVSWTTMISGYEYNFLPDKAIDTYRMMDQDSVKPDEITVAAVLSACATLGD 413

Query:   193 SRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISG 252
                G+ +H  +I+  L   V V  +L++MY+K   +D A  +F N+ R N+++W ++I+G
Sbjct:   414 LDTGVELHKLAIKARLISYVIVANNLINMYSKCKCIDKALDIFHNIPRKNVISWTSIIAG 473

Query:   253 FAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRR-FDFN 311
                N      L  L +M+    +P++++L +AL ACA+IG L  GK IH + +R     +
Sbjct:   474 LRLNNRCFEALIFLRQMKMT-LQPNAITLTAALAACARIGALMCGKEIHAHVLRTGVGLD 532

Query:   312 LVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIE 371
               L  +++DMY +CG  + A + F+  Q +D+ SWN+++  Y   G G   + LF +M++
Sbjct:   533 DFLPNALLDMYVRCGRMNTAWSQFNS-QKKDVTSWNILLTGYSERGQGSMVVELFDRMVK 591

Query:   372 TMVKPDHSTFXXXXXXXXXXXXVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVE 431
             + V+PD  TF            V +G  +F  M   Y + P  KHYAC+VDLL RAGE++
Sbjct:   592 SRVRPDEITFISLLCGCSKSQMVRQGLMYFSKM-EDYGVTPNLKHYACVVDLLGRAGELQ 650

Query:   432 EALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA 491
             EA K +  M   P  AVW ALL+ C  H K  +GE  A+ + +L+   +G + L+ N +A
Sbjct:   651 EAHKFIQKMPVTPDPAVWGALLNACRIHHKIDLGELSAQHIFELDKKSVGYYILLCNLYA 710

Query:   492 MEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYL 551
                KW EVA VR+ M+++G+    G S VEV G++HAF+ +DK H Q ++I  VL+  Y 
Sbjct:   711 DCGKWREVAKVRRMMKENGLTVDAGCSWVEVKGKVHAFLSDDKYHPQTKEINTVLEGFYE 770

Query:   552 EMRAI 556
             +M  +
Sbjct:   771 KMSEV 775

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

GO:0009658 "chloroplast organization" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0009416 "response to light stimulus" evidence=IEP

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

 Score = 911 (325.7 bits), Expect = 2.1e-91, P = 2.1e-91
 Identities = 185/537 (34%), Positives = 298/537 (55%)

Query:    19 LYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSST 78
             +Y     +  ARK+F+ +P R + ++N+I+  YS+       L +   M +E+++P   T
Sbjct:   179 MYAKCRQVNEARKVFDRMPERDLVSWNTIVAGYSQNGMARMALEMVKSMCEENLKPSFIT 238

Query:    79 FTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQ 138
                 L A  +L  + +G+EI   A+  G+ + V + ++++++Y KCG +  A   F+ M 
Sbjct:   239 IVSVLPAVSALRLISVGKEIHGYAMRSGFDSLVNISTALVDMYAKCGSLETARQLFDGML 298

Query:   139 RKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLS 198
              +++V W+SMI+  V N  P+EA+  +++M  EG+   +V +MG + ACADLGD   G  
Sbjct:   299 ERNVVSWNSMIDAYVQNENPKEAMLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRF 358

Query:   199 VHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGL 258
             +H  S+   L+ +V V  SL+ MY K   +D A+ +F  +    +V+W A+I GFAQNG 
Sbjct:   359 IHKLSVELGLDRNVSVVNSLISMYCKCKEVDTAASMFGKLQSRTLVSWNAMILGFAQNGR 418

Query:   259 AGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRR-FDFNLVLGTS 317
                 L    +M+S   +PD+ + VS + A A++      K IHG  +R   D N+ + T+
Sbjct:   419 PIDALNYFSQMRSRTVKPDTFTYVSVITAIAELSITHHAKWIHGVVMRSCLDKNVFVTTA 478

Query:   318 VIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPD 377
             ++DMY+KCG    AR +FD M  R + +WN +I  YG HG G+ AL LF +M +  +KP+
Sbjct:   479 LVDMYAKCGAIMIARLIFDMMSERHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPN 538

Query:   378 HSTFXXXXXXXXXXXXVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIV 437
               TF            VE G   F +M   Y I+ +  HY  MVDLL RAG + EA   +
Sbjct:   539 GVTFLSVISACSHSGLVEAGLKCFYMMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFI 598

Query:   438 DSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWE 497
               M  +P + V+ A+L  C  HK  +  EK A+++ +LNPDD G H L++N +     WE
Sbjct:   599 MQMPVKPAVNVYGAMLGACQIHKNVNFAEKAAERLFELNPDDGGYHVLLANIYRAASMWE 658

Query:   498 EVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMR 554
             +V  VR +M + G++K PG S+VE+  E+H+F     +H   + I   L+KL   ++
Sbjct:   659 KVGQVRVSMLRQGLRKTPGCSMVEIKNEVHSFFSGSTAHPDSKKIYAFLEKLICHIK 715

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:2131939 MEF29 "AT4G30700" [Arabidopsis thaliana (taxid:3702)]

 Score = 896 (320.5 bits), Expect = 8.3e-90, P = 8.3e-90
 Identities = 181/543 (33%), Positives = 309/543 (56%)

Query:    16 IIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKED-VRP 74
             I+ +Y     +  ARK+F+ +P +    +N++I  Y + E   E + ++  +I E   R 
Sbjct:   160 IVKMYFKFWRVEDARKVFDRMPEKDTILWNTMISGYRKNEMYVESIQVFRDLINESCTRL 219

Query:    75 DSSTFTVALKACVSLMDLKMGEEIWRKAVELG-YGNDVFVGSSMLNLYVKCGKMNEAMVA 133
             D++T    L A   L +L++G +I   A + G Y +D +V +  ++LY KCGK+      
Sbjct:   220 DTTTLLDILPAVAELQELRLGMQIHSLATKTGCYSHD-YVLTGFISLYSKCGKIKMGSAL 278

Query:   134 FEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDS 193
             F + ++ D+V +++MI+G   NG+   ++  +K +   G       ++ L+     L   
Sbjct:   279 FREFRKPDIVAYNAMIHGYTSNGETELSLSLFKELMLSGARLRSSTLVSLVPVSGHL--- 335

Query:   194 RFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGF 253
                 ++HGY ++ +      V T+L  +Y+K   ++ A  +F      ++ +W A+ISG+
Sbjct:   336 MLIYAIHGYCLKSNFLSHASVSTALTTVYSKLNEIESARKLFDESPEKSLPSWNAMISGY 395

Query:   254 AQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDF--N 311
              QNGL    + L  EMQ   F P+ V++   L ACAQ+G L LGK +H   VR  DF  +
Sbjct:   396 TQNGLTEDAISLFREMQKSEFSPNPVTITCILSACAQLGALSLGKWVHDL-VRSTDFESS 454

Query:   312 LVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIE 371
             + + T++I MY+KCG  + AR LFD M  ++ ++WN +I+ YG+HG G+EAL++F +M+ 
Sbjct:   455 IYVSTALIGMYAKCGSIAEARRLFDLMTKKNEVTWNTMISGYGLHGQGQEALNIFYEMLN 514

Query:   372 TMVKPDHSTFXXXXXXXXXXXXVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVE 431
             + + P   TF            V+EG   F+ M+ +Y  +P+ KHYACMVD+L RAG ++
Sbjct:   515 SGITPTPVTFLCVLYACSHAGLVKEGDEIFNSMIHRYGFEPSVKHYACMVDILGRAGHLQ 574

Query:   432 EALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA 491
              AL+ +++MS EPG +VW  LL  C  HK  ++   V++K+ +L+PD++G H L+SN  +
Sbjct:   575 RALQFIEAMSIEPGSSVWETLLGACRIHKDTNLARTVSEKLFELDPDNVGYHVLLSNIHS 634

Query:   492 MEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYL 551
              ++ + + A VR+T +K  + K PGY+++E+    H F   D+SH Q ++I   L+KL  
Sbjct:   635 ADRNYPQAATVRQTAKKRKLAKAPGYTLIEIGETPHVFTSGDQSHPQVKEIYEKLEKLEG 694

Query:   552 EMR 554
             +MR
Sbjct:   695 KMR 697

GO:0003674 "molecular_function" evidence=ND

GO:0000963 "mitochondrial RNA processing" evidence=IMP

GO:0005739 "mitochondrion" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0016554 "cytidine to uridine editing" evidence=IMP

GO:0080156 "mitochondrial mRNA modification" evidence=IMP

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

 Score = 893 (319.4 bits), Expect = 1.7e-89, P = 1.7e-89
 Identities = 185/555 (33%), Positives = 312/555 (56%)

Query:    16 IIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPD 75
             +I LY     + +AR LF+E+P+R + ++N++I  Y +  +  E L L N +   D    
Sbjct:   191 LIHLYSRYKAVGNARILFDEMPVRDMGSWNAMISGYCQSGNAKEALTLSNGLRAMD---- 246

Query:    76 SSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFE 135
             S T    L AC    D   G  I   +++ G  +++FV + +++LY + G++ +    F+
Sbjct:   247 SVTVVSLLSACTEAGDFNRGVTIHSYSIKHGLESELFVSNKLIDLYAEFGRLRDCQKVFD 306

Query:   136 KMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRF 195
             +M  +DL+ W+S+I     N QP  A+  ++ M+   I  D + ++ L    + LGD R 
Sbjct:   307 RMYVRDLISWNSIIKAYELNEQPLRAISLFQEMRLSRIQPDCLTLISLASILSQLGDIRA 366

Query:   196 GLSVHGYSIRRHLNL-DVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFA 254
               SV G+++R+   L D+ +  ++V MYAK G +D A  VF  +   ++++W  +ISG+A
Sbjct:   367 CRSVQGFTLRKGWFLEDITIGNAVVVMYAKLGLVDSARAVFNWLPNTDVISWNTIISGYA 426

Query:   255 QNGLAGSTLELLMEMQSCG-FEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRR-FDFNL 312
             QNG A   +E+   M+  G    +  + VS L AC+Q G L+ G  +HG  ++     ++
Sbjct:   427 QNGFASEAIEMYNIMEEEGEIAANQGTWVSVLPACSQAGALRQGMKLHGRLLKNGLYLDV 486

Query:   313 VLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIET 372
              + TS+ DMY KCG    A +LF Q+   + + WN +IA +G HGHGE+A+ LF +M++ 
Sbjct:   487 FVVTSLADMYGKCGRLEDALSLFYQIPRVNSVPWNTLIACHGFHGHGEKAVMLFKEMLDE 546

Query:   373 MVKPDHSTFXXXXXXXXXXXXVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEE 432
              VKPDH TF            V+EG++ F++M + Y I P+ KHY CMVD+  RAG++E 
Sbjct:   547 GVKPDHITFVTLLSACSHSGLVDEGQWCFEMMQTDYGITPSLKHYGCMVDMYGRAGQLET 606

Query:   433 ALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAM 492
             ALK + SMS +P  ++W ALLS C  H    +G+  ++ + ++ P+ +G H L+SN +A 
Sbjct:   607 ALKFIKSMSLQPDASIWGALLSACRVHGNVDLGKIASEHLFEVEPEHVGYHVLLSNMYAS 666

Query:   493 EQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLE 552
               KWE V  +R      G++K PG+S +EV+ ++  F   +++H  YE++   L  L  +
Sbjct:   667 AGKWEGVDEIRSIAHGKGLRKTPGWSSMEVDNKVEVFYTGNQTHPMYEEMYRELTALQAK 726

Query:   553 MRAISSWLQGHMEEH 567
             ++ I     G++ +H
Sbjct:   727 LKMI-----GYVPDH 736

GO:0005739 "mitochondrion" evidence=ISM

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

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

 Score = 883 (315.9 bits), Expect = 2.0e-88, P = 2.0e-88
 Identities = 186/552 (33%), Positives = 306/552 (55%)

Query:     7 SAYG--NSVGR-IIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGL 63
             S +G  NSVG  ++A Y     + SARK+F+E+  R V ++NSII  Y       + L +
Sbjct:   224 SGFGERNSVGNSLVAFYLKNQRVDSARKVFDEMTERDVISWNSIINGYVSNGLAEKGLSV 283

Query:    64 YNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVK 123
             + QM+   +  D +T       C     + +G  +    V+  +  +    +++L++Y K
Sbjct:   284 FVQMLVSGIEIDLATIVSVFAGCADSRLISLGRAVHSIGVKACFSREDRFCNTLLDMYSK 343

Query:   124 CGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGL 183
             CG ++ A   F +M  + +V ++SMI G    G   EAV  ++ M++EGI  D   +  +
Sbjct:   344 CGDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEGISPDVYTVTAV 403

Query:   184 IQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINI 243
             +  CA       G  VH +     L  D+ V  +L+DMYAK G +  A  VF  M   +I
Sbjct:   404 LNCCARYRLLDEGKRVHEWIKENDLGFDIFVSNALMDMYAKCGSMQEAELVFSEMRVKDI 463

Query:   244 VTWGALISGFAQNGLAGSTLELL-MEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHG 302
             ++W  +I G+++N  A   L L  + ++   F PD  ++   L ACA +     G+ IHG
Sbjct:   464 ISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASLSAFDKGREIHG 523

Query:   303 YTVRRFDFN-LVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEE 361
             Y +R   F+   +  S++DMY+KCG    A  LFD + S+DL+SW V+IA YG+HG G+E
Sbjct:   524 YIMRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSWTVMIAGYGMHGFGKE 583

Query:   362 ALSLFLQMIETMVKPDHSTFXXXXXXXXXXXXVEEGRYWFDLMVSKYKIQPTEKHYACMV 421
             A++LF QM +  ++ D  +F            V+EG  +F++M  + KI+PT +HYAC+V
Sbjct:   584 AIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHECKIEPTVEHYACIV 643

Query:   422 DLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLG 481
             D+LAR G++ +A + +++M   P   +W ALL GC  H    + EKVA+KV +L P++ G
Sbjct:   644 DMLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKLAEKVAEKVFELEPENTG 703

Query:   482 IHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYED 541
              + L++N +A  +KWE+V  +RK + + G++K PG S +E+ G ++ F+  D S+ + E+
Sbjct:   704 YYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKGRVNIFVAGDSSNPETEN 763

Query:   542 IVYVLKKLYLEM 553
             I   L+K+   M
Sbjct:   764 IEAFLRKVRARM 775

GO:0009507 "chloroplast" evidence=ISM

GO:0010087 "phloem or xylem histogenesis" evidence=IMP

GO:0010305 "leaf vascular tissue pattern formation" evidence=IMP

GO:0010588 "cotyledon vascular tissue pattern formation" evidence=IMP

GO:0048366 "leaf development" evidence=IMP

TAIR|locus:2134842 AT4G04370 [Arabidopsis thaliana (taxid:3702)]

 Score = 874 (312.7 bits), Expect = 1.8e-87, P = 1.8e-87
 Identities = 182/546 (33%), Positives = 306/546 (56%)

Query:    16 IIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPD 75
             ++ LY   + +  A+ LF+++  R + ++N++I  Y+   +  E+L L  +M  + +RPD
Sbjct:   185 MLNLYCKCDHVGDAKDLFDQMEQRDMVSWNTMISGYASVGNMSEILKLLYRMRGDGLRPD 244

Query:    76 SSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFE 135
               TF  +L    ++ DL+MG  +  + V+ G+  D+ + ++++ +Y+KCGK   +    E
Sbjct:   245 QQTFGASLSVSGTMCDLEMGRMLHCQIVKTGFDVDMHLKTALITMYLKCGKEEASYRVLE 304

Query:   136 KMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRF 195
              +  KD+VCW+ MI+GL+  G+  +A+  +  M + G D     +  ++ +CA LG    
Sbjct:   305 TIPNKDVVCWTVMISGLMRLGRAEKALIVFSEMLQSGSDLSSEAIASVVASCAQLGSFDL 364

Query:   196 GLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQ 255
             G SVHGY +R    LD     SL+ MYAK GHLD +  +F+ M+  ++V+W A+ISG+AQ
Sbjct:   365 GASVHGYVLRHGYTLDTPALNSLITMYAKCGHLDKSLVIFERMNERDLVSWNAIISGYAQ 424

Query:   256 NGLAGSTLELLMEMQSCGFEP-DSVSLVSALLACAQIGFLKLGKSIHGYTVRRF--DFNL 312
             N      L L  EM+    +  DS ++VS L AC+  G L +GK IH   +R F    +L
Sbjct:   425 NVDLCKALLLFEEMKFKTVQQVDSFTVVSLLQACSSAGALPVGKLIHCIVIRSFIRPCSL 484

Query:   313 VLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIET 372
             V  T+++DMYSKCG    A+  FD +  +D++SW ++IA YG HG G+ AL ++ + + +
Sbjct:   485 V-DTALVDMYSKCGYLEAAQRCFDSISWKDVVSWGILIAGYGFHGKGDIALEIYSEFLHS 543

Query:   373 MVKPDHSTFXXXXXXXXXXXXVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEE 432
              ++P+H  F            V++G   F  MV  + ++P  +H AC+VDLL RA  +E+
Sbjct:   544 GMEPNHVIFLAVLSSCSHNGMVQQGLKIFSSMVRDFGVEPNHEHLACVVDLLCRAKRIED 603

Query:   433 ALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAM 492
             A K      T P + V   +L  C  + K  + + + + +++L P D G +  + + FA 
Sbjct:   604 AFKFYKENFTRPSIDVLGIILDACRANGKTEVEDIICEDMIELKPGDAGHYVKLGHSFAA 663

Query:   493 EQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLE 552
              ++W++V+     MR  G+KK+PG+S +E+NG+   F M   SH+  +D V +LK L  E
Sbjct:   664 MKRWDDVSESWNQMRSLGLKKLPGWSKIEMNGKTTTFFMNHTSHS--DDTVSLLKLLSRE 721

Query:   553 MRAISS 558
             M    S
Sbjct:   722 MMQFGS 727

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2080727 MEF10 "mitochondrial RNA editing factor 10" [Arabidopsis thaliana (taxid:3702)]

 Score = 853 (305.3 bits), Expect = 3.0e-85, P = 3.0e-85
 Identities = 182/526 (34%), Positives = 294/526 (55%)

Query:    59 EVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSML 118
             E + LY  M++    PD+ +F   LK+C SL     G+++     + G   + FV ++++
Sbjct:    36 ESISLYRSMLRSGSSPDAFSFPFILKSCASLSLPVSGQQLHCHVTKGGCETEPFVLTALI 95

Query:   119 NLYVKCGKMNEAMVAFEKM-QRKDL-VCWSSMINGLVFNGQPREAVDAYKRMKKEGIDAD 176
             ++Y KCG + +A   FE+  Q   L VC++++I+G   N +  +A   ++RMK+ G+  D
Sbjct:    96 SMYCKCGLVADARKVFEENPQSSQLSVCYNALISGYTANSKVTDAAYMFRRMKETGVSVD 155

Query:   177 EVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFK 236
              V M+GL+  C        G S+HG  ++  L+ +V V  S + MY K G ++    +F 
Sbjct:   156 SVTMLGLVPLCTVPEYLWLGRSLHGQCVKGGLDSEVAVLNSFITMYMKCGSVEAGRRLFD 215

Query:   237 NMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKL 296
              M    ++TW A+ISG++QNGLA   LEL  +M+S G  PD  +LVS L +CA +G  K+
Sbjct:   216 EMPVKGLITWNAVISGYSQNGLAYDVLELYEQMKSSGVCPDPFTLVSVLSSCAHLGAKKI 275

Query:   297 GKSIHGYTVRRFDF--NLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYG 354
             G  + G  V    F  N+ +  + I MY++CG  + ARA+FD M  + L+SW  +I  YG
Sbjct:   276 GHEV-GKLVESNGFVPNVFVSNASISMYARCGNLAKARAVFDIMPVKSLVSWTAMIGCYG 334

Query:   355 IHGHGEEALSLFLQMIETMVKPDHSTFXXXXXXXXXXXXVEEGRYWFDLMVSKYKIQPTE 414
             +HG GE  L LF  MI+  ++PD + F             ++G   F  M  +YK++P  
Sbjct:   335 MHGMGEIGLMLFDDMIKRGIRPDGAVFVMVLSACSHSGLTDKGLELFRAMKREYKLEPGP 394

Query:   415 KHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLK 474
             +HY+C+VDLL RAG ++EA++ ++SM  EP  AVW ALL  C  HK   + E    KV++
Sbjct:   395 EHYSCLVDLLGRAGRLDEAMEFIESMPVEPDGAVWGALLGACKIHKNVDMAELAFAKVIE 454

Query:   475 LNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDK 534
               P+++G + L+SN ++  +  E +  +R  MR+   +K PGYS VE  G +H F+  D+
Sbjct:   455 FEPNNIGYYVLMSNIYSDSKNQEGIWRIRVMMRERAFRKKPGYSYVEHKGRVHLFLAGDR 514

Query:   535 SHNQYEDIVYVLKKLYLEMRAISSWLQGHMEEHEEHDPLSTAAQYA 580
             SH Q E++  +L +L  E   +   L G+M+     +  ST  +++
Sbjct:   515 SHEQTEEVHRMLDEL--ETSVME--LAGNMDCDRGEEVSSTTREHS 556

GO:0005739 "mitochondrion" evidence=ISM

GO:0016554 "cytidine to uridine editing" evidence=IMP

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

 Score = 852 (305.0 bits), Expect = 3.8e-85, P = 3.8e-85
 Identities = 181/509 (35%), Positives = 284/509 (55%)

Query:    16 IIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPD 75
             ++ +Y    +I SA K+F ++ LR V  + S+I  Y + +   E L L+N+M + +V  +
Sbjct:   182 LLDMYAKCGEIKSAHKVFNDITLRNVVCWTSMIAGYVKNDLCEEGLVLFNRMRENNVLGN 241

Query:    76 SSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFE 135
               T+   + AC  L  L  G+      V+ G      + +S+L++YVKCG ++ A   F 
Sbjct:   242 EYTYGTLIMACTKLSALHQGKWFHGCLVKSGIELSSCLVTSLLDMYVKCGDISNARRVFN 301

Query:   136 KMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRF 195
             +    DLV W++MI G   NG   EA+  +++MK   I  + V +  ++  C  + +   
Sbjct:   302 EHSHVDLVMWTAMIVGYTHNGSVNEALSLFQKMKGVEIKPNCVTIASVLSGCGLIENLEL 361

Query:   196 GLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQ 255
             G SVHG SI+  +  D  V  +LV MYAK      A +VF+  S  +IV W ++ISGF+Q
Sbjct:   362 GRSVHGLSIKVGI-WDTNVANALVHMYAKCYQNRDAKYVFEMESEKDIVAWNSIISGFSQ 420

Query:   256 NGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRR-F--DFNL 312
             NG     L L   M S    P+ V++ S   ACA +G L +G S+H Y+V+  F    ++
Sbjct:   421 NGSIHEALFLFHRMNSESVTPNGVTVASLFSACASLGSLAVGSSLHAYSVKLGFLASSSV 480

Query:   313 VLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIET 372
              +GT+++D Y+KCG P  AR +FD ++ ++ I+W+ +I  YG  G    +L LF +M++ 
Sbjct:   481 HVGTALLDFYAKCGDPQSARLIFDTIEEKNTITWSAMIGGYGKQGDTIGSLELFEEMLKK 540

Query:   373 MVKPDHSTFXXXXXXXXXXXXVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEE 432
               KP+ STF            V EG+ +F  M   Y   P+ KHY CMVD+LARAGE+E+
Sbjct:   541 QQKPNESTFTSILSACGHTGMVNEGKKYFSSMYKDYNFTPSTKHYTCMVDMLARAGELEQ 600

Query:   433 ALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAM 492
             AL I++ M  +P +  + A L GC  H +F +GE V KK+L L+PDD   + LVSN +A 
Sbjct:   601 ALDIIEKMPIQPDVRCFGAFLHGCGMHSRFDLGEIVIKKMLDLHPDDASYYVLVSNLYAS 660

Query:   493 EQKWEEVAGVRKTMRKSGMKKVPGYSVVE 521
             + +W +   VR  M++ G+ K+ G+S +E
Sbjct:   661 DGRWNQAKEVRNLMKQRGLSKIAGHSTME 689

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 843 (301.8 bits), Expect = 3.4e-84, P = 3.4e-84
 Identities = 168/512 (32%), Positives = 283/512 (55%)

Query:    16 IIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPD 75
             ++A+Y     +  AR +F+ +  R V ++N++I  Y R     + L +++ M+ E V  D
Sbjct:   158 LLAMYMNFGKVEMARDVFDVMKNRDVISWNTMISGYYRNGYMNDALMMFDWMVNESVDLD 217

Query:    76 SSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFE 135
              +T    L  C  L DL+MG  + +   E   G+ + V ++++N+Y+KCG+M+EA   F+
Sbjct:   218 HATIVSMLPVCGHLKDLEMGRNVHKLVEEKRLGDKIEVKNALVNMYLKCGRMDEARFVFD 277

Query:   136 KMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRF 195
             +M+R+D++ W+ MING   +G    A++  + M+ EG+  + V +  L+  C D      
Sbjct:   278 RMERRDVITWTCMINGYTEDGDVENALELCRLMQFEGVRPNAVTIASLVSVCGDALKVND 337

Query:   196 GLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQ 255
             G  +HG+++R+ +  D+ ++TSL+ MYAK   +DL   VF   S+ +   W A+I+G  Q
Sbjct:   338 GKCLHGWAVRQQVYSDIIIETSLISMYAKCKRVDLCFRVFSGASKYHTGPWSAIIAGCVQ 397

Query:   256 NGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRR-FDFNLVL 314
             N L    L L   M+    EP+  +L S L A A +  L+   +IH Y  +  F  +L  
Sbjct:   398 NELVSDALGLFKRMRREDVEPNIATLNSLLPAYAALADLRQAMNIHCYLTKTGFMSSLDA 457

Query:   315 GTSVIDMYSKCGVPSCARALFDQMQ----SRDLISWNVIIASYGIHGHGEEALSLFLQMI 370
              T ++ +YSKCG    A  +F+ +Q    S+D++ W  +I+ YG+HG G  AL +F++M+
Sbjct:   458 ATGLVHVYSKCGTLESAHKIFNGIQEKHKSKDVVLWGALISGYGMHGDGHNALQVFMEMV 517

Query:   371 ETMVKPDHSTFXXXXXXXXXXXXVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEV 430
              + V P+  TF            VEEG   F  M+  YK      HY C+VDLL RAG +
Sbjct:   518 RSGVTPNEITFTSALNACSHSGLVEEGLTLFRFMLEHYKTLARSNHYTCIVDLLGRAGRL 577

Query:   431 EEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFF 490
             +EA  ++ ++  EP   VW ALL+ C  H+   +GE  A K+ +L P++ G + L++N +
Sbjct:   578 DEAYNLITTIPFEPTSTVWGALLAACVTHENVQLGEMAANKLFELEPENTGNYVLLANIY 637

Query:   491 AMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEV 522
             A   +W+++  VR  M   G++K PG+S +E+
Sbjct:   638 AALGRWKDMEKVRSMMENVGLRKKPGHSTIEI 669

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9LJR6	PP253_ARATH	No assigned EC number	0.5479	0.9371	0.9184	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	589
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-143
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-97
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-73
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	6e-54
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-52
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-37
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	4e-36
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-29
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	8e-23
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-05
pfam01535	31	pfam01535, PPR, PPR repeat	6e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001
pfam01535	31	pfam01535, PPR, PPR repeat	0.002
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.002

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

 Score =  434 bits (1118), Expect = e-143
 Identities = 209/559 (37%), Positives = 329/559 (58%), Gaps = 5/559 (0%)

Query: 13  VGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDV 72
           V  +I +Y    D+VSAR +F+ +P R   ++N++I  Y       E L L+  M +  V
Sbjct: 225 VNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSV 284

Query: 73  RPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMV 132
            PD  T T  + AC  L D ++G E+    V+ G+  DV V +S++ +Y+  G   EA  
Sbjct: 285 DPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEK 344

Query: 133 AFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGD 192
            F +M+ KD V W++MI+G   NG P +A++ Y  M+++ +  DE+ +  ++ ACA LGD
Sbjct: 345 VFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGD 404

Query: 193 SRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISG 252
              G+ +H  + R+ L   V V  +L++MY+K   +D A  VF N+   ++++W ++I+G
Sbjct: 405 LDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAG 464

Query: 253 FAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRR-FDFN 311
              N      L    +M     +P+SV+L++AL ACA+IG L  GK IH + +R    F+
Sbjct: 465 LRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFD 523

Query: 312 LVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIE 371
             L  +++D+Y +CG  + A   F+    +D++SWN+++  Y  HG G  A+ LF +M+E
Sbjct: 524 GFLPNALLDLYVRCGRMNYAWNQFN-SHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVE 582

Query: 372 TMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVE 431
           + V PD  TF SLL A S SG+V +G  +F  M  KY I P  KHYAC+VDLL RAG++ 
Sbjct: 583 SGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLT 642

Query: 432 EALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA 491
           EA   ++ M   P  AVW ALL+ C  H+   +GE  A+ + +L+P+ +G + L+ N +A
Sbjct: 643 EAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYA 702

Query: 492 MEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYL 551
              KW+EVA VRKTMR++G+   PG S VEV G++HAF+ +D+SH Q ++I  VL+  Y 
Sbjct: 703 DAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYE 762

Query: 552 EMRA--ISSWLQGHMEEHE 568
           +M+A  ++      M+E E
Sbjct: 763 KMKASGLAGSESSSMDEIE 781

Length = 857

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

 Score =  311 bits (797), Expect = 3e-97
 Identities = 151/481 (31%), Positives = 267/481 (55%), Gaps = 1/481 (0%)

Query: 75  DSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAF 134
            +ST+   ++AC++L  ++  + ++      G+  D ++ + +L ++VKCG + +A   F
Sbjct: 122 PASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLF 181

Query: 135 EKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSR 194
           ++M  ++L  W ++I GLV  G  REA   ++ M ++G DA+    + +++A A LG +R
Sbjct: 182 DEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSAR 241

Query: 195 FGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFA 254
            G  +H   ++  +  D  V  +L+DMY+K G ++ A  VF  M     V W ++++G+A
Sbjct: 242 AGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYA 301

Query: 255 QNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRR-FDFNLV 313
            +G +   L L  EM+  G   D  +    +   +++  L+  K  H   +R  F  ++V
Sbjct: 302 LHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIV 361

Query: 314 LGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETM 373
             T+++D+YSK G    AR +FD+M  ++LISWN +IA YG HG G +A+ +F +MI   
Sbjct: 362 ANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEG 421

Query: 374 VKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEA 433
           V P+H TF ++LSA  +SGL E+G   F  M   ++I+P   HYACM++LL R G ++EA
Sbjct: 422 VAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEA 481

Query: 434 LKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAME 493
             ++     +P + +W ALL+ C  HK   +G   A+K+  + P+ L  + ++ N +   
Sbjct: 482 YAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSS 541

Query: 494 QKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEM 553
            +  E A V +T+++ G+   P  + +EV  + H+F   D+ H Q  +I   L +L  E+
Sbjct: 542 GRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEI 601

Query: 554 R 554
            
Sbjct: 602 S 602

Length = 697

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

 Score =  251 bits (643), Expect = 1e-73
 Identities = 147/465 (31%), Positives = 244/465 (52%), Gaps = 7/465 (1%)

Query: 25  DIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALK 84
           ++V A  +F ++P R + ++N ++  Y++     E L LY++M+   VRPD  TF   L+
Sbjct: 136 ELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLR 195

Query: 85  ACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVC 144
            C  + DL  G E+    V  G+  DV V ++++ +YVKCG +  A + F++M R+D + 
Sbjct: 196 TCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCIS 255

Query: 145 WSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSI 204
           W++MI+G   NG+  E ++ +  M++  +D D + +  +I AC  LGD R G  +HGY +
Sbjct: 256 WNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVV 315

Query: 205 RRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLE 264
           +    +DV V  SL+ MY   G    A  VF  M   + V+W A+ISG+ +NGL    LE
Sbjct: 316 KTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALE 375

Query: 265 LLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVR-RFDFNLVLGTSVIDMYS 323
               M+     PD +++ S L ACA +G L +G  +H    R      +V+  ++I+MYS
Sbjct: 376 TYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYS 435

Query: 324 KCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFAS 383
           KC     A  +F  +  +D+ISW  IIA   ++    EAL  F QM+ T +KP+  T  +
Sbjct: 436 KCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIA 494

Query: 384 LLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTE 443
            LSA +  G +  G+      V +  I         ++DL  R G +  A    +  S E
Sbjct: 495 ALSACARIGALMCGKE-IHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFN--SHE 551

Query: 444 PGLAVWVALLSGCHNHKKFSIGEKVAKKVLK--LNPDDLGIHALV 486
             +  W  LL+G   H K S+  ++  ++++  +NPD++   +L+
Sbjct: 552 KDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLL 596

Length = 857

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

 Score =  196 bits (500), Expect = 6e-54
 Identities = 118/431 (27%), Positives = 216/431 (50%), Gaps = 4/431 (0%)

Query: 59  EVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSML 118
           + L L   M +  V  D   +    + C     ++ G  +  +A+       V +G++ML
Sbjct: 69  QALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAML 128

Query: 119 NLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEV 178
           +++V+ G++  A   F KM  +DL  W+ ++ G    G   EA+  Y RM   G+  D  
Sbjct: 129 SMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVY 188

Query: 179 VMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNM 238
               +++ C  + D   G  VH + +R    LDV V  +L+ MY K G +  A  VF  M
Sbjct: 189 TFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRM 248

Query: 239 SRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGK 298
            R + ++W A+ISG+ +NG     LEL   M+    +PD +++ S + AC  +G  +LG+
Sbjct: 249 PRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGR 308

Query: 299 SIHGYTVRR-FDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHG 357
            +HGY V+  F  ++ +  S+I MY   G    A  +F +M+++D +SW  +I+ Y  +G
Sbjct: 309 EMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNG 368

Query: 358 HGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHY 417
             ++AL  +  M +  V PD  T AS+LSA +  G ++ G    +L   K  I       
Sbjct: 369 LPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVAN 428

Query: 418 ACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSG-CHNHKKFSIGEKVAKKVLKLN 476
           A ++++ ++   +++AL++  ++  E  +  W ++++G   N++ F       + +L L 
Sbjct: 429 A-LIEMYSKCKCIDKALEVFHNIP-EKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLK 486

Query: 477 PDDLGIHALVS 487
           P+ + + A +S
Sbjct: 487 PNSVTLIAALS 497

Length = 857

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

 Score =  189 bits (482), Expect = 4e-52
 Identities = 107/417 (25%), Positives = 191/417 (45%), Gaps = 38/417 (9%)

Query: 26  IVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKA 85
           ++ AR+LF+E+P R + ++ +II       +  E   L+ +M ++    +  TF V L+A
Sbjct: 174 LIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRA 233

Query: 86  CVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCW 145
              L   + G+++    ++ G   D FV  +++++Y KCG + +A   F+ M  K  V W
Sbjct: 234 SAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAW 293

Query: 146 SSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIR 205
           +SM+ G   +G   EA+  Y  M+  G+  D+     +I+  + L         H   IR
Sbjct: 294 NSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIR 353

Query: 206 RHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLEL 265
               LD+   T+LVD+Y+K G ++ A +VF  M R N+++W ALI+G+  +G     +E+
Sbjct: 354 TGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEM 413

Query: 266 LMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKC 325
              M + G  P+ V+ ++ L AC   G  + G  I                    M+  C
Sbjct: 414 FERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSE------NHRIKPRAMHYAC 467

Query: 326 GVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLL 385
                                  +I   G  G  +EA ++   +     KP  + +A+LL
Sbjct: 468 -----------------------MIELLGREGLLDEAYAM---IRRAPFKPTVNMWAALL 501

Query: 386 SALSHSGLVEEGRYWFDLMVSKYKIQPTEK--HYACMVDLLARAGEVEEALKIVDSM 440
           +A      +E GR   + +   Y + P EK  +Y  +++L   +G   EA K+V+++
Sbjct: 502 TACRIHKNLELGRLAAEKL---YGMGP-EKLNNYVVLLNLYNSSGRQAEAAKVVETL 554

Length = 697

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

 Score =  146 bits (371), Expect = 3e-37
 Identities = 92/338 (27%), Positives = 156/338 (46%), Gaps = 26/338 (7%)

Query: 135 EKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEG-IDADEVVMMGLIQACADLGDS 193
           +   RK  V   S I  LV  G+ REA++ ++ ++              L++AC  L   
Sbjct: 80  DTQIRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSI 139

Query: 194 RFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGF 253
           R   +V+ +        D  +   ++ M+ K G L  A  +F  M   N+ +WG +I G 
Sbjct: 140 RCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGL 199

Query: 254 AQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDF-NL 312
              G       L  EM   G + +  + V  L A A +G  + G+ +H   ++     + 
Sbjct: 200 VDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDT 259

Query: 313 VLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIET 372
            +  ++IDMYSKCG    AR +FD M  +  ++WN ++A Y +HG+ EEAL L+ +M ++
Sbjct: 260 FVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDS 319

Query: 373 MVKPDHSTFASLLSALS-----------HSGLVEEGRYWFDLMVSKYKIQPTEKHYACMV 421
            V  D  TF+ ++   S           H+GL+  G +  D++ +             +V
Sbjct: 320 GVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTG-FPLDIVAN-----------TALV 367

Query: 422 DLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNH 459
           DL ++ G +E+A  + D M  +  L  W AL++G  NH
Sbjct: 368 DLYSKWGRMEDARNVFDRMPRK-NLISWNALIAGYGNH 404

Length = 697

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

 Score =  143 bits (363), Expect = 4e-36
 Identities = 92/316 (29%), Positives = 147/316 (46%), Gaps = 11/316 (3%)

Query: 146 SSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIR 205
           +S +  L  +GQ  +A+   + M++  +  DE   + L + C        G  V   ++ 
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS 114

Query: 206 RHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLEL 265
            H +L V++  +++ M+ + G L  A +VF  M   ++ +W  L+ G+A+ G     L L
Sbjct: 115 SHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCL 174

Query: 266 LMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNL---VLGTSVIDMY 322
              M   G  PD  +    L  C  I  L  G+ +H + V RF F L   V+  ++I MY
Sbjct: 175 YHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVV-RFGFELDVDVV-NALITMY 232

Query: 323 SKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFA 382
            KCG    AR +FD+M  RD ISWN +I+ Y  +G   E L LF  M E  V PD  T  
Sbjct: 233 VKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTIT 292

Query: 383 SLLSALSHSGLVEEGRYWFDL--MVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM 440
           S++SA     L+ + R   ++   V K            ++ +    G   EA K+   M
Sbjct: 293 SVISA---CELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM 349

Query: 441 STEPGLAVWVALLSGC 456
            T+  ++ W A++SG 
Sbjct: 350 ETKDAVS-WTAMISGY 364

Length = 857

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

 Score =  121 bits (305), Expect = 8e-29
 Identities = 75/253 (29%), Positives = 125/253 (49%), Gaps = 4/253 (1%)

Query: 2   IKTNLSAYGNSVGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVL 61
            +  L +Y      +I +Y     I  A ++F  +P + V ++ SII         FE L
Sbjct: 416 ERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEAL 475

Query: 62  GLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLY 121
             + QM+   ++P+S T   AL AC  +  L  G+EI    +  G G D F+ +++L+LY
Sbjct: 476 IFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLY 534

Query: 122 VKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMM 181
           V+CG+MN A   F     KD+V W+ ++ G V +G+   AV+ + RM + G++ DEV  +
Sbjct: 535 VRCGRMNYAWNQF-NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFI 593

Query: 182 GLIQACADLGDSRFGLSV-HGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMS- 239
            L+ AC+  G    GL   H    +  +  ++K    +VD+  + G L  A +    M  
Sbjct: 594 SLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPI 653

Query: 240 RINIVTWGALISG 252
             +   WGAL++ 
Sbjct: 654 TPDPAVWGALLNA 666

Length = 857

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

 Score =  102 bits (256), Expect = 8e-23
 Identities = 62/244 (25%), Positives = 126/244 (51%), Gaps = 14/244 (5%)

Query: 16  IIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPD 75
           +I +Y    DI  AR +F+ +P +    +NS++  Y+      E L LY +M    V  D
Sbjct: 265 LIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSID 324

Query: 76  SSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFE 135
             TF++ ++    L  L+  ++     +  G+  D+   +++++LY K G+M +A   F+
Sbjct: 325 QFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFD 384

Query: 136 KMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRF 195
           +M RK+L+ W+++I G   +G+  +AV+ ++RM  EG+  + V  + ++ AC      R+
Sbjct: 385 RMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSAC------RY 438

Query: 196 -GLSVHGYSIRRHLNLDVKVQ------TSLVDMYAKTGHLDLASHVFKNMSRINIVT-WG 247
            GLS  G+ I + ++ + +++        ++++  + G LD A  + +       V  W 
Sbjct: 439 SGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWA 498

Query: 248 ALIS 251
           AL++
Sbjct: 499 ALLT 502

Length = 697

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

 Score = 59.1 bits (143), Expect = 5e-09
 Identities = 82/407 (20%), Positives = 149/407 (36%), Gaps = 77/407 (18%)

Query: 74  PDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVA 133
           P  STF + +  C S  D+     + R   E G   D  + +++++   K GK++     
Sbjct: 435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEV 494

Query: 134 FEKMQ----RKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACAD 189
           F +M       ++  + ++I+G    GQ  +A  AY  M+ + +  D VV   LI AC  
Sbjct: 495 FHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQ 554

Query: 190 LG--DSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWG 247
            G  D  F               DV     L +M A+T  +D   H          +T G
Sbjct: 555 SGAVDRAF---------------DV-----LAEMKAETHPID-PDH----------ITVG 583

Query: 248 ALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRR 307
           AL+   A  G      E+   +     +        A+ +C+Q G      SI  Y    
Sbjct: 584 ALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSI--YD--- 638

Query: 308 FDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHG---EEALS 364
                       DM  K   P       D++    L+          + GH    ++A  
Sbjct: 639 ------------DMKKKGVKP-------DEVFFSALVD---------VAGHAGDLDKAFE 670

Query: 365 LFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLL 424
           +     +  +K    +++SL+ A S++   ++    ++ + S  K++PT      ++  L
Sbjct: 671 ILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKS-IKLRPTVSTMNALITAL 729

Query: 425 ARAGEVEEALKIVDSMST---EPGLAVWVALLSGCHNHKKFSIGEKV 468
               ++ +AL+++  M      P    +  LL          +G  +
Sbjct: 730 CEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDL 776

Length = 1060

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

 Score = 48.6 bits (117), Expect = 9e-08
 Identities = 17/49 (34%), Positives = 29/49 (59%)

Query: 342 DLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSH 390
           D++++N +I  Y   G  EEAL LF +M +  +KP+  T++ L+  L  
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 47.0 bits (113), Expect = 2e-07
 Identities = 14/44 (31%), Positives = 26/44 (59%)

Query: 43 TYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKAC 86
          TYN++I  Y +K    E L L+N+M K  ++P+  T+++ +   
Sbjct: 5  TYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 45.5 bits (109), Expect = 1e-06
 Identities = 14/50 (28%), Positives = 24/50 (48%)

Query: 140 KDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACAD 189
            D+V ++++I+G    G+  EA+  +  MKK GI  +      LI     
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 43.5 bits (104), Expect = 5e-06
 Identities = 14/47 (29%), Positives = 25/47 (53%), Gaps = 3/47 (6%)

Query: 242 NIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVS---LVSAL 285
           ++VT+  LI G+ + G     L+L  EM+  G +P+  +   L+  L
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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 46.0 bits (109), Expect = 5e-05
 Identities = 54/260 (20%), Positives = 98/260 (37%), Gaps = 45/260 (17%)

Query: 263 LELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSI-HGYTVRRFDFNLVLGTSVIDM 321
           L +L  +Q  G + D     + +  CA+ G +     + H       + N+    ++ID 
Sbjct: 457 LRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALID- 515

Query: 322 YSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTF 381
                   CARA   Q+             +YGI             M    VKPD   F
Sbjct: 516 -------GCARA--GQVAK--------AFGAYGI-------------MRSKNVKPDRVVF 545

Query: 382 ASLLSALSHSGLVEEGRYWFDL---MVSKYK-IQPTEKHYACMVDLLARAGEVEEALKIV 437
            +L+SA   SG V+     FD+   M ++   I P       ++   A AG+V+ A ++ 
Sbjct: 546 NALISACGQSGAVDRA---FDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVY 602

Query: 438 DSM---STEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLK--LNPDDLGIHALVSNFFAM 492
             +   + +    V+   ++ C     +     +   + K  + PD++   ALV +    
Sbjct: 603 QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALV-DVAGH 661

Query: 493 EQKWEEVAGVRKTMRKSGMK 512
               ++   + +  RK G+K
Sbjct: 662 AGDLDKAFEILQDARKQGIK 681

Length = 1060

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

 Score = 39.7 bits (94), Expect = 6e-05
 Identities = 11/31 (35%), Positives = 22/31 (70%)

Query: 143 VCWSSMINGLVFNGQPREAVDAYKRMKKEGI 173
           V ++S+I+G    G+  EA++ +K MK++G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 38.5 bits (91), Expect = 2e-04
 Identities = 14/47 (29%), Positives = 30/47 (63%), Gaps = 4/47 (8%)

Query: 110 DVFVGSSMLNLYVKCGKMNEAMVAFEKMQRK----DLVCWSSMINGL 152
           DV   +++++ Y K GK+ EA+  F +M+++    ++  +S +I+GL
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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 41.8 bits (98), Expect = 0.001
 Identities = 65/295 (22%), Positives = 125/295 (42%), Gaps = 36/295 (12%)

Query: 44  YNSIIIAYSRK---ESPFEVLGLYNQMIKED--VRPDSSTFTVALKACVSLMDLKMGEEI 98
           +N++I A  +    +  F+VL    +M  E   + PD  T    +KAC +   +   +E+
Sbjct: 545 FNALISACGQSGAVDRAFDVLA---EMKAETHPIDPDHITVGALMKACANAGQVDRAKEV 601

Query: 99  WRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRK----DLVCWSSMINGLVF 154
           ++   E        V +  +N   + G  + A+  ++ M++K    D V +S++++    
Sbjct: 602 YQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGH 661

Query: 155 NGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKV 214
            G   +A +  +  +K+GI    V    L+ AC++  + +  L +  Y   + + L   V
Sbjct: 662 AGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALEL--YEDIKSIKLRPTV 719

Query: 215 QT--SLVDMYAKTGHLDLASHVFKNMSRI----NIVTWGALISGFAQNGLAGSTLELLME 268
            T  +L+    +   L  A  V   M R+    N +T+  L+    +   A   L+LL +
Sbjct: 720 STMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQ 779

Query: 269 MQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYS 323
            +  G +P+       L+ C         + I G  +RRF+    LG  V+   S
Sbjct: 780 AKEDGIKPN-------LVMC---------RCITGLCLRRFEKACALGEPVVSFDS 818

Length = 1060

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

 Score = 36.3 bits (85), Expect = 0.001
 Identities = 10/34 (29%), Positives = 17/34 (50%)

Query: 43 TYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDS 76
          TYN++I    +     E L L+ +M +  + PD 
Sbjct: 2  TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 35.5 bits (83), Expect = 0.002
 Identities = 12/28 (42%), Positives = 18/28 (64%)

Query: 344 ISWNVIIASYGIHGHGEEALSLFLQMIE 371
           +++N +I+ Y   G  EEAL LF +M E
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKE 28

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 = 35.5 bits (83), Expect = 0.002
 Identities = 15/35 (42%), Positives = 18/35 (51%)

Query: 244 VTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDS 278
           VT+  LI G  + G     LEL  EM+  G EPD 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	589
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
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	99.95
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.94
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.94
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.91
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.91
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.9
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.9
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.87
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.86
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.86
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.86
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.85
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.85
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.85
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.83
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.83
PRK14574	822	hmsH outer membrane protein; Provisional	99.82
PRK14574	822	hmsH outer membrane protein; Provisional	99.8
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.77
KOG2003	840	consensus TPR repeat-containing protein [General f	99.75
KOG2076	895	consensus RNA polymerase III transcription factor	99.74
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.74
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.72
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.7
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.67
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.66
KOG2076	895	consensus RNA polymerase III transcription factor	99.65
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.65
KOG2003	840	consensus TPR repeat-containing protein [General f	99.64
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.62
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.6
KOG1126	638	consensus DNA-binding cell division cycle control	99.58
KOG1126	638	consensus DNA-binding cell division cycle control	99.58
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.57
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.56
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.56
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.55
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.54
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.54
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.52
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.49
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.49
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.45
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.43
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.43
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.42
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.42
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.41
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.4
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.39
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.38
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.37
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.36
KOG1129	478	consensus TPR repeat-containing protein [General f	99.36
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.32
PRK12370	553	invasion protein regulator; Provisional	99.31
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.3
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.3
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.29
PF13041	50	PPR_2: PPR repeat family	99.26
PRK11189	296	lipoprotein NlpI; Provisional	99.26
PF13041	50	PPR_2: PPR repeat family	99.26
PRK12370	553	invasion protein regulator; Provisional	99.25
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.24
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.23
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.22
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.21
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.19
PRK11189	296	lipoprotein NlpI; Provisional	99.17
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.16
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.15
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.14
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.13
KOG1125	579	consensus TPR repeat-containing protein [General f	99.12
KOG1129	478	consensus TPR repeat-containing protein [General f	99.12
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.06
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.05
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.05
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.01
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.0
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.98
PRK04841	903	transcriptional regulator MalT; Provisional	98.98
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.96
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.95
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.93
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.92
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.91
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.91
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.9
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.88
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.82
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.81
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.81
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.8
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.79
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.76
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.76
PRK15359	144	type III secretion system chaperone protein SscB;	98.75
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.74
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.73
PRK15359	144	type III secretion system chaperone protein SscB;	98.72
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.71
PLN02789	320	farnesyltranstransferase	98.69
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.69
PRK04841	903	transcriptional regulator MalT; Provisional	98.67
PF12854	34	PPR_1: PPR repeat	98.67
KOG1125	579	consensus TPR repeat-containing protein [General f	98.65
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.65
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.64
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.63
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.6
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.58
PF12854	34	PPR_1: PPR repeat	98.57
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.57
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.53
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.49
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.48
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.47
PLN02789	320	farnesyltranstransferase	98.46
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.41
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.4
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.4
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.4
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.39
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.31
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.31
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.29
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.28
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.27
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.19
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.19
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.17
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.17
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.16
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.16
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.14
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.14
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.13
KOG0553	304	consensus TPR repeat-containing protein [General f	98.13
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.11
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.09
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.07
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.06
KOG0553	304	consensus TPR repeat-containing protein [General f	98.06
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.05
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.02
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.02
PRK15331	165	chaperone protein SicA; Provisional	98.01
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.95
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.94
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.94
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.93
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.88
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.87
PF13371	73	TPR_9: Tetratricopeptide repeat	97.86
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.83
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.8
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.77
PF13431	34	TPR_17: Tetratricopeptide repeat	97.76
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.73
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.73
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.71
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.71
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.7
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.69
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.67
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.65
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.63
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.63
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.63
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.6
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.6
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.59
PF14432	116	DYW_deaminase: DYW family of nucleic acid deaminas	97.58
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.51
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.49
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.42
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.42
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.41
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.4
PF13428	44	TPR_14: Tetratricopeptide repeat	97.4
PRK10803	263	tol-pal system protein YbgF; Provisional	97.4
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.4
KOG1258	577	consensus mRNA processing protein [RNA processing	97.39
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.36
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.35
PF12688	120	TPR_5: Tetratrico peptide repeat	97.35
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.32
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.27
PF12688	120	TPR_5: Tetratrico peptide repeat	97.23
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.21
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.18
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.15
PF13371	73	TPR_9: Tetratricopeptide repeat	97.15
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.14
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.14
PRK10803	263	tol-pal system protein YbgF; Provisional	97.12
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.12
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.1
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.08
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.07
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.06
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.06
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.02
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.96
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.92
KOG4555	175	consensus TPR repeat-containing protein [Function	96.91
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.85
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.83
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.81
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.8
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.78
PRK11906	458	transcriptional regulator; Provisional	96.77
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.74
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.74
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.63
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.6
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.52
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.45
KOG4234	271	consensus TPR repeat-containing protein [General f	96.41
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.4
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.34
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.21
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.16
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.11
PF13512	142	TPR_18: Tetratricopeptide repeat	96.05
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	96.05
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	96.02
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.94
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.92
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.91
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.91
KOG1585	308	consensus Protein required for fusion of vesicles	95.89
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.85
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.82
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.64
PRK15331	165	chaperone protein SicA; Provisional	95.55
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.55
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.49
PF13512	142	TPR_18: Tetratricopeptide repeat	95.45
PRK11906	458	transcriptional regulator; Provisional	95.44
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.42
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.39
PRK11619	644	lytic murein transglycosylase; Provisional	95.35
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.19
KOG1258	577	consensus mRNA processing protein [RNA processing	95.17
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.14
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.13
KOG4555	175	consensus TPR repeat-containing protein [Function	94.99
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.83
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.77
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.71
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.7
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	94.67
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.55
KOG3941	406	consensus Intermediate in Toll signal transduction	94.55
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.47
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.44
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.4
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	94.3
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.25
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	94.19
COG4105	254	ComL DNA uptake lipoprotein [General function pred	94.12
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	94.11
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.1
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	93.9
KOG4648	536	consensus Uncharacterized conserved protein, conta	93.86
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.81
KOG3941	406	consensus Intermediate in Toll signal transduction	93.73
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.63
KOG2610	491	consensus Uncharacterized conserved protein [Funct	93.63
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.47
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	93.42
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.38
PF13428	44	TPR_14: Tetratricopeptide repeat	93.34
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.01
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	92.96
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	92.87
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.83
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	92.68
COG3629	280	DnrI DNA-binding transcriptional activator of the	92.66
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	92.59
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	92.39
PRK10941	269	hypothetical protein; Provisional	92.32
KOG4648	536	consensus Uncharacterized conserved protein, conta	92.2
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	92.15
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	91.89
PRK09687	280	putative lyase; Provisional	91.83
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	90.64
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	90.56
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	90.54
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	90.51
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	90.5
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	90.43
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	90.32
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	90.26
KOG3364	149	consensus Membrane protein involved in organellar	90.06
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	90.04
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	89.98
COG3629	280	DnrI DNA-binding transcriptional activator of the	89.92
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	89.81
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	89.67
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	89.32
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	89.31
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	89.17
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	89.06
PRK09687	280	putative lyase; Provisional	88.89
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	88.85
KOG4234	271	consensus TPR repeat-containing protein [General f	88.64
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	88.62
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	88.37
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	88.36
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	88.35
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	88.15
KOG4279	1226	consensus Serine/threonine protein kinase [Signal	87.81
KOG1585	308	consensus Protein required for fusion of vesicles	87.74
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	87.43
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	87.12
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	87.03
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	86.9
KOG4570	418	consensus Uncharacterized conserved protein [Funct	86.9
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	86.85
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	86.63
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	86.56
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	86.18
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	86.05
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	86.01
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	85.12
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	85.02
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	84.75
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	84.28
PF13431	34	TPR_17: Tetratricopeptide repeat	83.66
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	83.48
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	83.35
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	83.12
KOG1550	552	consensus Extracellular protein SEL-1 and related	83.12
KOG1586	288	consensus Protein required for fusion of vesicles	82.85
KOG4570	418	consensus Uncharacterized conserved protein [Funct	82.01
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	81.98
COG1747	711	Uncharacterized N-terminal domain of the transcrip	81.93
KOG1586	288	consensus Protein required for fusion of vesicles	81.72
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	81.5
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	80.98
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	80.98
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	80.97
PRK12798	421	chemotaxis protein; Reviewed	80.87
COG3947	361	Response regulator containing CheY-like receiver a	80.68
COG5159	421	RPN6 26S proteasome regulatory complex component [	80.67

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.9e-98  Score=814.99  Aligned_cols=583  Identities=36%  Similarity=0.618  Sum_probs=568.3

Q ss_pred             CeeccCCCCcchHhHHHHhhhcCCChHHHHHHhccCCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHH
Q 048179            1 MIKTNLSAYGNSVGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFT   80 (589)
Q Consensus         1 ~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~   80 (589)
                      |++.|+.||+.++|.||.+|+++|++++|.++|++|+.+|..+||++|.+|++.|++++|+++|++|.+.|+.||..||+
T Consensus       213 ~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~  292 (857)
T PLN03077        213 VVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTIT  292 (857)
T ss_pred             HHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHH
Confidence            35678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccH
Q 048179           81 VALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPRE  160 (589)
Q Consensus        81 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  160 (589)
                      .++.+|++.|+++.|.+++..+.+.|+.||..+||+|+.+|+++|++++|.++|++|..||.++||++|.+|++.|++++
T Consensus       293 ~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~  372 (857)
T PLN03077        293 SVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDK  372 (857)
T ss_pred             HHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC
Q 048179          161 AVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR  240 (589)
Q Consensus       161 A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  240 (589)
                      |+++|++|.+.|+.||..||++++.+|++.|+++.|.++++.+.+.|+.++..++++|+++|+++|++++|.++|++|.+
T Consensus       373 A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~  452 (857)
T PLN03077        373 ALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE  452 (857)
T ss_pred             HHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHh-hcCCCChhHHHHHH
Q 048179          241 INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTV-RRFDFNLVLGTSVI  319 (589)
Q Consensus       241 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~l~  319 (589)
                      +|+++|+++|.+|++.|+.++|+.+|++|.. ++.||..||..++.+|++.|.++.+.++|..+. .++.++..++++|+
T Consensus       453 ~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi  531 (857)
T PLN03077        453 KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALL  531 (857)
T ss_pred             CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHH
Confidence            9999999999999999999999999999986 589999999999999999999999999999999 99999999999999


Q ss_pred             HHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHH
Q 048179          320 DMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRY  399 (589)
Q Consensus       320 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~  399 (589)
                      ++|+++|++++|.++|+.+ .+|+.+||+||.+|+++|+.++|+++|++|.+.|+.||..||+.++.+|++.|++++|.+
T Consensus       532 ~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~  610 (857)
T PLN03077        532 DLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLE  610 (857)
T ss_pred             HHHHHcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHH
Confidence            9999999999999999999 899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCC
Q 048179          400 WFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD  479 (589)
Q Consensus       400 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  479 (589)
                      +|+.|.+.+++.|+..+|++|+++|+++|++++|.+++++|+.+||..+|++|+.+|..+|+.+.|+.+.+++++++|++
T Consensus       611 ~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~  690 (857)
T PLN03077        611 YFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNS  690 (857)
T ss_pred             HHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCC
Confidence            99999977799999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCceeEEEECCEEEEEEecCCCCCChHHHHHHHHHHHHHHHhcCCc
Q 048179          480 LGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMRAISSW  559 (589)
Q Consensus       480 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  559 (589)
                      +..|..|+++|...|+|++|.++++.|+++|++|.||+|||++++++|.|.+||.+||+.++||..+++|..+|++.||.
T Consensus       691 ~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~g~~  770 (857)
T PLN03077        691 VGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLA  770 (857)
T ss_pred             cchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEECCEEEEEecCCCCCcchHHHHHHHHHHHHHHHhCCcC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCC----Ccc-cccccchhhhhhcccccc
Q 048179          560 LQGHM----EEH-EEHDPLSTAAQYAPTYYL  585 (589)
Q Consensus       560 ~~~~~----~~~-~~~~~~~~~~~~~~~~~~  585 (589)
                      |++..    +++ .+..+..|.++||.+|||
T Consensus       771 ~~~~~~~~~~~~~k~~~~~~hse~la~a~~l  801 (857)
T PLN03077        771 GSESSSMDEIEVSKDDIFCGHSERLAIAFGL  801 (857)
T ss_pred             CCcchhccccHHHHHHHHHhccHHHHHHHhh
Confidence            98542    222 233588999999999998

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

Probab=100.00  E-value=4.6e-90  Score=731.93  Aligned_cols=547  Identities=29%  Similarity=0.512  Sum_probs=532.3

Q ss_pred             CCcccHHHHHHHHHcCCCchhHHHHHHHHHHCC-CCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHH
Q 048179           39 RGVDTYNSIIIAYSRKESPFEVLGLYNQMIKED-VRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSM  117 (589)
Q Consensus        39 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  117 (589)
                      ++..+|+.+|.++.+.|++++|+++|+.|...+ +.||..||+.++.+|++.++++.+.+++..|.+.|+.||..+++.|
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            456799999999999999999999999999864 7899999999999999999999999999999999999999999999


Q ss_pred             HHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHH
Q 048179          118 LNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGL  197 (589)
Q Consensus       118 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~  197 (589)
                      +.+|+++|++++|.++|++|.+||.++||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+..|+.+.+.
T Consensus       165 i~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~  244 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQ  244 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCC
Q 048179          198 SVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPD  277 (589)
Q Consensus       198 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  277 (589)
                      +++..+.+.|+.+|..++++|+++|+++|++++|.++|++|.++|+++||++|.+|++.|+.++|+++|++|.+.|+.||
T Consensus       245 ~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd  324 (697)
T PLN03081        245 QLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSID  324 (697)
T ss_pred             HHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhccCchhhHHHHHHHHh-hcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhc
Q 048179          278 SVSLVSALLACAQIGFLKLGKSIHGYTV-RRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIH  356 (589)
Q Consensus       278 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~  356 (589)
                      ..||+.++.+|++.|.++.|.++|..+. .+++++..++++|+++|+++|++++|.++|++|.++|+.+||+||.+|+++
T Consensus       325 ~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~  404 (697)
T PLN03081        325 QFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNH  404 (697)
T ss_pred             HHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHc
Confidence            9999999999999999999999999999 999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHH
Q 048179          357 GHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKI  436 (589)
Q Consensus       357 g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  436 (589)
                      |+.++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|.+.+++.|+..+|++|+++|++.|++++|.++
T Consensus       405 G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~  484 (697)
T PLN03081        405 GRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAM  484 (697)
T ss_pred             CCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999998889999999999999999999999999999


Q ss_pred             HHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCc
Q 048179          437 VDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPG  516 (589)
Q Consensus       437 ~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~  516 (589)
                      +++|+.+|+..+|++|+.+|..+|+++.|+.+++++++++|++...|..|+++|.+.|+|++|.++++.|++.|++|.||
T Consensus       485 ~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g  564 (697)
T PLN03081        485 IRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPA  564 (697)
T ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeEEEECCEEEEEEecCCCCCChHHHHHHHHHHHHHHHhcCCcccCCCC-----ccccc-ccchhhhhhcccccc
Q 048179          517 YSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMRAISSWLQGHME-----EHEEH-DPLSTAAQYAPTYYL  585 (589)
Q Consensus       517 ~s~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~-----~~~~~-~~~~~~~~~~~~~~~  585 (589)
                      +||+++++++|.|.+||.+||+.++||..+.++..+|++.||.|++...     ++.++ .+..|.+++|.+|||
T Consensus       565 ~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~~~~~~~~~~~~~~~~~~~hsekla~a~~l  639 (697)
T PLN03081        565 CTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENELLPDVDEDEEKVSGRYHSEKLAIAFGL  639 (697)
T ss_pred             eeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCCcchhhccccHHHHHHHHHhccHHHHHHhhC
Confidence            9999999999999999999999999999999999999999999996532     22233 478999999999998

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=8.1e-77  Score=645.67  Aligned_cols=508  Identities=29%  Similarity=0.476  Sum_probs=471.7

Q ss_pred             eeccCCCCcchHhHHHHhhhcCCChHHHHHHhccCCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHH
Q 048179            2 IKTNLSAYGNSVGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTV   81 (589)
Q Consensus         2 ~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~   81 (589)
                      ++.|..+++.++|+|+.+|+++|+++.|.++|++|++||+.+||++|.+|++.|++++|+++|++|...|+.||..||+.
T Consensus       113 ~~~~~~~~~~~~n~li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~  192 (857)
T PLN03077        113 LSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPC  192 (857)
T ss_pred             HHcCCCCCchHHHHHHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHH
Confidence            45678899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHH
Q 048179           82 ALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREA  161 (589)
Q Consensus        82 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  161 (589)
                      ++++|+..++++.+.+++..+.+.|+.||..++++|+.+|+++|++++|.++|++|+++|.++||+||.+|++.|++++|
T Consensus       193 ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eA  272 (857)
T PLN03077        193 VLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEG  272 (857)
T ss_pred             HHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCC
Q 048179          162 VDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRI  241 (589)
Q Consensus       162 ~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  241 (589)
                      +++|.+|...|+.||..||+.++.+|++.|+.+.+.+++..+.+.|+.||..+||+|+.+|+++|++++|.++|++|..+
T Consensus       273 l~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~  352 (857)
T PLN03077        273 LELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK  352 (857)
T ss_pred             HHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHh-hcCCCChhHHHHHHH
Q 048179          242 NIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTV-RRFDFNLVLGTSVID  320 (589)
Q Consensus       242 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~l~~  320 (589)
                      |+++||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++|+.+. .|..++..++++|++
T Consensus       353 d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~  432 (857)
T PLN03077        353 DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIE  432 (857)
T ss_pred             CeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999 999999999999999


Q ss_pred             HhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHH
Q 048179          321 MYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYW  400 (589)
Q Consensus       321 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~  400 (589)
                      +|+++|++++|.++|++|.++|+++||++|.+|++.|+.++|+.+|++|.. +++||..||..++.+|++.|+++.+.++
T Consensus       433 ~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i  511 (857)
T PLN03077        433 MYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEI  511 (857)
T ss_pred             HHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHH
Confidence            999999999999999999999999999999999999999999999999986 5999999999999999999999999999


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhcc--CCC
Q 048179          401 FDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKL--NPD  478 (589)
Q Consensus       401 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~p~  478 (589)
                      +..+.+. |+.++..++++|+++|+++|++++|.++|+++  +||..+|++++.+|.++|+.++|.++|++|.+.  .| 
T Consensus       512 ~~~~~~~-g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~--~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~P-  587 (857)
T PLN03077        512 HAHVLRT-GIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNP-  587 (857)
T ss_pred             HHHHHHh-CCCccceechHHHHHHHHcCCHHHHHHHHHhc--CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-
Confidence            9999886 88888877778888887777777777777777  567777777777777777777777777777653  34 


Q ss_pred             CchhHHHHHHHHHhCCChHHHHHHHHHHH-hCCCccC
Q 048179          479 DLGIHALVSNFFAMEQKWEEVAGVRKTMR-KSGMKKV  514 (589)
Q Consensus       479 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-~~g~~~~  514 (589)
                      |..+|..+..+|.+.|++++|.++|+.|. +.|+.++
T Consensus       588 d~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~  624 (857)
T PLN03077        588 DEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPN  624 (857)
T ss_pred             CcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCc
Confidence            45556666667777777777777777776 4555543

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.5e-67  Score=559.87  Aligned_cols=503  Identities=17%  Similarity=0.205  Sum_probs=465.2

Q ss_pred             CCCcchHhHHHHhhhcCCChHHHHHHhccCCCCCccc-----HHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHH
Q 048179            7 SAYGNSVGRIIALYGGKNDIVSARKLFEELPLRGVDT-----YNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTV   81 (589)
Q Consensus         7 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-----~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~   81 (589)
                      .++...|..++..+++.|++++|.++|++|+.++...     ++.++..|.+.|..++|+++|+.|..    ||..+|+.
T Consensus       367 ~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn~  442 (1060)
T PLN03218        367 KRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNM  442 (1060)
T ss_pred             CCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHHH
Confidence            4577889999999999999999999999999877654     45667779999999999999999974    89999999


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcC----CCCcchHHHHHHHHHhCCC
Q 048179           82 ALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQ----RKDLVCWSSMINGLVFNGQ  157 (589)
Q Consensus        82 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~  157 (589)
                      ++.+|++.|+++.|.++|+.|.+.|+.||..+|+.||.+|+++|++++|.++|++|.    .||..+|+.||.+|++.|+
T Consensus       443 LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~  522 (1060)
T PLN03218        443 LMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQ  522 (1060)
T ss_pred             HHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcC
Confidence            999999999999999999999999999999999999999999999999999999998    4899999999999999999


Q ss_pred             ccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHH--hcCCCchHHHHHHHHHHHhcCCHHHHHHHH
Q 048179          158 PREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIR--RHLNLDVKVQTSLVDMYAKTGHLDLASHVF  235 (589)
Q Consensus       158 ~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  235 (589)
                      +++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++|++|..  .|+.||..+|++++.+|+++|++++|.++|
T Consensus       523 ~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf  602 (1060)
T PLN03218        523 VAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVY  602 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            999999999999999999999999999999999999999999999987  678999999999999999999999999999


Q ss_pred             hhcCC----CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHh-hcCCC
Q 048179          236 KNMSR----INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTV-RRFDF  310 (589)
Q Consensus       236 ~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-~~~~~  310 (589)
                      +.|.+    ++..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+. .+..|
T Consensus       603 ~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~p  682 (1060)
T PLN03218        603 QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL  682 (1060)
T ss_pred             HHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            99976    56799999999999999999999999999999999999999999999999999999999999999 99999


Q ss_pred             ChhHHHHHHHHhHhcCCHHHHHHHHHhcC----CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048179          311 NLVLGTSVIDMYSKCGVPSCARALFDQMQ----SRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLS  386 (589)
Q Consensus       311 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~  386 (589)
                      +..+|++|+.+|+++|++++|.++|++|.    .||+.+||+||.+|++.|++++|.++|++|.+.|+.||..||+.++.
T Consensus       683 d~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~  762 (1060)
T PLN03218        683 GTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLV  762 (1060)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            99999999999999999999999999995    58999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH----HcC-------------------CHHHHHHHHHhcC--
Q 048179          387 ALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLA----RAG-------------------EVEEALKIVDSMS--  441 (589)
Q Consensus       387 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~----~~g-------------------~~~~A~~~~~~~~--  441 (589)
                      +|++.|++++|.++|+.|.+. |+.||..+|++++.++.    +++                   ..++|..+|++|.  
T Consensus       763 a~~k~G~le~A~~l~~~M~k~-Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~  841 (1060)
T PLN03218        763 ASERKDDADVGLDLLSQAKED-GIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISA  841 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHC
Confidence            999999999999999999987 99999999999997643    222                   2367999999994  


Q ss_pred             -CCCChhHHHHHHHHHHhcCCchHHHHHHHHHhc-cCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCc
Q 048179          442 -TEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLK-LNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPG  516 (589)
Q Consensus       442 -~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~  516 (589)
                       ..||..+|+.++.++...+..+.+..+++.+.. -.+.+...|..+.+.+.+.  .++|..++++|.+.|+.+...
T Consensus       842 Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~Gi~p~~~  916 (1060)
T PLN03218        842 GTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLGVVPSVS  916 (1060)
T ss_pred             CCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcCCCCCcc
Confidence             469999999999877788888888888877653 3456778899998877332  368999999999999987554

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=8.7e-64  Score=532.78  Aligned_cols=472  Identities=15%  Similarity=0.202  Sum_probs=445.7

Q ss_pred             eeccC-CCCcchHhHHHHhhhcCCChHHHHHHhccCCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHH
Q 048179            2 IKTNL-SAYGNSVGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFT   80 (589)
Q Consensus         2 ~~~g~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~   80 (589)
                      .+.|+ .++..+++.++..|.+.|.+++|..+|+.|+.||..+||.+|.+|++.|+++.|.++|+.|.+.|+.||..+|+
T Consensus       397 ~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tyn  476 (1060)
T PLN03218        397 EKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYT  476 (1060)
T ss_pred             HhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            45564 57888899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcC----CCCcchHHHHHHHHHhCC
Q 048179           81 VALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQ----RKDLVCWSSMINGLVFNG  156 (589)
Q Consensus        81 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g  156 (589)
                      .+|.+|++.|+++.|.++|+.|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.    .||..+||.||.+|++.|
T Consensus       477 sLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G  556 (1060)
T PLN03218        477 TLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSG  556 (1060)
T ss_pred             HHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCC
Confidence            9999999999999999999999999999999999999999999999999999999996    489999999999999999


Q ss_pred             CccHHHHHHHHHHH--CCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHH
Q 048179          157 QPREAVDAYKRMKK--EGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHV  234 (589)
Q Consensus       157 ~~~~A~~~~~~m~~--~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  234 (589)
                      ++++|.++|++|..  .|+.||..||++++.+|++.|++++|.++|+.|.+.|+.|+..+|+.+|.+|++.|++++|.++
T Consensus       557 ~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~l  636 (1060)
T PLN03218        557 AVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSI  636 (1060)
T ss_pred             CHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHH
Confidence            99999999999986  6899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhcCC----CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHh-hcCC
Q 048179          235 FKNMSR----INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTV-RRFD  309 (589)
Q Consensus       235 ~~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-~~~~  309 (589)
                      |++|.+    ||..+|+.++.+|++.|+.++|.++|++|.+.|+.||..+|+.++.+|++.|+++.|.++|+.+. .+..
T Consensus       637 f~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~  716 (1060)
T PLN03218        637 YDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLR  716 (1060)
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Confidence            999975    78899999999999999999999999999999999999999999999999999999999999999 8999


Q ss_pred             CChhHHHHHHHHhHhcCCHHHHHHHHHhcCC----CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048179          310 FNLVLGTSVIDMYSKCGVPSCARALFDQMQS----RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLL  385 (589)
Q Consensus       310 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll  385 (589)
                      |+..+|++||.+|++.|++++|.++|++|.+    ||..+|++++.+|++.|+.++|.++|.+|.+.|+.||..+|+.++
T Consensus       717 PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLI  796 (1060)
T PLN03218        717 PTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT  796 (1060)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            9999999999999999999999999999963    899999999999999999999999999999999999999999998


Q ss_pred             HHHhc----C-------------------CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC
Q 048179          386 SALSH----S-------------------GLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST  442 (589)
Q Consensus       386 ~a~~~----~-------------------g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  442 (589)
                      ..|.+    .                   +..+.|..+|++|.+. |+.||..+|+.++.++.+.+..+.+..+++.|..
T Consensus       797 glc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~-Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~  875 (1060)
T PLN03218        797 GLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISA-GTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGI  875 (1060)
T ss_pred             HHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHhcccccHHHHHHHHHHhcc
Confidence            76542    1                   2246799999999998 9999999999999999999999999999999854


Q ss_pred             ---CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccC
Q 048179          443 ---EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLN  476 (589)
Q Consensus       443 ---~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  476 (589)
                         .|+..+|++|+.+|...  .++|..++++|.+.+
T Consensus       876 ~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~G  910 (1060)
T PLN03218        876 SADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLG  910 (1060)
T ss_pred             CCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcC
Confidence               47789999999998432  368999999999754

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

Probab=100.00  E-value=5e-63  Score=525.24  Aligned_cols=408  Identities=24%  Similarity=0.429  Sum_probs=395.3

Q ss_pred             CeeccCCCCcchHhHHHHhhhcCCChHHHHHHhccCCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHH
Q 048179            1 MIKTNLSAYGNSVGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFT   80 (589)
Q Consensus         1 ~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~   80 (589)
                      |++.|+.||+.++|.|+.+|+++|++++|.++|++|+.||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+
T Consensus       149 m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~  228 (697)
T PLN03081        149 VESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFV  228 (697)
T ss_pred             HHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHH
Confidence            45789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccH
Q 048179           81 VALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPRE  160 (589)
Q Consensus        81 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  160 (589)
                      .++.+|++.|..+.+.+++..+.+.|+.+|..++++|+++|+++|++++|.++|++|.++|+++||+||.+|++.|++++
T Consensus       229 ~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~e  308 (697)
T PLN03081        229 VMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEE  308 (697)
T ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC
Q 048179          161 AVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR  240 (589)
Q Consensus       161 A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  240 (589)
                      |+++|++|.+.|+.||..||++++.+|++.|+++.|.+++..+.+.|+.||..++++|+++|+++|++++|.++|++|.+
T Consensus       309 A~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~  388 (697)
T PLN03081        309 ALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR  388 (697)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHh--hcCCCChhHHHHH
Q 048179          241 INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTV--RRFDFNLVLGTSV  318 (589)
Q Consensus       241 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~~~~l  318 (589)
                      +|+.+||+||.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.+.  .++.|+..+|+++
T Consensus       389 ~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~l  468 (697)
T PLN03081        389 KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACM  468 (697)
T ss_pred             CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhH
Confidence            99999999999999999999999999999999999999999999999999999999999999998  5899999999999


Q ss_pred             HHHhHhcCCHHHHHHHHHhcC-CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHH
Q 048179          319 IDMYSKCGVPSCARALFDQMQ-SRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPD-HSTFASLLSALSHSGLVEE  396 (589)
Q Consensus       319 ~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~t~~~ll~a~~~~g~~~~  396 (589)
                      +++|++.|++++|.++|+++. .|+..+|++++.+|..+|+.+.|..+++++.+.  .|+ ..+|..++..|++.|++++
T Consensus       469 i~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~--~p~~~~~y~~L~~~y~~~G~~~~  546 (697)
T PLN03081        469 IELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGM--GPEKLNNYVVLLNLYNSSGRQAE  546 (697)
T ss_pred             HHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCC--CCCCCcchHHHHHHHHhCCCHHH
Confidence            999999999999999999997 589999999999999999999999999998754  454 6699999999999999999


Q ss_pred             HHHHHHHHHHhcCCC
Q 048179          397 GRYWFDLMVSKYKIQ  411 (589)
Q Consensus       397 a~~~~~~~~~~~~~~  411 (589)
                      |.++++.|.+. |+.
T Consensus       547 A~~v~~~m~~~-g~~  560 (697)
T PLN03081        547 AAKVVETLKRK-GLS  560 (697)
T ss_pred             HHHHHHHHHHc-CCc
Confidence            99999999987 765

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

Probab=100.00  E-value=1.1e-31  Score=299.11  Aligned_cols=494  Identities=11%  Similarity=0.081  Sum_probs=367.8

Q ss_pred             CCcchHhHHHHhhhcCCChHHHHHHhccCCC---CCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHH
Q 048179            8 AYGNSVGRIIALYGGKNDIVSARKLFEELPL---RGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALK   84 (589)
Q Consensus         8 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~   84 (589)
                      .++..+..+...|.+.|++++|..+|+++..   .+...|..+...+...|++++|++.|+.+.+.+.. +......++.
T Consensus       361 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~  439 (899)
T TIGR02917       361 DDPAALSLLGEAYLALGDFEKAAEYLAKATELDPENAAARTQLGISKLSQGDPSEAIADLETAAQLDPE-LGRADLLLIL  439 (899)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCc-chhhHHHHHH
Confidence            3566788888899999999999999987652   34557778888888889999999999888776432 3344556667


Q ss_pred             HHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCC---CCcchHHHHHHHHHhCCCccHH
Q 048179           85 ACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR---KDLVCWSSMINGLVFNGQPREA  161 (589)
Q Consensus        85 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A  161 (589)
                      .+.+.|+++.|..+++.+.+.. +.+..++..+...|...|++++|...|+++.+   .+...+..+...+...|++++|
T Consensus       440 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A  518 (899)
T TIGR02917       440 SYLRSGQFDKALAAAKKLEKKQ-PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDA  518 (899)
T ss_pred             HHHhcCCHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHH
Confidence            7778888888888888877653 45667788888888888888888888887653   2455677777788888888888


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC-
Q 048179          162 VDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR-  240 (589)
Q Consensus       162 ~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  240 (589)
                      .+.|+++.+.+ +.+..++..+...+...|+.++|...+..+.+.+ +.+...+..++..|.+.|++++|..+++.+.+ 
T Consensus       519 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  596 (899)
T TIGR02917       519 IQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADA  596 (899)
T ss_pred             HHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            88888887653 3356677777777778888888888888877665 33556677778888888888888888877754 


Q ss_pred             --CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHH
Q 048179          241 --INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSV  318 (589)
Q Consensus       241 --~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l  318 (589)
                        .+...|..+..++...|++++|+..|+++.+.. +.+...+..+...+...|+.+.|..++..+....+.+...+..+
T Consensus       597 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  675 (899)
T TIGR02917       597 APDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGL  675 (899)
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence              345677778888888888888888888877653 34455667777777778888888888887776666677777788


Q ss_pred             HHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHH
Q 048179          319 IDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVE  395 (589)
Q Consensus       319 ~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~  395 (589)
                      +..+...|++++|.++++.+.+   .+...+..+...+...|++++|++.|+++...+  |+..++..+..++.+.|+++
T Consensus       676 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~  753 (899)
T TIGR02917       676 AQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTA  753 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHH
Confidence            8888888888888888877754   345567777777778888888888888777653  44456666777777778888


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHHHHh
Q 048179          396 EGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAKKVL  473 (589)
Q Consensus       396 ~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  473 (589)
                      +|.+.++.+.+  ..+.+...+..+...|.+.|++++|.+.|+++..  +++..++..+...+...|+ ++|+..+++++
T Consensus       754 ~A~~~~~~~l~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~  830 (899)
T TIGR02917       754 EAVKTLEAWLK--THPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKAL  830 (899)
T ss_pred             HHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHH
Confidence            88887777776  3345566777777777778888888887777632  2456667777777777777 66777777777


Q ss_pred             ccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048179          474 KLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       474 ~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  511 (589)
                      ++.|+++..+..++.+|...|++++|.+.++++.+.+.
T Consensus       831 ~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~  868 (899)
T TIGR02917       831 KLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAP  868 (899)
T ss_pred             hhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            77777777777777777777777777777777776554

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=2.1e-31  Score=296.65  Aligned_cols=492  Identities=11%  Similarity=0.014  Sum_probs=414.5

Q ss_pred             CcchHhHHHHhhhcCCChHHHHHHhccCCC---CCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHH
Q 048179            9 YGNSVGRIIALYGGKNDIVSARKLFEELPL---RGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKA   85 (589)
Q Consensus         9 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~   85 (589)
                      ++..+..+...+.+.|++++|...++.+..   .+...|+.+...+.+.|++++|.+.|+++.+.. +.+...+..+...
T Consensus       328 ~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  406 (899)
T TIGR02917       328 SHQARRLLASIQLRLGRVDEAIATLSPALGLDPDDPAALSLLGEAYLALGDFEKAAEYLAKATELD-PENAAARTQLGIS  406 (899)
T ss_pred             ChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            456777888889999999999999987653   346678889999999999999999999988764 2355667777788


Q ss_pred             HhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCC---CCcchHHHHHHHHHhCCCccHHH
Q 048179           86 CVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR---KDLVCWSSMINGLVFNGQPREAV  162 (589)
Q Consensus        86 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~  162 (589)
                      +...|+++.|.+.++.+.+.... .......++..+.+.|++++|..+++.+..   .+..+|+.+...+...|++++|.
T Consensus       407 ~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  485 (899)
T TIGR02917       407 KLSQGDPSEAIADLETAAQLDPE-LGRADLLLILSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAR  485 (899)
T ss_pred             HHhCCChHHHHHHHHHHHhhCCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHH
Confidence            88999999999999998887532 345566788889999999999999998874   35678999999999999999999


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC--
Q 048179          163 DAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR--  240 (589)
Q Consensus       163 ~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--  240 (589)
                      +.|+++.+.. +.+...+..+...+...|++++|...++.+.+.. +.+..++..+...+.+.|+.++|...|+++..  
T Consensus       486 ~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  563 (899)
T TIGR02917       486 EAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN  563 (899)
T ss_pred             HHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9999988753 2345567778888889999999999999998775 34678888899999999999999999998854  


Q ss_pred             -CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHH
Q 048179          241 -INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVI  319 (589)
Q Consensus       241 -~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  319 (589)
                       .+...+..++..|...|++++|+.+++++.... +.+..++..+..++...|+++.|...+..+....+.+...+..+.
T Consensus       564 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  642 (899)
T TIGR02917       564 PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLA  642 (899)
T ss_pred             ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHH
Confidence             345677788899999999999999999998753 556778888999999999999999999998866677788889999


Q ss_pred             HHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHH
Q 048179          320 DMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEE  396 (589)
Q Consensus       320 ~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~  396 (589)
                      ..|.+.|++++|...|+++.+   .+..+|..++..+...|++++|..+++.+.+.+ +++...+..+...+...|++++
T Consensus       643 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~  721 (899)
T TIGR02917       643 DAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPA  721 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHH
Confidence            999999999999999998764   356788999999999999999999999998875 5567778888888999999999


Q ss_pred             HHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHHHHhc
Q 048179          397 GRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLK  474 (589)
Q Consensus       397 a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  474 (589)
                      |...|+.+...   .|+...+..++.++.+.|++++|.+.++++..  +.+..++..+...|...|++++|.+.++++++
T Consensus       722 A~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  798 (899)
T TIGR02917       722 AIQAYRKALKR---APSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVK  798 (899)
T ss_pred             HHHHHHHHHhh---CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            99999998854   46667788899999999999999999988732  34677888888889999999999999999999


Q ss_pred             cCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          475 LNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       475 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      ..|+++..+..++.++...|+ .+|+..++++.+..
T Consensus       799 ~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~  833 (899)
T TIGR02917       799 KAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLA  833 (899)
T ss_pred             hCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC
Confidence            999999999999999999999 88999999887653

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=99.95  E-value=1.6e-23  Score=234.01  Aligned_cols=491  Identities=11%  Similarity=0.048  Sum_probs=244.1

Q ss_pred             CcchHhHHHHhhhcCCChHHHHHHhccCCC--CCc-ccH----------------HHHHHHHHcCCCchhHHHHHHHHHH
Q 048179            9 YGNSVGRIIALYGGKNDIVSARKLFEELPL--RGV-DTY----------------NSIIIAYSRKESPFEVLGLYNQMIK   69 (589)
Q Consensus         9 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~-~~~----------------~~li~~~~~~g~~~~a~~~~~~m~~   69 (589)
                      |+.++..++..+.+.|+.++|.+.+++..+  |+. ..+                ..+.+.+...|++++|++.|+.+.+
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            556667777777777788777777776642  221 111                2233456677778888887777765


Q ss_pred             CCCCCCccc-HHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCc------
Q 048179           70 EDVRPDSST-FTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDL------  142 (589)
Q Consensus        70 ~~~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~------  142 (589)
                      .+ +|+... ...........++.++|.+.++++.+.. +.+...+..+..++...|+.++|+..|+++.....      
T Consensus       141 ~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa  218 (1157)
T PRK11447        141 GA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLALLLFSSGRRDEGFAVLEQMAKSPAGRDAAA  218 (1157)
T ss_pred             CC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHhhCCCchHHHH
Confidence            53 223211 1111112224477777777777777764 33556667777777777777777777777643110      


Q ss_pred             ch-----------------HHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHH
Q 048179          143 VC-----------------WSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIR  205 (589)
Q Consensus       143 ~~-----------------~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  205 (589)
                      ..                 +...+..+-.......|...+.++......|+... ......+...|++++|...++.+++
T Consensus       219 ~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~-~~~G~~~~~~g~~~~A~~~l~~aL~  297 (1157)
T PRK11447        219 QLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRA-RAQGLAAVDSGQGGKAIPELQQAVR  297 (1157)
T ss_pred             HHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHH-HHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            00                 00000000011111222222222222111111110 1122344556666666666666665


Q ss_pred             hcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC--CCe---ehHHH------------HHHHHHhCCChhHHHHHHHH
Q 048179          206 RHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR--INI---VTWGA------------LISGFAQNGLAGSTLELLME  268 (589)
Q Consensus       206 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~---~~~~~------------li~~~~~~g~~~~a~~~~~~  268 (589)
                      .. +.+..++..|...|.+.|++++|+..|++..+  |+.   ..|..            ....+.+.|++++|+..|++
T Consensus       298 ~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~  376 (1157)
T PRK11447        298 AN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQ  376 (1157)
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            53 22455666666666666666666666666543  211   11211            12344566666666666666


Q ss_pred             HHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHh--------------------------
Q 048179          269 MQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMY--------------------------  322 (589)
Q Consensus       269 m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~--------------------------  322 (589)
                      ..+.. +.+...+..+...+...|+.+.|...++.+....+.+...+..+...|                          
T Consensus       377 Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~  455 (1157)
T PRK11447        377 ARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYRQQSPEKALAFIASLSASQRRSIDDI  455 (1157)
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHH
Confidence            66542 223344555556666666666666666666644444444444444443                          


Q ss_pred             ----------------HhcCCHHHHHHHHHhcCC--C-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 048179          323 ----------------SKCGVPSCARALFDQMQS--R-DLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFAS  383 (589)
Q Consensus       323 ----------------~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~  383 (589)
                                      ...|++++|.+.|++..+  | +...+..+...|.+.|++++|...++++.+.. +.+...+..
T Consensus       456 ~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a  534 (1157)
T PRK11447        456 ERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYA  534 (1157)
T ss_pred             HHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHH
Confidence                            444555555555554432  2 22334444455555555555555555554432 112222222


Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcCCCCCh---------hhHHHHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHHHH
Q 048179          384 LLSALSHSGLVEEGRYWFDLMVSKYKIQPTE---------KHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLS  454 (589)
Q Consensus       384 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~---------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~  454 (589)
                      +...+...++.++|...++.+... ...++.         ..+..+...+...|+.++|.++++.-  +++...+..+..
T Consensus       535 ~al~l~~~~~~~~Al~~l~~l~~~-~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~--p~~~~~~~~La~  611 (1157)
T PRK11447        535 YGLYLSGSDRDRAALAHLNTLPRA-QWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQ--PPSTRIDLTLAD  611 (1157)
T ss_pred             HHHHHHhCCCHHHHHHHHHhCCch-hcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhC--CCCchHHHHHHH
Confidence            223334445555555555443211 000000         00111223344444444444444421  122334444555


Q ss_pred             HHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          455 GCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       455 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      .+...|++++|+..++++++.+|+++.++..++.+|...|++++|.+.++...+
T Consensus       612 ~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~  665 (1157)
T PRK11447        612 WAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPA  665 (1157)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence            555566666666666666666666666666666666666666666665555443

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.94  E-value=1.6e-22  Score=226.04  Aligned_cols=486  Identities=11%  Similarity=0.044  Sum_probs=365.9

Q ss_pred             CcchHhHHHHhhhcCCChHHHHHHhccCCCCCc------ccH-----------------HHHHHHHHcCCCchhHHHHHH
Q 048179            9 YGNSVGRIIALYGGKNDIVSARKLFEELPLRGV------DTY-----------------NSIIIAYSRKESPFEVLGLYN   65 (589)
Q Consensus         9 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~------~~~-----------------~~li~~~~~~g~~~~a~~~~~   65 (589)
                      ++.....+..++.+.|+.++|...|+++.....      ..|                 ...+..+-.......|...+.
T Consensus       180 ~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~  259 (1157)
T PRK11447        180 NTGLRNTLALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLA  259 (1157)
T ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHH
Confidence            455677778888888888888888887643211      011                 111111112222334455555


Q ss_pred             HHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCC--CCc-
Q 048179           66 QMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR--KDL-  142 (589)
Q Consensus        66 ~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~-  142 (589)
                      .+......|+... ......+...|++++|...|+++++.. +.+...+..|..+|.+.|++++|+..|++..+  |+. 
T Consensus       260 ~~~~~~~dp~~~~-~~~G~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~  337 (1157)
T PRK11447        260 EQQKQLADPAFRA-RAQGLAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSS  337 (1157)
T ss_pred             HHHHhccCcchHH-HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcc
Confidence            4443322222211 123445667899999999999999874 34778889999999999999999999998875  322 


Q ss_pred             --chHHHH------------HHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcC
Q 048179          143 --VCWSSM------------INGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHL  208 (589)
Q Consensus       143 --~~~~~l------------i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  208 (589)
                        ..|..+            ...+.+.|++++|+..|++..+.. +.+...+..+...+...|++++|++.++.+++...
T Consensus       338 ~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p  416 (1157)
T PRK11447        338 NRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDP  416 (1157)
T ss_pred             chhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence              123222            345678999999999999998863 23456677788899999999999999999998753


Q ss_pred             CCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCC------------eehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCC
Q 048179          209 NLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRIN------------IVTWGALISGFAQNGLAGSTLELLMEMQSCGFEP  276 (589)
Q Consensus       209 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  276 (589)
                       .+...+..+...|. .++.++|...++.+....            ...+..+...+...|++++|++.|++.++.  .|
T Consensus       417 -~~~~a~~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~--~P  492 (1157)
T PRK11447        417 -GNTNAVRGLANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLAL--DP  492 (1157)
T ss_pred             -CCHHHHHHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CC
Confidence             34566777777774 467899999998775421            224555677888999999999999999886  45


Q ss_pred             -CHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCC----Chh-------
Q 048179          277 -DSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSR----DLI-------  344 (589)
Q Consensus       277 -~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~-------  344 (589)
                       +...+..+...+...|+.+.|...++.+....+.++..+..+...+...++.++|...++.+...    +..       
T Consensus       493 ~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~  572 (1157)
T PRK11447        493 GSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQ  572 (1157)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHh
Confidence             45566778888999999999999999998666677777777777788899999999999988642    111       


Q ss_pred             --HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048179          345 --SWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVD  422 (589)
Q Consensus       345 --~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  422 (589)
                        .+..+...+...|+.++|+.+++.     .+++...+..+...+.+.|++++|+..|+.+.+.  -+.+...+..++.
T Consensus       573 ~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~  645 (1157)
T PRK11447        573 SDQVLETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIE  645 (1157)
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence              123456678899999999999872     2455667778888999999999999999999873  3445888999999


Q ss_pred             HHHHcCCHHHHHHHHHhcCC-CC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCc------hhHHHHHHHHHhCC
Q 048179          423 LLARAGEVEEALKIVDSMST-EP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDL------GIHALVSNFFAMEQ  494 (589)
Q Consensus       423 ~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g  494 (589)
                      +|...|++++|++.++.... .| +...+..+..++...|++++|.+.++++++..|+++      ..+..++.++...|
T Consensus       646 ~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G  725 (1157)
T PRK11447        646 VDIAQGDLAAARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTG  725 (1157)
T ss_pred             HHHHCCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcC
Confidence            99999999999999998753 34 455677788889999999999999999998876554      36667799999999


Q ss_pred             ChHHHHHHHHHHHh
Q 048179          495 KWEEVAGVRKTMRK  508 (589)
Q Consensus       495 ~~~~a~~~~~~m~~  508 (589)
                      ++++|.+.+++...
T Consensus       726 ~~~~A~~~y~~Al~  739 (1157)
T PRK11447        726 QPQQALETYKDAMV  739 (1157)
T ss_pred             CHHHHHHHHHHHHh
Confidence            99999999998864

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

Probab=99.94  E-value=2e-23  Score=198.02  Aligned_cols=445  Identities=13%  Similarity=0.114  Sum_probs=366.3

Q ss_pred             HHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHh
Q 048179           44 YNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVK  123 (589)
Q Consensus        44 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  123 (589)
                      ...|..-..+.|++.+|.+--...-..+ +.+......+-..+.+..+++...+.-....+.. +.-..+|+.+.+.+-.
T Consensus        51 ~l~lah~~yq~gd~~~a~~h~nmv~~~d-~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~-~q~ae~ysn~aN~~ke  128 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILKE  128 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHHH
Confidence            5556666778899999998766554443 2234444444455556666666555544444442 3356789999999999


Q ss_pred             CCChHHHHHHHHhcCC---CCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHH-HHHHHccCCcHHHHHH
Q 048179          124 CGKMNEAMVAFEKMQR---KDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGL-IQACADLGDSRFGLSV  199 (589)
Q Consensus       124 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~l-l~~~~~~~~~~~a~~~  199 (589)
                      .|++++|+..++.+.+   ..+..|..+..++...|+.+.|.+.|.+..+.  .|+.....+- .......|++++|..-
T Consensus       129 rg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~c  206 (966)
T KOG4626|consen  129 RGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKAC  206 (966)
T ss_pred             hchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHHH
Confidence            9999999999999876   35779999999999999999999999998874  5665544433 3334457899999999


Q ss_pred             HHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCe---ehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCC
Q 048179          200 HGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINI---VTWGALISGFAQNGLAGSTLELLMEMQSCGFEP  276 (589)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  276 (589)
                      +.+++.... .=..+|+.|...+-..|+...|+..|++..+.|+   ..|-.|...|...+.+++|+..|.+....  .|
T Consensus       207 YlkAi~~qp-~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l--rp  283 (966)
T KOG4626|consen  207 YLKAIETQP-CFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNL--RP  283 (966)
T ss_pred             HHHHHhhCC-ceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc--CC
Confidence            988887642 2356789999999999999999999999987544   57888999999999999999999988875  55


Q ss_pred             C-HHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHH
Q 048179          277 D-SVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIAS  352 (589)
Q Consensus       277 ~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~  352 (589)
                      + ...+..+...|-..|.++.|+..++......|.-+..|+.|..++-..|++.+|...|.+...   ....+.+.+...
T Consensus       284 n~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni  363 (966)
T KOG4626|consen  284 NHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNI  363 (966)
T ss_pred             cchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            5 466777777888999999999999999977788889999999999999999999999998875   345688999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCH
Q 048179          353 YGIHGHGEEALSLFLQMIETMVKPD-HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEV  430 (589)
Q Consensus       353 ~~~~g~~~~A~~~~~~m~~~~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~  430 (589)
                      |...|.+++|..+|....+  +.|. ...++.|...|-++|++++|+..+++..   .+.|+ .+.|+.+...|-..|+.
T Consensus       364 ~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~P~fAda~~NmGnt~ke~g~v  438 (966)
T KOG4626|consen  364 YREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---RIKPTFADALSNMGNTYKEMGDV  438 (966)
T ss_pred             HHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---hcCchHHHHHHhcchHHHHhhhH
Confidence            9999999999999999877  4555 4578999999999999999999999998   67888 78999999999999999


Q ss_pred             HHHHHHHHhc-CCCCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHH
Q 048179          431 EEALKIVDSM-STEPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVA  500 (589)
Q Consensus       431 ~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  500 (589)
                      +.|.+.+.+. ...|. ...++.|...|...|+..+|++.++.++++.||.+.+|..++..+.-..+|.+--
T Consensus       439 ~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~vcdw~D~d  510 (966)
T KOG4626|consen  439 SAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIVCDWTDYD  510 (966)
T ss_pred             HHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHHhcccchH
Confidence            9999999886 44665 5578999999999999999999999999999999999999998877777777633

>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=1.8e-21  Score=184.84  Aligned_cols=419  Identities=12%  Similarity=0.118  Sum_probs=343.6

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCC---CCcchHHHHHHHHHhCCC
Q 048179           81 VALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR---KDLVCWSSMINGLVFNGQ  157 (589)
Q Consensus        81 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~  157 (589)
                      .+..-.-+.|++++|++-...+-..+ +.+....-.+-..+....+++....--....+   .-..+|+.+...+-..|+
T Consensus        53 ~lah~~yq~gd~~~a~~h~nmv~~~d-~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~kerg~  131 (966)
T KOG4626|consen   53 ELAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKERGQ  131 (966)
T ss_pred             HHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHhch
Confidence            34444557788888887666554432 22222222333455666666654433222222   245689999999999999


Q ss_pred             ccHHHHHHHHHHHCCCCC-ChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCch-HHHHHHHHHHHhcCCHHHHHHHH
Q 048179          158 PREAVDAYKRMKKEGIDA-DEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDV-KVQTSLVDMYAKTGHLDLASHVF  235 (589)
Q Consensus       158 ~~~A~~~~~~m~~~~~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~  235 (589)
                      +++|+.+|+.+++.  +| ....|..+..++...|+.+.|.+.+...++..  |+. .+.+.+.......|++.+|...+
T Consensus       132 ~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lgnLlka~Grl~ea~~cY  207 (966)
T KOG4626|consen  132 LQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLGNLLKAEGRLEEAKACY  207 (966)
T ss_pred             HHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchhHHHHhhcccchhHHHH
Confidence            99999999999986  44 56788889999999999999999999988764  443 34455666777789999999998


Q ss_pred             hhcCC--CC-eehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCC
Q 048179          236 KNMSR--IN-IVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPD-SVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFN  311 (589)
Q Consensus       236 ~~~~~--~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  311 (589)
                      .+..+  |. .+.|+.|...+..+|+...|+..|++....  .|+ ...|..+...+...+.++.|...+..+..--+..
T Consensus       208 lkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn~  285 (966)
T KOG4626|consen  208 LKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPNH  285 (966)
T ss_pred             HHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCcc
Confidence            88765  43 478999999999999999999999999875  555 4578888888999999999999998888777777


Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHHhcCC--CC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHH
Q 048179          312 LVLGTSVIDMYSKCGVPSCARALFDQMQS--RD-LISWNVIIASYGIHGHGEEALSLFLQMIETMVKPD-HSTFASLLSA  387 (589)
Q Consensus       312 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~t~~~ll~a  387 (589)
                      ..++..+...|...|.++.|+..|++..+  |+ ...|+.|..++-..|++.+|...+.+....  .|+ ....+.|...
T Consensus       286 A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l--~p~hadam~NLgni  363 (966)
T KOG4626|consen  286 AVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL--CPNHADAMNNLGNI  363 (966)
T ss_pred             hhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh--CCccHHHHHHHHHH
Confidence            88888899999999999999999999876  33 479999999999999999999999998875  454 5688899999


Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCCC-hhHHHHHHHHHHhcCCchH
Q 048179          388 LSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSM-STEPG-LAVWVALLSGCHNHKKFSI  464 (589)
Q Consensus       388 ~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~  464 (589)
                      +...|.+++|..+|....+   +.|. ....+.|...|..+|++++|+.-+++. ..+|+ ..+++.+...|...|+.+.
T Consensus       364 ~~E~~~~e~A~~ly~~al~---v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v~~  440 (966)
T KOG4626|consen  364 YREQGKIEEATRLYLKALE---VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDVSA  440 (966)
T ss_pred             HHHhccchHHHHHHHHHHh---hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhHHH
Confidence            9999999999999999885   4466 677899999999999999999999986 56786 4589999999999999999


Q ss_pred             HHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048179          465 GEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       465 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  511 (589)
                      |.+.+.+++.++|.-+.++..|+.+|...|+..+|+.-+++..+..+
T Consensus       441 A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkP  487 (966)
T KOG4626|consen  441 AIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKP  487 (966)
T ss_pred             HHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCC
Confidence            99999999999999999999999999999999999999999887543

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.91  E-value=1.5e-19  Score=193.18  Aligned_cols=469  Identities=12%  Similarity=0.056  Sum_probs=302.3

Q ss_pred             hcCCChHHHHHHhccCC---CCCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHH
Q 048179           21 GGKNDIVSARKLFEELP---LRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEE   97 (589)
Q Consensus        21 ~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~   97 (589)
                      ...|++++|...|+...   +.+..++..+.+.|...|++++|+..+++..+.  .|+...|..++..+   ++.+.|..
T Consensus        55 ~~~Gd~~~A~~~l~~Al~~dP~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~l--dP~n~~~~~~La~i---~~~~kA~~  129 (987)
T PRK09782         55 QKNNDEATAIREFEYIHQQVPDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKR--HPGDARLERSLAAI---PVEVKSVT  129 (987)
T ss_pred             HhCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHHHHHHHHh---ccChhHHH
Confidence            34599999999999875   334667899999999999999999999999886  45555555555333   88889999


Q ss_pred             HHHHHHHhCCCCChhhHHHHHHH--------HHhCCChHHHHHHHHhcCCCC--cchHHHH-HHHHHhCCCccHHHHHHH
Q 048179           98 IWRKAVELGYGNDVFVGSSMLNL--------YVKCGKMNEAMVAFEKMQRKD--LVCWSSM-INGLVFNGQPREAVDAYK  166 (589)
Q Consensus        98 ~~~~~~~~g~~~~~~~~~~li~~--------~~~~g~~~~A~~~~~~~~~~~--~~~~~~l-i~~~~~~g~~~~A~~~~~  166 (589)
                      +++++.+.. +-+..++..+...        |.+.+...++++  .+...++  ..+.... ...|.+.|++++|++++.
T Consensus       130 ~ye~l~~~~-P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~--lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~  206 (987)
T PRK09782        130 TVEELLAQQ-KACDAVPTLRCRSEVGQNALRLAQLPVARAQLN--DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYN  206 (987)
T ss_pred             HHHHHHHhC-CCChhHHHHHHHHhhccchhhhhhHHHHHHHHH--HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHH
Confidence            999999885 3355666666665        777766666666  3333343  3334444 889999999999999999


Q ss_pred             HHHHCCCCCChhhHHHHHHHHHc-cCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC-----
Q 048179          167 RMKKEGIDADEVVMMGLIQACAD-LGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR-----  240 (589)
Q Consensus       167 ~m~~~~~~p~~~t~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----  240 (589)
                      ++.+.+.. +..-...+..++.. .++ +.+..++..    .+..++.++..+++.|.+.|+.++|.++++++..     
T Consensus       207 ~L~k~~pl-~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~  280 (987)
T PRK09782        207 EARQQNTL-SAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTD  280 (987)
T ss_pred             HHHhcCCC-CHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCC
Confidence            99998533 34445556667776 466 666666442    3346888899999999999999999999887642     


Q ss_pred             CCeehH------------------------------HHHHHHH-------------------------------------
Q 048179          241 INIVTW------------------------------GALISGF-------------------------------------  253 (589)
Q Consensus       241 ~~~~~~------------------------------~~li~~~-------------------------------------  253 (589)
                      +...+|                              -.++..+                                     
T Consensus       281 ~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~  360 (987)
T PRK09782        281 AQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAE  360 (987)
T ss_pred             CccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhH
Confidence            110000                              0001111                                     


Q ss_pred             --------------------------HhCCChhHHHHHHHHHHhc-C-CCCCHHHHHHHHHHHhccCch---hhH-----
Q 048179          254 --------------------------AQNGLAGSTLELLMEMQSC-G-FEPDSVSLVSALLACAQIGFL---KLG-----  297 (589)
Q Consensus       254 --------------------------~~~g~~~~a~~~~~~m~~~-g-~~p~~~~~~~ll~~~~~~~~~---~~a-----  297 (589)
                                                .+.|+.++|..+|+..... + ..++......++..+...+.+   ..+     
T Consensus       361 ~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  440 (987)
T PRK09782        361 ALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSK  440 (987)
T ss_pred             HHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhcc
Confidence                                      2344455555555554431 1 122222233455555444331   111     


Q ss_pred             -----------------HHHHHHHh---hcCCC--ChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHH--HHHH
Q 048179          298 -----------------KSIHGYTV---RRFDF--NLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVI--IASY  353 (589)
Q Consensus       298 -----------------~~~~~~~~---~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l--i~~~  353 (589)
                                       ........   ...++  +...+..+..++.. ++.++|...|.+.....+..++.+  ...+
T Consensus       441 ~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~Pd~~~~L~lA~al  519 (987)
T PRK09782        441 PLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQPDAWQHRAVAYQA  519 (987)
T ss_pred             ccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCCchHHHHHHHHHH
Confidence                             11122222   12233  56666667766665 677777776666543222233333  3334


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHH
Q 048179          354 GIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEA  433 (589)
Q Consensus       354 ~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  433 (589)
                      ...|++++|...|+++...  +|+...+..+..++.+.|+.++|..+++...+.  -+++...+..+...+.+.|++++|
T Consensus       520 ~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l--~P~~~~l~~~La~~l~~~Gr~~eA  595 (987)
T PRK09782        520 YQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQR--GLGDNALYWWLHAQRYIPGQPELA  595 (987)
T ss_pred             HHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHhCCCHHHH
Confidence            5778888888888776543  344444556666677778888888888777653  122233333333444455888888


Q ss_pred             HHHHHhcC-CCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          434 LKIVDSMS-TEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       434 ~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ...+++.. ..|+...|..+..++.+.|++++|+..++++++++|+++..+..++.++...|++++|+..+++..+
T Consensus       596 l~~~~~AL~l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~  671 (987)
T PRK09782        596 LNDLTRSLNIAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHK  671 (987)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            87777753 3567777777777778888888888888888888888888888888888888888888887777765

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.90  E-value=1.7e-18  Score=185.30  Aligned_cols=490  Identities=11%  Similarity=0.027  Sum_probs=319.2

Q ss_pred             CcchHhHHHHhhhcCCChHHHHHHhccCCCCCc--ccHHHHHHHHHcCCCchhHHHHHHHHHHCCC--------------
Q 048179            9 YGNSVGRIIALYGGKNDIVSARKLFEELPLRGV--DTYNSIIIAYSRKESPFEVLGLYNQMIKEDV--------------   72 (589)
Q Consensus         9 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--------------   72 (589)
                      ++.++..|..+|.+.|+.++|+..+++....+.  ..|..++..+   +++.+|..+|+++.+...              
T Consensus        77 n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~n~~~~~~La~i---~~~~kA~~~ye~l~~~~P~n~~~~~~la~~~~  153 (987)
T PRK09782         77 NIPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPGDARLERSLAAI---PVEVKSVTTVEELLAQQKACDAVPTLRCRSEV  153 (987)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHh---ccChhHHHHHHHHHHhCCCChhHHHHHHHHhh
Confidence            356777888888888888888888887653322  2222222222   666677777766655421              


Q ss_pred             ------------------------CCCcccHHHH-HHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHh-CCC
Q 048179           73 ------------------------RPDSSTFTVA-LKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVK-CGK  126 (589)
Q Consensus        73 ------------------------~p~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~-~g~  126 (589)
                                              .|+..+.... .+.|.+.++++++..++..+.+.+. .+......|..+|.. .++
T Consensus       154 ~~~~l~y~q~eqAl~AL~lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~p-l~~~~~~~L~~ay~q~l~~  232 (987)
T PRK09782        154 GQNALRLAQLPVARAQLNDATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNT-LSAAERRQWFDVLLAGQLD  232 (987)
T ss_pred             ccchhhhhhHHHHHHHHHHhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHhhCH
Confidence                                    1122222222 5556666777777777777777652 344445556666666 355


Q ss_pred             hHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCC-CChhhHHHH----------------------
Q 048179          127 MNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGID-ADEVVMMGL----------------------  183 (589)
Q Consensus       127 ~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~~~t~~~l----------------------  183 (589)
                       +.+..+++...+.|...+..++..|.+.|+.++|.++++++...-.. |...++..+                      
T Consensus       233 -~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~  311 (987)
T PRK09782        233 -DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADN  311 (987)
T ss_pred             -HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHH
Confidence             66666666544457777888889999999999999988887643222 333222222                      


Q ss_pred             --------HHHHHccCCcHHHHHHHH-----------------------------HHHHhcCCCchHHHHHHHHHHHhcC
Q 048179          184 --------IQACADLGDSRFGLSVHG-----------------------------YSIRRHLNLDVKVQTSLVDMYAKTG  226 (589)
Q Consensus       184 --------l~~~~~~~~~~~a~~~~~-----------------------------~~~~~~~~~~~~~~~~l~~~~~~~g  226 (589)
                              +..+.+.++++.++++..                             .+.+.. +.+....--+.-...+.|
T Consensus       312 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~-~~~~~~l~q~~~~~~~~~  390 (987)
T PRK09782        312 RQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQE-PANLTRLDQLTWQLMQNG  390 (987)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcc
Confidence                    223334444443333321                             111110 112222223333445678


Q ss_pred             CHHHHHHHHhhcCC--CCe----ehHHHHHHHHHhCCC---hhHHHHH----------------------HHHHHhc-CC
Q 048179          227 HLDLASHVFKNMSR--INI----VTWGALISGFAQNGL---AGSTLEL----------------------LMEMQSC-GF  274 (589)
Q Consensus       227 ~~~~A~~~~~~~~~--~~~----~~~~~li~~~~~~g~---~~~a~~~----------------------~~~m~~~-g~  274 (589)
                      +.++|.++|+....  ++.    ..-+-++..|.+.+.   ..+++.+                      +...... +.
T Consensus       391 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~  470 (987)
T PRK09782        391 QSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGD  470 (987)
T ss_pred             cHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhccc
Confidence            88888888887755  111    233356666766655   3333222                      1111111 11


Q ss_pred             -CC--CHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--CChhHHHHH
Q 048179          275 -EP--DSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS--RDLISWNVI  349 (589)
Q Consensus       275 -~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l  349 (589)
                       ++  +...+..+..++.. +..+.|...+.......+ +......+...+...|++++|...|+++..  ++...+..+
T Consensus       471 ~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~P-d~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~l  548 (987)
T PRK09782        471 MSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQP-DAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAA  548 (987)
T ss_pred             CCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCC-chHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHH
Confidence             22  44555555555555 778788887777763333 333344455555789999999999987764  445567777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048179          350 IASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGE  429 (589)
Q Consensus       350 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  429 (589)
                      ...+.+.|+.++|...+++.++.. +++...+..+...+...|++++|...+++..+   +.|+...+..+..++.+.|+
T Consensus       549 a~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~---l~P~~~a~~~LA~~l~~lG~  624 (987)
T PRK09782        549 ANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLN---IAPSANAYVARATIYRQRHN  624 (987)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH---hCCCHHHHHHHHHHHHHCCC
Confidence            788889999999999999988764 22333344444555667999999999999884   45778888999999999999


Q ss_pred             HHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHH
Q 048179          430 VEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       430 ~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      +++|+..+++.. ..| +...+..+..++...|++++|+..++++++++|+++.++..++.+|...|++++|...+++..
T Consensus       625 ~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al  704 (987)
T PRK09782        625 VPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVI  704 (987)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999999873 345 456777888889999999999999999999999999999999999999999999999999987


Q ss_pred             hCC
Q 048179          508 KSG  510 (589)
Q Consensus       508 ~~g  510 (589)
                      +..
T Consensus       705 ~l~  707 (987)
T PRK09782        705 DDI  707 (987)
T ss_pred             hcC
Confidence            644

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

Probab=99.90  E-value=2.1e-19  Score=188.86  Aligned_cols=417  Identities=11%  Similarity=-0.024  Sum_probs=279.1

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCC---CcchHHHHHHHHHhCCC
Q 048179           81 VALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRK---DLVCWSSMINGLVFNGQ  157 (589)
Q Consensus        81 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~  157 (589)
                      .....+.+.|+++.|...|+++++.  .|+...|..+..+|.+.|++++|++.++...+.   +...|..+..+|...|+
T Consensus       132 ~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~lg~  209 (615)
T TIGR00990       132 EKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGLGK  209 (615)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCC
Confidence            3444556667777777777777664  355666777777777777777777777766542   34466667777777777


Q ss_pred             ccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhh
Q 048179          158 PREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKN  237 (589)
Q Consensus       158 ~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  237 (589)
                      +++|+..|......+.. +......++.....    ..+........+.. +.+...+..+.. |........+..-++.
T Consensus       210 ~~eA~~~~~~~~~~~~~-~~~~~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  282 (615)
T TIGR00990       210 YADALLDLTASCIIDGF-RNEQSAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPAGLED  282 (615)
T ss_pred             HHHHHHHHHHHHHhCCC-ccHHHHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchhhhhc
Confidence            77777776655433211 11111111111111    11112222222221 111122222222 2211111111111221


Q ss_pred             cCCCCe---ehHHHHHHH---HHhCCChhHHHHHHHHHHhcC-CCCC-HHHHHHHHHHHhccCchhhHHHHHHHHhhcCC
Q 048179          238 MSRINI---VTWGALISG---FAQNGLAGSTLELLMEMQSCG-FEPD-SVSLVSALLACAQIGFLKLGKSIHGYTVRRFD  309 (589)
Q Consensus       238 ~~~~~~---~~~~~li~~---~~~~g~~~~a~~~~~~m~~~g-~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  309 (589)
                      ..+.+.   ..+..+...   ....+++++|++.|++..+.+ ..|+ ...+..+...+...|+++.|...++.+....+
T Consensus       283 ~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P  362 (615)
T TIGR00990       283 SNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDP  362 (615)
T ss_pred             ccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Confidence            111111   111111111   123467899999999988764 2343 34566667777889999999999999886667


Q ss_pred             CChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048179          310 FNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLS  386 (589)
Q Consensus       310 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~  386 (589)
                      .....+..+...+...|++++|...|+++.+   .+...|..+...+...|++++|+..|++.++.. +.+...+..+..
T Consensus       363 ~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~  441 (615)
T TIGR00990       363 RVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGV  441 (615)
T ss_pred             CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHH
Confidence            7777888899999999999999999998764   356788899999999999999999999998864 334667778888


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCCCh-hH-------HHHHHHHHH
Q 048179          387 ALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEPGL-AV-------WVALLSGCH  457 (589)
Q Consensus       387 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~~-~~-------~~~l~~~~~  457 (589)
                      ++.+.|++++|+..|+...+.  .+.+...+..+..++...|++++|++.|++.. ..|+. ..       ++..+..+.
T Consensus       442 ~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~  519 (615)
T TIGR00990       442 TQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQ  519 (615)
T ss_pred             HHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHH
Confidence            899999999999999999863  34457888999999999999999999999853 33321 11       122222334


Q ss_pred             hcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          458 NHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       458 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      ..|++++|++.++++++++|++..++..++.+|.+.|++++|.+.+++..+.
T Consensus       520 ~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       520 WKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            4699999999999999999999999999999999999999999999998763

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.87  E-value=8e-20  Score=182.51  Aligned_cols=289  Identities=14%  Similarity=0.111  Sum_probs=194.9

Q ss_pred             hcCCHHHHHHHHhhcCCC---CeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCC---HHHHHHHHHHHhccCchhhH
Q 048179          224 KTGHLDLASHVFKNMSRI---NIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPD---SVSLVSALLACAQIGFLKLG  297 (589)
Q Consensus       224 ~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~~~~~~a  297 (589)
                      ..|++++|...|+++.+.   +..++..+...+...|++++|..+++.+...+..++   ...+..+...+...|+++.|
T Consensus        47 ~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A  126 (389)
T PRK11788         47 LNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRA  126 (389)
T ss_pred             hcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            344444444444444331   122344444444444444444444444443221111   12233444444444555555


Q ss_pred             HHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCC--------hhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 048179          298 KSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRD--------LISWNVIIASYGIHGHGEEALSLFLQM  369 (589)
Q Consensus       298 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--------~~~~~~li~~~~~~g~~~~A~~~~~~m  369 (589)
                      ..++..+....+.+..+++.++..|.+.|++++|.+.|+.+.+.+        ...|..+...+...|++++|...|+++
T Consensus       127 ~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  206 (389)
T PRK11788        127 EELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKA  206 (389)
T ss_pred             HHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            554444443333445556677777777788888887777765421        123556777788899999999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC--hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCCCh
Q 048179          370 IETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT--EKHYACMVDLLARAGEVEEALKIVDSMS-TEPGL  446 (589)
Q Consensus       370 ~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~~  446 (589)
                      .+.. +.+...+..+...+.+.|++++|.++|+++.+.   .|+  ...+..++.+|.+.|++++|.+.++++. ..|+.
T Consensus       207 l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~---~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~  282 (389)
T PRK11788        207 LAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQ---DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGA  282 (389)
T ss_pred             HhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCc
Confidence            8764 334557778888899999999999999999864   233  4567889999999999999999999974 35777


Q ss_pred             hHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHh--CCChHHHHHHHHHHHhCCCccCCc
Q 048179          447 AVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAM--EQKWEEVAGVRKTMRKSGMKKVPG  516 (589)
Q Consensus       447 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~--~g~~~~a~~~~~~m~~~g~~~~~~  516 (589)
                      ..+..++..+...|++++|...++++++..|+++.....+...+..  .|+.+++..++++|.+++++++|.
T Consensus       283 ~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        283 DLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             hHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            7778888899999999999999999999999876544334333322  569999999999999999988887

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.86  E-value=2.2e-17  Score=176.81  Aligned_cols=395  Identities=10%  Similarity=0.020  Sum_probs=217.1

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCC---CCcchHHHHHHHHHhCC
Q 048179           80 TVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR---KDLVCWSSMINGLVFNG  156 (589)
Q Consensus        80 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g  156 (589)
                      .-.+......|+.++|.+++..+.... +.+...+..+..++.+.|++++|..+|++..+   .+...+..+...+...|
T Consensus        19 ~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g   97 (765)
T PRK10049         19 ADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAG   97 (765)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCC
Confidence            333444445555555555555554421 23333455555555555555555555555332   23344455555555666


Q ss_pred             CccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHh
Q 048179          157 QPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFK  236 (589)
Q Consensus       157 ~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  236 (589)
                      ++++|+..+++..+.. +.+.. +..+..++...|+.+.|...++.+.+..+. +..++..+...+...|..+.|...++
T Consensus        98 ~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~Al~~l~  174 (765)
T PRK10049         98 QYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAPALGAID  174 (765)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHHHHHHHH
Confidence            6666666666655541 11222 444555555566666666666666555422 34444556666666677777777666


Q ss_pred             hcCCCCee--------hHHHHHHHHH-----hCCCh---hHHHHHHHHHHhc-CCCCCHH-HHHHHHHHHhccCchhhHH
Q 048179          237 NMSRINIV--------TWGALISGFA-----QNGLA---GSTLELLMEMQSC-GFEPDSV-SLVSALLACAQIGFLKLGK  298 (589)
Q Consensus       237 ~~~~~~~~--------~~~~li~~~~-----~~g~~---~~a~~~~~~m~~~-g~~p~~~-~~~~ll~~~~~~~~~~~a~  298 (589)
                      .... ++.        ....++....     ..+++   ++|+..++.+.+. ...|+.. .+..               
T Consensus       175 ~~~~-~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~---------------  238 (765)
T PRK10049        175 DANL-TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQR---------------  238 (765)
T ss_pred             hCCC-CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHH---------------
Confidence            6554 111        1111111111     11122   5566666666543 1122211 1100               


Q ss_pred             HHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCC---hh-HHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 048179          299 SIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRD---LI-SWNVIIASYGIHGHGEEALSLFLQMIETMV  374 (589)
Q Consensus       299 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  374 (589)
                                     .....+.++...|++++|+..|+.+.+.+   +. .-..+...|...|++++|+..|+++.+...
T Consensus       239 ---------------a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p  303 (765)
T PRK10049        239 ---------------ARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPE  303 (765)
T ss_pred             ---------------HHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCC
Confidence                           00011122334566777777777665421   11 111235566777777777777777665321


Q ss_pred             CC---CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcC----------CCCC---hhhHHHHHHHHHHcCCHHHHHHHHH
Q 048179          375 KP---DHSTFASLLSALSHSGLVEEGRYWFDLMVSKYK----------IQPT---EKHYACMVDLLARAGEVEEALKIVD  438 (589)
Q Consensus       375 ~p---~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~----------~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~  438 (589)
                      ..   .......+..++...|++++|...++.+.+...          -.|+   ...+..+...+...|++++|++.++
T Consensus       304 ~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~  383 (765)
T PRK10049        304 TIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRAR  383 (765)
T ss_pred             CCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            11   122344455566777777777777777665310          0122   1234456677777888888888887


Q ss_pred             hcCC-CC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          439 SMST-EP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       439 ~~~~-~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      ++.. .| +...+..+...+...|++++|++.++++++++|+++..+..++.++...|+|++|..+++.+.+.
T Consensus       384 ~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~  456 (765)
T PRK10049        384 ELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAR  456 (765)
T ss_pred             HHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            7632 33 45567777777788888888888888888888888888888888888888888888888777653

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.86  E-value=4e-19  Score=177.46  Aligned_cols=299  Identities=15%  Similarity=0.103  Sum_probs=161.8

Q ss_pred             HHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCC---hhhHHHHHHHHHhC
Q 048179           48 IIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGND---VFVGSSMLNLYVKC  124 (589)
Q Consensus        48 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~---~~~~~~li~~~~~~  124 (589)
                      ...+...|++++|+..|.++.+.+ +.+..++..+...+...|+++.|..+++.+.+.+..++   ...+..+...|.+.
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~  120 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKA  120 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHC
Confidence            344556677777777777777653 22444666666677777777777777777666432111   23455666666666


Q ss_pred             CChHHHHHHHHhcCC---CCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHH
Q 048179          125 GKMNEAMVAFEKMQR---KDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHG  201 (589)
Q Consensus       125 g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~  201 (589)
                      |++++|..+|+++.+   .+..+++.++..+.+.|++++|.+.++.+.+.+..++...                      
T Consensus       121 g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~----------------------  178 (389)
T PRK11788        121 GLLDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVE----------------------  178 (389)
T ss_pred             CCHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHH----------------------
Confidence            777777777766654   2445666666666666666666666666665432221100                      


Q ss_pred             HHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-CeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCH
Q 048179          202 YSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR--I-NIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDS  278 (589)
Q Consensus       202 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  278 (589)
                               ....+..+...+.+.|++++|...|+++.+  | +...+..+...+.+.|++++|.+.|+++...+.....
T Consensus       179 ---------~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~  249 (389)
T PRK11788        179 ---------IAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLS  249 (389)
T ss_pred             ---------HHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHH
Confidence                     011223344445555555555555555433  1 2234445555555666666666666665543211112


Q ss_pred             HHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--CChhHHHHHHHHHHh-
Q 048179          279 VSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS--RDLISWNVIIASYGI-  355 (589)
Q Consensus       279 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~-  355 (589)
                      .++..+..++...|+.+.|...+..+.... |+...+..++..+.+.|++++|..+|+++.+  |+..+++.++..+.. 
T Consensus       250 ~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~-p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~~~  328 (389)
T PRK11788        250 EVLPKLMECYQALGDEAEGLEFLRRALEEY-PGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHLAE  328 (389)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhhhc
Confidence            233333344444444444444433333111 1222335556666666666666666665543  555566665555443 


Q ss_pred             --cCCHHHHHHHHHHHHHcCCCCCHH
Q 048179          356 --HGHGEEALSLFLQMIETMVKPDHS  379 (589)
Q Consensus       356 --~g~~~~A~~~~~~m~~~~~~p~~~  379 (589)
                        .|+.++++.++++|.+.++.|++.
T Consensus       329 ~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        329 AEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             cCCccchhHHHHHHHHHHHHHhCCCC
Confidence              346666667777666665555554

>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=174.45  Aligned_cols=421  Identities=11%  Similarity=-0.000  Sum_probs=295.9

Q ss_pred             HHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHh
Q 048179           44 YNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVK  123 (589)
Q Consensus        44 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  123 (589)
                      +......+.+.|++++|++.|++..+.  .|+...|..+..++.+.|+++.|...+..+++.. +.+...+..+..+|..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            445667788999999999999998875  5788889999999999999999999999999875 3356788889999999


Q ss_pred             CCChHHHHHHHHhcCCCCc---chHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHH
Q 048179          124 CGKMNEAMVAFEKMQRKDL---VCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVH  200 (589)
Q Consensus       124 ~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~  200 (589)
                      .|++++|+.-|......+.   .....++..+..    ..+........+.. .++...+..+.. +...........-+
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~~  280 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQSAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPAGL  280 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchhhh
Confidence            9999999988866543211   111111111111    12222233332221 112222222211 21111111111111


Q ss_pred             HHHHHhcCCCch-HHHHHHHHH---HHhcCCHHHHHHHHhhcCCC------CeehHHHHHHHHHhCCChhHHHHHHHHHH
Q 048179          201 GYSIRRHLNLDV-KVQTSLVDM---YAKTGHLDLASHVFKNMSRI------NIVTWGALISGFAQNGLAGSTLELLMEMQ  270 (589)
Q Consensus       201 ~~~~~~~~~~~~-~~~~~l~~~---~~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~a~~~~~~m~  270 (589)
                      ....+  ..++. ..+..+...   ....+++++|.+.|+...+.      +...|+.+...+...|++++|+..|++..
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  01110 011111111   12346788999999887642      33567788888889999999999999988


Q ss_pred             hcCCCCC-HHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--C-ChhHH
Q 048179          271 SCGFEPD-SVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS--R-DLISW  346 (589)
Q Consensus       271 ~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~  346 (589)
                      +.  .|+ ...+..+...+...|+++.|...++.+....+.+..++..+...|...|++++|...|++..+  | +...|
T Consensus       359 ~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~  436 (615)
T TIGR00990       359 EL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSH  436 (615)
T ss_pred             Hc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHH
Confidence            75  454 557778888888999999999999998866777888999999999999999999999998865  3 45678


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCh-h-------hHH
Q 048179          347 NVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTE-K-------HYA  418 (589)
Q Consensus       347 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-~-------~~~  418 (589)
                      ..+...+.+.|++++|+..|++.++.. +.+...+..+...+...|++++|...|+...+.   .|+. .       .++
T Consensus       437 ~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l---~p~~~~~~~~~~~l~~  512 (615)
T TIGR00990       437 IQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL---EKETKPMYMNVLPLIN  512 (615)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc---CCccccccccHHHHHH
Confidence            888889999999999999999988753 344678888999999999999999999998853   2321 1       122


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhc-CCCCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCch
Q 048179          419 CMVDLLARAGEVEEALKIVDSM-STEPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLG  481 (589)
Q Consensus       419 ~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  481 (589)
                      .....+...|++++|.+++++. ...|+ ...+..+...+...|++++|+..+++++++.+....
T Consensus       513 ~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~~~e  577 (615)
T TIGR00990       513 KALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAELARTEGE  577 (615)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhccHHH
Confidence            2223344579999999999986 44454 457888999999999999999999999998875443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.85  E-value=1.3e-17  Score=174.80  Aligned_cols=330  Identities=9%  Similarity=-0.010  Sum_probs=238.9

Q ss_pred             hHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHH
Q 048179          144 CWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYA  223 (589)
Q Consensus       144 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  223 (589)
                      ....++..+.+.|++++|+.+++........+ ...+..++.+....|+++.|...++.+.+.. +.+...+..+...+.
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            34455666777888888888888877763332 3344455566666888888888888887765 335667777888888


Q ss_pred             hcCCHHHHHHHHhhcCC--C-CeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHH
Q 048179          224 KTGHLDLASHVFKNMSR--I-NIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSI  300 (589)
Q Consensus       224 ~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~  300 (589)
                      ..|++++|...|++..+  | +...|..+...+...|++++|...++.+....  |+.......+..+...|+++.|...
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            88888888888887765  2 44567777888888888888888888776653  3322222223346677888888888


Q ss_pred             HHHHhhcC-CCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHH----HHHHHHHHHHc
Q 048179          301 HGYTVRRF-DFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEE----ALSLFLQMIET  372 (589)
Q Consensus       301 ~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~----A~~~~~~m~~~  372 (589)
                      +..+.... .++......+...+...|++++|...|++...   .+...+..+...+...|++++    |+..|++..+.
T Consensus       200 ~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l  279 (656)
T PRK15174        200 ARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF  279 (656)
T ss_pred             HHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh
Confidence            87776333 23334445556778888999999988888764   345677788888888898885    78888888875


Q ss_pred             CCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCCChhHH-H
Q 048179          373 MVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEPGLAVW-V  450 (589)
Q Consensus       373 ~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~~~~~-~  450 (589)
                      . +.+...+..+...+...|++++|...++.+.+.  -+.+...+..+..+|.+.|++++|.+.++++. ..|+...+ .
T Consensus       280 ~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~  356 (656)
T PRK15174        280 N-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWNR  356 (656)
T ss_pred             C-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHHH
Confidence            3 334567888888899999999999999988863  23335667778889999999999999998874 35665443 3


Q ss_pred             HHHHHHHhcCCchHHHHHHHHHhccCCCCc
Q 048179          451 ALLSGCHNHKKFSIGEKVAKKVLKLNPDDL  480 (589)
Q Consensus       451 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  480 (589)
                      .+..++...|+.++|+..++++++..|++.
T Consensus       357 ~~a~al~~~G~~deA~~~l~~al~~~P~~~  386 (656)
T PRK15174        357 YAAAALLQAGKTSEAESVFEHYIQARASHL  386 (656)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhChhhc
Confidence            356678889999999999999999888754

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.85  E-value=1.3e-17  Score=174.65  Aligned_cols=329  Identities=11%  Similarity=-0.001  Sum_probs=268.8

Q ss_pred             hhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC---CCeehHHHHHHHHH
Q 048179          178 VVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR---INIVTWGALISGFA  254 (589)
Q Consensus       178 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~  254 (589)
                      .-...++..+.+.|+++.|..++...+.....+ ......++......|+++.|...|+++..   .+...|..+...+.
T Consensus        43 ~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~-~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~  121 (656)
T PRK15174         43 QNIILFAIACLRKDETDVGLTLLSDRVLTAKNG-RDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLL  121 (656)
T ss_pred             cCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCc-hhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Confidence            345556778889999999999999999886554 44555566777789999999999999875   34567888889999


Q ss_pred             hCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHH
Q 048179          255 QNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARAL  334 (589)
Q Consensus       255 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  334 (589)
                      +.|++++|+..|++..... +.+...+..+...+...|+.+.|...+..+....+.+...+..+. .+...|++++|...
T Consensus       122 ~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~~~a~~~~~-~l~~~g~~~eA~~~  199 (656)
T PRK15174        122 KSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPRGDMIATCL-SFLNKSRLPEDHDL  199 (656)
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCCHHHHHHHH-HHHHcCCHHHHHHH
Confidence            9999999999999998862 334567778888899999999999999977754455555554443 47889999999999


Q ss_pred             HHhcCCC----ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHH----HHHHHHHHHH
Q 048179          335 FDQMQSR----DLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEE----GRYWFDLMVS  406 (589)
Q Consensus       335 ~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~----a~~~~~~~~~  406 (589)
                      ++.+.+.    +...+..+...+...|++++|+..++++.+.. +.+...+..+..++...|++++    |...|+.+.+
T Consensus       200 ~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~  278 (656)
T PRK15174        200 ARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQ  278 (656)
T ss_pred             HHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHh
Confidence            9987653    23344555678889999999999999999864 3456677888899999999986    8999999886


Q ss_pred             hcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHH
Q 048179          407 KYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHA  484 (589)
Q Consensus       407 ~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  484 (589)
                      .  .+.+...+..+...+.+.|++++|...+++.. ..|+ ...+..+..++...|++++|+..++++++.+|+++..+.
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 F--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWNR  356 (656)
T ss_pred             h--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHHH
Confidence            3  23447789999999999999999999999873 3454 557778888999999999999999999999999887777


Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHhCCCc
Q 048179          485 LVSNFFAMEQKWEEVAGVRKTMRKSGMK  512 (589)
Q Consensus       485 ~l~~~~~~~g~~~~a~~~~~~m~~~g~~  512 (589)
                      .++.++...|++++|.+.++++.+...+
T Consensus       357 ~~a~al~~~G~~deA~~~l~~al~~~P~  384 (656)
T PRK15174        357 YAAAALLQAGKTSEAESVFEHYIQARAS  384 (656)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhChh
Confidence            7899999999999999999998875543

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

Probab=99.85  E-value=2.3e-17  Score=165.49  Aligned_cols=466  Identities=14%  Similarity=0.102  Sum_probs=322.4

Q ss_pred             CcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCC--CCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHH
Q 048179           40 GVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVR--PDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSM  117 (589)
Q Consensus        40 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  117 (589)
                      |+...|.|...|.-.|++..++.+...+......  .-...|-.+.+++-..|+++.|...|.+..+.....-+..+-.|
T Consensus       269 nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~Gl  348 (1018)
T KOG2002|consen  269 NPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGL  348 (1018)
T ss_pred             CcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccch
Confidence            3445566666666677777777777776654211  11234666677777777777777777776665322223344456


Q ss_pred             HHHHHhCCChHHHHHHHHhcCC--C-CcchHHHHHHHHHhCC----CccHHHHHHHHHHHCCCCCChhhHHHHHHHHHcc
Q 048179          118 LNLYVKCGKMNEAMVAFEKMQR--K-DLVCWSSMINGLVFNG----QPREAVDAYKRMKKEGIDADEVVMMGLIQACADL  190 (589)
Q Consensus       118 i~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g----~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~  190 (589)
                      ..+|.+.|+++.+...|+.+..  | +..+...|...|...+    ..+.|..++.+..+.- ..|...|..+...+-..
T Consensus       349 gQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~  427 (1018)
T KOG2002|consen  349 GQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQT  427 (1018)
T ss_pred             hHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhc
Confidence            7777777777777777777764  2 3334444444454443    3345555555554432 33455555555555443


Q ss_pred             CCcHHHHHHHHHHH----HhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC-------CCe------ehHHHHHHHH
Q 048179          191 GDSRFGLSVHGYSI----RRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR-------INI------VTWGALISGF  253 (589)
Q Consensus       191 ~~~~~a~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~~~------~~~~~li~~~  253 (589)
                      .-+. ...++..+.    ..+..+.+.+.|.+...+...|+++.|...|+....       +|.      .+-..+...+
T Consensus       428 d~~~-sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~  506 (1018)
T KOG2002|consen  428 DPWA-SLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLL  506 (1018)
T ss_pred             ChHH-HHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHH
Confidence            3333 255554433    345557788888888888999999999888877643       122      1223345555


Q ss_pred             HhCCChhHHHHHHHHHHhcCCCCCHHH-HHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHH
Q 048179          254 AQNGLAGSTLELLMEMQSCGFEPDSVS-LVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCAR  332 (589)
Q Consensus       254 ~~~g~~~~a~~~~~~m~~~g~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  332 (589)
                      -..++++.|.+.|..+...  .|.-+. |..++...-..+....|...+..+......++.+++.+...|.+...+.-|.
T Consensus       507 E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~  584 (1018)
T KOG2002|consen  507 EELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAK  584 (1018)
T ss_pred             HhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccc
Confidence            6677888888999888876  455433 4444433344567888888888888888888888888888999988888888


Q ss_pred             HHHHhcCC-----CChhHHHHHHHHHHh------------cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHH
Q 048179          333 ALFDQMQS-----RDLISWNVIIASYGI------------HGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVE  395 (589)
Q Consensus       333 ~~~~~~~~-----~~~~~~~~li~~~~~------------~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~  395 (589)
                      +-|..+.+     +|..+.-+|.+.|.+            .+..++|+++|.+.++.. +-|.+.-+.+...++..|.+.
T Consensus       585 k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~  663 (1018)
T KOG2002|consen  585 KKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFS  663 (1018)
T ss_pred             cHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCch
Confidence            86666543     344444444444332            245678999999988864 456778888888999999999


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC----CCCChhHHHHHHHHHHhcCCchHHHHHHHH
Q 048179          396 EGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS----TEPGLAVWVALLSGCHNHKKFSIGEKVAKK  471 (589)
Q Consensus       396 ~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  471 (589)
                      +|..+|....+.  ......+|-.+..+|..+|++-.|+++|+...    .+.+..+...|..++...|.+.+|.+.+..
T Consensus       664 ~A~dIFsqVrEa--~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~  741 (1018)
T KOG2002|consen  664 EARDIFSQVREA--TSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLK  741 (1018)
T ss_pred             HHHHHHHHHHHH--HhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            999999999884  33456688889999999999999999998863    246788999999999999999999999999


Q ss_pred             HhccCCCCchhHHHHHHHHHh-------------------CCChHHHHHHHHHHHhCCCc
Q 048179          472 VLKLNPDDLGIHALVSNFFAM-------------------EQKWEEVAGVRKTMRKSGMK  512 (589)
Q Consensus       472 ~~~~~p~~~~~~~~l~~~~~~-------------------~g~~~~a~~~~~~m~~~g~~  512 (589)
                      ++.+.|.++.....++.+..+                   .+..++|.++|..+...+.+
T Consensus       742 a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  742 ARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            999999999888887765544                   45677888899888876554

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.83  E-value=4.3e-17  Score=174.56  Aligned_cols=390  Identities=13%  Similarity=0.084  Sum_probs=217.6

Q ss_pred             HHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHH
Q 048179           50 AYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNE  129 (589)
Q Consensus        50 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  129 (589)
                      .....|+.++|++++....... +.+...+..+..++...|++++|..+++++++.. +.+...+..+..++...|+.++
T Consensus        24 ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~e  101 (765)
T PRK10049         24 IALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDE  101 (765)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHH
Confidence            3344444444444444443311 1122234444444444444444444444444432 1223333344444444444444


Q ss_pred             HHHHHHhcCC--C-CcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHccCCcHHHHHHHHHHHH
Q 048179          130 AMVAFEKMQR--K-DLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDAD-EVVMMGLIQACADLGDSRFGLSVHGYSIR  205 (589)
Q Consensus       130 A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  205 (589)
                      |...+++..+  | +.. |..+...+...|+.++|+..++++.+.  .|+ ...+..+..++...+..+.|...++.+.+
T Consensus       102 A~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~--~P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~  178 (765)
T PRK10049        102 ALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPR--APQTQQYPTEYVQALRNNRLSAPALGAIDDANL  178 (765)
T ss_pred             HHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCChHHHHHHHHhCCC
Confidence            4444444432  1 222 444444444444444444444444443  122 22222333333344444444444433221


Q ss_pred             hcCCCc------hHHHHHHHHHH-----HhcCCH---HHHHHHHhhcCC---CCeeh---H----HHHHHHHHhCCChhH
Q 048179          206 RHLNLD------VKVQTSLVDMY-----AKTGHL---DLASHVFKNMSR---INIVT---W----GALISGFAQNGLAGS  261 (589)
Q Consensus       206 ~~~~~~------~~~~~~l~~~~-----~~~g~~---~~A~~~~~~~~~---~~~~~---~----~~li~~~~~~g~~~~  261 (589)
                         .|+      ......++..+     ...+++   ++|...++.+.+   .++..   +    ...+..+...|++++
T Consensus       179 ---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~e  255 (765)
T PRK10049        179 ---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKD  255 (765)
T ss_pred             ---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHH
Confidence               010      00111111111     112233   667777776652   12211   1    111334567799999


Q ss_pred             HHHHHHHHHhcCCC-CCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC
Q 048179          262 TLELLMEMQSCGFE-PDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS  340 (589)
Q Consensus       262 a~~~~~~m~~~g~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  340 (589)
                      |+..|+++.+.+.+ |+....                                   .+...|...|++++|+..|+++..
T Consensus       256 A~~~~~~ll~~~~~~P~~a~~-----------------------------------~la~~yl~~g~~e~A~~~l~~~l~  300 (765)
T PRK10049        256 VISEYQRLKAEGQIIPPWAQR-----------------------------------WVASAYLKLHQPEKAQSILTELFY  300 (765)
T ss_pred             HHHHHHHhhccCCCCCHHHHH-----------------------------------HHHHHHHhcCCcHHHHHHHHHHhh
Confidence            99999999887522 332111                                   123455666666666666666543


Q ss_pred             CC-------hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-----------CCCH---HHHHHHHHHHhcCCcHHHHHH
Q 048179          341 RD-------LISWNVIIASYGIHGHGEEALSLFLQMIETMV-----------KPDH---STFASLLSALSHSGLVEEGRY  399 (589)
Q Consensus       341 ~~-------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-----------~p~~---~t~~~ll~a~~~~g~~~~a~~  399 (589)
                      .+       ...+..+..++...|++++|...++++.....           .|+.   ..+..+...+...|++++|++
T Consensus       301 ~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~  380 (765)
T PRK10049        301 HPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEM  380 (765)
T ss_pred             cCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHH
Confidence            11       12344555567777888888888887776421           2332   244566677888999999999


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhccCC
Q 048179          400 WFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNP  477 (589)
Q Consensus       400 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  477 (589)
                      .++++..  ..+.+...+..+..++...|++++|++.+++.. ..|+ ...+..++..+...|++++|+.+++++++..|
T Consensus       381 ~l~~al~--~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~P  458 (765)
T PRK10049        381 RARELAY--NAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREP  458 (765)
T ss_pred             HHHHHHH--hCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC
Confidence            9999986  445557888999999999999999999999974 3565 55677777788999999999999999999999


Q ss_pred             CCchhHH
Q 048179          478 DDLGIHA  484 (589)
Q Consensus       478 ~~~~~~~  484 (589)
                      +++.+..
T Consensus       459 d~~~~~~  465 (765)
T PRK10049        459 QDPGVQR  465 (765)
T ss_pred             CCHHHHH
Confidence            9885544

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

Probab=99.83  E-value=3.2e-16  Score=157.42  Aligned_cols=477  Identities=13%  Similarity=0.068  Sum_probs=343.3

Q ss_pred             hHHHHHHhccCCCC---CcccHHHHHHHHHcCCCchhHHHHHHHHHHCC--CCCCcccHHHHHHHHhccCCHHHHHHHHH
Q 048179           26 IVSARKLFEELPLR---GVDTYNSIIIAYSRKESPFEVLGLYNQMIKED--VRPDSSTFTVALKACVSLMDLKMGEEIWR  100 (589)
Q Consensus        26 ~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  100 (589)
                      .+.|...|..+...   |+-..-.=.+.....+++..|+.+|......+  .+||+..  .+-.++.+.++.+.|+..|.
T Consensus       146 ~~~A~a~F~~Vl~~sp~Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~rI--gig~Cf~kl~~~~~a~~a~~  223 (1018)
T KOG2002|consen  146 MDDADAQFHFVLKQSPDNILALLGKARIAYNKKDYRGALKYYKKALRINPACKADVRI--GIGHCFWKLGMSEKALLAFE  223 (1018)
T ss_pred             HHHHHHHHHHHHhhCCcchHHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCccc--hhhhHHHhccchhhHHHHHH
Confidence            57888888877533   22222222223456789999999999976643  3455533  22345568899999999999


Q ss_pred             HHHHhCCCCChhhHHHHHHHHHhC---CChHHHHHHHHhcC---CCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCC
Q 048179          101 KAVELGYGNDVFVGSSMLNLYVKC---GKMNEAMVAFEKMQ---RKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGID  174 (589)
Q Consensus       101 ~~~~~g~~~~~~~~~~li~~~~~~---g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  174 (589)
                      .+++..+ -++..+-.|...-...   ..+..+..++.+.-   ..|++..+.|...|.-.|++..+..+...+......
T Consensus       224 ralqLdp-~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~  302 (1018)
T KOG2002|consen  224 RALQLDP-TCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKENNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTEN  302 (1018)
T ss_pred             HHHhcCh-hhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhh
Confidence            9988753 2333333333322222   33455565555543   258889999999999999999999999988765311


Q ss_pred             --CChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-CeehHHHH
Q 048179          175 --ADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR--I-NIVTWGAL  249 (589)
Q Consensus       175 --p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l  249 (589)
                        .-...|..+.+++-..|+++.|..++-...+.....-+..+-.|..+|.+.|+++.+...|+.+..  | +..+...|
T Consensus       303 ~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iL  382 (1018)
T KOG2002|consen  303 KSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKIL  382 (1018)
T ss_pred             hHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHH
Confidence              123457888999999999999999998888765333345566789999999999999999999875  3 34566666


Q ss_pred             HHHHHhCC----ChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHh-----hcCCCChhHHHHHHH
Q 048179          250 ISGFAQNG----LAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTV-----RRFDFNLVLGTSVID  320 (589)
Q Consensus       250 i~~~~~~g----~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~~~l~~  320 (589)
                      ...|...+    ..+.|..++.+..+.- +.|...|..+...+....-+.. ...+..+.     .+.++.+.+.|.+..
T Consensus       383 G~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvas  460 (1018)
T KOG2002|consen  383 GCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVAS  460 (1018)
T ss_pred             HhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHH
Confidence            66676664    4577777777776653 4566677777766655443333 44444433     455577888999999


Q ss_pred             HhHhcCCHHHHHHHHHhcCC-------CCh------hHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHH
Q 048179          321 MYSKCGVPSCARALFDQMQS-------RDL------ISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDH-STFASLLS  386 (589)
Q Consensus       321 ~~~~~g~~~~A~~~~~~~~~-------~~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~t~~~ll~  386 (589)
                      .+...|++..|...|.....       +|.      .+--.+...+-..++.+.|.+.|..+.+.  .|.- ..|..++.
T Consensus       461 lhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~  538 (1018)
T KOG2002|consen  461 LHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGC  538 (1018)
T ss_pred             HHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhH
Confidence            99999999999999987653       222      12223455566778999999999999886  4553 35666653


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc----CCCCChhHHHHHHHHHHh----
Q 048179          387 ALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM----STEPGLAVWVALLSGCHN----  458 (589)
Q Consensus       387 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~~~~~~~l~~~~~~----  458 (589)
                      ..-..+...+|...++.+..  ....++..++-+.+.+.+...+..|.+-|+.+    ...+|..+..+|++.|..    
T Consensus       539 ma~~k~~~~ea~~~lk~~l~--~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~  616 (1018)
T KOG2002|consen  539 MARDKNNLYEASLLLKDALN--IDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHN  616 (1018)
T ss_pred             HHHhccCcHHHHHHHHHHHh--cccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcc
Confidence            44455788899999999887  44555667777888999999999888855554    345788888888887643    


Q ss_pred             --------cCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048179          459 --------HKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       459 --------~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  511 (589)
                              .+..++|+++|.++++.+|.|.-+-+.+|-+++..|+|.+|..+|.+.++...
T Consensus       617 ~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~  677 (1018)
T KOG2002|consen  617 PSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS  677 (1018)
T ss_pred             cccChHHHHHHHHHHHHHHHHHHhcCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHh
Confidence                    24578899999999999999999999999999999999999999999998665

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.82  E-value=1e-15  Score=160.79  Aligned_cols=424  Identities=11%  Similarity=0.051  Sum_probs=277.8

Q ss_pred             HHcCCCchhHHHHHHHHHHCCCCCCc--ccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChH
Q 048179           51 YSRKESPFEVLGLYNQMIKEDVRPDS--STFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMN  128 (589)
Q Consensus        51 ~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  128 (589)
                      ..++|++..|++.|++..+..  |+.  ..+ .++..+...|+.++|...+++.... -+........+...|...|+++
T Consensus        44 ~~r~Gd~~~Al~~L~qaL~~~--P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd  119 (822)
T PRK14574         44 RARAGDTAPVLDYLQEESKAG--PLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWD  119 (822)
T ss_pred             HHhCCCHHHHHHHHHHHHhhC--ccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHH
Confidence            466777777777777776653  332  223 6666666667777777777776611 1112222233345666667777


Q ss_pred             HHHHHHHhcCCC---CcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHH
Q 048179          129 EAMVAFEKMQRK---DLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIR  205 (589)
Q Consensus       129 ~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  205 (589)
                      +|+++|+++.+.   |...+..++..+...++.++|++.+.++...  .|+...+..++..+...++...|.+.++.+.+
T Consensus       120 ~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~  197 (822)
T PRK14574        120 QALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVR  197 (822)
T ss_pred             HHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHH
Confidence            777777777642   3445556666677777777777777777654  34444443333333334455457777777776


Q ss_pred             hcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCC-Ceeh--H--HHHHHHHH---------hCCC---hhHHHHHHHH
Q 048179          206 RHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRI-NIVT--W--GALISGFA---------QNGL---AGSTLELLME  268 (589)
Q Consensus       206 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~--~--~~li~~~~---------~~g~---~~~a~~~~~~  268 (589)
                      .. +.+...+..++....+.|-...|.++..+-++. +...  |  ...+.-.+         ...+   .+.|+.-++.
T Consensus       198 ~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~  276 (822)
T PRK14574        198 LA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQN  276 (822)
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHH
Confidence            64 335666667777777777777777776654420 0000  0  00000111         1122   2445555555


Q ss_pred             HHhc-CCCCCH-H----HHHHHHHHHhccCchhhHHHHHHHHh-hcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCC
Q 048179          269 MQSC-GFEPDS-V----SLVSALLACAQIGFLKLGKSIHGYTV-RRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSR  341 (589)
Q Consensus       269 m~~~-g~~p~~-~----~~~~ll~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  341 (589)
                      +... +-.|.. .    ...-.+-++...++...++..++.+. .+.+....+-.++.++|...+++++|..+|..+...
T Consensus       277 l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~  356 (822)
T PRK14574        277 LLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYS  356 (822)
T ss_pred             HHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhc
Confidence            5442 112322 1    22344556778888888888888888 666666677889999999999999999999987532


Q ss_pred             ---------ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-----------CCCH--H-HHHHHHHHHhcCCcHHHHH
Q 048179          342 ---------DLISWNVIIASYGIHGHGEEALSLFLQMIETMV-----------KPDH--S-TFASLLSALSHSGLVEEGR  398 (589)
Q Consensus       342 ---------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-----------~p~~--~-t~~~ll~a~~~~g~~~~a~  398 (589)
                               +......|.-+|...+++++|..+++++.+...           .||+  . .+..++..+...|+..+|+
T Consensus       357 ~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae  436 (822)
T PRK14574        357 DGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQ  436 (822)
T ss_pred             cccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHH
Confidence                     223346788889999999999999999987321           1222  2 3344566678889999999


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhccC
Q 048179          399 YWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-EPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKLN  476 (589)
Q Consensus       399 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  476 (589)
                      +.++.+..  .-+-|......+.+++...|.+.+|++.++.... .|+ ..+....+.+....+++++|..+.+.+++..
T Consensus       437 ~~le~l~~--~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~  514 (822)
T PRK14574        437 KKLEDLSS--TAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISRS  514 (822)
T ss_pred             HHHHHHHH--hCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhC
Confidence            99999976  4566788889999999999999999999977643 454 5566777788888999999999999999999


Q ss_pred             CCCchhH
Q 048179          477 PDDLGIH  483 (589)
Q Consensus       477 p~~~~~~  483 (589)
                      |+++..-
T Consensus       515 Pe~~~~~  521 (822)
T PRK14574        515 PEDIPSQ  521 (822)
T ss_pred             CCchhHH
Confidence            9888543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.80  E-value=6.1e-15  Score=155.02  Aligned_cols=421  Identities=12%  Similarity=0.048  Sum_probs=308.7

Q ss_pred             HHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCcchH-HHH--HHHHHhCCCccHH
Q 048179           85 ACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCW-SSM--INGLVFNGQPREA  161 (589)
Q Consensus        85 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~l--i~~~~~~g~~~~A  161 (589)
                      ...+.|+++.|...+.++.+........++ .++..+...|+.++|+..+++...|+...+ ..+  ...|...|++++|
T Consensus        43 i~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~A  121 (822)
T PRK14574         43 IRARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQA  121 (822)
T ss_pred             HHHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            356889999999999999987533222344 888889999999999999999997744443 333  4577888999999


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC-
Q 048179          162 VDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR-  240 (589)
Q Consensus       162 ~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  240 (589)
                      +++|+++.+.... +...+..++..+...++.++|.+.+..+.+..  |+...+..++..+...++..+|.+.++++.+ 
T Consensus       122 iely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~d--p~~~~~l~layL~~~~~~~~~AL~~~ekll~~  198 (822)
T PRK14574        122 LALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAERD--PTVQNYMTLSYLNRATDRNYDALQASSEAVRL  198 (822)
T ss_pred             HHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhcccC--cchHHHHHHHHHHHhcchHHHHHHHHHHHHHh
Confidence            9999999887432 45666777888899999999999999988763  4455555555555556777679999999876 


Q ss_pred             -C-CeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHH------HHHHHH-H----hccCch---hhHHHHHHHH
Q 048179          241 -I-NIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSL------VSALLA-C----AQIGFL---KLGKSIHGYT  304 (589)
Q Consensus       241 -~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~------~~ll~~-~----~~~~~~---~~a~~~~~~~  304 (589)
                       | +...+..+..++.+.|-...|+++..+-... +.|...-.      ...+.. .    .....+   +.+..-++.+
T Consensus       199 ~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l  277 (822)
T PRK14574        199 APTSEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNL  277 (822)
T ss_pred             CCCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHH
Confidence             3 4556777888899999999998776653321 11111111      111110 0    011122   3333444444


Q ss_pred             hh---cCCCChhH----HHHHHHHhHhcCCHHHHHHHHHhcCCCC--h--hHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 048179          305 VR---RFDFNLVL----GTSVIDMYSKCGVPSCARALFDQMQSRD--L--ISWNVIIASYGIHGHGEEALSLFLQMIETM  373 (589)
Q Consensus       305 ~~---~~~~~~~~----~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  373 (589)
                      ..   ..|+....    ..-.+-++.+.|+..++++.|+.+..+.  +  .+-.++..+|...+++++|..+|+++....
T Consensus       278 ~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~  357 (822)
T PRK14574        278 LTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSD  357 (822)
T ss_pred             HhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcc
Confidence            43   22322222    2233456778899999999999998532  2  345677899999999999999999987643


Q ss_pred             -----CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcC----------CCCC---hhhHHHHHHHHHHcCCHHHHHH
Q 048179          374 -----VKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYK----------IQPT---EKHYACMVDLLARAGEVEEALK  435 (589)
Q Consensus       374 -----~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~----------~~p~---~~~~~~l~~~~~~~g~~~~A~~  435 (589)
                           ..++......|..++...+++++|..+++.+.+...          -.|+   ...+..++..+...|++.+|++
T Consensus       358 ~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~  437 (822)
T PRK14574        358 GKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQK  437 (822)
T ss_pred             ccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHH
Confidence                 122333457889999999999999999999987311          0122   2344557788899999999999


Q ss_pred             HHHhcCC-CC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          436 IVDSMST-EP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       436 ~~~~~~~-~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      .++++.. -| |...+..+...+...|...+|++.++.+..++|++..+....+.++...|+|.+|..+.+.+.+.-
T Consensus       438 ~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~  514 (822)
T PRK14574        438 KLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISRS  514 (822)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhC
Confidence            9999843 34 778889999999999999999999999999999999999999999999999999999987776543

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

Probab=99.77  E-value=5.6e-14  Score=135.35  Aligned_cols=462  Identities=11%  Similarity=0.021  Sum_probs=358.5

Q ss_pred             HHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHH----HhCCCCChhhHHHHHHHHHhCC
Q 048179           50 AYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAV----ELGYGNDVFVGSSMLNLYVKCG  125 (589)
Q Consensus        50 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~----~~g~~~~~~~~~~li~~~~~~g  125 (589)
                      +|.+..-++.|..++++.++. ++.+...|.+....--..|..+...++.++.+    ..|+..+...|-.-...+-+.|
T Consensus       415 AlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~ag  493 (913)
T KOG0495|consen  415 ALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAG  493 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcC
Confidence            444455566677777776654 55566666666665566666666666655433    3455556666655556666666


Q ss_pred             ChHHHHHHHHhcCC------CCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHH
Q 048179          126 KMNEAMVAFEKMQR------KDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSV  199 (589)
Q Consensus       126 ~~~~A~~~~~~~~~------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~  199 (589)
                      ..-.+..+......      .--.+|+.-...|.+.+.++-|..+|...++. .+-+...|......--..|..+....+
T Consensus       494 sv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Al  572 (913)
T KOG0495|consen  494 SVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEAL  572 (913)
T ss_pred             ChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHH
Confidence            65555555554432      12347888888888888888888888888775 333555666666666677888888888


Q ss_pred             HHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCC
Q 048179          200 HGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR---INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEP  276 (589)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  276 (589)
                      +..++..- +.....|-.....+...|+...|+.++...-+   .+...|-+-+.....+.+++.|..+|.+....  .|
T Consensus       573 lqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~--sg  649 (913)
T KOG0495|consen  573 LQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSI--SG  649 (913)
T ss_pred             HHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CC
Confidence            88888764 34566777778888889999999999888765   24467888888888999999999999998875  67


Q ss_pred             CHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--C-ChhHHHHHHHHH
Q 048179          277 DSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS--R-DLISWNVIIASY  353 (589)
Q Consensus       277 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~  353 (589)
                      +...|.--+..---.+..+.|.++++...+.++.-..+|..+...+-+.++++.|+..|..-.+  | .+..|-.+...-
T Consensus       650 TeRv~mKs~~~er~ld~~eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakle  729 (913)
T KOG0495|consen  650 TERVWMKSANLERYLDNVEEALRLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLE  729 (913)
T ss_pred             cchhhHHHhHHHHHhhhHHHHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHH
Confidence            7777777677667788999999999988899999999999999999999999999999987765  4 446788888888


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHH
Q 048179          354 GIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEA  433 (589)
Q Consensus       354 ~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  433 (589)
                      -+.|..-.|..+|++....+ +-|...|...+..=.+.|+.+.|..+..++.+  .++.+...|..-|.+..+.++-..+
T Consensus       730 Ek~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQ--ecp~sg~LWaEaI~le~~~~rkTks  806 (913)
T KOG0495|consen  730 EKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQ--ECPSSGLLWAEAIWLEPRPQRKTKS  806 (913)
T ss_pred             HHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCccchhHHHHHHhccCcccchHH
Confidence            88899999999999988775 44677888999999999999999999999988  5566788899889998888887777


Q ss_pred             HHHHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCcc
Q 048179          434 LKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKK  513 (589)
Q Consensus       434 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~  513 (589)
                      .+.+++..  .|+.+..++...+....++++|.+-|+++++.+|++..+|..+-..+.+.|.-++-.++++......  |
T Consensus       807 ~DALkkce--~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~~E--P  882 (913)
T KOG0495|consen  807 IDALKKCE--HDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCETAE--P  882 (913)
T ss_pred             HHHHHhcc--CCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhccC--C
Confidence            77777765  4666677777888899999999999999999999999999999999999999999999998876543  4


Q ss_pred             CCceeEEEEC
Q 048179          514 VPGYSVVEVN  523 (589)
Q Consensus       514 ~~~~s~~~~~  523 (589)
                      .-|..|..+.
T Consensus       883 ~hG~~W~avS  892 (913)
T KOG0495|consen  883 THGELWQAVS  892 (913)
T ss_pred             CCCcHHHHHh
Confidence            4566666543

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

Probab=99.75  E-value=1.3e-14  Score=133.72  Aligned_cols=272  Identities=12%  Similarity=0.061  Sum_probs=207.3

Q ss_pred             HHHHhcCCHHHHHHHHhhcCCCCeehHHH----HHHH-HHh-CCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCc
Q 048179          220 DMYAKTGHLDLASHVFKNMSRINIVTWGA----LISG-FAQ-NGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGF  293 (589)
Q Consensus       220 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~----li~~-~~~-~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~  293 (589)
                      .-|.+.|+++.|.++++-..+.|..+-.+    |-.. |.+ -.++.+|...-+...... +-+....+.-.......|+
T Consensus       427 ~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd  505 (840)
T KOG2003|consen  427 GELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGD  505 (840)
T ss_pred             HHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCc
Confidence            45778899999999888777655543322    2221 222 234566665555544332 2333333333333456789


Q ss_pred             hhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048179          294 LKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMI  370 (589)
Q Consensus       294 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  370 (589)
                      ++.|...+..+......-......+.-.+-+.|++++|+++|-++..   .++...-.+...|-...++..|++++.+..
T Consensus       506 ~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~  585 (840)
T KOG2003|consen  506 LDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQAN  585 (840)
T ss_pred             HHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhc
Confidence            99999999988855444444445566678889999999999987653   667777778888999999999999997765


Q ss_pred             HcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCCChhHH
Q 048179          371 ETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM-STEPGLAVW  449 (589)
Q Consensus       371 ~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~  449 (589)
                      .. ++.|+..+..|...|-+.|+-.+|.+++-.--+  -++.+.++..-|..-|....-+++|+.+|++. ..+|+..-|
T Consensus       586 sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kw  662 (840)
T KOG2003|consen  586 SL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKW  662 (840)
T ss_pred             cc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHH
Confidence            54 566778889999999999999999998776554  45667888888889999999999999999997 458999999


Q ss_pred             HHHHHHH-HhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCC
Q 048179          450 VALLSGC-HNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQK  495 (589)
Q Consensus       450 ~~l~~~~-~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  495 (589)
                      ..++..| ++.|++++|.+.++...+..|.+..++..|..+....|.
T Consensus       663 qlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  663 QLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            9999876 577999999999999999999999999999999888874

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

Probab=99.74  E-value=3e-13  Score=135.55  Aligned_cols=484  Identities=12%  Similarity=0.115  Sum_probs=294.2

Q ss_pred             CCChHHHHHHhccCCC---CCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHH
Q 048179           23 KNDIVSARKLFEELPL---RGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIW   99 (589)
Q Consensus        23 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~   99 (589)
                      .|++++|.+++.++..   .+...|.+|...|-+.|+.+++...+-..-..+ +-|...|..+.....+.|.+++|.-+|
T Consensus       152 rg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~~cy  230 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQARYCY  230 (895)
T ss_pred             hCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHHHHH
Confidence            4999999999998863   457789999999999999999988776554443 335677777878788888999999999


Q ss_pred             HHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCc-------------------------------------
Q 048179          100 RKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDL-------------------------------------  142 (589)
Q Consensus       100 ~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-------------------------------------  142 (589)
                      .++++.. +++....-.-+.+|-+.|+...|.+-|.++.+.+.                                     
T Consensus       231 ~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~  309 (895)
T KOG2076|consen  231 SRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSK  309 (895)
T ss_pred             HHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence            9998885 34555555567778888888888877777654211                                     


Q ss_pred             -------chHHHHHHHHHhCCCccHHHHHHHHHHHCCCC----------------------CChhhHH----HHHHHHHc
Q 048179          143 -------VCWSSMINGLVFNGQPREAVDAYKRMKKEGID----------------------ADEVVMM----GLIQACAD  189 (589)
Q Consensus       143 -------~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~----------------------p~~~t~~----~ll~~~~~  189 (589)
                             ..++.++..|.+..+++.|......+......                      |+...|.    .+.-++..
T Consensus       310 ~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~  389 (895)
T KOG2076|consen  310 EKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVH  389 (895)
T ss_pred             ccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhc
Confidence                   23455555566666666666666655541111                      1111111    12223334


Q ss_pred             cCCcHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC----CCeehHHHHHHHHHhCCChhHHH
Q 048179          190 LGDSRFGLSVHGYSIRRH--LNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR----INIVTWGALISGFAQNGLAGSTL  263 (589)
Q Consensus       190 ~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~a~  263 (589)
                      ....+....+.....+..  ...++..+.-+.++|...|++..|..+|..+..    .+...|-.+..+|...|.+++|.
T Consensus       390 L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~  469 (895)
T KOG2076|consen  390 LKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAI  469 (895)
T ss_pred             ccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHH
Confidence            444555555555555555  333556777778888888888888888887765    35567888888888888888888


Q ss_pred             HHHHHHHhcCCCCCH-HHHHHHHHHHhccCchhhHHHHHHHHh-hc--------CCCChhHHHHHHHHhHhcCCHHHHHH
Q 048179          264 ELLMEMQSCGFEPDS-VSLVSALLACAQIGFLKLGKSIHGYTV-RR--------FDFNLVLGTSVIDMYSKCGVPSCARA  333 (589)
Q Consensus       264 ~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~-~~--------~~~~~~~~~~l~~~~~~~g~~~~A~~  333 (589)
                      +.|...+..  .|+. ..-.++...+.+.|+.++|.+.+..+. .+        .+|+..+.....+.|.+.|+.++=..
T Consensus       470 e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~  547 (895)
T KOG2076|consen  470 EFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFIN  547 (895)
T ss_pred             HHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHH
Confidence            888887765  3433 344455566677888888877777665 21        23334444445555566665544222


Q ss_pred             HHHhcC--------------C----------------------------------------C-----------ChhHH--
Q 048179          334 LFDQMQ--------------S----------------------------------------R-----------DLISW--  346 (589)
Q Consensus       334 ~~~~~~--------------~----------------------------------------~-----------~~~~~--  346 (589)
                      +-..|.              +                                        +           ...-|  
T Consensus       548 t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsiddwfe  627 (895)
T KOG2076|consen  548 TASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSIDDWFE  627 (895)
T ss_pred             HHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHHHHHH
Confidence            111110              0                                        0           00012  


Q ss_pred             --HHHHHHHHhcCCHHHHHHHHHHHHHcCC--CCCH---HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC---hhh
Q 048179          347 --NVIIASYGIHGHGEEALSLFLQMIETMV--KPDH---STFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT---EKH  416 (589)
Q Consensus       347 --~~li~~~~~~g~~~~A~~~~~~m~~~~~--~p~~---~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~  416 (589)
                        .-++.++++.+++++|+.+...+....+  .++.   ..-...+.++...+++..|..+++.+...++...+   ...
T Consensus       628 l~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~~~q~~l  707 (895)
T KOG2076|consen  628 LFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLDVYQLNL  707 (895)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhhhHHHHH
Confidence              3355677788888888888777766432  2222   11233455666778888888888887765333222   234


Q ss_pred             HHHHHHHHH-----------------------------------HcCCHHHHHHHHHhc-CCCCChhHHHHHHHH-HH--
Q 048179          417 YACMVDLLA-----------------------------------RAGEVEEALKIVDSM-STEPGLAVWVALLSG-CH--  457 (589)
Q Consensus       417 ~~~l~~~~~-----------------------------------~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~-~~--  457 (589)
                      |++......                                   .++.+.-|+..+-+. ...||.+..+.++.. +.  
T Consensus       708 ~n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~~pd~Pl~nl~lglafih~  787 (895)
T KOG2076|consen  708 WNLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQNPDSPLINLCLGLAFIHL  787 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHH
Confidence            443333222                                   233444444433332 223443333333222 11  


Q ss_pred             --------hcCCchHHHHHHHHHhccCCC--CchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          458 --------NHKKFSIGEKVAKKVLKLNPD--DLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       458 --------~~~~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                              ++-..-.+...+.+..++.-.  .-.+..++|.+|-..|-..-|..++++..+..
T Consensus       788 a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~~~  850 (895)
T KOG2076|consen  788 ALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLEVS  850 (895)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhCCC
Confidence                    111234445555555544432  45678889999999999999999999887644

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

Probab=99.74  E-value=5.2e-13  Score=128.81  Aligned_cols=462  Identities=11%  Similarity=0.062  Sum_probs=378.6

Q ss_pred             HHHhhhcCCChHHHHHHhccC---CCCCcccHHHHHHHHHcCCCchhHHHHHHH----HHHCCCCCCcccHHHHHHHHhc
Q 048179           16 IIALYGGKNDIVSARKLFEEL---PLRGVDTYNSIIIAYSRKESPFEVLGLYNQ----MIKEDVRPDSSTFTVALKACVS   88 (589)
Q Consensus        16 l~~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~a~~~~~~----m~~~~~~p~~~~~~~ll~~~~~   88 (589)
                      |.-+|++...++.|.+++...   .+.+...|.+-...=-.+|+.+...+++.+    +...|+..+...|..=...|-.
T Consensus       412 LwlAlarLetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~  491 (913)
T KOG0495|consen  412 LWLALARLETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACED  491 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhh
Confidence            334566677788888887654   356777888777777788998888887765    4557899999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHhCCCCC--hhhHHHHHHHHHhCCChHHHHHHHHhcCC---CCcchHHHHHHHHHhCCCccHHHH
Q 048179           89 LMDLKMGEEIWRKAVELGYGND--VFVGSSMLNLYVKCGKMNEAMVAFEKMQR---KDLVCWSSMINGLVFNGQPREAVD  163 (589)
Q Consensus        89 ~~~~~~a~~~~~~~~~~g~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~  163 (589)
                      .|..-.+..+....+..|+...  ..+|..-...|.+.+.++-|+.+|....+   .+...|...+..--..|..++-..
T Consensus       492 agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~A  571 (913)
T KOG0495|consen  492 AGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEA  571 (913)
T ss_pred             cCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHH
Confidence            9999999999999988887532  45788888999999999999999998876   366778888887778899999999


Q ss_pred             HHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC--C
Q 048179          164 AYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR--I  241 (589)
Q Consensus       164 ~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~  241 (589)
                      +|++.... ++-....|.......-..|+...|..++..+.+.... +..+|-+-+..-+...+++.|+.+|.+...  +
T Consensus       572 llqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~sg  649 (913)
T KOG0495|consen  572 LLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSISG  649 (913)
T ss_pred             HHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhccCC
Confidence            99999886 3334444555555666789999999999999988744 788999999999999999999999998765  6


Q ss_pred             CeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHH
Q 048179          242 NIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPD-SVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVID  320 (589)
Q Consensus       242 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  320 (589)
                      +...|.--+...--.+..++|++++++.++.  -|+ ...|..+.+.+-+.++++.|+..+..-.+..|..+.+|-.|..
T Consensus       650 TeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLak  727 (913)
T KOG0495|consen  650 TERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAK  727 (913)
T ss_pred             cchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHH
Confidence            6677877777777789999999999998876  555 4567778888999999999999988888888999999999999


Q ss_pred             HhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHH
Q 048179          321 MYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEG  397 (589)
Q Consensus       321 ~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a  397 (589)
                      .--+.|.+-.|+.+|++..-   .+...|-..|..-.+.|+.+.|..+..+.++. ++.+...|..-|....+.+.-...
T Consensus       728 leEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks  806 (913)
T KOG0495|consen  728 LEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKS  806 (913)
T ss_pred             HHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchHH
Confidence            99999999999999998763   46789999999999999999999999888876 455566777777776666665555


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhcc
Q 048179          398 RYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-EPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKL  475 (589)
Q Consensus       398 ~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  475 (589)
                      ...++..      .-|..+..++..++....+++.|.+.|.+... .|| ..+|.-+...+..+|.-+.-.+++.+....
T Consensus       807 ~DALkkc------e~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~~  880 (913)
T KOG0495|consen  807 IDALKKC------EHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCETA  880 (913)
T ss_pred             HHHHHhc------cCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            4444433      35677888899999999999999999999743 454 568888999999999999999999999999


Q ss_pred             CCCCchhHHHHHH
Q 048179          476 NPDDLGIHALVSN  488 (589)
Q Consensus       476 ~p~~~~~~~~l~~  488 (589)
                      +|.+...|...+.
T Consensus       881 EP~hG~~W~avSK  893 (913)
T KOG0495|consen  881 EPTHGELWQAVSK  893 (913)
T ss_pred             CCCCCcHHHHHhh
Confidence            9998888877654

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.72  E-value=3.3e-13  Score=123.80  Aligned_cols=416  Identities=15%  Similarity=0.144  Sum_probs=277.5

Q ss_pred             cccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHh--ccCCHHHH-HHHHHHHHHhCCCCChhhHHHH
Q 048179           41 VDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACV--SLMDLKMG-EEIWRKAVELGYGNDVFVGSSM  117 (589)
Q Consensus        41 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~--~~~~~~~a-~~~~~~~~~~g~~~~~~~~~~l  117 (589)
                      +.+=|.|+. ...+|...++.-+|+.|+..|+...+..-..+++..+  ...++.-+ .+.|-.|.+.|-. +..+|   
T Consensus       116 V~~E~nL~k-mIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~-S~~sW---  190 (625)
T KOG4422|consen  116 VETENNLLK-MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGED-STSSW---  190 (625)
T ss_pred             hcchhHHHH-HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccc-ccccc---
Confidence            445566655 4566788888888999988887766665555554433  22222222 1223333333321 22222   


Q ss_pred             HHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHH
Q 048179          118 LNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGL  197 (589)
Q Consensus       118 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~  197 (589)
                           +.|.+.+   ++-+...+...+|..||.++++-...+.|.++|++-.....+.+..+||.+|.+.+-    ...+
T Consensus       191 -----K~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~----~~~K  258 (625)
T KOG4422|consen  191 -----KSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSY----SVGK  258 (625)
T ss_pred             -----ccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh----hccH
Confidence                 3444443   444444456789999999999999999999999999988889999999999987653    3348


Q ss_pred             HHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHh----hcC----CCCeehHHHHHHHHHhCCChhH-HHHHHHH
Q 048179          198 SVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFK----NMS----RINIVTWGALISGFAQNGLAGS-TLELLME  268 (589)
Q Consensus       198 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~----~~~----~~~~~~~~~li~~~~~~g~~~~-a~~~~~~  268 (589)
                      ++..+|....+.||..++|+++.+..+.|+++.|++.+-    +|.    +|...+|..+|..+++.++..+ +..++.+
T Consensus       259 ~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~d  338 (625)
T KOG4422|consen  259 KLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWIND  338 (625)
T ss_pred             HHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHH
Confidence            899999999999999999999999999999988766554    443    3888899999999999888755 4555555


Q ss_pred             HHhc----CCCC----CHHHHHHHHHHHhccCchhhHHHHHHHHhhc-----CCCC---hhHHHHHHHHhHhcCCHHHHH
Q 048179          269 MQSC----GFEP----DSVSLVSALLACAQIGFLKLGKSIHGYTVRR-----FDFN---LVLGTSVIDMYSKCGVPSCAR  332 (589)
Q Consensus       269 m~~~----g~~p----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~~~---~~~~~~l~~~~~~~g~~~~A~  332 (589)
                      ++..    .++|    |...|...+..|.+..+.+.|.++++....|     ++++   ..-|..+....+....++.-.
T Consensus       339 I~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~  418 (625)
T KOG4422|consen  339 IQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTL  418 (625)
T ss_pred             HHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5432    2222    4566888999999999999999999988822     2333   234566777788888888889


Q ss_pred             HHHHhcCC----CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC----------------
Q 048179          333 ALFDQMQS----RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSG----------------  392 (589)
Q Consensus       333 ~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g----------------  392 (589)
                      ..|+.|.-    |+..+...++++....++++-.-+++..++..|-.-+.....-++..+++..                
T Consensus       419 ~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~a  498 (625)
T KOG4422|consen  419 KWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFA  498 (625)
T ss_pred             HHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHH
Confidence            99988864    5666677777888888888888888888777664333333333333333221                


Q ss_pred             ----cHHHHHH-HHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC----CCChhHHH---HHHHHHHhcC
Q 048179          393 ----LVEEGRY-WFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST----EPGLAVWV---ALLSGCHNHK  460 (589)
Q Consensus       393 ----~~~~a~~-~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p~~~~~~---~l~~~~~~~~  460 (589)
                          ++.++.+ .-.++.   .........++..-.+.|.|+.++|.+++.-...    -|-....+   -++.+....+
T Consensus       499 k~aad~~e~~e~~~~R~r---~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~  575 (625)
T KOG4422|consen  499 KCAADIKEAYESQPIRQR---AQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSN  575 (625)
T ss_pred             HHHHHHHHHHHhhHHHHH---hccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcC
Confidence                1111111 111122   2233445677777788888888888888766521    13333333   4555566667


Q ss_pred             CchHHHHHHHHHhccC
Q 048179          461 KFSIGEKVAKKVLKLN  476 (589)
Q Consensus       461 ~~~~a~~~~~~~~~~~  476 (589)
                      +...|..+++-+.+.+
T Consensus       576 spsqA~~~lQ~a~~~n  591 (625)
T KOG4422|consen  576 SPSQAIEVLQLASAFN  591 (625)
T ss_pred             CHHHHHHHHHHHHHcC
Confidence            7777777777775443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.70  E-value=8.2e-13  Score=121.27  Aligned_cols=358  Identities=14%  Similarity=0.117  Sum_probs=209.3

Q ss_pred             CCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHH
Q 048179           37 PLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSS  116 (589)
Q Consensus        37 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  116 (589)
                      .+....++..||+++++--..+.|.++|++..+...+.+..+||.+|.+-+-    ...+++..+|......||..++|+
T Consensus       203 ~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~----~~~K~Lv~EMisqkm~Pnl~TfNa  278 (625)
T KOG4422|consen  203 LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSY----SVGKKLVAEMISQKMTPNLFTFNA  278 (625)
T ss_pred             cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh----hccHHHHHHHHHhhcCCchHhHHH
Confidence            3345567888888888888888888888888777777788888888776543    333777888888878888888888


Q ss_pred             HHHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHH-
Q 048179          117 MLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRF-  195 (589)
Q Consensus       117 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~-  195 (589)
                      ++...++.|+++.|+..                           |++++.+|++-|+.|...+|..+|..+.+.++..+ 
T Consensus       279 lL~c~akfg~F~~ar~a---------------------------alqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~  331 (625)
T KOG4422|consen  279 LLSCAAKFGKFEDARKA---------------------------ALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKV  331 (625)
T ss_pred             HHHHHHHhcchHHHHHH---------------------------HHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhh
Confidence            88888888877766533                           34455555555555555555555555555444322 


Q ss_pred             HHHHHHHHHH----hcC----CCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC--------C---CeehHHHHHHHHHhC
Q 048179          196 GLSVHGYSIR----RHL----NLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR--------I---NIVTWGALISGFAQN  256 (589)
Q Consensus       196 a~~~~~~~~~----~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~---~~~~~~~li~~~~~~  256 (589)
                      +..++.++..    ..+    +.|...+...+..|.+..+.+-|..+-.-...        +   ...-|..+....|+.
T Consensus       332 as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~  411 (625)
T KOG4422|consen  332 ASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQM  411 (625)
T ss_pred             hHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHH
Confidence            2222222221    111    11233444445555555555555544433321        1   112344556666777


Q ss_pred             CChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHh-hcCCCChhHHHHHHHHhHhcCCHHHHHHHH
Q 048179          257 GLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTV-RRFDFNLVLGTSVIDMYSKCGVPSCARALF  335 (589)
Q Consensus       257 g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  335 (589)
                      ...+..+..|..|.-.-.-|+..+...++++..-.+.++....++.... -|...+..+..-+...+++..         
T Consensus       412 es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k---------  482 (625)
T KOG4422|consen  412 ESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDK---------  482 (625)
T ss_pred             HHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCC---------
Confidence            7777788888888777777888888888888888888888777777666 443333333222222222211         


Q ss_pred             HhcCCCChhH---HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC
Q 048179          336 DQMQSRDLIS---WNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQP  412 (589)
Q Consensus       336 ~~~~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p  412 (589)
                         ..|+...   +.....-++. .-.+.....-.+|.+..++|  ...+.++..+.+.|..++|.++|..+.++.+-.|
T Consensus       483 ---~hp~tp~r~Ql~~~~ak~aa-d~~e~~e~~~~R~r~~~~~~--t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip  556 (625)
T KOG4422|consen  483 ---LHPLTPEREQLQVAFAKCAA-DIKEAYESQPIRQRAQDWPA--TSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIP  556 (625)
T ss_pred             ---CCCCChHHHHHHHHHHHHHH-HHHHHHHhhHHHHHhccCCh--hHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCC
Confidence               0122111   1111111110 01111222334455554444  4455556667888999999999998866645555


Q ss_pred             ChhhHHH---HHHHHHHcCCHHHHHHHHHhc
Q 048179          413 TEKHYAC---MVDLLARAGEVEEALKIVDSM  440 (589)
Q Consensus       413 ~~~~~~~---l~~~~~~~g~~~~A~~~~~~~  440 (589)
                      .....++   +++.-.+....-+|...++-|
T Consensus       557 ~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a  587 (625)
T KOG4422|consen  557 RSPLLNAMAELMDSAKVSNSPSQAIEVLQLA  587 (625)
T ss_pred             CCcchhhHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            5555554   444555666777777776665

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

Probab=99.67  E-value=4.1e-13  Score=125.35  Aligned_cols=421  Identities=16%  Similarity=0.062  Sum_probs=248.2

Q ss_pred             HHHHHHHHHcCCCchhHHHHHHHHHHCCCCCC-cccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCC-hhhHHHHHHHH
Q 048179           44 YNSIIIAYSRKESPFEVLGLYNQMIKEDVRPD-SSTFTVALKACVSLMDLKMGEEIWRKAVELGYGND-VFVGSSMLNLY  121 (589)
Q Consensus        44 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~~~li~~~  121 (589)
                      +-....-|.++|++++|++.|.+..+.  .|| +..|.....+|...|+++...+--...++.  .|+ +..+..-.+++
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            444556688999999999999999875  677 667777888888999999988888777765  344 34566677788


Q ss_pred             HhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHHHHHHH---------C--CCCCChhhHHHHHHHHHcc
Q 048179          122 VKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKK---------E--GIDADEVVMMGLIQACADL  190 (589)
Q Consensus       122 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---------~--~~~p~~~t~~~ll~~~~~~  190 (589)
                      -..|++++|+.         -+|-.++..+|..+.-.--+.+++.+.-.         .  .+-|+.....+....+...
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 EQLGKFDEALF---------DVTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHAD  264 (606)
T ss_pred             HhhccHHHHHH---------hhhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcccc
Confidence            88888888763         23444555555433333333444433211         0  1122222222222211100


Q ss_pred             CCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhc-CCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHHHH
Q 048179          191 GDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKT-GHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEM  269 (589)
Q Consensus       191 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  269 (589)
                      -..        .+...+...|...-..+=..+... ..+..|...+.+-....      ..+  ...+..|.-++.   |
T Consensus       265 ~~~--------~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~------~~~--~~~n~~d~~le~---~  325 (606)
T KOG0547|consen  265 PKP--------LFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGS------ESS--LSVNEIDAELEY---M  325 (606)
T ss_pred             ccc--------cccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhh------hhh--ccccccchhHHH---H
Confidence            000        000000001111111111111110 01222222221110000      000  000000000000   0


Q ss_pred             HhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHH
Q 048179          270 QSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISW  346 (589)
Q Consensus       270 ~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~  346 (589)
                              ..++.....-+.-.|+.-.+..-++.++...+.+...|--+..+|....+.++....|+...+   .|..+|
T Consensus       326 --------A~al~~~gtF~fL~g~~~~a~~d~~~~I~l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvY  397 (606)
T KOG0547|consen  326 --------AEALLLRGTFHFLKGDSLGAQEDFDAAIKLDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVY  397 (606)
T ss_pred             --------HHHHHHhhhhhhhcCCchhhhhhHHHHHhcCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchh
Confidence                    000000000112234555555555555544444444455666677777777777788877654   345566


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH
Q 048179          347 NVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLAR  426 (589)
Q Consensus       347 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  426 (589)
                      ..-.+.+.-.+++++|..-|++.+... +-+...|..+.-+..+.+.++++...|++.+++  ++.-++.|+-....+..
T Consensus       398 yHRgQm~flL~q~e~A~aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLtD  474 (606)
T KOG0547|consen  398 YHRGQMRFLLQQYEEAIADFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK--FPNCPEVYNLFAEILTD  474 (606)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCCchHHHHHHHHHhh
Confidence            666666677788888888888887753 234567777777777888999999999999884  44457888889999999


Q ss_pred             cCCHHHHHHHHHhc-CCCCC---------hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCCh
Q 048179          427 AGEVEEALKIVDSM-STEPG---------LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKW  496 (589)
Q Consensus       427 ~g~~~~A~~~~~~~-~~~p~---------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  496 (589)
                      ++++++|.+.|+.. ..+|+         +.+...++..-.+ +|+..|+.+++++++++|....+|..|+.+-.++|+.
T Consensus       475 qqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~qwk-~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i  553 (606)
T KOG0547|consen  475 QQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQWK-EDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKI  553 (606)
T ss_pred             HHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhchh-hhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhH
Confidence            99999999999885 33333         3333444444334 8999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q 048179          497 EEVAGVRKTMRK  508 (589)
Q Consensus       497 ~~a~~~~~~m~~  508 (589)
                      ++|+++|++...
T Consensus       554 ~eAielFEksa~  565 (606)
T KOG0547|consen  554 DEAIELFEKSAQ  565 (606)
T ss_pred             HHHHHHHHHHHH
Confidence            999999998653

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

Probab=99.66  E-value=1.2e-11  Score=115.19  Aligned_cols=490  Identities=12%  Similarity=0.077  Sum_probs=348.2

Q ss_pred             chHhHHHHhhhcCCChHHHHHHhccCC---CCCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHh
Q 048179           11 NSVGRIIALYGGKNDIVSARKLFEELP---LRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACV   87 (589)
Q Consensus        11 ~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~   87 (589)
                      ..|-...+.=-..+++..|+.+|+...   .+++..|--.+..=.++.....|..+++.....=+..|.. |--.+-.--
T Consensus        74 ~~WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdql-WyKY~ymEE  152 (677)
T KOG1915|consen   74 QVWIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQL-WYKYIYMEE  152 (677)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHH-HHHHHHHHH
Confidence            344444444445678889999998865   5667889888888899999999999999987753333333 223333334


Q ss_pred             ccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcC--CCCcchHHHHHHHHHhCCCccHHHHHH
Q 048179           88 SLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQ--RKDLVCWSSMINGLVFNGQPREAVDAY  165 (589)
Q Consensus        88 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~  165 (589)
                      ..|++..|+++|+.-.+.  .|+...|.+.|+.=.+-..++.|..++++..  .|++.+|-.....-.++|+...|..+|
T Consensus       153 ~LgNi~gaRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~Vy  230 (677)
T KOG1915|consen  153 MLGNIAGARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVY  230 (677)
T ss_pred             HhcccHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            568999999999988765  7999999999999999999999999999875  689999999998888999999999999


Q ss_pred             HHHHHCCCCCChhhHHHHHHHH----HccCCcHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHhcCCHHHHHHHH-----
Q 048179          166 KRMKKEGIDADEVVMMGLIQAC----ADLGDSRFGLSVHGYSIRRHLNL-DVKVQTSLVDMYAKTGHLDLASHVF-----  235 (589)
Q Consensus       166 ~~m~~~~~~p~~~t~~~ll~~~----~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~-----  235 (589)
                      ....+.  -.|...-..++.++    .....++.|..++...++.-+.. ....|..+...=-+.|+.....+..     
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            988764  12333333344444    34567888888888888764332 2445555555555566655544432     


Q ss_pred             ---hhcCCC---CeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCH-------HHHHHHHHH---HhccCchhhHHH
Q 048179          236 ---KNMSRI---NIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDS-------VSLVSALLA---CAQIGFLKLGKS  299 (589)
Q Consensus       236 ---~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-------~~~~~ll~~---~~~~~~~~~a~~  299 (589)
                         +.+...   |-.+|-..+..--..|+.+...++|.+.+.. ++|-.       ..|.-+=-+   -....+.+.+++
T Consensus       309 ~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~  387 (677)
T KOG1915|consen  309 FQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQ  387 (677)
T ss_pred             hHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence               333333   4457777777777889999999999999876 45532       122222222   245678899999


Q ss_pred             HHHHHhhcCCCChhHHHHHHHHh----HhcCCHHHHHHHHHhcCC--CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 048179          300 IHGYTVRRFDFNLVLGTSVIDMY----SKCGVPSCARALFDQMQS--RDLISWNVIIASYGIHGHGEEALSLFLQMIETM  373 (589)
Q Consensus       300 ~~~~~~~~~~~~~~~~~~l~~~~----~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  373 (589)
                      +++....-+|....++.-+=-+|    .++.++..|++++....-  |-..++...|..-.+.++++.+..++++.++-+
T Consensus       388 vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~  467 (677)
T KOG1915|consen  388 VYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS  467 (677)
T ss_pred             HHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            99988876666666655444444    468899999999987653  677788888888889999999999999999865


Q ss_pred             CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CCChhHHHHH
Q 048179          374 VKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-EPGLAVWVAL  452 (589)
Q Consensus       374 ~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l  452 (589)
                       +-|..++......=...|+.+.|..+|+-+.+...+......|.+.|+-=...|.++.|..+++++.. .+-..+|.++
T Consensus       468 -Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~kvWisF  546 (677)
T KOG1915|consen  468 -PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVKVWISF  546 (677)
T ss_pred             -hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccchHHHhH
Confidence             44667887777777788999999999999987644444455678888888899999999999999744 4566688777


Q ss_pred             HHHHH-----hcC-----------CchHHHHHHHHHhcc----CCCCc--hhHHHHHHHHHhCCChHHHHHHHHHHH
Q 048179          453 LSGCH-----NHK-----------KFSIGEKVAKKVLKL----NPDDL--GIHALVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       453 ~~~~~-----~~~-----------~~~~a~~~~~~~~~~----~p~~~--~~~~~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      ..--.     ..+           +...|..+|+++...    +|...  ..+...-+.-...|.-.+...+-+.|.
T Consensus       547 A~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~~~k~~~~KeeR~~LLEaw~~~E~~~G~~~d~~~V~s~mP  623 (677)
T KOG1915|consen  547 AKFEASASEGQEDEDLAELEITDENIKRARKIFERANTYLKESTPKEERLMLLEAWKNMEETFGTEGDVERVQSKMP  623 (677)
T ss_pred             HHHhccccccccccchhhhhcchhHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCchhhHHHHHHhcc
Confidence            65433     333           566788888888743    33222  223333344455666666666666554

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

Probab=99.65  E-value=7.2e-13  Score=132.84  Aligned_cols=330  Identities=14%  Similarity=0.168  Sum_probs=206.2

Q ss_pred             CCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHH
Q 048179          155 NGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHV  234 (589)
Q Consensus       155 ~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  234 (589)
                      .|+.++|.+++.+.++.. +-+...|.+|...|-+.|+.+.+...+-.+--.. +.|...|..+.+...+.|.++.|.-+
T Consensus       152 rg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~~c  229 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQARYC  229 (895)
T ss_pred             hCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHHHH
Confidence            377777777777776653 2355667777777777777766665554433332 33556777777777777777777777


Q ss_pred             HhhcCCCCeehHH---HHHHHHHhCCChhHHHHHHHHHHhcCCCCCH----HHHHHHHHHHhccCchhhHHHHHHHHh--
Q 048179          235 FKNMSRINIVTWG---ALISGFAQNGLAGSTLELLMEMQSCGFEPDS----VSLVSALLACAQIGFLKLGKSIHGYTV--  305 (589)
Q Consensus       235 ~~~~~~~~~~~~~---~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~--  305 (589)
                      |.+..+.++.-|.   --+..|.+.|+...|.+.|.++.+...+.|.    .+...+++.+...++.+.|.+++....  
T Consensus       230 y~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~  309 (895)
T KOG2076|consen  230 YSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSK  309 (895)
T ss_pred             HHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence            7776654333332   2345566677777777777777665321111    112222333333333344444444333  


Q ss_pred             hcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHH--------------
Q 048179          306 RRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIE--------------  371 (589)
Q Consensus       306 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--------------  371 (589)
                      .+-..+..                               .++.++..+.+...++.|......+..              
T Consensus       310 ~~~~~~~e-------------------------------d~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~  358 (895)
T KOG2076|consen  310 EKDEASLE-------------------------------DLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDE  358 (895)
T ss_pred             cccccccc-------------------------------HHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhh
Confidence            12223333                               344444444454555555444444433              


Q ss_pred             -------------cCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCC--CCChhhHHHHHHHHHHcCCHHHHHHH
Q 048179          372 -------------TMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKI--QPTEKHYACMVDLLARAGEVEEALKI  436 (589)
Q Consensus       372 -------------~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~  436 (589)
                                   .++.++... ..+.-++.+....+....+..-.... .+  ..+...|.-+.++|...|++.+|+++
T Consensus       359 ~~~~~~~~~~~~~~~~s~~l~v-~rl~icL~~L~~~e~~e~ll~~l~~~-n~~~~d~~dL~~d~a~al~~~~~~~~Al~~  436 (895)
T KOG2076|consen  359 RRREEPNALCEVGKELSYDLRV-IRLMICLVHLKERELLEALLHFLVED-NVWVSDDVDLYLDLADALTNIGKYKEALRL  436 (895)
T ss_pred             hccccccccccCCCCCCccchh-HhHhhhhhcccccchHHHHHHHHHHh-cCChhhhHHHHHHHHHHHHhcccHHHHHHH
Confidence                         112233222 12222333333333333333333332 43  33477899999999999999999999


Q ss_pred             HHhcCCC---CChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCcc
Q 048179          437 VDSMSTE---PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKK  513 (589)
Q Consensus       437 ~~~~~~~---p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~  513 (589)
                      +..+...   .+...|.-+..+|...|.++.|.+.+++++.+.|++..+-..|+.+|.+.|+.|+|.+++..+..-+.++
T Consensus       437 l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~  516 (895)
T KOG2076|consen  437 LSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRN  516 (895)
T ss_pred             HHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccc
Confidence            9998543   3567899999999999999999999999999999999999999999999999999999999887555455


Q ss_pred             CCceeE
Q 048179          514 VPGYSV  519 (589)
Q Consensus       514 ~~~~s~  519 (589)
                      .++|.|
T Consensus       517 ~e~~a~  522 (895)
T KOG2076|consen  517 AEACAW  522 (895)
T ss_pred             hhhccc
Confidence            556555

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

Probab=99.65  E-value=6e-16  Score=146.30  Aligned_cols=252  Identities=17%  Similarity=0.154  Sum_probs=113.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhc-CC----CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhcc
Q 048179          217 SLVDMYAKTGHLDLASHVFKNM-SR----INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQI  291 (589)
Q Consensus       217 ~l~~~~~~~g~~~~A~~~~~~~-~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  291 (589)
                      .+...+.+.|++++|.+++++. ..    .|...|..+.......+++++|+..++++...+                  
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~------------------   74 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD------------------   74 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc------------------
Confidence            3455566666666666666332 11    233444444445555666666666666665442                  


Q ss_pred             CchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--CChhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 048179          292 GFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS--RDLISWNVIIASYGIHGHGEEALSLFLQM  369 (589)
Q Consensus       292 ~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m  369 (589)
                                       +.++..+..++.. ...+++++|.+++....+  ++...+..++..+...++++++.++++++
T Consensus        75 -----------------~~~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~  136 (280)
T PF13429_consen   75 -----------------KANPQDYERLIQL-LQDGDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKL  136 (280)
T ss_dssp             -------------------------------------------------------------H-HHHTT-HHHHHHHHHHH
T ss_pred             -----------------ccccccccccccc-cccccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHH
Confidence                             1233334555555 577888888888776643  56677788888899999999999999998


Q ss_pred             HHcC-CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCC
Q 048179          370 IETM-VKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQP-TEKHYACMVDLLARAGEVEEALKIVDSMST--EPG  445 (589)
Q Consensus       370 ~~~~-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~  445 (589)
                      .... .+++...|..+...+.+.|+.++|.+.++++.+.   .| +......++..+...|+.+++.++++....  +.|
T Consensus       137 ~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~---~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~  213 (280)
T PF13429_consen  137 EELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL---DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDD  213 (280)
T ss_dssp             HH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH----TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTS
T ss_pred             HhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCH
Confidence            7543 3456677888888899999999999999999864   35 477888999999999999998888877632  346


Q ss_pred             hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHH
Q 048179          446 LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       446 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      +..|..+..++...|+.++|...++++.+..|+|+.....+++++...|+.++|.++++++.
T Consensus       214 ~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  214 PDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             CCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT----------------
T ss_pred             HHHHHHHHHHhccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            67889999999999999999999999999999999999999999999999999999988764

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

Probab=99.64  E-value=3.3e-13  Score=124.63  Aligned_cols=444  Identities=11%  Similarity=0.058  Sum_probs=246.1

Q ss_pred             chHhHHHHhhhcCCChHHHHHHhccCC----CCCcc-cHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccH----HH
Q 048179           11 NSVGRIIALYGGKNDIVSARKLFEELP----LRGVD-TYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTF----TV   81 (589)
Q Consensus        11 ~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~----~~   81 (589)
                      .+...|.+-|.-.....+|+..++-+.    -||.- .--.+...+.+..++..|++.|+..+..-+..+..+-    +.
T Consensus       202 svl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~n  281 (840)
T KOG2003|consen  202 SVLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNN  281 (840)
T ss_pred             HHHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhh
Confidence            344455556666667777777776543    12322 1122344566667777777777666554222232222    22


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCC----------------CCcchH
Q 048179           82 ALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR----------------KDLVCW  145 (589)
Q Consensus        82 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----------------~~~~~~  145 (589)
                      +--.+.+.|.++.|..-|+...+.  .|+..+--.|+-.+..-|+-++..+.|..|..                |+....
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            222345667777777777776665  35555544455555556777777777766652                111111


Q ss_pred             HH-----HHHHHHhCC--CccHHHHHHHHHHHCCCCCChh-------------hHH--------HHHHHHHccCCcHHHH
Q 048179          146 SS-----MINGLVFNG--QPREAVDAYKRMKKEGIDADEV-------------VMM--------GLIQACADLGDSRFGL  197 (589)
Q Consensus       146 ~~-----li~~~~~~g--~~~~A~~~~~~m~~~~~~p~~~-------------t~~--------~ll~~~~~~~~~~~a~  197 (589)
                      |.     .+.-.-+..  +.++++-.--++..--+.||-.             .+.        .-...+.+.|+++.|.
T Consensus       360 ~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~ai  439 (840)
T KOG2003|consen  360 NEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAI  439 (840)
T ss_pred             HHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHH
Confidence            11     111111111  1111211111111111122110             000        0012356677777777


Q ss_pred             HHHHHHHHhcCCCchHHHHHHHHHHHh--cCCHHHHHHHHhhcCCCCe---ehHHHHHHHHHhCCChhHHHHHHHHHHhc
Q 048179          198 SVHGYSIRRHLNLDVKVQTSLVDMYAK--TGHLDLASHVFKNMSRINI---VTWGALISGFAQNGLAGSTLELLMEMQSC  272 (589)
Q Consensus       198 ~~~~~~~~~~~~~~~~~~~~l~~~~~~--~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~  272 (589)
                      +++.-..+..-..-...-+.|-..+.-  -.++..|...-+.....|-   .....-...-..+|++++|.+.|++.+..
T Consensus       440 eilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~n  519 (840)
T KOG2003|consen  440 EILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALNN  519 (840)
T ss_pred             HHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHcC
Confidence            777766655433333333444333333  2345556555554433221   11111112233467777777777777654


Q ss_pred             CCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHH
Q 048179          273 GFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVI  349 (589)
Q Consensus       273 g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l  349 (589)
                      .-.-....| .+.-.+...|++++|...|-.+..-+..+..+.-.+...|....+...|.+++-+...   .|+...+.+
T Consensus       520 dasc~ealf-niglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~slip~dp~ilskl  598 (840)
T KOG2003|consen  520 DASCTEALF-NIGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSLIPNDPAILSKL  598 (840)
T ss_pred             chHHHHHHH-HhcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCCHHHHHHH
Confidence            322222222 2222345667777777777666544555666666777777777778888877766543   466677777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHH-HHHcC
Q 048179          350 IASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDL-LARAG  428 (589)
Q Consensus       350 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~g  428 (589)
                      ...|-+.|+-..|.+..-+--.. ++.|..|...|...|....-+++++.+|+++.   -+.|+..-|..|+.. +.|.|
T Consensus       599 ~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaa---liqp~~~kwqlmiasc~rrsg  674 (840)
T KOG2003|consen  599 ADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAA---LIQPNQSKWQLMIASCFRRSG  674 (840)
T ss_pred             HHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH---hcCccHHHHHHHHHHHHHhcc
Confidence            77787888777777765443222 45566777777777777778888888888776   667888888777654 45678


Q ss_pred             CHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCC
Q 048179          429 EVEEALKIVDSMST--EPGLAVWVALLSGCHNHKK  461 (589)
Q Consensus       429 ~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~  461 (589)
                      ++..|.++++....  +.|...+.-|+..|...|-
T Consensus       675 nyqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  675 NYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             cHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            88888888887743  3467777777777776663

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

Probab=99.62  E-value=1.6e-11  Score=114.43  Aligned_cols=427  Identities=12%  Similarity=0.092  Sum_probs=318.8

Q ss_pred             ChhhHHHHHHHHHhCCChHHHHHHHHhcCC---CCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 048179          110 DVFVGSSMLNLYVKCGKMNEAMVAFEKMQR---KDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQA  186 (589)
Q Consensus       110 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~  186 (589)
                      +...|-....-=...+++..|..+|++...   +++..|-..+..-.++.++..|..++++.+..=...|. .|.--+-.
T Consensus        72 ~~~~WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdq-lWyKY~ym  150 (677)
T KOG1915|consen   72 NMQVWIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQ-LWYKYIYM  150 (677)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHH-HHHHHHHH
Confidence            444555444444556788899999999875   57778888888889999999999999998875333333 23333344


Q ss_pred             HHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcC--CCCeehHHHHHHHHHhCCChhHHHH
Q 048179          187 CADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMS--RINIVTWGALISGFAQNGLAGSTLE  264 (589)
Q Consensus       187 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~  264 (589)
                      =-..|++..|.++|+.....  .|+...|++.|+.=.+-..++.|+.++++..  .|++.+|--...--.+.|+...+..
T Consensus       151 EE~LgNi~gaRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~  228 (677)
T KOG1915|consen  151 EEMLGNIAGARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARS  228 (677)
T ss_pred             HHHhcccHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHH
Confidence            45679999999999988765  7899999999999999999999999999864  5888999888888889999999999


Q ss_pred             HHHHHHhcCCCCCH----HHHHHHHHHHhccCchhhHHHHHHHHhhcCCCC--hhHHHHHHHHhHhcCCHHHHHHHH---
Q 048179          265 LLMEMQSCGFEPDS----VSLVSALLACAQIGFLKLGKSIHGYTVRRFDFN--LVLGTSVIDMYSKCGVPSCARALF---  335 (589)
Q Consensus       265 ~~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~---  335 (589)
                      +|....+.  -.|.    ..|.+...--.....++.|.-++..+...+|.+  ..+|..+...--+-|+......+.   
T Consensus       229 VyerAie~--~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~K  306 (677)
T KOG1915|consen  229 VYERAIEF--LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGK  306 (677)
T ss_pred             HHHHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhh
Confidence            99887764  2233    233333333445678889999999999777776  566666666555566655444332   


Q ss_pred             -----HhcCCC---ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH-------HHHHHHHHH---hcCCcHHHH
Q 048179          336 -----DQMQSR---DLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHS-------TFASLLSAL---SHSGLVEEG  397 (589)
Q Consensus       336 -----~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~-------t~~~ll~a~---~~~g~~~~a  397 (589)
                           +.+.+.   |-.+|--.+..-...|+.+...++|++.+.. ++|-..       .|.-+=-+|   ....+++.+
T Consensus       307 Rk~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ert  385 (677)
T KOG1915|consen  307 RKFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERT  385 (677)
T ss_pred             hhhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Confidence                 223232   4567877888888889999999999999875 566321       222222222   356889999


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHH----HHcCCHHHHHHHHHhc-CCCCChhHHHHHHHHHHhcCCchHHHHHHHHH
Q 048179          398 RYWFDLMVSKYKIQPTEKHYACMVDLL----ARAGEVEEALKIVDSM-STEPGLAVWVALLSGCHNHKKFSIGEKVAKKV  472 (589)
Q Consensus       398 ~~~~~~~~~~~~~~p~~~~~~~l~~~~----~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  472 (589)
                      .++|+.+..  -++....++..+--+|    .|+.++..|.+++-.. ..-|-..++...|..-.+.++++.+..++++.
T Consensus       386 r~vyq~~l~--lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkf  463 (677)
T KOG1915|consen  386 RQVYQACLD--LIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKF  463 (677)
T ss_pred             HHHHHHHHh--hcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            999999986  4544466665554444    5889999999999876 44688999999999999999999999999999


Q ss_pred             hccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCceeE---EEECCEEEEEEecCCCCCChHHHHHHHHHH
Q 048179          473 LKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSV---VEVNGELHAFIMEDKSHNQYEDIVYVLKKL  549 (589)
Q Consensus       473 ~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~---~~~~~~~~~f~~~~~~~~~~~~~~~~~~~l  549 (589)
                      ++-+|.+..+|...+.+-...|+++.|..+|+.+..+.....|.-.|   |+       |......+.....+|..+-+.
T Consensus       464 le~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYId-------FEi~~~E~ekaR~LYerlL~r  536 (677)
T KOG1915|consen  464 LEFSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYID-------FEIEEGEFEKARALYERLLDR  536 (677)
T ss_pred             HhcChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhh-------hhhhcchHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999998766544454322   33       555556666777777766554


Q ss_pred             HH
Q 048179          550 YL  551 (589)
Q Consensus       550 ~~  551 (589)
                      ..
T Consensus       537 t~  538 (677)
T KOG1915|consen  537 TQ  538 (677)
T ss_pred             cc
Confidence            43

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.60  E-value=1.7e-12  Score=128.49  Aligned_cols=288  Identities=12%  Similarity=0.046  Sum_probs=192.3

Q ss_pred             CCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHH
Q 048179          155 NGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHV  234 (589)
Q Consensus       155 ~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  234 (589)
                      .|+++.|.+.+....+..-.| ...+.....+..+.|+++.+...+..+.+................+...|+++.|...
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p-~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~  175 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQP-VVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHG  175 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccch-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHH
Confidence            577777776666544431111 1222233344466777777777777776543222222222346677788888888888


Q ss_pred             HhhcCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCC
Q 048179          235 FKNMSR---INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFN  311 (589)
Q Consensus       235 ~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  311 (589)
                      ++++.+   .++.....+...|.+.|++++|.+++..+.+.+..++. ....+-                          
T Consensus       176 l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~-~~~~l~--------------------------  228 (398)
T PRK10747        176 VDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEE-HRAMLE--------------------------  228 (398)
T ss_pred             HHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHH-HHHHHH--------------------------
Confidence            887765   24456777788888888888888888888877643222 111000                          


Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048179          312 LVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSAL  388 (589)
Q Consensus       312 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~  388 (589)
                      ...+..++.......+.+...++++.+++   .++.....+...+...|+.++|.+.+++..+.  +||...  .++.+.
T Consensus       229 ~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~  304 (398)
T PRK10747        229 QQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPR  304 (398)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhh
Confidence            00111222223333445566666666653   46677788888888999999999999888773  455432  233444


Q ss_pred             hcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCCChhHHHHHHHHHHhcCCchHHHH
Q 048179          389 SHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM-STEPGLAVWVALLSGCHNHKKFSIGEK  467 (589)
Q Consensus       389 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~  467 (589)
                      ...++.+++.+..+...+.  .+-|...+.++...+.+.|++++|.+.|+.+ ...|+...+..+..++...|+.++|.+
T Consensus       305 l~~~~~~~al~~~e~~lk~--~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~  382 (398)
T PRK10747        305 LKTNNPEQLEKVLRQQIKQ--HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAA  382 (398)
T ss_pred             ccCCChHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            4568899999999888863  3455677888999999999999999999887 446888888888999999999999999


Q ss_pred             HHHHHhccC
Q 048179          468 VAKKVLKLN  476 (589)
Q Consensus       468 ~~~~~~~~~  476 (589)
                      ++++.+.+-
T Consensus       383 ~~~~~l~~~  391 (398)
T PRK10747        383 MRRDGLMLT  391 (398)
T ss_pred             HHHHHHhhh
Confidence            999987653

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

Probab=99.58  E-value=2.4e-13  Score=132.12  Aligned_cols=277  Identities=10%  Similarity=0.021  Sum_probs=220.1

Q ss_pred             CCHHHHHHHHhhcCC--CCe-ehHHHHHHHHHhCCChhHHHHHHHHHHhcC--CCCCHHHHHHHHHHHhccCchhhHHHH
Q 048179          226 GHLDLASHVFKNMSR--INI-VTWGALISGFAQNGLAGSTLELLMEMQSCG--FEPDSVSLVSALLACAQIGFLKLGKSI  300 (589)
Q Consensus       226 g~~~~A~~~~~~~~~--~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~~~~~~~ll~~~~~~~~~~~a~~~  300 (589)
                      -+..+|...|..+++  +|. .....+..+|...+++++|.++|+...+..  ..-+..+|.+.+.-+-+    +.+...
T Consensus       333 y~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~  408 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSY  408 (638)
T ss_pred             HHHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHH
Confidence            356788889988664  343 344557789999999999999999998752  11245567666654322    223333


Q ss_pred             HHHHh-hcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCC---ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 048179          301 HGYTV-RRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSR---DLISWNVIIASYGIHGHGEEALSLFLQMIETMVKP  376 (589)
Q Consensus       301 ~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  376 (589)
                      +..-. ...+..+.+|.++.++|.-.++.+.|++.|++...-   ...+|+.+..-+.....+|.|...|+..+.  +.|
T Consensus       409 Laq~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~--~~~  486 (638)
T KOG1126|consen  409 LAQDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG--VDP  486 (638)
T ss_pred             HHHHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc--CCc
Confidence            44434 667778999999999999999999999999998764   456777777778888999999999998765  344


Q ss_pred             CH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CC-CChhHHHHH
Q 048179          377 DH-STFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSMS-TE-PGLAVWVAL  452 (589)
Q Consensus       377 ~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-p~~~~~~~l  452 (589)
                      .. ..|..+...|.+.++++.|.-.|+.+.   .+.|. .....+++..+.+.|+.++|+++++++. .+ .|+..--..
T Consensus       487 rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~---~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~  563 (638)
T KOG1126|consen  487 RHYNAWYGLGTVYLKQEKLEFAEFHFQKAV---EINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHR  563 (638)
T ss_pred             hhhHHHHhhhhheeccchhhHHHHHHHhhh---cCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHH
Confidence            43 377788899999999999999999998   45565 6677788899999999999999999973 33 355555566


Q ss_pred             HHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048179          453 LSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       453 ~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  511 (589)
                      +..+...+++++|.+.++++.++-|+++..+..++.+|.+.|+.+.|+.-|.-|.+..+
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldp  622 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDP  622 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCC
Confidence            66788889999999999999999999999999999999999999999999988876544

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

Probab=99.58  E-value=4.7e-13  Score=130.08  Aligned_cols=242  Identities=12%  Similarity=0.091  Sum_probs=193.7

Q ss_pred             ChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcC---CCChhHHHHHHHHhHhcCCHHH-HHH
Q 048179          258 LAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRF---DFNLVLGTSVIDMYSKCGVPSC-ARA  333 (589)
Q Consensus       258 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~-A~~  333 (589)
                      +..+|+..|...... +.-+......+..+|...+++++++.+|+.+.+.-   -.+..+|.+.+--+-+.-.+.. |..
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~  412 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQD  412 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHH
Confidence            467899999885443 44455667778889999999999999999988332   3456777777655433222221 222


Q ss_pred             HHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC
Q 048179          334 LFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKP-DHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQP  412 (589)
Q Consensus       334 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p  412 (589)
                      +.+ +....+.+|.++..+|.-+++.+.|++.|++.++.  .| ..++|+.+..-+.....+|.|...|+.+..     .
T Consensus       413 Li~-~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~-----~  484 (638)
T KOG1126|consen  413 LID-TDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALG-----V  484 (638)
T ss_pred             HHh-hCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhc-----C
Confidence            222 22346789999999999999999999999999874  45 678898888888889999999999998873     3


Q ss_pred             ChhhHH---HHHHHHHHcCCHHHHHHHHHhc-CCCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHH
Q 048179          413 TEKHYA---CMVDLLARAGEVEEALKIVDSM-STEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVS  487 (589)
Q Consensus       413 ~~~~~~---~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  487 (589)
                      +..+|+   .+.-.|.+.++++.|+-.|+++ ...| +.+....++..+.+.|+.|+|++++++++.++|.|+-.-+..+
T Consensus       485 ~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~  564 (638)
T KOG1126|consen  485 DPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRA  564 (638)
T ss_pred             CchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHH
Confidence            545555   5677899999999999999997 4456 5666777788899999999999999999999999999999999


Q ss_pred             HHHHhCCChHHHHHHHHHHHh
Q 048179          488 NFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       488 ~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      .++...+++++|+..++++++
T Consensus       565 ~il~~~~~~~eal~~LEeLk~  585 (638)
T KOG1126|consen  565 SILFSLGRYVEALQELEELKE  585 (638)
T ss_pred             HHHHhhcchHHHHHHHHHHHH
Confidence            999999999999999999986

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.57  E-value=3.6e-12  Score=126.18  Aligned_cols=275  Identities=11%  Similarity=0.027  Sum_probs=201.1

Q ss_pred             cCCHHHHHHHHhhcCCC--CeehHHHH-HHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHH--HHHHHHhccCchhhHHH
Q 048179          225 TGHLDLASHVFKNMSRI--NIVTWGAL-ISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLV--SALLACAQIGFLKLGKS  299 (589)
Q Consensus       225 ~g~~~~A~~~~~~~~~~--~~~~~~~l-i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~--~ll~~~~~~~~~~~a~~  299 (589)
                      .|+++.|++.+....+.  ++..+..+ ..+..+.|+++.|.+.|.++.+.  .|+.....  .....+...|+.+.|..
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            57777777777765442  22222222 33346788888888888888764  45543332  23456677788888888


Q ss_pred             HHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCCh-----------hHHHHHHHHHHhcCCHHHHHHHHHH
Q 048179          300 IHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDL-----------ISWNVIIASYGIHGHGEEALSLFLQ  368 (589)
Q Consensus       300 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-----------~~~~~li~~~~~~g~~~~A~~~~~~  368 (589)
                      .++......|.++.+...+...|.+.|++++|.+++..+.+...           .+|..++.......+.+...++++.
T Consensus       175 ~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~  254 (398)
T PRK10747        175 GVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKN  254 (398)
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHh
Confidence            88888766777888889999999999999999999988875221           1333344444445556666677776


Q ss_pred             HHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CCC-h
Q 048179          369 MIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-EPG-L  446 (589)
Q Consensus       369 m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~-~  446 (589)
                      +.+. .+.++.....+..++...|+.++|.+.+++..+.   +|+....  ++.+....++.+++.+.+++... .|+ .
T Consensus       255 lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~---~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~~~  328 (398)
T PRK10747        255 QSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR---QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGDTP  328 (398)
T ss_pred             CCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCCCH
Confidence            6443 3456778888999999999999999999988753   4554322  23334456999999999998743 465 4


Q ss_pred             hHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          447 AVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       447 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ..+.++...|...+++++|++.|+++++..|++ ..+..++.++.+.|+.++|.+++++...
T Consensus       329 ~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~-~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        329 LLWSTLGQLLMKHGEWQEASLAFRAALKQRPDA-YDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            567788889999999999999999999999965 5577899999999999999999997654

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

Probab=99.56  E-value=5e-11  Score=113.82  Aligned_cols=262  Identities=15%  Similarity=0.067  Sum_probs=198.2

Q ss_pred             CeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHH
Q 048179          242 NIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDM  321 (589)
Q Consensus       242 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  321 (589)
                      ++........-+...+++.+..+++....+.. +++...+..-|..+...|+...-..+-..++...|..+..|-++.--
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~~a~sW~aVg~Y  321 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPSKALSWFAVGCY  321 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCCCCcchhhHHHH
Confidence            33344444455566667777777777666543 44444444444555566665555555555556677778888888888


Q ss_pred             hHhcCCHHHHHHHHHhcCCCC---hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHH
Q 048179          322 YSKCGVPSCARALFDQMQSRD---LISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGR  398 (589)
Q Consensus       322 ~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~  398 (589)
                      |.-.|+.++|++.|.+...-|   ...|-.+...|+-.|..++|+..+...-+.- +-....+..+..-|.+.++.+.|.
T Consensus       322 Yl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~n~kLAe  400 (611)
T KOG1173|consen  322 YLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTNNLKLAE  400 (611)
T ss_pred             HHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhccHHHHH
Confidence            888899999999998876433   3689999999999999999999988776641 212223444556688889999999


Q ss_pred             HHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhcCC--------CC-ChhHHHHHHHHHHhcCCchHHHHH
Q 048179          399 YWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSMST--------EP-GLAVWVALLSGCHNHKKFSIGEKV  468 (589)
Q Consensus       399 ~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~p-~~~~~~~l~~~~~~~~~~~~a~~~  468 (589)
                      ++|..+.   ++-|+ +...+-+.-+....+.+.+|..+|+....        .+ =.++++.|+.+|++.+.+++|+..
T Consensus       401 ~Ff~~A~---ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~  477 (611)
T KOG1173|consen  401 KFFKQAL---AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDY  477 (611)
T ss_pred             HHHHHHH---hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHH
Confidence            9999988   44454 66777788888889999999999987631        11 245688899999999999999999


Q ss_pred             HHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          469 AKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       469 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      +++++.+.|.++.+|..+|-+|...|+++.|.+.|.+..-
T Consensus       478 ~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~  517 (611)
T KOG1173|consen  478 YQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALA  517 (611)
T ss_pred             HHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999998764

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

Probab=99.56  E-value=1.2e-11  Score=123.69  Aligned_cols=486  Identities=14%  Similarity=0.041  Sum_probs=269.7

Q ss_pred             eeccCCCCcchHhHHHHhhhcCCChHHHHHHhccCCCCC----cccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcc
Q 048179            2 IKTNLSAYGNSVGRIIALYGGKNDIVSARKLFEELPLRG----VDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSS   77 (589)
Q Consensus         2 ~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~   77 (589)
                      ..+|+.||-++|.++|.-|+..|+++.|- +|..|.-++    ...++.++.+..+.++.+.+.           .|-..
T Consensus        17 e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep~aD   84 (1088)
T KOG4318|consen   17 EISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EPLAD   84 (1088)
T ss_pred             HHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CCchh
Confidence            35799999999999999999999999998 888886433    345667777666666665544           56666


Q ss_pred             cHHHHHHHHhccCCHHH---HHHHHHHHHH----hCCCCChh--------------hHHHHHHHHHhCCChHHHHHHHHh
Q 048179           78 TFTVALKACVSLMDLKM---GEEIWRKAVE----LGYGNDVF--------------VGSSMLNLYVKCGKMNEAMVAFEK  136 (589)
Q Consensus        78 ~~~~ll~~~~~~~~~~~---a~~~~~~~~~----~g~~~~~~--------------~~~~li~~~~~~g~~~~A~~~~~~  136 (589)
                      ||..++.+|.+.||+..   .++.+..+..    .|......              .-...+......|.++.+.+++..
T Consensus        85 tyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~  164 (1088)
T KOG4318|consen   85 TYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAK  164 (1088)
T ss_pred             HHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhh
Confidence            77777777777776543   2221222111    12110000              001122222223333333333322


Q ss_pred             cC---------------------------------C-CCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHH
Q 048179          137 MQ---------------------------------R-KDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMG  182 (589)
Q Consensus       137 ~~---------------------------------~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~  182 (589)
                      ++                                 + ++..+|..++..-..+|+.+.|..++.+|++.|++.+.+-|..
T Consensus       165 ~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwp  244 (1088)
T KOG4318|consen  165 VPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWP  244 (1088)
T ss_pred             CCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchh
Confidence            22                                 2 5667788888888888899999999999999888888888888


Q ss_pred             HHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCC-----
Q 048179          183 LIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNG-----  257 (589)
Q Consensus       183 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g-----  257 (589)
                      ++.+   .++...++.++.-|...|+.|+..++...+..+...|....+....     +....+++-...-+-.|     
T Consensus       245 Ll~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~s-----q~~hg~tAavrsaa~rg~~a~k  316 (1088)
T KOG4318|consen  245 LLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGS-----QLAHGFTAAVRSAACRGLLANK  316 (1088)
T ss_pred             hhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhccccc-----chhhhhhHHHHHHHhcccHhHH
Confidence            7766   7778888888888888888888888887777776655533222211     11222222222222222     


Q ss_pred             Chh-----HHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHh----hcCCCChhHHHHHHHHhHhcCCH
Q 048179          258 LAG-----STLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTV----RRFDFNLVLGTSVIDMYSKCGVP  328 (589)
Q Consensus       258 ~~~-----~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~l~~~~~~~g~~  328 (589)
                      +.+     -....+++..-.|+......| ++..-....|.-+...++-..+.    +..+.++..+..++.-|.+.-+.
T Consensus       317 ~l~~nl~~~v~~s~k~~fLlg~d~~~aiw-s~c~~l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrqyFrr~e~  395 (1088)
T KOG4318|consen  317 RLRQNLRKSVIGSTKKLFLLGTDILEAIW-SMCEKLRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQYFRRIER  395 (1088)
T ss_pred             HHHHHHHHHHHHHhhHHHHhccccchHHH-HHHHHHHHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHHHHHHHHh
Confidence            111     112222222223433333223 22222334666777777766665    22223344444444444332111


Q ss_pred             HHHHHHHH--hcCCCC--hhHHHHHHHHHHhcCCHHHHHHHHHHHHH----cCCCC-------CHHHHHHHHHHHhcCCc
Q 048179          329 SCARALFD--QMQSRD--LISWNVIIASYGIHGHGEEALSLFLQMIE----TMVKP-------DHSTFASLLSALSHSGL  393 (589)
Q Consensus       329 ~~A~~~~~--~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~~~~p-------~~~t~~~ll~a~~~~g~  393 (589)
                      .-...++.  +....+  +..-..++. ++..-+...+++-+..+..    ....|       -...-+.++..|++.-+
T Consensus       396 ~~~~~i~~~~qgls~~l~se~tp~vse-ll~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~n  474 (1088)
T KOG4318|consen  396 HICSRIYYAGQGLSLNLNSEDTPRVSE-LLENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEYN  474 (1088)
T ss_pred             hHHHHHHHHHHHHHhhhchhhhHHHHH-HHHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHH
Confidence            11111110  000000  000000111 1111111112111111110    00111       11123444555555555


Q ss_pred             HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCC-----CChhHHHHHHHHHHhcCCchHHHHH
Q 048179          394 VEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTE-----PGLAVWVALLSGCHNHKKFSIGEKV  468 (589)
Q Consensus       394 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----p~~~~~~~l~~~~~~~~~~~~a~~~  468 (589)
                      ..++...-+..... -+   ...|..|++.+......+.|..+.++...+     -|..-+..+.....+.+....+..+
T Consensus       475 ~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  475 KLKILCDEEKYEDL-LF---AGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTI  550 (1088)
T ss_pred             HHHHHHHHHHHHHH-Hh---hhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHH
Confidence            55555433333221 22   257889999999999999999999887432     3455677788888888888888888


Q ss_pred             HHHHhcc---CCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCcc
Q 048179          469 AKKVLKL---NPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKK  513 (589)
Q Consensus       469 ~~~~~~~---~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~  513 (589)
                      +++..+.   .|........+.+.-...|+.+...++.+-+...|+..
T Consensus       551 L~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e  598 (1088)
T KOG4318|consen  551 LYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE  598 (1088)
T ss_pred             HhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh
Confidence            8887753   34444555666677778899999999988888888765

>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=9.7e-11  Score=109.11  Aligned_cols=326  Identities=11%  Similarity=0.047  Sum_probs=222.8

Q ss_pred             CChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCee-hHHHHHHHH
Q 048179          175 ADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIV-TWGALISGF  253 (589)
Q Consensus       175 p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~li~~~  253 (589)
                      -|...+........+.|..+.|...+...+..-    +..|.+-+....-..+.+.+..+.......+.. .--.+..++
T Consensus       162 ~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~----P~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~  237 (559)
T KOG1155|consen  162 KDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRY----PWFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLKKAY  237 (559)
T ss_pred             chhHHHHHHHHHHHhhchHHHHHHHHHHHHhcC----CcchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHHHHH
Confidence            344433334444556677777777766665331    223333333222333444444433333322111 111233456


Q ss_pred             HhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCC---ChhHHHHHHHHhHhcCCHH-
Q 048179          254 AQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDF---NLVLGTSVIDMYSKCGVPS-  329 (589)
Q Consensus       254 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~-  329 (589)
                      ....+.++++.-.......|++.+...-+....+.-...++++|+.+|+.+.+..|-   |..+|+.++-.-..+.++. 
T Consensus       238 ~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~  317 (559)
T KOG1155|consen  238 QELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSY  317 (559)
T ss_pred             HHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHH
Confidence            666677888888888888776665555555555566778888999999888855443   4455554442222222221 


Q ss_pred             HHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcC
Q 048179          330 CARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYK  409 (589)
Q Consensus       330 ~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  409 (589)
                      -|..++ .+-+--+.|...+.+-|.-.++.++|...|++.++.+ +-....|+.+..-|....+...|.+.++.+.+  -
T Consensus       318 LA~~v~-~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd--i  393 (559)
T KOG1155|consen  318 LAQNVS-NIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVD--I  393 (559)
T ss_pred             HHHHHH-HhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHh--c
Confidence            122222 2222234455666777888889999999999998864 22345777888889999999999999999986  3


Q ss_pred             CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHH
Q 048179          410 IQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVS  487 (589)
Q Consensus       410 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  487 (589)
                      .+.|-..|-.|..+|.-.+...-|+-.|++.. .+| |...|.+|+.+|.+.++.++|+..|++++..+.-+..++..|+
T Consensus       394 ~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~La  473 (559)
T KOG1155|consen  394 NPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLA  473 (559)
T ss_pred             CchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHH
Confidence            45568889999999999999999999999974 344 7889999999999999999999999999998887889999999


Q ss_pred             HHHHhCCChHHHHHHHHHHHh
Q 048179          488 NFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       488 ~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ++|.+.++.++|...+++-.+
T Consensus       474 kLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  474 KLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHhHHHHHHHHHHHHH
Confidence            999999999999999887765

>TIGR00540 hemY_coli hemY protein

Probab=99.54  E-value=2.2e-11  Score=121.27  Aligned_cols=289  Identities=10%  Similarity=0.025  Sum_probs=156.3

Q ss_pred             hCCCccHHHHHHHHHHHCCCCCChh-hHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHH
Q 048179          154 FNGQPREAVDAYKRMKKEGIDADEV-VMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLAS  232 (589)
Q Consensus       154 ~~g~~~~A~~~~~~m~~~~~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  232 (589)
                      ..|+++.|.+.+.+..+.  .|+.. .+.....+....|+.+.+.+++....+....+...+.......+...|+++.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            578888888888776554  34433 233345566677888888888888776543333344555677778888888888


Q ss_pred             HHHhhcCC--C-CeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCC
Q 048179          233 HVFKNMSR--I-NIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFD  309 (589)
Q Consensus       233 ~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  309 (589)
                      ..++.+.+  | +...+..+...+.+.|++++|.+.+..+.+.++.+ ...+..+-.                       
T Consensus       174 ~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~-~~~~~~l~~-----------------------  229 (409)
T TIGR00540       174 HGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFD-DEEFADLEQ-----------------------  229 (409)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCC-HHHHHHHHH-----------------------
Confidence            88888765  2 44567778888888888888888888888876332 222211100                       


Q ss_pred             CChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHH--H-HH
Q 048179          310 FNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHST--F-AS  383 (589)
Q Consensus       310 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t--~-~~  383 (589)
                         ..+..++..-......+...+.++..++   .+...+..+...+...|+.++|.+++++..+..  ||...  + ..
T Consensus       230 ---~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l  304 (409)
T TIGR00540       230 ---KAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLC  304 (409)
T ss_pred             ---HHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHH
Confidence               0001111111111223333444444442   356666667777777777777777777776643  33221  0 11


Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHh--c-CCCCChhHHHHHHHHHHhcC
Q 048179          384 LLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDS--M-STEPGLAVWVALLSGCHNHK  460 (589)
Q Consensus       384 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~--~-~~~p~~~~~~~l~~~~~~~~  460 (589)
                      ........++.+.+.+.++...+...-.|+.....++...+.+.|++++|.+.|+.  . ...|+...+..+...+.+.|
T Consensus       305 ~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g  384 (409)
T TIGR00540       305 LPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAG  384 (409)
T ss_pred             HHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcC
Confidence            11112223455555555555443211111113334455555555555555555552  1 22344444444444455555


Q ss_pred             CchHHHHHHHHHh
Q 048179          461 KFSIGEKVAKKVL  473 (589)
Q Consensus       461 ~~~~a~~~~~~~~  473 (589)
                      +.++|.+++++.+
T Consensus       385 ~~~~A~~~~~~~l  397 (409)
T TIGR00540       385 DKAEAAAMRQDSL  397 (409)
T ss_pred             CHHHHHHHHHHHH
Confidence            5555555554443

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.

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

Probab=99.54  E-value=7.9e-11  Score=109.67  Aligned_cols=354  Identities=13%  Similarity=0.166  Sum_probs=246.1

Q ss_pred             CCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHH--HH
Q 048179          106 GYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMM--GL  183 (589)
Q Consensus       106 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~--~l  183 (589)
                      +...|.+.+-.....+-+.|....|++.|......-+..|.+.+....-.-+.+.+    ..... |...|...+.  .+
T Consensus       159 ~~~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~----~~l~~-~l~~~~h~M~~~F~  233 (559)
T KOG1155|consen  159 GGEKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEIL----SILVV-GLPSDMHWMKKFFL  233 (559)
T ss_pred             cccchhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHH----HHHHh-cCcccchHHHHHHH
Confidence            33455555555555666778888898888887764445555544433222222222    22221 1222222222  23


Q ss_pred             HHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCC------eehHHHHHHHHHhCC
Q 048179          184 IQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRIN------IVTWGALISGFAQNG  257 (589)
Q Consensus       184 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~g  257 (589)
                      ..++-.....+++.+-.......|++.+...-+-...+.-...++++|+.+|+++.+.|      ..+|+..+  |.++.
T Consensus       234 ~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~L--Yv~~~  311 (559)
T KOG1155|consen  234 KKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVL--YVKND  311 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHH--HHHhh
Confidence            44555666778888888888888887777777777777778889999999999998744      34565554  34443


Q ss_pred             ChhHHHHHHHHHH--hcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHH
Q 048179          258 LAGSTLELLMEMQ--SCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALF  335 (589)
Q Consensus       258 ~~~~a~~~~~~m~--~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  335 (589)
                      +.  .+..+.+-.  -...+|.  |                                  +..+.+-|+-.++.++|...|
T Consensus       312 ~s--kLs~LA~~v~~idKyR~E--T----------------------------------CCiIaNYYSlr~eHEKAv~YF  353 (559)
T KOG1155|consen  312 KS--KLSYLAQNVSNIDKYRPE--T----------------------------------CCIIANYYSLRSEHEKAVMYF  353 (559)
T ss_pred             hH--HHHHHHHHHHHhccCCcc--c----------------------------------eeeehhHHHHHHhHHHHHHHH
Confidence            32  222222221  1223443  2                                  234455666677788888888


Q ss_pred             HhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC
Q 048179          336 DQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQP  412 (589)
Q Consensus       336 ~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p  412 (589)
                      ++..+   .....|+.|..-|...++...|++-+++.++-. +.|-..|-.|..+|.-.++..-|+-+|+++..  -.+-
T Consensus       354 kRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~--~kPn  430 (559)
T KOG1155|consen  354 KRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALE--LKPN  430 (559)
T ss_pred             HHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHh--cCCC
Confidence            88765   334678888889999999999999999988864 55778899999999999999999999999874  3344


Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHHHHhc-------cCCCCchhH
Q 048179          413 TEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLK-------LNPDDLGIH  483 (589)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~~p~~~~~~  483 (589)
                      |...|.+|.++|.+.++.++|++-|.+.-.  +.+...+..|...+-+.++.++|.+.+++-++       .+|+...+.
T Consensus       431 DsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~  510 (559)
T KOG1155|consen  431 DSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKAR  510 (559)
T ss_pred             chHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHH
Confidence            588999999999999999999999988733  34557888999999999999999999988886       445556666


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHH
Q 048179          484 ALVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       484 ~~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      ..|+.-+.+.++|++|..+.....
T Consensus       511 ~fLA~~f~k~~~~~~As~Ya~~~~  534 (559)
T KOG1155|consen  511 LFLAEYFKKMKDFDEASYYATLVL  534 (559)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHh
Confidence            678888999999999988776654

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

Probab=99.52  E-value=1.1e-13  Score=130.93  Aligned_cols=253  Identities=14%  Similarity=0.060  Sum_probs=59.1

Q ss_pred             HHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHH-HHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCC
Q 048179          149 INGLVFNGQPREAVDAYKRMKKEGIDADEVVMMG-LIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGH  227 (589)
Q Consensus       149 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  227 (589)
                      ...+.+.|++++|++++.+-.....+|+...|.. +...+...++++.|+..++.+...+.. ++..+..++.. ...++
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            3344445555555555543332221222222222 222333344555555555555444322 33344444444 45556


Q ss_pred             HHHHHHHHhhcCC--CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcC-CCCCHHHHHHHHHHHhccCchhhHHHHHHHH
Q 048179          228 LDLASHVFKNMSR--INIVTWGALISGFAQNGLAGSTLELLMEMQSCG-FEPDSVSLVSALLACAQIGFLKLGKSIHGYT  304 (589)
Q Consensus       228 ~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  304 (589)
                      +++|.++++..-+  ++...+...+..+.+.++++++..+++...... .+++...|......+.+.|+.+.|...++.+
T Consensus        93 ~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~a  172 (280)
T PF13429_consen   93 PEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKA  172 (280)
T ss_dssp             -------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            6666555544422  344445555555666666666666666654322 1223333433444444444444444444444


Q ss_pred             hhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcC---CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 048179          305 VRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQ---SRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTF  381 (589)
Q Consensus       305 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~  381 (589)
                      ....|.+..+.+.++..+...|+.+++.+++....   ..|...|..+..++...|+.++|+..|++..+.. +.|+.+.
T Consensus       173 l~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~  251 (280)
T PF13429_consen  173 LELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWL  251 (280)
T ss_dssp             HHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccc-ccccccc
Confidence            44344444444444444444444444433333322   1233444444445555555555555555544432 2234444


Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHH
Q 048179          382 ASLLSALSHSGLVEEGRYWFDLM  404 (589)
Q Consensus       382 ~~ll~a~~~~g~~~~a~~~~~~~  404 (589)
                      ..+..++...|+.++|.++..++
T Consensus       252 ~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  252 LAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HHHHHHHT---------------
T ss_pred             ccccccccccccccccccccccc
Confidence            44445555555555554444443

>TIGR00540 hemY_coli hemY protein

Probab=99.49  E-value=4.1e-11  Score=119.32  Aligned_cols=279  Identities=11%  Similarity=0.007  Sum_probs=182.1

Q ss_pred             hcCCHHHHHHHHhhcCC--CCe-ehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHH--HHHHHHHHHhccCchhhHH
Q 048179          224 KTGHLDLASHVFKNMSR--INI-VTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSV--SLVSALLACAQIGFLKLGK  298 (589)
Q Consensus       224 ~~g~~~~A~~~~~~~~~--~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~~~~~~a~  298 (589)
                      ..|+++.|.+.+.+..+  ++. ..+-....+..+.|+++.|.+.+.+..+.  .|+..  .-..........|+.+.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~--~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAEL--AGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            35666666666655543  221 12223334555666667776666666543  23332  2222355556666677776


Q ss_pred             HHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCC---ChhHHH----HHHHHHHhcCCHHHHHHHHHHHHH
Q 048179          299 SIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSR---DLISWN----VIIASYGIHGHGEEALSLFLQMIE  371 (589)
Q Consensus       299 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~----~li~~~~~~g~~~~A~~~~~~m~~  371 (589)
                      ..++.+....|.++.+...+...|...|+++.|.+.+..+.+.   +...+.    ....+....+..+++.+.+.++.+
T Consensus       174 ~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~  253 (409)
T TIGR00540       174 HGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWK  253 (409)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            6666666555667777788888888888888888888887742   222221    111122333333444445555555


Q ss_pred             cCC---CCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhh-HHHHHHH--HHHcCCHHHHHHHHHhcC-CCC
Q 048179          372 TMV---KPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKH-YACMVDL--LARAGEVEEALKIVDSMS-TEP  444 (589)
Q Consensus       372 ~~~---~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~-~~~l~~~--~~~~g~~~~A~~~~~~~~-~~p  444 (589)
                      ...   +.+...+..+...+...|+.++|.+.+++..+.   .|+... ...++..  ....++.+.+.+.+++.. ..|
T Consensus       254 ~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~---~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p  330 (409)
T TIGR00540       254 NQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK---LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVD  330 (409)
T ss_pred             HCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh---CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCC
Confidence            422   136778888889999999999999999999864   244321 1012222  234578888888888763 345


Q ss_pred             Ch---hHHHHHHHHHHhcCCchHHHHHHH--HHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          445 GL---AVWVALLSGCHNHKKFSIGEKVAK--KVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       445 ~~---~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      +.   ....++...|.+.|++++|.+.|+  .+++..|++.. +..++.++.+.|+.++|.+++++...
T Consensus       331 ~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~-~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       331 DKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDAND-LAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             CChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHH-HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44   566789999999999999999999  57778886554 66999999999999999999998643

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.

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

Probab=99.49  E-value=5.7e-10  Score=110.60  Aligned_cols=456  Identities=15%  Similarity=0.071  Sum_probs=298.9

Q ss_pred             cCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHh---ccCCHHHH-------------------HH----HHHHHHHhC
Q 048179           53 RKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACV---SLMDLKMG-------------------EE----IWRKAVELG  106 (589)
Q Consensus        53 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~---~~~~~~~a-------------------~~----~~~~~~~~g  106 (589)
                      ..++++.++.-+.....++...+..++..+...+.   ..++.+++                   ..    .+.++....
T Consensus       239 ~~~~~~~~i~s~~~~l~~~w~~~~l~ka~l~~~~~~f~~~~~~Ee~~Lllli~es~i~Re~~~d~ilslm~~~~k~r~~~  318 (799)
T KOG4162|consen  239 KLSGPKEAIKSYRRALLRSWSLDPLTKARLYKGFALFLPKSGQEEVILLLLIEESLIPRENIEDAILSLMLLLRKLRLKK  318 (799)
T ss_pred             CCCCchHHHHhhhHHhhcccccchhHHHHHhhcccccCCCCcHHHHHHHHHHHhhccccccHHHHHHHHHHHHHHHHHhh
Confidence            34666777777777666665555555554433322   22333333                   21    122222334


Q ss_pred             CCCChhhHHHHHHHHHhCCChHHHHHHHHhcCC---CCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHH
Q 048179          107 YGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR---KDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGL  183 (589)
Q Consensus       107 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~l  183 (589)
                      +..|..+|..|.-+..++|+++.+.+.|++...   .....|+.+...|...|.-..|+.+++.-......|+..+...+
T Consensus       319 ~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lm  398 (799)
T KOG4162|consen  319 FQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLM  398 (799)
T ss_pred             hcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHH
Confidence            567889999999999999999999999998764   35568999999999999999999999887655434544443333


Q ss_pred             -HHHHH-ccCCcHHHHHHHHHHHHh--cC--CCchHHHHHHHHHHHhc-----------CCHHHHHHHHhhcCC---CCe
Q 048179          184 -IQACA-DLGDSRFGLSVHGYSIRR--HL--NLDVKVQTSLVDMYAKT-----------GHLDLASHVFKNMSR---INI  243 (589)
Q Consensus       184 -l~~~~-~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~l~~~~~~~-----------g~~~~A~~~~~~~~~---~~~  243 (589)
                       -..|. +.+..+++..+-..++..  +.  ......+..+.-+|...           ....++...+++..+   .|+
T Consensus       399 asklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~dp  478 (799)
T KOG4162|consen  399 ASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTDP  478 (799)
T ss_pred             HHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCCc
Confidence             33443 457777777777777662  11  22344555555555432           123455666666643   234


Q ss_pred             ehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhH
Q 048179          244 VTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYS  323 (589)
Q Consensus       244 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  323 (589)
                      .+...+.--|+..++.+.|++..++..+.+-.-+...+..+.-.+...+++..|..+.+.....++.|-.....-+..-.
T Consensus       479 ~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~i~~  558 (799)
T KOG4162|consen  479 LVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIHIEL  558 (799)
T ss_pred             hHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhhhhh
Confidence            33334445577888999999999999988667788888888888899999999999988888554444333333333333


Q ss_pred             hcCCHHHHHHHHHhcCC-----CChh-------HHHHHHHHHHhcCCHHHHHHHHHH-----------------HHHcCC
Q 048179          324 KCGVPSCARALFDQMQS-----RDLI-------SWNVIIASYGIHGHGEEALSLFLQ-----------------MIETMV  374 (589)
Q Consensus       324 ~~g~~~~A~~~~~~~~~-----~~~~-------~~~~li~~~~~~g~~~~A~~~~~~-----------------m~~~~~  374 (589)
                      .-++.++|..+...+..     +.+.       .-..-.......++..+|.+..++                 |...-+
T Consensus       559 ~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~  638 (799)
T KOG4162|consen  559 TFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSSTV  638 (799)
T ss_pred             hcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCcccc
Confidence            45566665554443321     0000       000000000001111122211111                 111112


Q ss_pred             C--CCH------HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCCC
Q 048179          375 K--PDH------STFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM-STEPG  445 (589)
Q Consensus       375 ~--p~~------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~  445 (589)
                      .  |+.      ..+......+...+..++|...+.++..  ..+-....|.-....+...|.+++|.+.|... ...|+
T Consensus       639 ~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP~  716 (799)
T KOG4162|consen  639 LPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALDPD  716 (799)
T ss_pred             cCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCCC
Confidence            2  221      1234455667888999999988888875  33444677777888999999999999988876 44564


Q ss_pred             -hhHHHHHHHHHHhcCCchHHHH--HHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          446 -LAVWVALLSGCHNHKKFSIGEK--VAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       446 -~~~~~~l~~~~~~~~~~~~a~~--~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                       +.+..++...+...|+...|..  ++..+++++|.++.+|..+|.++.+.|+.++|.+.|....+..
T Consensus       717 hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe  784 (799)
T KOG4162|consen  717 HVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLE  784 (799)
T ss_pred             CcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhc
Confidence             6688999999999999999988  9999999999999999999999999999999999999987643

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

Probab=99.45  E-value=2.2e-10  Score=107.51  Aligned_cols=222  Identities=14%  Similarity=0.102  Sum_probs=155.9

Q ss_pred             HHhHhcCCHHHHHHHHHhcCC--C-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHH
Q 048179          320 DMYSKCGVPSCARALFDQMQS--R-DLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEE  396 (589)
Q Consensus       320 ~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~  396 (589)
                      ..+.-+|+.-.|..-|+...+  | +...|--+...|+...+.++....|.+..+.+ +-|+.+|..-.....-.+++++
T Consensus       334 tF~fL~g~~~~a~~d~~~~I~l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~  412 (606)
T KOG0547|consen  334 TFHFLKGDSLGAQEDFDAAIKLDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEE  412 (606)
T ss_pred             hhhhhcCCchhhhhhHHHHHhcCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHH
Confidence            345567888888888887764  2 23336667778888888888888888887764 3345566665666666678888


Q ss_pred             HHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhcCCC-C-ChhHHHHHHHHHHhcCCchHHHHHHHHHh
Q 048179          397 GRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSMSTE-P-GLAVWVALLSGCHNHKKFSIGEKVAKKVL  473 (589)
Q Consensus       397 a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  473 (589)
                      |..=|++.++   +.|+ ...|-.+.-+..|.+++++++..|++...+ | -+.+|+.....+..+++++.|.+.|.+++
T Consensus       413 A~aDF~Kai~---L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai  489 (606)
T KOG0547|consen  413 AIADFQKAIS---LDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKKFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAI  489 (606)
T ss_pred             HHHHHHHHhh---cChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHH
Confidence            8888888874   4444 566667777777888888888888887433 4 45677777888888888899999999888


Q ss_pred             ccCCC------CchhHHHHHHHHH-hCCChHHHHHHHHHHHhCCCccCCceeEEEECCEEEEEEecCCCCCChHHHHHHH
Q 048179          474 KLNPD------DLGIHALVSNFFA-MEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVL  546 (589)
Q Consensus       474 ~~~p~------~~~~~~~l~~~~~-~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~~  546 (589)
                      ++.|.      ++..++.-+.+.. -.+++..|.++++++.+                          ..|+.+..|..+
T Consensus       490 ~LE~~~~~~~v~~~plV~Ka~l~~qwk~d~~~a~~Ll~KA~e--------------------------~Dpkce~A~~tl  543 (606)
T KOG0547|consen  490 ELEPREHLIIVNAAPLVHKALLVLQWKEDINQAENLLRKAIE--------------------------LDPKCEQAYETL  543 (606)
T ss_pred             hhccccccccccchhhhhhhHhhhchhhhHHHHHHHHHHHHc--------------------------cCchHHHHHHHH
Confidence            88888      6666665444433 24778888888887775                          345667777777


Q ss_pred             HHHHHHHHhcCCcccCCCCcccccccchhhhhhcc
Q 048179          547 KKLYLEMRAISSWLQGHMEEHEEHDPLSTAAQYAP  581 (589)
Q Consensus       547 ~~l~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~  581 (589)
                      ..+.-.+.          .+..+.++|+..++||-
T Consensus       544 aq~~lQ~~----------~i~eAielFEksa~lAr  568 (606)
T KOG0547|consen  544 AQFELQRG----------KIDEAIELFEKSAQLAR  568 (606)
T ss_pred             HHHHHHHh----------hHHHHHHHHHHHHHHHH
Confidence            66665544          34455566666666653

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.43  E-value=4.6e-11  Score=110.07  Aligned_cols=197  Identities=11%  Similarity=0.058  Sum_probs=164.5

Q ss_pred             ChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048179          311 NLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSA  387 (589)
Q Consensus       311 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a  387 (589)
                      ....+..+...|...|++++|...|++..+   .+...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            345667788889999999999999987754   345678888889999999999999999998864 3455677788888


Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CC-ChhHHHHHHHHHHhcCCchHH
Q 048179          388 LSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-EP-GLAVWVALLSGCHNHKKFSIG  465 (589)
Q Consensus       388 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~~~~~~a  465 (589)
                      +...|++++|...++.+......+.....+..+...+...|++++|.+.+++... .| +...+..+...+...|++++|
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999999986422233456777888999999999999999998732 34 456788888899999999999


Q ss_pred             HHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          466 EKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       466 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ...++++++..|+++..+..++.++...|++++|..+.+.+..
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       189 RAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            9999999999898889999999999999999999999888764

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.

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

Probab=99.43  E-value=8.1e-10  Score=105.75  Aligned_cols=418  Identities=11%  Similarity=0.040  Sum_probs=230.4

Q ss_pred             CCCCcchHhHHHHhhhcCCChHHHHHHhc--cCCCCCcccHHHHHHHHHcCCCchhHHHHHH----HHHHC---------
Q 048179            6 LSAYGNSVGRIIALYGGKNDIVSARKLFE--ELPLRGVDTYNSIIIAYSRKESPFEVLGLYN----QMIKE---------   70 (589)
Q Consensus         6 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~--~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~----~m~~~---------   70 (589)
                      +..|+.-.--+.++|.-.|+.+.|..+..  .+...|..+.......+.+..+|++|..++.    .+...         
T Consensus        45 l~~dp~d~~~~aq~l~~~~~y~ra~~lit~~~le~~d~~cryL~~~~l~~lk~~~~al~vl~~~~~~~~~f~yy~~~~~~  124 (611)
T KOG1173|consen   45 LTNDPADIYWLAQVLYLGRQYERAAHLITTYKLEKRDIACRYLAAKCLVKLKEWDQALLVLGRGHVETNPFSYYEKDAAN  124 (611)
T ss_pred             ccCChHHHHHHHHHHHhhhHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhcccchhhcchhhcchhhhc
Confidence            34455555556677777777777776664  3557788888888888888889999988887    22110         


Q ss_pred             CCCCCccc----HHHHH-------HHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhC---------------
Q 048179           71 DVRPDSST----FTVAL-------KACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKC---------------  124 (589)
Q Consensus        71 ~~~p~~~~----~~~ll-------~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~---------------  124 (589)
                      -+.+|..-    -+.-.       +.+....+.++|+..+.+++..    |...+.++...-...               
T Consensus       125 ~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~~----D~~c~Ea~~~lvs~~mlt~~Ee~~ll~~l~  200 (611)
T KOG1173|consen  125 TLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEALLA----DAKCFEAFEKLVSAHMLTAQEEFELLESLD  200 (611)
T ss_pred             eeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHHhc----chhhHHHHHHHHHHHhcchhHHHHHHhccc
Confidence            01111111    01111       1233345667777777766554    332222222111100               


Q ss_pred             -----C-ChHHHHHHHHhc----CC----------------CCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChh
Q 048179          125 -----G-KMNEAMVAFEKM----QR----------------KDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEV  178 (589)
Q Consensus       125 -----g-~~~~A~~~~~~~----~~----------------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  178 (589)
                           + +.+.-+.+|+-.    ..                .|+...-.-..-+...+++.+..++++...+. .++...
T Consensus       201 ~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~-dpfh~~  279 (611)
T KOG1173|consen  201 LAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDLLAEKADRLYYGCRFKECLKITEELLEK-DPFHLP  279 (611)
T ss_pred             HHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhh-CCCCcc
Confidence                 0 111111222211    00                12223333344455667777777777777665 234444


Q ss_pred             hHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCe---ehHHHHHHHHHh
Q 048179          179 VMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINI---VTWGALISGFAQ  255 (589)
Q Consensus       179 t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~  255 (589)
                      .+..-|.++...|+...-..+-..+++.- +..+.+|-++.--|.-.|+..+|++.|.+...-|.   ..|-.+..+|+-
T Consensus       280 ~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~  358 (611)
T KOG1173|consen  280 CLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAG  358 (611)
T ss_pred             hHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhh
Confidence            44444556666666655555555555443 33566777777777777788888888777655333   467777777777


Q ss_pred             CCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHH
Q 048179          256 NGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALF  335 (589)
Q Consensus       256 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  335 (589)
                      .|..|+|+..+...-+.- +-....+.-+.--|...++...|..++..+....|.|+.+.+-+.-.....+.+.+|...|
T Consensus       359 e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai~P~Dplv~~Elgvvay~~~~y~~A~~~f  437 (611)
T KOG1173|consen  359 EGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAIAPSDPLVLHELGVVAYTYEEYPEALKYF  437 (611)
T ss_pred             cchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhccHHHHHHHHHHHHhcCCCcchhhhhhhheeehHhhhHHHHHHH
Confidence            777777777776654431 1111112223333566667777777777777666666666666666666666666666666


Q ss_pred             HhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChh
Q 048179          336 DQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEK  415 (589)
Q Consensus       336 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~  415 (589)
                      +....                        ..+..... ..--..+++.|..+|.+.+.+++|+..|+....  -.+-+..
T Consensus       438 ~~~l~------------------------~ik~~~~e-~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~--l~~k~~~  490 (611)
T KOG1173|consen  438 QKALE------------------------VIKSVLNE-KIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALL--LSPKDAS  490 (611)
T ss_pred             HHHHH------------------------Hhhhcccc-ccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHH--cCCCchh
Confidence            54331                        00000000 001233556666666666666666666666654  3344556


Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhc-CCCCChhHHHHHHHHHH
Q 048179          416 HYACMVDLLARAGEVEEALKIVDSM-STEPGLAVWVALLSGCH  457 (589)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~  457 (589)
                      ++.++.-.|...|+++.|.+.|.+. ..+|+..+-..++..+.
T Consensus       491 ~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  491 THASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLAI  533 (611)
T ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHHH
Confidence            6666666666666666666666654 33566555555555443

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

Probab=99.42  E-value=7.6e-10  Score=98.63  Aligned_cols=299  Identities=14%  Similarity=0.147  Sum_probs=162.9

Q ss_pred             hCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCC---chHHHHHHHHHHHhcCCHHH
Q 048179          154 FNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNL---DVKVQTSLVDMYAKTGHLDL  230 (589)
Q Consensus       154 ~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~  230 (589)
                      -+.++++|.++|-+|.+.. +-+..+-.++.+.+.+.|..+.|+.+|..+.++.--+   -......|..-|...|-+|.
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            3567788888888887741 1122334456667777777777777777766543111   12334456667777888888


Q ss_pred             HHHHHhhcCCCCe---ehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhc
Q 048179          231 ASHVFKNMSRINI---VTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRR  307 (589)
Q Consensus       231 A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  307 (589)
                      |+.+|..+.+.+.   .+...|+..|-+..+|++|++.-.++...+-.+..+-.                          
T Consensus       126 AE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eI--------------------------  179 (389)
T COG2956         126 AEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEI--------------------------  179 (389)
T ss_pred             HHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHH--------------------------
Confidence            8888887776333   34556777788888888888877777766544432211                          


Q ss_pred             CCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCC---hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 048179          308 FDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRD---LISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASL  384 (589)
Q Consensus       308 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~l  384 (589)
                          ...|.-|...+....+.+.|..++.+..+.|   +..--.+...+...|++..|++.++...+.+..--+.+...|
T Consensus       180 ----AqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L  255 (389)
T COG2956         180 ----AQFYCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEML  255 (389)
T ss_pred             ----HHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHH
Confidence                1112333334444455555666665554322   122222334555566666666666665555332223345555


Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHH-HhcCCCCChhHHHHHHHHHHhcCCch
Q 048179          385 LSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIV-DSMSTEPGLAVWVALLSGCHNHKKFS  463 (589)
Q Consensus       385 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~-~~~~~~p~~~~~~~l~~~~~~~~~~~  463 (589)
                      ..+|.+.|+.+++..++..+.+.   .+....-..+.+......-.+.|...+ +.+..+|+...+..|+..-...    
T Consensus       256 ~~~Y~~lg~~~~~~~fL~~~~~~---~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l~d----  328 (389)
T COG2956         256 YECYAQLGKPAEGLNFLRRAMET---NTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHLAD----  328 (389)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHc---cCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhhcc----
Confidence            55666666666666666555543   233333333444433333334443333 2234445555444444432211    


Q ss_pred             HHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCce
Q 048179          464 IGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGY  517 (589)
Q Consensus       464 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~  517 (589)
                                                 +..|++.+.+.+++.|....++..|.+
T Consensus       329 ---------------------------aeeg~~k~sL~~lr~mvge~l~~~~~Y  355 (389)
T COG2956         329 ---------------------------AEEGRAKESLDLLRDMVGEQLRRKPRY  355 (389)
T ss_pred             ---------------------------ccccchhhhHHHHHHHHHHHHhhcCCc
Confidence                                       123446666777777776666665653

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

Probab=99.42  E-value=2e-08  Score=97.67  Aligned_cols=488  Identities=10%  Similarity=0.086  Sum_probs=286.1

Q ss_pred             cchHhHHHHhhhcCCChHHHHHHhccCC-----CCCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHH
Q 048179           10 GNSVGRIIALYGGKNDIVSARKLFEELP-----LRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALK   84 (589)
Q Consensus        10 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~   84 (589)
                      +.+|-..+....++|++..-+..|+...     ......|...+.-....+-++-++.+|+..++-    ++..-...+.
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            4567777777888888888888887642     234557888888888888889999999888764    3334566677


Q ss_pred             HHhccCCHHHHHHHHHHHHHhC------CCCChhhHHHHHHHHHhCCCh---HHHHHHHHhcCCC--C--cchHHHHHHH
Q 048179           85 ACVSLMDLKMGEEIWRKAVELG------YGNDVFVGSSMLNLYVKCGKM---NEAMVAFEKMQRK--D--LVCWSSMING  151 (589)
Q Consensus        85 ~~~~~~~~~~a~~~~~~~~~~g------~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~--~--~~~~~~li~~  151 (589)
                      .++..+++++|.+.+..++...      .+.+...|.-+.+..++.-+.   -....+++.+..+  |  -..|++|...
T Consensus       178 ~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdY  257 (835)
T KOG2047|consen  178 YLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADY  257 (835)
T ss_pred             HHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHH
Confidence            7788889999988888876431      244556777777766655332   2334455555542  2  3479999999


Q ss_pred             HHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCC----------------------cHHHHHHHHHHHHhcC-
Q 048179          152 LVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGD----------------------SRFGLSVHGYSIRRHL-  208 (589)
Q Consensus       152 ~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~----------------------~~~a~~~~~~~~~~~~-  208 (589)
                      |.+.|.+++|.++|++-.+.-.  ...-|..+..+|+.-..                      ++....-++.+..... 
T Consensus       258 YIr~g~~ekarDvyeeai~~v~--tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~  335 (835)
T KOG2047|consen  258 YIRSGLFEKARDVYEEAIQTVM--TVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPL  335 (835)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhe--ehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccch
Confidence            9999999999999998776522  33334445544443211                      1111122222222110 


Q ss_pred             ----------CCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC---C------CeehHHHHHHHHHhCCChhHHHHHHHHH
Q 048179          209 ----------NLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR---I------NIVTWGALISGFAQNGLAGSTLELLMEM  269 (589)
Q Consensus       209 ----------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~------~~~~~~~li~~~~~~g~~~~a~~~~~~m  269 (589)
                                +.++..|..-+.  +..|+..+-...|.+..+   |      -...|-.+...|-..|+.+.|..+|.+.
T Consensus       336 ~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka  413 (835)
T KOG2047|consen  336 LLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKA  413 (835)
T ss_pred             HHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHh
Confidence                      111222222221  123444444444444322   1      1135777777777788888888888777


Q ss_pred             HhcCCCCCH----HHHHHHHHHHhccCchhhHHHHHHHHh-h--c---------CCC------ChhHHHHHHHHhHhcCC
Q 048179          270 QSCGFEPDS----VSLVSALLACAQIGFLKLGKSIHGYTV-R--R---------FDF------NLVLGTSVIDMYSKCGV  327 (589)
Q Consensus       270 ~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~-~--~---------~~~------~~~~~~~l~~~~~~~g~  327 (589)
                      .+... +..    .+|..-...-.+..+++.|..+.+.+. -  +         .++      +..+|..+++.--..|-
T Consensus       414 ~~V~y-~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gt  492 (835)
T KOG2047|consen  414 TKVPY-KTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGT  492 (835)
T ss_pred             hcCCc-cchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhcc
Confidence            65432 222    122222233334456666666666554 1  1         011      23345555555566777


Q ss_pred             HHHHHHHHHhcCCCChhHHHHH---HHHHHhcCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHH---hcCCcHHHHHHH
Q 048179          328 PSCARALFDQMQSRDLISWNVI---IASYGIHGHGEEALSLFLQMIETMVKPDHS-TFASLLSAL---SHSGLVEEGRYW  400 (589)
Q Consensus       328 ~~~A~~~~~~~~~~~~~~~~~l---i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~-t~~~ll~a~---~~~g~~~~a~~~  400 (589)
                      ++....+|+++.+--+.|=..+   ...+-.+.-++++.+++++-+..-..|+.. .|+..+.-+   ...-.++.|..+
T Consensus       493 festk~vYdriidLriaTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdL  572 (835)
T KOG2047|consen  493 FESTKAVYDRIIDLRIATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDL  572 (835)
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHH
Confidence            7777777777765222111111   112334555677777776654443345543 344333322   234568899999


Q ss_pred             HHHHHHhcCCCCCh--hhHHHHHHHHHHcCCHHHHHHHHHhcCCCCC----hhHHHHHHHHHHhcCCchHHHHHHHHHhc
Q 048179          401 FDLMVSKYKIQPTE--KHYACMVDLLARAGEVEEALKIVDSMSTEPG----LAVWVALLSGCHNHKKFSIGEKVAKKVLK  474 (589)
Q Consensus       401 ~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  474 (589)
                      |+++.+  +.+|..  ..|-.....=.+-|-...|+.++++......    ...|+..|.-....=-+.....+++++++
T Consensus       573 FEqaL~--~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe  650 (835)
T KOG2047|consen  573 FEQALD--GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIE  650 (835)
T ss_pred             HHHHHh--cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHH
Confidence            999987  776652  2233333444466888889999998754322    33566666543322234556788888888


Q ss_pred             cCCCCc--hhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          475 LNPDDL--GIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       475 ~~p~~~--~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      .-|++-  ......+++-.+.|..+.|..++.--.+
T Consensus       651 ~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq  686 (835)
T KOG2047|consen  651 SLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQ  686 (835)
T ss_pred             hCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhh
Confidence            777643  2344467777888888888888865544

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

Probab=99.41  E-value=8.2e-10  Score=101.52  Aligned_cols=286  Identities=10%  Similarity=0.038  Sum_probs=202.4

Q ss_pred             CCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHH
Q 048179          155 NGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHV  234 (589)
Q Consensus       155 ~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  234 (589)
                      .|++.+|.++..+-.+.+-.| ...|..-..+.-..|+.+.+-.++.++.+..-.++..+.-+........|+++.|..-
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            688888888888866654333 2345555666777888888888888888775566777788888888889999998887


Q ss_pred             HhhcCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCC
Q 048179          235 FKNMSR---INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFN  311 (589)
Q Consensus       235 ~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  311 (589)
                      .+++.+   .++........+|.+.|++.+...++..|.+.|.-.++..-..                           .
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~l---------------------------e  228 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARL---------------------------E  228 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHH---------------------------H
Confidence            776654   5667788888999999999999999999999886554321100                           1


Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048179          312 LVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSAL  388 (589)
Q Consensus       312 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~  388 (589)
                      ..+++.+++-....+..+.-...++..+.   .++..-.+++.-+.+.|+.++|.++..+..+.+..|+    ...+-.+
T Consensus       229 ~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~  304 (400)
T COG3071         229 QQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPR  304 (400)
T ss_pred             HHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhh
Confidence            11223333333333333333444455442   3455556666777778888888888888777776665    2233456


Q ss_pred             hcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCCChhHHHHHHHHHHhcCCchHHHH
Q 048179          389 SHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM-STEPGLAVWVALLSGCHNHKKFSIGEK  467 (589)
Q Consensus       389 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~  467 (589)
                      .+.++...-++..+.-.+.++..  +..+.+|...|.+.+.|.+|...|+.. ...|+...|.-+..++.+.|+.++|.+
T Consensus       305 l~~~d~~~l~k~~e~~l~~h~~~--p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~  382 (400)
T COG3071         305 LRPGDPEPLIKAAEKWLKQHPED--PLLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQ  382 (400)
T ss_pred             cCCCCchHHHHHHHHHHHhCCCC--hhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHH
Confidence            67777777777777776644443  467788888888888888888888875 456888888888888888888888888


Q ss_pred             HHHHHhc
Q 048179          468 VAKKVLK  474 (589)
Q Consensus       468 ~~~~~~~  474 (589)
                      +.++.+.
T Consensus       383 ~r~e~L~  389 (400)
T COG3071         383 VRREALL  389 (400)
T ss_pred             HHHHHHH
Confidence            8888874

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

Probab=99.40  E-value=4.6e-09  Score=96.67  Aligned_cols=309  Identities=12%  Similarity=-0.008  Sum_probs=217.0

Q ss_pred             CCCChhhHHHHHHHHHc--cCCcHHHHHHHHHHHHhc-CCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHH-
Q 048179          173 IDADEVVMMGLIQACAD--LGDSRFGLSVHGYSIRRH-LNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGA-  248 (589)
Q Consensus       173 ~~p~~~t~~~ll~~~~~--~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-  248 (589)
                      +.|...+....+.+++.  .++...+.+.+-.+.+.. ++.|+.....+...+...|+.++|+..|++....|+.+... 
T Consensus       190 ~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~M  269 (564)
T KOG1174|consen  190 VPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAM  269 (564)
T ss_pred             cCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhH
Confidence            34444555555555544  344444555544444433 56688899999999999999999999999877655443332 


Q ss_pred             --HHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcC
Q 048179          249 --LISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCG  326 (589)
Q Consensus       249 --li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  326 (589)
                        ..-.+.+.|++++...+...+.... .-+...|..-++..-...+.+.|..+-+..+...+.+...+-.-...+...|
T Consensus       270 D~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~  348 (564)
T KOG1174|consen  270 DLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALE  348 (564)
T ss_pred             HHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhcc
Confidence              2334567888888888777776532 1222233333344455667777777777776555556666655667777889


Q ss_pred             CHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH-HHHh-cCCcHHHHHHHH
Q 048179          327 VPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLL-SALS-HSGLVEEGRYWF  401 (589)
Q Consensus       327 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll-~a~~-~~g~~~~a~~~~  401 (589)
                      ++++|.--|+....   -+..+|..++.+|...|++.+|..+-+...+. ++.+..+...+. ..|. ....-++|.+++
T Consensus       349 R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~  427 (564)
T KOG1174|consen  349 RHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFA  427 (564)
T ss_pred             chHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHH
Confidence            99999988887653   36789999999999999999998877766554 344556665552 3333 334467888888


Q ss_pred             HHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCC
Q 048179          402 DLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSM-STEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD  479 (589)
Q Consensus       402 ~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  479 (589)
                      +...   .+.|+ ....+.+...+.+.|+.++++.++++. ...||....+.|.......+.+++|...|..+++++|++
T Consensus       428 ek~L---~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~  504 (564)
T KOG1174|consen  428 EKSL---KINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKS  504 (564)
T ss_pred             Hhhh---ccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccc
Confidence            8776   45666 566777888899999999999999886 446899899999999999999999999999999999987


Q ss_pred             chhHHHH
Q 048179          480 LGIHALV  486 (589)
Q Consensus       480 ~~~~~~l  486 (589)
                      ..+...|
T Consensus       505 ~~sl~Gl  511 (564)
T KOG1174|consen  505 KRTLRGL  511 (564)
T ss_pred             hHHHHHH
Confidence            6544433

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

Probab=99.39  E-value=8.8e-10  Score=101.31  Aligned_cols=276  Identities=13%  Similarity=0.031  Sum_probs=156.3

Q ss_pred             CCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCC----CcchHHHHHHHHHhCCCccHHHHHH
Q 048179           90 MDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRK----DLVCWSSMINGLVFNGQPREAVDAY  165 (589)
Q Consensus        90 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~  165 (589)
                      |++..|++...+..+++-. ....|..-..+--..|+.+.+-..+.+..++    +...+-+........|+.+.|..-+
T Consensus        98 G~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v  176 (400)
T COG3071          98 GDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENV  176 (400)
T ss_pred             CcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHH
Confidence            4444554444444443321 1122222233333444444444444444332    2223333344444455555555554


Q ss_pred             HHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCch-------HHHHHHHHHHHhcCCHHHHHHHHhhc
Q 048179          166 KRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDV-------KVQTSLVDMYAKTGHLDLASHVFKNM  238 (589)
Q Consensus       166 ~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~  238 (589)
                      +++.+.+.. +.........+|.+.|++.....+...+.+.|.-.|.       .+++.+++-....+..+.-...+++.
T Consensus       177 ~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~  255 (400)
T COG3071         177 DQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQ  255 (400)
T ss_pred             HHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhc
Confidence            444443221 2333444445555555555555555555554433222       35566666666666666666677777


Q ss_pred             CC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHH
Q 048179          239 SR---INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLG  315 (589)
Q Consensus       239 ~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  315 (589)
                      ++   .++..-.+++.-+.+.|+.++|.++..+..+.+..|+    ...+-.+.+.++.+.-.+..+......+.++.++
T Consensus       256 pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~  331 (400)
T COG3071         256 PRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLL  331 (400)
T ss_pred             cHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHH
Confidence            64   4566677788888999999999999999888876666    2223345566666666666666665566666777


Q ss_pred             HHHHHHhHhcCCHHHHHHHHHhcCC--CChhHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048179          316 TSVIDMYSKCGVPSCARALFDQMQS--RDLISWNVIIASYGIHGHGEEALSLFLQMIE  371 (589)
Q Consensus       316 ~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  371 (589)
                      .+|...|.+.+.+.+|...|+...+  ++..+|+-+..++.+.|+..+|.+.+++...
T Consensus       332 ~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         332 STLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            7777777777777777777765543  5666666666666666666666666665543

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.38  E-value=5.2e-09  Score=94.41  Aligned_cols=463  Identities=13%  Similarity=0.089  Sum_probs=267.4

Q ss_pred             hhcCCChHHHHHHhccCCCCC---cccHH-HHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHH
Q 048179           20 YGGKNDIVSARKLFEELPLRG---VDTYN-SIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMG   95 (589)
Q Consensus        20 ~~~~g~~~~A~~~~~~~~~~~---~~~~~-~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a   95 (589)
                      +....++..|+.+++.-..-+   ..+.+ -+..++.+.|++++|+..|..+.+.. .|+...+..+.-+.--.|.+.+|
T Consensus        32 fls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y~eA  110 (557)
T KOG3785|consen   32 FLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQYIEA  110 (557)
T ss_pred             HHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHHHHH
Confidence            445677888888876543221   11222 23456678899999999999887754 45666666665555567778888


Q ss_pred             HHHHHHHHHhCCCCChhhHHH-HHHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCC
Q 048179           96 EEIWRKAVELGYGNDVFVGSS-MLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGID  174 (589)
Q Consensus        96 ~~~~~~~~~~g~~~~~~~~~~-li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  174 (589)
                      .++-...      |+....+. |+..-.+.++-++-..+-+.+.+. ..---+|.+.....-.+.+|+++|.+....  .
T Consensus       111 ~~~~~ka------~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~-~EdqLSLAsvhYmR~HYQeAIdvYkrvL~d--n  181 (557)
T KOG3785|consen  111 KSIAEKA------PKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-LEDQLSLASVHYMRMHYQEAIDVYKRVLQD--N  181 (557)
T ss_pred             HHHHhhC------CCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-HHHHHhHHHHHHHHHHHHHHHHHHHHHHhc--C
Confidence            7776653      34444444 444445566655555544444332 222233444444445678999999998765  3


Q ss_pred             CChhhHHHHH-HHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhc--CCHHHH--HHHHhhcCCCCeehHHHH
Q 048179          175 ADEVVMMGLI-QACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKT--GHLDLA--SHVFKNMSRINIVTWGAL  249 (589)
Q Consensus       175 p~~~t~~~ll-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--g~~~~A--~~~~~~~~~~~~~~~~~l  249 (589)
                      |+-...+.-+ -+|.+..-++.+.+++.--++.- +.++...|....-..+.  |+..++  .++-+...+.    | ..
T Consensus       182 ~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~-pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~----~-~f  255 (557)
T KOG3785|consen  182 PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQF-PDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQE----Y-PF  255 (557)
T ss_pred             hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhC-CCcHHHHHHHHHHHhhhhccchhHHHHHHHHhccccc----c-hh
Confidence            4444444433 35567777787887777666542 33445555555444442  333222  1222222211    1 11


Q ss_pred             HHHHHhC-----CChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHH-----HHH
Q 048179          250 ISGFAQN-----GLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGT-----SVI  319 (589)
Q Consensus       250 i~~~~~~-----g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-----~l~  319 (589)
                      +.-.++.     ...+.|++++-.+.+.  .|..  -..++-.+.+.+++.+|..+..... ...|...+..     ++.
T Consensus       256 ~~~l~rHNLVvFrngEgALqVLP~L~~~--IPEA--RlNL~iYyL~q~dVqeA~~L~Kdl~-PttP~EyilKgvv~aalG  330 (557)
T KOG3785|consen  256 IEYLCRHNLVVFRNGEGALQVLPSLMKH--IPEA--RLNLIIYYLNQNDVQEAISLCKDLD-PTTPYEYILKGVVFAALG  330 (557)
T ss_pred             HHHHHHcCeEEEeCCccHHHhchHHHhh--ChHh--hhhheeeecccccHHHHHHHHhhcC-CCChHHHHHHHHHHHHhh
Confidence            2222222     2345666666555432  3322  2234444566666666655443322 1111122222     222


Q ss_pred             HHhHhcCCHHHHHHHHHhcCC-----CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcH
Q 048179          320 DMYSKCGVPSCARALFDQMQS-----RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLV  394 (589)
Q Consensus       320 ~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~  394 (589)
                      .-......+.-|...|+-+-.     .++.--.+|.+.+.-..++++.+..+..+..-- ..|......+..+.+..|.+
T Consensus       331 Qe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF-~NdD~Fn~N~AQAk~atgny  409 (557)
T KOG3785|consen  331 QETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYF-TNDDDFNLNLAQAKLATGNY  409 (557)
T ss_pred             hhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcchhhhHHHHHHHHhcCh
Confidence            222223345567777765543     233445667777777788899888888877654 33444344567888889999


Q ss_pred             HHHHHHHHHHHHhcCCCCChhhH-HHHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHHH-HHHHhcCCchHHHHHHHHH
Q 048179          395 EEGRYWFDLMVSKYKIQPTEKHY-ACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALL-SGCHNHKKFSIGEKVAKKV  472 (589)
Q Consensus       395 ~~a~~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~-~~~~~~~~~~~a~~~~~~~  472 (589)
                      .+|.++|-.+... .+ .|..+| ..|.++|.+++.++-|++++-++....+..++-.+| +-|.+.+.+=-|-++|..+
T Consensus       410 ~eaEelf~~is~~-~i-kn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~l  487 (557)
T KOG3785|consen  410 VEAEELFIRISGP-EI-KNKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDEL  487 (557)
T ss_pred             HHHHHHHhhhcCh-hh-hhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence            9999999887642 22 234444 456789999999999999999887655555555555 4599999999999999999


Q ss_pred             hccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCc
Q 048179          473 LKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPG  516 (589)
Q Consensus       473 ~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~  516 (589)
                      -.++| ++..|.         |+......+|..+......+.|+
T Consensus       488 E~lDP-~pEnWe---------GKRGACaG~f~~l~~~~~~~~p~  521 (557)
T KOG3785|consen  488 EILDP-TPENWE---------GKRGACAGLFRQLANHKTDPIPI  521 (557)
T ss_pred             HccCC-CccccC---------CccchHHHHHHHHHcCCCCCCch
Confidence            88888 444442         44444455565555433333333

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

Probab=99.37  E-value=1.1e-07  Score=92.78  Aligned_cols=482  Identities=10%  Similarity=0.087  Sum_probs=290.0

Q ss_pred             CCcchHhHHHHhhhcCCChHHHHHHhccCCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHCC------CCCCcccHHH
Q 048179            8 AYGNSVGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKED------VRPDSSTFTV   81 (589)
Q Consensus         8 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~------~~p~~~~~~~   81 (589)
                      .+..+|.-.+.+....|-++-+.++++.-.+-++..-+..|..+...+++++|.+.+...+...      -+.+...|..
T Consensus       136 qH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~e  215 (835)
T KOG2047|consen  136 QHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLE  215 (835)
T ss_pred             hhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHH
Confidence            4456778888888888889999999988776666678888999999999999999998876542      2345556666


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHhCCC--CC--hhhHHHHHHHHHhCCChHHHHHHHHhcCCC--CcchHHHHHHHHHhC
Q 048179           82 ALKACVSLMDLKMGEEIWRKAVELGYG--ND--VFVGSSMLNLYVKCGKMNEAMVAFEKMQRK--DLVCWSSMINGLVFN  155 (589)
Q Consensus        82 ll~~~~~~~~~~~a~~~~~~~~~~g~~--~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~li~~~~~~  155 (589)
                      +-...++..+.-....+ +.+++.|+.  +|  -..|.+|.+-|.+.|+++.|.++|++..+.  .+.-++.+.++|++-
T Consensus       216 lcdlis~~p~~~~slnv-daiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v~tvrDFt~ifd~Ya~F  294 (835)
T KOG2047|consen  216 LCDLISQNPDKVQSLNV-DAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTVMTVRDFTQIFDAYAQF  294 (835)
T ss_pred             HHHHHHhCcchhcccCH-HHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhheehhhHHHHHHHHHHH
Confidence            66666655443333222 223333432  33  357899999999999999999999887653  333344444433321


Q ss_pred             ----------------CC------ccHHHHHHHHHHHCCC--------CCC---hhhHHHHHHHHHccCCcHHHHHHHHH
Q 048179          156 ----------------GQ------PREAVDAYKRMKKEGI--------DAD---EVVMMGLIQACADLGDSRFGLSVHGY  202 (589)
Q Consensus       156 ----------------g~------~~~A~~~~~~m~~~~~--------~p~---~~t~~~ll~~~~~~~~~~~a~~~~~~  202 (589)
                                      ++      ++-.+.-|+.+.+...        .-|   ..+|..-.  -...|+..+....+.+
T Consensus       295 EE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV--~l~e~~~~~~i~tyte  372 (835)
T KOG2047|consen  295 EESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRV--KLYEGNAAEQINTYTE  372 (835)
T ss_pred             HHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhh--hhhcCChHHHHHHHHH
Confidence                            11      1222333444333211        011   11121111  1234556666667777


Q ss_pred             HHHhc-----CCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCee-------hHHHHHHHHHhCCChhHHHHHHHHHH
Q 048179          203 SIRRH-----LNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIV-------TWGALISGFAQNGLAGSTLELLMEMQ  270 (589)
Q Consensus       203 ~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-------~~~~li~~~~~~g~~~~a~~~~~~m~  270 (589)
                      +++.-     ...-...|..+...|-..|+++.|+.+|++..+-+-.       +|-.....-.+..+++.|+++++...
T Consensus       373 Av~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~  452 (835)
T KOG2047|consen  373 AVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRAT  452 (835)
T ss_pred             HHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhh
Confidence            66532     1112357888999999999999999999998874443       34444444556777888888887765


Q ss_pred             hcCCC----------C-------CHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHH
Q 048179          271 SCGFE----------P-------DSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARA  333 (589)
Q Consensus       271 ~~g~~----------p-------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  333 (589)
                      ..--.          |       +...|...+..-...|-++..+.+++.+..---.++.+.....-.+-...-++++.+
T Consensus       453 ~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaTPqii~NyAmfLEeh~yfeesFk  532 (835)
T KOG2047|consen  453 HVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQIIINYAMFLEEHKYFEESFK  532 (835)
T ss_pred             cCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHH
Confidence            32111          1       112234444445566788888888888882222233333333334555667889999


Q ss_pred             HHHhcCC----CCh-hHHHHHHHHHHh---cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH--hcCCcHHHHHHHHHH
Q 048179          334 LFDQMQS----RDL-ISWNVIIASYGI---HGHGEEALSLFLQMIETMVKPDHSTFASLLSAL--SHSGLVEEGRYWFDL  403 (589)
Q Consensus       334 ~~~~~~~----~~~-~~~~~li~~~~~---~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~--~~~g~~~~a~~~~~~  403 (589)
                      +|++-..    |++ ..|+..+.-+.+   ....+.|..+|++.++ |.+|...-+..|+-+-  .+-|....|+.++++
T Consensus       533 ~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyer  611 (835)
T KOG2047|consen  533 AYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYER  611 (835)
T ss_pred             HHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            9988654    554 467776665543   2358999999999998 6777765444444332  345888899999998


Q ss_pred             HHHhcCCCCC--hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCCChhHHHH---HHHHHHhcCCchHHHHHHHHHhccC-
Q 048179          404 MVSKYKIQPT--EKHYACMVDLLARAGEVEEALKIVDSMS-TEPGLAVWVA---LLSGCHNHKKFSIGEKVAKKVLKLN-  476 (589)
Q Consensus       404 ~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~~~~~~~---l~~~~~~~~~~~~a~~~~~~~~~~~-  476 (589)
                      +..  ++++.  ...|+..|.--...=-+.....+|++.. .-|+..+-.-   ....-.+.|..++|..++...-++- 
T Consensus       612 at~--~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~d  689 (835)
T KOG2047|consen  612 ATS--AVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICD  689 (835)
T ss_pred             HHh--cCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCC
Confidence            776  45444  4456665543332222222333333331 1233332221   2222456677777777776666553 


Q ss_pred             CC-CchhHHHHHHHHHhCCC
Q 048179          477 PD-DLGIHALVSNFFAMEQK  495 (589)
Q Consensus       477 p~-~~~~~~~l~~~~~~~g~  495 (589)
                      |. +...|...-..-.+.|+
T Consensus       690 Pr~~~~fW~twk~FEvrHGn  709 (835)
T KOG2047|consen  690 PRVTTEFWDTWKEFEVRHGN  709 (835)
T ss_pred             CcCChHHHHHHHHHHHhcCC
Confidence            32 44556666666666676

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

Probab=99.36  E-value=2.8e-08  Score=95.94  Aligned_cols=434  Identities=13%  Similarity=0.125  Sum_probs=242.4

Q ss_pred             HHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHH--HHHHH--Hh
Q 048179           48 IIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSS--MLNLY--VK  123 (589)
Q Consensus        48 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~--li~~~--~~  123 (589)
                      +.-+..+|++++|.....+++..+ +-|...+..-+-+..+.+.++.|..+.+.   .+.   ..+++.  +=.+|  .+
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk---~~~---~~~~~~~~fEKAYc~Yr   91 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKK---NGA---LLVINSFFFEKAYCEYR   91 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHh---cch---hhhcchhhHHHHHHHHH
Confidence            344566677777777777777654 33455566666666777777777744433   111   111111  22333  35


Q ss_pred             CCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCC-ChhhHHHHHHHHHccCCcHHHHHHHHH
Q 048179          124 CGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDA-DEVVMMGLIQACADLGDSRFGLSVHGY  202 (589)
Q Consensus       124 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~  202 (589)
                      .+..|+|...++.....+..+...-...+.+.|++++|+++|+.+.+.+..- +...-..++.+.+..    .+.    .
T Consensus        92 lnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l----~~~----~  163 (652)
T KOG2376|consen   92 LNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAAL----QVQ----L  163 (652)
T ss_pred             cccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhh----hHH----H
Confidence            6778888887775544454455555666777888888888888886654321 111111111111110    000    0


Q ss_pred             HHHhcCCC--chHHHHHHHHHHHhcCCHHHHHHHHhhc--------CCCCe----------ehHHHHHHHHHhCCChhHH
Q 048179          203 SIRRHLNL--DVKVQTSLVDMYAKTGHLDLASHVFKNM--------SRINI----------VTWGALISGFAQNGLAGST  262 (589)
Q Consensus       203 ~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~--------~~~~~----------~~~~~li~~~~~~g~~~~a  262 (589)
                      +......|  +-..+-.....+...|++.+|+++++..        .+.|.          ..---|.-.+...|+.++|
T Consensus       164 ~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea  243 (652)
T KOG2376|consen  164 LQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEA  243 (652)
T ss_pred             HHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHH
Confidence            11111122  1112222334556678888888887766        11111          1122344566788999999


Q ss_pred             HHHHHHHHhcCCCCCHHHH----HHHHHHHhccCchh-hHHHHHHHH------------hhcCCCChhHHHHHHHHhHhc
Q 048179          263 LELLMEMQSCGFEPDSVSL----VSALLACAQIGFLK-LGKSIHGYT------------VRRFDFNLVLGTSVIDMYSKC  325 (589)
Q Consensus       263 ~~~~~~m~~~g~~p~~~~~----~~ll~~~~~~~~~~-~a~~~~~~~------------~~~~~~~~~~~~~l~~~~~~~  325 (589)
                      ..++...+... .+|....    +.++..-....-.+ .....++..            ..........-+.++.+|.  
T Consensus       244 ~~iy~~~i~~~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~t--  320 (652)
T KOG2376|consen  244 SSIYVDIIKRN-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFT--  320 (652)
T ss_pred             HHHHHHHHHhc-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHh--
Confidence            99999888775 4554322    22222211111111 111111111            1111112222244555554  


Q ss_pred             CCHHHHHHHHHhcCCCC-hhHHHHHHHHHH--hcCCHHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhcCCcHHHHHHH
Q 048179          326 GVPSCARALFDQMQSRD-LISWNVIIASYG--IHGHGEEALSLFLQMIETMVKPDH--STFASLLSALSHSGLVEEGRYW  400 (589)
Q Consensus       326 g~~~~A~~~~~~~~~~~-~~~~~~li~~~~--~~g~~~~A~~~~~~m~~~~~~p~~--~t~~~ll~a~~~~g~~~~a~~~  400 (589)
                      +..+.++++....+... ...+.+++....  +...+..|.+++...-+.  .|..  ......+......|+++.|.++
T Consensus       321 nk~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQl~is~gn~~~A~~i  398 (652)
T KOG2376|consen  321 NKMDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRAQLKISQGNPEVALEI  398 (652)
T ss_pred             hhHHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHHHHHHhcCCHHHHHHH
Confidence            44566777776666432 233444443322  223477788887776654  3433  3444445556788999999999


Q ss_pred             HH--------HHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-----CCCChh----HHHHHHHHHHhcCCch
Q 048179          401 FD--------LMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-----TEPGLA----VWVALLSGCHNHKKFS  463 (589)
Q Consensus       401 ~~--------~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~p~~~----~~~~l~~~~~~~~~~~  463 (589)
                      +.        .+.+. +..  +.+..+++..+.+.++.+.|..++.+..     ..+...    +|.-+...-.++|+-+
T Consensus       399 l~~~~~~~~ss~~~~-~~~--P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~  475 (652)
T KOG2376|consen  399 LSLFLESWKSSILEA-KHL--PGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEE  475 (652)
T ss_pred             HHHHhhhhhhhhhhh-ccC--hhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchH
Confidence            98        44432 333  4456678888998888777766666541     112222    3333444456779999


Q ss_pred             HHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHH
Q 048179          464 IGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKT  505 (589)
Q Consensus       464 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  505 (589)
                      +|...++++.+.+|++......+..+|++. +.+.|..+-+.
T Consensus       476 ea~s~leel~k~n~~d~~~l~~lV~a~~~~-d~eka~~l~k~  516 (652)
T KOG2376|consen  476 EASSLLEELVKFNPNDTDLLVQLVTAYARL-DPEKAESLSKK  516 (652)
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHhc-CHHHHHHHhhc
Confidence            999999999999999999999999999886 46666665544

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

Probab=99.36  E-value=5.6e-11  Score=105.67  Aligned_cols=229  Identities=10%  Similarity=0.069  Sum_probs=143.8

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcC
Q 048179          247 GALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCG  326 (589)
Q Consensus       247 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  326 (589)
                      +-+..+|.+.|-+.+|.+.|+.-+..  .|-..||..+-.+|.+......|..++......+|.++....-...      
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~AR------  298 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQAR------  298 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHH------
Confidence            45778888888888888888887776  4555566545444444444444444444444444444433333344      


Q ss_pred             CHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Q 048179          327 VPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVS  406 (589)
Q Consensus       327 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  406 (589)
                                               .+-..++.++|.+++++..+.. +.+......+...|.-.++.+-|+.+++++.+
T Consensus       299 -------------------------i~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLq  352 (478)
T KOG1129|consen  299 -------------------------IHEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQ  352 (478)
T ss_pred             -------------------------HHHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHH
Confidence                                     4444445555555555544432 22333334444444444555555555555544


Q ss_pred             hcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC---CCC--hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCch
Q 048179          407 KYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST---EPG--LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLG  481 (589)
Q Consensus       407 ~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  481 (589)
                      - |+ -+.+.|+.+.-+|.-.+++|-++.-|++...   +|+  ..+|..|......-||+..|.+.|+-++.-+|++..
T Consensus       353 m-G~-~speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~e  430 (478)
T KOG1129|consen  353 M-GA-QSPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGE  430 (478)
T ss_pred             h-cC-CChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHH
Confidence            3 32 2344455555555555555555555544311   232  457888888888999999999999999999999999


Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048179          482 IHALVSNFFAMEQKWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       482 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  511 (589)
                      ++++|+-+-.+.|+.++|..+++......+
T Consensus       431 alnNLavL~~r~G~i~~Arsll~~A~s~~P  460 (478)
T KOG1129|consen  431 ALNNLAVLAARSGDILGARSLLNAAKSVMP  460 (478)
T ss_pred             HHHhHHHHHhhcCchHHHHHHHHHhhhhCc
Confidence            999999999999999999999998876443

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

Probab=99.32  E-value=3.9e-09  Score=94.19  Aligned_cols=250  Identities=11%  Similarity=0.125  Sum_probs=180.0

Q ss_pred             hCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHh--hcCCCC--hhHHHHHHHHhHhcCCHHH
Q 048179          255 QNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTV--RRFDFN--LVLGTSVIDMYSKCGVPSC  330 (589)
Q Consensus       255 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~~~~--~~~~~~l~~~~~~~g~~~~  330 (589)
                      -+++.++|.++|-+|.+.. +-+..+-.++.+.+.+.|..+.|+.+|+.+.  .+.+.+  ......|..-|...|-+|.
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            3456677777777776632 2222344455566667777777777777766  222222  2334567788999999999


Q ss_pred             HHHHHHhcCCCCh---hHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH----HHHHHHHHHhcCCcHHHHHHHHHH
Q 048179          331 ARALFDQMQSRDL---ISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHS----TFASLLSALSHSGLVEEGRYWFDL  403 (589)
Q Consensus       331 A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~----t~~~ll~a~~~~g~~~~a~~~~~~  403 (589)
                      |+.+|..+.+.+.   .....++..|-...+|++|+++-+++.+.+-.+..+    .|--+........+++.|...+++
T Consensus       126 AE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~k  205 (389)
T COG2956         126 AEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKK  205 (389)
T ss_pred             HHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            9999999887433   456678899999999999999999999877665543    355556666677899999999999


Q ss_pred             HHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CCC--hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCc
Q 048179          404 MVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-EPG--LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDL  480 (589)
Q Consensus       404 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  480 (589)
                      +.+.  -+..+..--.+.+.....|+++.|++.++.... .|+  ..+...|..+|...|+.+++...+.++.+..+. +
T Consensus       206 Alqa--~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g-~  282 (389)
T COG2956         206 ALQA--DKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTG-A  282 (389)
T ss_pred             HHhh--CccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCC-c
Confidence            8863  223355556688999999999999999999854 465  346788889999999999999999999998884 4


Q ss_pred             hhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          481 GIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       481 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ..-..++..-....-.++|..++.+-..
T Consensus       283 ~~~l~l~~lie~~~G~~~Aq~~l~~Ql~  310 (389)
T COG2956         283 DAELMLADLIELQEGIDAAQAYLTRQLR  310 (389)
T ss_pred             cHHHHHHHHHHHhhChHHHHHHHHHHHh
Confidence            4455566655555556666665554433

>PRK12370 invasion protein regulator; Provisional

Probab=99.31  E-value=7.4e-10  Score=114.69  Aligned_cols=260  Identities=13%  Similarity=-0.037  Sum_probs=185.8

Q ss_pred             CeehHHHHHHHHHh-----CCChhHHHHHHHHHHhcCCCCCH-HHHHHHHHHHh---------ccCchhhHHHHHHHHhh
Q 048179          242 NIVTWGALISGFAQ-----NGLAGSTLELLMEMQSCGFEPDS-VSLVSALLACA---------QIGFLKLGKSIHGYTVR  306 (589)
Q Consensus       242 ~~~~~~~li~~~~~-----~g~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~---------~~~~~~~a~~~~~~~~~  306 (589)
                      +...|...+.+-..     .+..++|+.+|++..+.  .|+. ..+..+..++.         ..++.+.|...++.+..
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~  332 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATE  332 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHh
Confidence            34445455554321     13457889999988875  4543 34444433322         23457888888888887


Q ss_pred             cCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--C-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-HHHH
Q 048179          307 RFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS--R-DLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDH-STFA  382 (589)
Q Consensus       307 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~t~~  382 (589)
                      ..|.+...+..+..++...|++++|...|++..+  | +...|..+...+...|++++|+..+++..+..  |+. ..+.
T Consensus       333 ldP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~~  410 (553)
T PRK12370        333 LDHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAGI  410 (553)
T ss_pred             cCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhHH
Confidence            7788888999999999999999999999998765  3 45678888899999999999999999998864  432 2333


Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CCChh-HHHHHHHHHHhc
Q 048179          383 SLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSMST-EPGLA-VWVALLSGCHNH  459 (589)
Q Consensus       383 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~-~~~~l~~~~~~~  459 (589)
                      .++..+...|++++|...++++...  .+|+ ...+..+..+|...|+.++|...++++.. .|+.. .++.+...+...
T Consensus       411 ~~~~~~~~~g~~eeA~~~~~~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~  488 (553)
T PRK12370        411 TKLWITYYHTGIDDAIRLGDELRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQN  488 (553)
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhcc
Confidence            4444566689999999999998763  2343 55577788999999999999999998743 45444 455555566777


Q ss_pred             CCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          460 KKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       460 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      |  +.|...++++++..-..+.....+..+|.-.|+-+.+... +++.+.|
T Consensus       489 g--~~a~~~l~~ll~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        489 S--ERALPTIREFLESEQRIDNNPGLLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             H--HHHHHHHHHHHHHhhHhhcCchHHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            7  4788888887764322222233377788889998888777 7777654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.30  E-value=1.2e-09  Score=107.70  Aligned_cols=230  Identities=15%  Similarity=0.165  Sum_probs=169.7

Q ss_pred             HHHHHHHHHHhccCchhhHHHHHHHHhhc-------CCCCh-hHHHHHHHHhHhcCCHHHHHHHHHhcCC-------C-C
Q 048179          279 VSLVSALLACAQIGFLKLGKSIHGYTVRR-------FDFNL-VLGTSVIDMYSKCGVPSCARALFDQMQS-------R-D  342 (589)
Q Consensus       279 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-------~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~-~  342 (589)
                      .+...+...|...|+++.|...++.....       ..+.+ ...+.+...|...+++++|..+|+++..       + +
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            45555677777777777777777776622       12222 2234577788889999999988887753       1 1


Q ss_pred             ---hhHHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CC-CCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcC--C
Q 048179          343 ---LISWNVIIASYGIHGHGEEALSLFLQMIET-----MV-KPDHS-TFASLLSALSHSGLVEEGRYWFDLMVSKYK--I  410 (589)
Q Consensus       343 ---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~~-~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~--~  410 (589)
                         ..+++.|..+|.+.|++++|...+++..+-     |. .|... -++.+...|...+.+++|..++....+.+.  .
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence               256777888899999999988888776531     22 22222 466677778999999999999998776543  2


Q ss_pred             CCC----hhhHHHHHHHHHHcCCHHHHHHHHHhcCC---------CC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhcc-
Q 048179          411 QPT----EKHYACMVDLLARAGEVEEALKIVDSMST---------EP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKL-  475 (589)
Q Consensus       411 ~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  475 (589)
                      .++    ..+++.|...|...|++++|.++++++..         .+ ....++.|..+|.+.+++++|.++|.+...+ 
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            222    45788999999999999999999998621         12 2456788889999999999999999888743 


Q ss_pred             ---CCCC---chhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          476 ---NPDD---LGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       476 ---~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                         .|++   ...|..|+.+|.++|++++|.++.+....
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence               3444   56788999999999999999999887763

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

Probab=99.30  E-value=1e-07  Score=93.08  Aligned_cols=124  Identities=15%  Similarity=0.105  Sum_probs=89.9

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHH
Q 048179          380 TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGC  456 (589)
Q Consensus       380 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~  456 (589)
                      |+..+...+-..|+++.|..+.+.+.   +..|+ ++.|..-.+.+...|.+++|..++++...  .||...-.--..-.
T Consensus       373 t~y~laqh~D~~g~~~~A~~yId~AI---dHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYm  449 (700)
T KOG1156|consen  373 TLYFLAQHYDKLGDYEVALEYIDLAI---DHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYM  449 (700)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHh---ccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHH
Confidence            55566777888999999999999988   44676 66777778889999999999999998743  35554433444445


Q ss_pred             HhcCCchHHHHHHHHHhccCCCCc-------hhHHH--HHHHHHhCCChHHHHHHHHHH
Q 048179          457 HNHKKFSIGEKVAKKVLKLNPDDL-------GIHAL--VSNFFAMEQKWEEVAGVRKTM  506 (589)
Q Consensus       457 ~~~~~~~~a~~~~~~~~~~~p~~~-------~~~~~--l~~~~~~~g~~~~a~~~~~~m  506 (589)
                      .+.++.++|.++..+..+.+-+-.       -.|..  -|.+|.++|+|.+|++-+...
T Consensus       450 LrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i  508 (700)
T KOG1156|consen  450 LRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEI  508 (700)
T ss_pred             HHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhH
Confidence            677899999999888876543111       12333  367788899998888766554

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

Probab=99.29  E-value=6.4e-10  Score=111.61  Aligned_cols=250  Identities=14%  Similarity=0.074  Sum_probs=163.4

Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCC
Q 048179          163 DAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRIN  242 (589)
Q Consensus       163 ~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  242 (589)
                      .++-.+...|+.|+.+||.+++.-|+..|+.+.|- +|..|.-..++....+++.++......++.+.+.       .|.
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~   82 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPL   82 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCc
Confidence            35566777788888888888888888888888777 7777777777777778888887777777766554       566


Q ss_pred             eehHHHHHHHHHhCCChhHHHHHHHH-H-------HhcCCCCCHHHHHHHHHHH--------------hccCchhhHHHH
Q 048179          243 IVTWGALISGFAQNGLAGSTLELLME-M-------QSCGFEPDSVSLVSALLAC--------------AQIGFLKLGKSI  300 (589)
Q Consensus       243 ~~~~~~li~~~~~~g~~~~a~~~~~~-m-------~~~g~~p~~~~~~~ll~~~--------------~~~~~~~~a~~~  300 (589)
                      ..+|+.|..+|...||..- ++..++ |       ...|+......+...+++|              ...|.++.+.++
T Consensus        83 aDtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkl  161 (1088)
T KOG4318|consen   83 ADTYTNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKL  161 (1088)
T ss_pred             hhHHHHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHH
Confidence            6788888888888877543 222222 1       1122222222222222222              222334444444


Q ss_pred             HHHHh--hcCCCChhHHHHHHHHhHh-cCCHHHHHHHHHhcCC-CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 048179          301 HGYTV--RRFDFNLVLGTSVIDMYSK-CGVPSCARALFDQMQS-RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKP  376 (589)
Q Consensus       301 ~~~~~--~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  376 (589)
                      ...+.  ....|...    +++-... ...+++-........+ ++..++.+.+.+-...|+.+.|..++.+|.+.|++.
T Consensus       162 l~~~Pvsa~~~p~~v----fLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpi  237 (1088)
T KOG4318|consen  162 LAKVPVSAWNAPFQV----FLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPI  237 (1088)
T ss_pred             HhhCCcccccchHHH----HHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCc
Confidence            33332  11111111    1222222 2223333344444444 889999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048179          377 DHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGE  429 (589)
Q Consensus       377 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  429 (589)
                      +..-|..|+-+   .++..-+..+.+.|.+. |+.|+.+++.-.+-.+...|.
T Consensus       238 r~HyFwpLl~g---~~~~q~~e~vlrgmqe~-gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  238 RAHYFWPLLLG---INAAQVFEFVLRGMQEK-GVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             ccccchhhhhc---CccchHHHHHHHHHHHh-cCCCCcchhHHHHHhhhcchh
Confidence            99988888755   77888888888888886 999999998877666655444

>PF13041 PPR_2: PPR repeat family

Probab=99.26  E-value=1e-11  Score=82.15  Aligned_cols=50  Identities=32%  Similarity=0.498  Sum_probs=46.8

Q ss_pred             CCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 048179          140 KDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACAD  189 (589)
Q Consensus       140 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~  189 (589)
                      ||+++||++|.+|++.|++++|+++|++|.+.|+.||..||++++.+|++
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            78899999999999999999999999999999999999999999999864

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.26  E-value=1.4e-09  Score=103.12  Aligned_cols=190  Identities=15%  Similarity=0.076  Sum_probs=116.4

Q ss_pred             HHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHh
Q 048179          314 LGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPD-HSTFASLLSALS  389 (589)
Q Consensus       314 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~t~~~ll~a~~  389 (589)
                      .+..+...|.+.|+.+.|...|++..+   .+...|+.+...+...|++++|...|++..+.  .|+ ..++..+..++.
T Consensus        66 ~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~  143 (296)
T PRK11189         66 LHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAYLNRGIALY  143 (296)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            345556667777777777777776653   34567777777777788888888877777764  343 456666777777


Q ss_pred             cCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHH
Q 048179          390 HSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVA  469 (589)
Q Consensus       390 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  469 (589)
                      ..|++++|.+.|+...+.   .|+..........+...++.++|.+.+++....-+...|. ........|+...+ +.+
T Consensus       144 ~~g~~~eA~~~~~~al~~---~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~~~~~~~-~~~~~~~lg~~~~~-~~~  218 (296)
T PRK11189        144 YGGRYELAQDDLLAFYQD---DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKLDKEQWG-WNIVEFYLGKISEE-TLM  218 (296)
T ss_pred             HCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhCCccccH-HHHHHHHccCCCHH-HHH
Confidence            778888888888777653   3432212222223445667788887775542211112222 12223334555443 233


Q ss_pred             HHHh-------ccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          470 KKVL-------KLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       470 ~~~~-------~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      +.+.       ++.|+.+.+|..+|.+|.+.|++++|...|++..+.+
T Consensus       219 ~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        219 ERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             HHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            3333       3455666778888888888888888888888777543

>PF13041 PPR_2: PPR repeat family

Probab=99.26  E-value=1.9e-11  Score=80.79  Aligned_cols=50  Identities=36%  Similarity=0.602  Sum_probs=47.3

Q ss_pred             CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 048179          341 RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSH  390 (589)
Q Consensus       341 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~  390 (589)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|++||..||+.++++|++
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            78999999999999999999999999999999999999999999999874

>PRK12370 invasion protein regulator; Provisional

Probab=99.25  E-value=1.2e-09  Score=113.07  Aligned_cols=211  Identities=11%  Similarity=-0.016  Sum_probs=167.3

Q ss_pred             CchhhHHHHHHHHhhcCCCChhHHHHHHHHhHh---------cCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCH
Q 048179          292 GFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSK---------CGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHG  359 (589)
Q Consensus       292 ~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~---------~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~  359 (589)
                      ++.+.|...++.+....|.+...+..+..+|..         .+++++|...+++..+   .+...|..+...+...|++
T Consensus       275 ~~~~~A~~~~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~~  354 (553)
T PRK12370        275 YSLQQALKLLTQCVNMSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSEY  354 (553)
T ss_pred             HHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccCH
Confidence            356788888998887777777777777665542         3458899999998875   3567888888889999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCh-hhHHHHHHHHHHcCCHHHHHHHHH
Q 048179          360 EEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTE-KHYACMVDLLARAGEVEEALKIVD  438 (589)
Q Consensus       360 ~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~  438 (589)
                      ++|...|++..+.+ +.+...+..+..++...|++++|...++++.+.   .|+. ..+..+...+...|++++|.+.++
T Consensus       355 ~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l---~P~~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        355 IVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKL---DPTRAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            99999999999864 334567888888999999999999999999853   4542 233344556777899999999998


Q ss_pred             hcCC--CCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          439 SMST--EPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       439 ~~~~--~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      +...  .|+ ...+..+..++...|++++|+..++++....|.+......++..|...|  ++|...++.+.+
T Consensus       431 ~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        431 ELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLE  501 (553)
T ss_pred             HHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHH
Confidence            8742  354 4456677778889999999999999998889988888889999999888  488887777765

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

Probab=99.24  E-value=2.2e-08  Score=99.69  Aligned_cols=439  Identities=14%  Similarity=0.068  Sum_probs=249.3

Q ss_pred             CCCCcchHhHHHHhhhcCCChHHHHHHhccCCC---CCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCC-CcccHHH
Q 048179            6 LSAYGNSVGRIIALYGGKNDIVSARKLFEELPL---RGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRP-DSSTFTV   81 (589)
Q Consensus         6 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~   81 (589)
                      ++.|+.+|-.|.-+..++|+++.+-+.|++...   .....|+.+-..|...|.-..|+.+++.-......| |...+..
T Consensus       319 ~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lm  398 (799)
T KOG4162|consen  319 FQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLM  398 (799)
T ss_pred             hcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHH
Confidence            345666666666666777777777777766432   123456666666666676666776666544332223 3333333


Q ss_pred             HHHHHh-ccCCHHHHHHHHHHHHHhC--C--CCChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCC
Q 048179           82 ALKACV-SLMDLKMGEEIWRKAVELG--Y--GNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNG  156 (589)
Q Consensus        82 ll~~~~-~~~~~~~a~~~~~~~~~~g--~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g  156 (589)
                      .-+.|. +.+.++++..+-.+++...  .  ......|..+.-+|...-            .+.  .++.-      +..
T Consensus       399 asklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A------------~~a--~~~se------R~~  458 (799)
T KOG4162|consen  399 ASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQA------------RQA--NLKSE------RDA  458 (799)
T ss_pred             HHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHh------------hcC--CChHH------HHH
Confidence            344444 3345555555555544421  0  011112222222221100            000  00000      011


Q ss_pred             CccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHh
Q 048179          157 QPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFK  236 (589)
Q Consensus       157 ~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  236 (589)
                      ...++++.+++..+.+.. |......+.--++..++++.|.+...+.++.+...+...|..|.-.+...+++.+|+.+.+
T Consensus       459 ~h~kslqale~av~~d~~-dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd  537 (799)
T KOG4162|consen  459 LHKKSLQALEEAVQFDPT-DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVD  537 (799)
T ss_pred             HHHHHHHHHHHHHhcCCC-CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHH
Confidence            224667777777665322 2223333334466677888888888888887667778888888888888888888888877


Q ss_pred             hcCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHhc--CCCCCHHHHHHHHHHHhccCchhhHHHHHHHHh---hcC
Q 048179          237 NMSR---INIVTWGALISGFAQNGLAGSTLELLMEMQSC--GFEPDSVSLVSALLACAQIGFLKLGKSIHGYTV---RRF  308 (589)
Q Consensus       237 ~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~---~~~  308 (589)
                      ....   .|......-+..-..-++.++++.....+...  ...|-..+.           +-....+....+.   ...
T Consensus       538 ~al~E~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~-----------~~g~~~~lk~~l~la~~q~  606 (799)
T KOG4162|consen  538 AALEEFGDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTL-----------DEGKLLRLKAGLHLALSQP  606 (799)
T ss_pred             HHHHHhhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhh-----------hhhhhhhhhcccccCcccc
Confidence            6543   12222222233334466777777766666432  001100110           0000111111111   101


Q ss_pred             CCChhHHHHHHHHhH---hcCCHHHHHHHHHhcCCCC------hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH
Q 048179          309 DFNLVLGTSVIDMYS---KCGVPSCARALFDQMQSRD------LISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHS  379 (589)
Q Consensus       309 ~~~~~~~~~l~~~~~---~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  379 (589)
                      ...+.++.-+.....   +.-..+.....+...+.|+      ...|......+.+.++.++|...+.+..+.. +-...
T Consensus       607 ~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~  685 (799)
T KOG4162|consen  607 TDAISTSRYLSSLVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSAS  685 (799)
T ss_pred             cccchhhHHHHHHHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHH
Confidence            111122222211111   1111111112222222233      2356677778889999999998888876642 33455


Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHH--HHHhc-CCCC-ChhHHHHHHH
Q 048179          380 TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALK--IVDSM-STEP-GLAVWVALLS  454 (589)
Q Consensus       380 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~--~~~~~-~~~p-~~~~~~~l~~  454 (589)
                      .|......+...|..++|.+.|....   .+.|+ +....++..++.+.|+..-|..  ++..+ ...| +...|..|+.
T Consensus       686 ~~~~~G~~~~~~~~~~EA~~af~~Al---~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~  762 (799)
T KOG4162|consen  686 VYYLRGLLLEVKGQLEEAKEAFLVAL---ALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGE  762 (799)
T ss_pred             HHHHhhHHHHHHHhhHHHHHHHHHHH---hcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHH
Confidence            66666677888899999999999887   45666 7788999999999998877777  77776 3445 6789999999


Q ss_pred             HHHhcCCchHHHHHHHHHhccCCCCc
Q 048179          455 GCHNHKKFSIGEKVAKKVLKLNPDDL  480 (589)
Q Consensus       455 ~~~~~~~~~~a~~~~~~~~~~~p~~~  480 (589)
                      .+.+.|+.+.|.+.|.-++++++.+|
T Consensus       763 v~k~~Gd~~~Aaecf~aa~qLe~S~P  788 (799)
T KOG4162|consen  763 VFKKLGDSKQAAECFQAALQLEESNP  788 (799)
T ss_pred             HHHHccchHHHHHHHHHHHhhccCCC
Confidence            99999999999999999999988766

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.23  E-value=3.9e-09  Score=97.12  Aligned_cols=196  Identities=13%  Similarity=0.089  Sum_probs=118.1

Q ss_pred             ehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhH
Q 048179          244 VTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYS  323 (589)
Q Consensus       244 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  323 (589)
                      ..+..+...+...|++++|...+++..+..  |+                                 +...+..+...|.
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~--p~---------------------------------~~~~~~~la~~~~   76 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHD--PD---------------------------------DYLAYLALALYYQ   76 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cc---------------------------------cHHHHHHHHHHHH
Confidence            456667777777788888888777776542  32                                 2223344455555


Q ss_pred             hcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHH
Q 048179          324 KCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKP-DHSTFASLLSALSHSGLVEEGRY  399 (589)
Q Consensus       324 ~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~t~~~ll~a~~~~g~~~~a~~  399 (589)
                      ..|++++|.+.|++..+   .+...+..+...+...|++++|.+.+++.......| ....+..+..++...|++++|..
T Consensus        77 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  156 (234)
T TIGR02521        77 QLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEK  156 (234)
T ss_pred             HcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHH
Confidence            55666666665555442   233455555666666667777777766666532222 23345555666677777777777


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccC
Q 048179          400 WFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLN  476 (589)
Q Consensus       400 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  476 (589)
                      .++...+.  .+.+...+..+...+...|++++|.+.+++...  +++...+..+...+...|+.+.|....+.+.+..
T Consensus       157 ~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  233 (234)
T TIGR02521       157 YLTRALQI--DPQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKLF  233 (234)
T ss_pred             HHHHHHHh--CcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            77776652  223355666677777777777777777776522  2344455556666667777777777766665543

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.

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

Probab=99.22  E-value=1.9e-09  Score=91.82  Aligned_cols=164  Identities=12%  Similarity=0.051  Sum_probs=139.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 048179          345 SWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLL  424 (589)
Q Consensus       345 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  424 (589)
                      +...+.-+|.+.|+...|..-+++.++.. +-+..++..+...|.+.|..+.|.+.|+.+.+  --+-+.++.|....-+
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls--l~p~~GdVLNNYG~FL  113 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALS--LAPNNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHh--cCCCccchhhhhhHHH
Confidence            34456678899999999999999998864 33456888888889999999999999999885  2233478888899999


Q ss_pred             HHcCCHHHHHHHHHhcCCCCC----hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHH
Q 048179          425 ARAGEVEEALKIVDSMSTEPG----LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVA  500 (589)
Q Consensus       425 ~~~g~~~~A~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  500 (589)
                      +..|++++|...|++....|+    ..+|..++.+..+.|+.+.|+..+++.++++|+.+.....++....+.|++-+|.
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHH
Confidence            999999999999999866554    4578888888889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCC
Q 048179          501 GVRKTMRKSGM  511 (589)
Q Consensus       501 ~~~~~m~~~g~  511 (589)
                      .+++.....+.
T Consensus       194 ~~~~~~~~~~~  204 (250)
T COG3063         194 LYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHhccc
Confidence            99998876553

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

Probab=99.21  E-value=1.8e-07  Score=86.43  Aligned_cols=263  Identities=11%  Similarity=0.027  Sum_probs=190.7

Q ss_pred             CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHH-HHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHH
Q 048179          241 INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLV-SALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVI  319 (589)
Q Consensus       241 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  319 (589)
                      .|+.....+...+...|+.++|+..|++.+..  .|+..+-. ...-.+...|+.+....+-..+..........|..-.
T Consensus       230 ~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~~  307 (564)
T KOG1174|consen  230 CNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFVHA  307 (564)
T ss_pred             ccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhhhh
Confidence            46778888999999999999999999988764  55543321 1122245667777776666665533323333333333


Q ss_pred             HHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHH
Q 048179          320 DMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEE  396 (589)
Q Consensus       320 ~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~  396 (589)
                      ......+++..|+.+-++..+   +++..+-.-...+...|++++|.-.|+..+... +-+...|..|+.+|...|.+.+
T Consensus       308 ~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kE  386 (564)
T KOG1174|consen  308 QLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKE  386 (564)
T ss_pred             hhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHH
Confidence            444556788888888887765   344455444567888999999999999987642 3456799999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCChhhHHHHH-HHHH-HcCCHHHHHHHHHhc-CCCCChh-HHHHHHHHHHhcCCchHHHHHHHHH
Q 048179          397 GRYWFDLMVSKYKIQPTEKHYACMV-DLLA-RAGEVEEALKIVDSM-STEPGLA-VWVALLSGCHNHKKFSIGEKVAKKV  472 (589)
Q Consensus       397 a~~~~~~~~~~~~~~p~~~~~~~l~-~~~~-~~g~~~~A~~~~~~~-~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~  472 (589)
                      |.-.-+...+  -++-+..+...+. ..+. .-..-++|.+++++. ..+|+.. ..+.+...|...|.++.++.++++.
T Consensus       387 A~~~An~~~~--~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~  464 (564)
T KOG1174|consen  387 ANALANWTIR--LFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKH  464 (564)
T ss_pred             HHHHHHHHHH--HhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHH
Confidence            9888877765  3344555555442 2222 233457899999886 5578754 5566667799999999999999999


Q ss_pred             hccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          473 LKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       473 ~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      +...| +...++.|++++...+.+.+|++.|..+...
T Consensus       465 L~~~~-D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~  500 (564)
T KOG1174|consen  465 LIIFP-DVNLHNHLGDIMRAQNEPQKAMEYYYKALRQ  500 (564)
T ss_pred             Hhhcc-ccHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            99999 5678899999999999999999999988753

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

Probab=99.19  E-value=5.9e-07  Score=87.98  Aligned_cols=424  Identities=12%  Similarity=0.100  Sum_probs=233.1

Q ss_pred             cCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHH
Q 048179           53 RKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMV  132 (589)
Q Consensus        53 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  132 (589)
                      ..+++...+++.+.+++. .+-...|....--.+...|+.++|.......++..+ .+.+.|..+.-.+-...++++|++
T Consensus        19 E~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~-~S~vCwHv~gl~~R~dK~Y~eaiK   96 (700)
T KOG1156|consen   19 ETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDL-KSHVCWHVLGLLQRSDKKYDEAIK   96 (700)
T ss_pred             HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccCc-ccchhHHHHHHHHhhhhhHHHHHH
Confidence            445666666666666653 233444544444444556666777666666555432 244556655555555566777777


Q ss_pred             HHHhcCC---CCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHccCCcHHHHHHHHHHHHhcC
Q 048179          133 AFEKMQR---KDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDAD-EVVMMGLIQACADLGDSRFGLSVHGYSIRRHL  208 (589)
Q Consensus       133 ~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  208 (589)
                      .|.....   .|...|.-+.-.-++.++++.....-.++.+.  .|+ ...|.....+.--.|+...|..+.+...+...
T Consensus        97 cy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql--~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~  174 (700)
T KOG1156|consen   97 CYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQL--RPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQN  174 (700)
T ss_pred             HHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            7766543   24455555555555666666666666665553  222 33445555555566777777777766665542


Q ss_pred             -CCchHHHHHHH------HHHHhcCCHHHHHHHHhhcCCC--Ce-ehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCH
Q 048179          209 -NLDVKVQTSLV------DMYAKTGHLDLASHVFKNMSRI--NI-VTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDS  278 (589)
Q Consensus       209 -~~~~~~~~~l~------~~~~~~g~~~~A~~~~~~~~~~--~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  278 (589)
                       .|+...+.-..      ....+.|..+.|.+.+......  |- ..-......+.+.++.++|..++..++..  .||.
T Consensus       175 ~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn  252 (700)
T KOG1156|consen  175 TSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDN  252 (700)
T ss_pred             cCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--Cchh
Confidence             33333332221      1233456666666655544331  11 12223344556666666666666666654  4555


Q ss_pred             HHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHH-HHHHhcCCC---ChhHHHHHHHHHH
Q 048179          279 VSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCAR-ALFDQMQSR---DLISWNVIIASYG  354 (589)
Q Consensus       279 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~-~~~~~~~~~---~~~~~~~li~~~~  354 (589)
                      .-|.-.+.                                 .++.+-.+..++. .+|....+.   ....-..=+....
T Consensus       253 ~~Yy~~l~---------------------------------~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~  299 (700)
T KOG1156|consen  253 LDYYEGLE---------------------------------KALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLN  299 (700)
T ss_pred             HHHHHHHH---------------------------------HHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhC
Confidence            55443333                                 2222111111222 333333220   0000000001011


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc-----C------------CCCChh--
Q 048179          355 IHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKY-----K------------IQPTEK--  415 (589)
Q Consensus       355 ~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~-----~------------~~p~~~--  415 (589)
                      ...-.+..-.++..+.+.|+++-...+.++   +-.....+    +.++....+     +            -+|...  
T Consensus       300 ~eel~~~vdkyL~~~l~Kg~p~vf~dl~SL---yk~p~k~~----~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllW  372 (700)
T KOG1156|consen  300 GEELKEIVDKYLRPLLSKGVPSVFKDLRSL---YKDPEKVA----FLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLW  372 (700)
T ss_pred             cchhHHHHHHHHHHHhhcCCCchhhhhHHH---HhchhHhH----HHHHHHHHHHhhcccccCCCcccccccCCchHHHH
Confidence            111123344566677777776533333332   32211111    222221110     1            145543  


Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhcCC-CCChh-HHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhC
Q 048179          416 HYACMVDLLARAGEVEEALKIVDSMST-EPGLA-VWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAME  493 (589)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  493 (589)
                      ++-.++..+-+.|+++.|..+++.... .|+.+ .|..-...+...|+++.|...++++.+++-.|...-..-+.-..++
T Consensus       373 t~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYmLrA  452 (700)
T KOG1156|consen  373 TLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYMLRA  452 (700)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHHHHc
Confidence            445678889999999999999999754 46543 4555556788999999999999999999977776666788888899


Q ss_pred             CChHHHHHHHHHHHhCCCcc-----CCceeEEEE
Q 048179          494 QKWEEVAGVRKTMRKSGMKK-----VPGYSVVEV  522 (589)
Q Consensus       494 g~~~~a~~~~~~m~~~g~~~-----~~~~s~~~~  522 (589)
                      .+.++|.++.....+.|..-     +..|.|..+
T Consensus       453 n~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~  486 (700)
T KOG1156|consen  453 NEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQL  486 (700)
T ss_pred             cccHHHHHHHHHhhhcccchhhhHHHhhhHHHhH
Confidence            99999999999888777521     123677654

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.17  E-value=2.2e-08  Score=94.92  Aligned_cols=228  Identities=10%  Similarity=-0.006  Sum_probs=147.8

Q ss_pred             ChhHHHHHHHHHHhcC-CCCC--HHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHH
Q 048179          258 LAGSTLELLMEMQSCG-FEPD--SVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARAL  334 (589)
Q Consensus       258 ~~~~a~~~~~~m~~~g-~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  334 (589)
                      ..+.++.-+.+++... ..|+  ...+......+...|+.+.|...+.......+.+...++.+...|...|+++.|...
T Consensus        41 ~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~  120 (296)
T PRK11189         41 QQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEA  120 (296)
T ss_pred             HHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4455555555555432 1121  223444445556666666666666666655566777888899999999999999999


Q ss_pred             HHhcCC--C-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCC
Q 048179          335 FDQMQS--R-DLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQ  411 (589)
Q Consensus       335 ~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~  411 (589)
                      |++..+  | +..+|..+..++...|++++|++.|++..+.  .|+..........+...++.++|...|+....  ...
T Consensus       121 ~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~--~~~  196 (296)
T PRK11189        121 FDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYE--KLD  196 (296)
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh--hCC
Confidence            998864  3 4567888888899999999999999998875  34433222222234456789999999977654  333


Q ss_pred             CChhhHHHHHHHHHHcCCHHH--HHHHHHhc-CCC----C-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCC-CCchh
Q 048179          412 PTEKHYACMVDLLARAGEVEE--ALKIVDSM-STE----P-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNP-DDLGI  482 (589)
Q Consensus       412 p~~~~~~~l~~~~~~~g~~~~--A~~~~~~~-~~~----p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~  482 (589)
                      |+...+ .+..  ...|+..+  +.+.+.+. ...    | ...+|..+...+...|++++|+..|+++++.+| +...+
T Consensus       197 ~~~~~~-~~~~--~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~e~  273 (296)
T PRK11189        197 KEQWGW-NIVE--FYLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFVEH  273 (296)
T ss_pred             ccccHH-HHHH--HHccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHHHH
Confidence            443322 2333  33455433  33333322 111    1 345799999999999999999999999999997 55555


Q ss_pred             HHHHHHHHHh
Q 048179          483 HALVSNFFAM  492 (589)
Q Consensus       483 ~~~l~~~~~~  492 (589)
                      -..+..+...
T Consensus       274 ~~~~~e~~~~  283 (296)
T PRK11189        274 RYALLELALL  283 (296)
T ss_pred             HHHHHHHHHH
Confidence            5545544333

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.16  E-value=1.6e-08  Score=99.94  Aligned_cols=199  Identities=14%  Similarity=0.174  Sum_probs=123.1

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHhc-----C-CCCC-HHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHH
Q 048179          249 LISGFAQNGLAGSTLELLMEMQSC-----G-FEPD-SVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDM  321 (589)
Q Consensus       249 li~~~~~~g~~~~a~~~~~~m~~~-----g-~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  321 (589)
                      +...|...+++++|..+|+++...     | ..|. ..++..+..+|.+.|+++.|...++.+                 
T Consensus       247 ~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~A-----------------  309 (508)
T KOG1840|consen  247 LALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERA-----------------  309 (508)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHH-----------------
Confidence            445566666677776666666432     1 1111 234555666677777777776654433                 


Q ss_pred             hHhcCCHHHHHHHHHhcCC---CCh-hHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCCC----HHHHHHHHHHHhc
Q 048179          322 YSKCGVPSCARALFDQMQS---RDL-ISWNVIIASYGIHGHGEEALSLFLQMIET---MVKPD----HSTFASLLSALSH  390 (589)
Q Consensus       322 ~~~~g~~~~A~~~~~~~~~---~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~---~~~p~----~~t~~~ll~a~~~  390 (589)
                                .+++++..-   +.+ ..++.++..+...+++++|..++++..+.   -+.++    ..++..+...+.+
T Consensus       310 ----------l~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~  379 (508)
T KOG1840|consen  310 ----------LEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLK  379 (508)
T ss_pred             ----------HHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHH
Confidence                      233332111   111 12344455566666666666666654431   12222    2467788888888


Q ss_pred             CCcHHHHHHHHHHHHHhc----C-CCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhcC--------CCCC-hhHHHHHHHH
Q 048179          391 SGLVEEGRYWFDLMVSKY----K-IQPT-EKHYACMVDLLARAGEVEEALKIVDSMS--------TEPG-LAVWVALLSG  455 (589)
Q Consensus       391 ~g~~~~a~~~~~~~~~~~----~-~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~p~-~~~~~~l~~~  455 (589)
                      .|.+++|.++|+++.+..    + ..+. ...++.|...|.+.++..+|.++|.+..        ..|+ ..+|..|..+
T Consensus       380 ~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~  459 (508)
T KOG1840|consen  380 MGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAAL  459 (508)
T ss_pred             hcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHH
Confidence            888888888888876542    1 1111 4456778888888888888888877642        1244 3478899999


Q ss_pred             HHhcCCchHHHHHHHHHhc
Q 048179          456 CHNHKKFSIGEKVAKKVLK  474 (589)
Q Consensus       456 ~~~~~~~~~a~~~~~~~~~  474 (589)
                      |...|+++.|+++.+++..
T Consensus       460 Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  460 YRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHcccHHHHHHHHHHHHH
Confidence            9999999999999988873

>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=99.15  E-value=4.8e-07  Score=90.78  Aligned_cols=428  Identities=12%  Similarity=0.047  Sum_probs=209.8

Q ss_pred             HHHHcCCCchhHHHHHHHHHHCCCCCCcc-cHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCC--
Q 048179           49 IAYSRKESPFEVLGLYNQMIKEDVRPDSS-TFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCG--  125 (589)
Q Consensus        49 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g--  125 (589)
                      ..+...|++++|++.++.-...  -+|.. .+......+.+.|+.++|..++..+++.++ .|..-|..+..+..-..  
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~--I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNP-dn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQ--ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNP-DNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhh--CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHhhhccc
Confidence            4456778888888888664433  33444 344556667788888888888888887752 24444555555542222  


Q ss_pred             ---ChHHHHHHHHhcCC--CCcchHHHHHHHHHhCCCcc-HHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHH
Q 048179          126 ---KMNEAMVAFEKMQR--KDLVCWSSMINGLVFNGQPR-EAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSV  199 (589)
Q Consensus       126 ---~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~-~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~  199 (589)
                         ..+....+++++..  |...+...+.-.+.....+. .+...+..+...|+++   +|+.+-..|...........+
T Consensus        89 ~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l  165 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESL  165 (517)
T ss_pred             ccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHH
Confidence               34445555555543  22222222222222212222 2333444445555432   333333333332222222222


Q ss_pred             HHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcC-CCCee--hHHHHHHHHHhCCChhHHHHHHHHHHhcCCCC
Q 048179          200 HGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMS-RINIV--TWGALISGFAQNGLAGSTLELLMEMQSCGFEP  276 (589)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  276 (589)
                      +.......               ...+.+....   ..-. .|...  ++..+.+.|...|++++|++++++.++.  .|
T Consensus       166 ~~~~~~~l---------------~~~~~~~~~~---~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tP  225 (517)
T PF12569_consen  166 VEEYVNSL---------------ESNGSFSNGD---DEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TP  225 (517)
T ss_pred             HHHHHHhh---------------cccCCCCCcc---ccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CC
Confidence            22222110               0000000000   0000 12222  2344455666667777777777766665  34


Q ss_pred             C-HHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCCh----------hH
Q 048179          277 D-SVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDL----------IS  345 (589)
Q Consensus       277 ~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----------~~  345 (589)
                      + ...|..-...+-+.|++..|....+.+..-...|..+-+-.+..+.++|++++|.+++....+++.          ..
T Consensus       226 t~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~  305 (517)
T PF12569_consen  226 TLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCM  305 (517)
T ss_pred             CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHH
Confidence            4 345555566666677777776666666655555666666677777777777777777776665431          12


Q ss_pred             H--HHHHHHHHhcCCHHHHHHHHHHHHHc--CC-------------CCCHHHHHHHHHHHhcCCc-------HHHHHHHH
Q 048179          346 W--NVIIASYGIHGHGEEALSLFLQMIET--MV-------------KPDHSTFASLLSALSHSGL-------VEEGRYWF  401 (589)
Q Consensus       346 ~--~~li~~~~~~g~~~~A~~~~~~m~~~--~~-------------~p~~~t~~~ll~a~~~~g~-------~~~a~~~~  401 (589)
                      |  .....+|.+.|++..|++.|....+.  .+             +.+..+|..++...-+...       ...|.+++
T Consensus       306 Wf~~e~a~a~~r~~~~~~ALk~~~~v~k~f~~~~~DQfDFH~Yc~RK~t~r~Y~~~L~~ed~l~~~~~y~raa~~ai~iY  385 (517)
T PF12569_consen  306 WFETECAEAYLRQGDYGLALKRFHAVLKHFDDFEEDQFDFHSYCLRKMTLRAYVDMLRWEDKLRSHPFYRRAAKGAIRIY  385 (517)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcccccHHHHHHhhccHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHH
Confidence            3  22345677777777777666554431  01             1222233333332221111       12333443


Q ss_pred             HHHHHhcCCCCCh-----------hhHHHHHHHH---HHcCCHHHHHHHHHh-----------c----CCCCChhHHHHH
Q 048179          402 DLMVSKYKIQPTE-----------KHYACMVDLL---ARAGEVEEALKIVDS-----------M----STEPGLAVWVAL  452 (589)
Q Consensus       402 ~~~~~~~~~~p~~-----------~~~~~l~~~~---~~~g~~~~A~~~~~~-----------~----~~~p~~~~~~~l  452 (589)
                      -.+..........           .--..+..-.   .+...-+++...-.+           .    +.+.|...... 
T Consensus       386 l~l~d~~~~~~~~~~~~~~~~~~~~e~Kk~~kK~kK~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~Dp~Ge-  464 (517)
T PF12569_consen  386 LELHDKPEAKQGEEQEADNENMSAAERKKAKKKAKKAAKKAKKEEAEKAAKKEPKKQQNKSKKKEKVEPKKKDDDPLGE-  464 (517)
T ss_pred             HHHhcCcccccccccccccccCChHHHHHHHHHHHHHHHHHhHHHHHHHHhhhhhhhhccccccccccCCcCCCCccHH-
Confidence            3333210000000           0000011000   111111112111100           0    01112212111 


Q ss_pred             HHHHHhc-CCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHH
Q 048179          453 LSGCHNH-KKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKT  505 (589)
Q Consensus       453 ~~~~~~~-~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  505 (589)
                        -+... .=.++|.+.++-+.+..|++..+|..-..+|.+.|++--|++.+++
T Consensus       465 --kL~~t~dPLe~A~kfl~pL~~~a~~~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  465 --KLLKTEDPLEEAMKFLKPLLELAPDNIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             --HHhcCCcHHHHHHHHHHHHHHhCccchhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence              12222 3468899999999999999999999999999999999999887764

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.14  E-value=3.3e-08  Score=89.36  Aligned_cols=416  Identities=11%  Similarity=0.034  Sum_probs=256.8

Q ss_pred             HHHhhhcCCChHHHHHHhccCCC---CCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCH
Q 048179           16 IIALYGGKNDIVSARKLFEELPL---RGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDL   92 (589)
Q Consensus        16 l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   92 (589)
                      +..+|-+.|++++|...+..+.+   ++...|-.|.-++.-.|.+.+|..+-....     -++..-..++...-+.++-
T Consensus        63 ia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~-----k~pL~~RLlfhlahklndE  137 (557)
T KOG3785|consen   63 IAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEAKSIAEKAP-----KTPLCIRLLFHLAHKLNDE  137 (557)
T ss_pred             HHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHHHHHHhhCC-----CChHHHHHHHHHHHHhCcH
Confidence            34556688999999999987653   345667777777777788888888765532     2334445566666788888


Q ss_pred             HHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCC--CcchHHH-HHHHHHhCCCccHHHHHHHHHH
Q 048179           93 KMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRK--DLVCWSS-MINGLVFNGQPREAVDAYKRMK  169 (589)
Q Consensus        93 ~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~-li~~~~~~g~~~~A~~~~~~m~  169 (589)
                      +.-..+++.+...     ..-.-+|.++..-.-.+.+|++++.+....  +-...|. +.-+|.+..-++-+.+++..-.
T Consensus       138 k~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL  212 (557)
T KOG3785|consen  138 KRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVLQDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYL  212 (557)
T ss_pred             HHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHHhcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHH
Confidence            8877777766432     233445666555566789999999998864  4444554 3446678888888888887776


Q ss_pred             HCCCCCC-hhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhc-----CCHHHHHHHHhhcCCCCe
Q 048179          170 KEGIDAD-EVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKT-----GHLDLASHVFKNMSRINI  243 (589)
Q Consensus       170 ~~~~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----g~~~~A~~~~~~~~~~~~  243 (589)
                      +.  .|| ....+..+...-+.=+-..+++-...+.+.+...-+     .+.-.++.     ..-+.|.+++-.+.+.=+
T Consensus       213 ~q--~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~-----f~~~l~rHNLVvFrngEgALqVLP~L~~~IP  285 (557)
T KOG3785|consen  213 RQ--FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYP-----FIEYLCRHNLVVFRNGEGALQVLPSLMKHIP  285 (557)
T ss_pred             Hh--CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccch-----hHHHHHHcCeEEEeCCccHHHhchHHHhhCh
Confidence            64  344 333343333333332333333333444333321111     11222221     233556666655444323


Q ss_pred             ehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHH-----HhccCchhhHHHHHHHHh-hcCCCChhHH-H
Q 048179          244 VTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLA-----CAQIGFLKLGKSIHGYTV-RRFDFNLVLG-T  316 (589)
Q Consensus       244 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~-----~~~~~~~~~a~~~~~~~~-~~~~~~~~~~-~  316 (589)
                      .+--.|+--|.+.++.++|..+.+++.-.  .|-......+..+     .....++..|.+.|+.+- ++...|.... .
T Consensus       286 EARlNL~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQ  363 (557)
T KOG3785|consen  286 EARLNLIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQ  363 (557)
T ss_pred             HhhhhheeeecccccHHHHHHHHhhcCCC--ChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchH
Confidence            33444566688999999999888776532  3444333333322     233345667777777766 5555444332 3


Q ss_pred             HHHHHhHhcCCHHHHHHHHHhcCC----CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHH-HHHHHhcC
Q 048179          317 SVIDMYSKCGVPSCARALFDQMQS----RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFAS-LLSALSHS  391 (589)
Q Consensus       317 ~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~-ll~a~~~~  391 (589)
                      ++...+.-..++++.+..++.+..    .|...+ .+.++++..|++.+|.++|-+.....++ |..+|.+ |.++|.+.
T Consensus       364 smAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~n  441 (557)
T KOG3785|consen  364 SMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRN  441 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhc
Confidence            444555556678888887777764    444444 4678899999999999999776554444 4556654 55778899


Q ss_pred             CcHHHHHHHHHHHHHhcCCCCChh-hHHHHHHHHHHcCCHHHHHHHHHhcCC-CCChhHHHHHHHHH
Q 048179          392 GLVEEGRYWFDLMVSKYKIQPTEK-HYACMVDLLARAGEVEEALKIVDSMST-EPGLAVWVALLSGC  456 (589)
Q Consensus       392 g~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~  456 (589)
                      +.++.|+.++-.+.    .+.+.. ....+..-+.+++.+=-|-+.|+.+.. .|++..|..--.+|
T Consensus       442 kkP~lAW~~~lk~~----t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~pEnWeGKRGAC  504 (557)
T KOG3785|consen  442 KKPQLAWDMMLKTN----TPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTPENWEGKRGAC  504 (557)
T ss_pred             CCchHHHHHHHhcC----CchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCccccCCccchH
Confidence            99999977765543    222322 334455678889998888888888754 68888886544444

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.13  E-value=2.9e-07  Score=83.03  Aligned_cols=288  Identities=14%  Similarity=0.139  Sum_probs=176.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHH---HHHHhCCChhHHHHHHHHHHhcCCCCCHHHH-HHHHHHHhccC
Q 048179          217 SLVDMYAKTGHLDLASHVFKNMSRINIVTWGALI---SGFAQNGLAGSTLELLMEMQSCGFEPDSVSL-VSALLACAQIG  292 (589)
Q Consensus       217 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li---~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~-~~ll~~~~~~~  292 (589)
                      -|...+...|++.+|..-|....+.|+..|.++.   ..|...|+..-|+.-|.+.++.  +||-..- ..-...+.+.|
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            3455555666666676666666665555554443   4566666666666666666654  5553221 11122345666


Q ss_pred             chhhHHHHHHHHhhcCCCC---hhH------------HHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHH
Q 048179          293 FLKLGKSIHGYTVRRFDFN---LVL------------GTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYG  354 (589)
Q Consensus       293 ~~~~a~~~~~~~~~~~~~~---~~~------------~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~  354 (589)
                      .++.|..-|..+....+.+   ...            ....+..+.-.|+...|+.....+.+   -|...+..-..+|.
T Consensus       121 ele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~Wda~l~~~Rakc~i  200 (504)
T KOG0624|consen  121 ELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQPWDASLRQARAKCYI  200 (504)
T ss_pred             cHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcchhHHHHHHHHHHH
Confidence            6666666666665222211   111            11223334456677777777776654   35555666667777


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChh----hHHHH---------H
Q 048179          355 IHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEK----HYACM---------V  421 (589)
Q Consensus       355 ~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~----~~~~l---------~  421 (589)
                      ..|.+..|+.-++..-+.. .-+..++.-+-..+...|+.+.++...++..   .+.||..    .|..|         +
T Consensus       201 ~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECL---KldpdHK~Cf~~YKklkKv~K~les~  276 (504)
T KOG0624|consen  201 AEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECL---KLDPDHKLCFPFYKKLKKVVKSLESA  276 (504)
T ss_pred             hcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHH---ccCcchhhHHHHHHHHHHHHHHHHHH
Confidence            7777777777666655432 2233344444555566677777777666666   4455532    12211         1


Q ss_pred             HHHHHcCCHHHHHHHHHhc-CCCCChh-----HHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCC
Q 048179          422 DLLARAGEVEEALKIVDSM-STEPGLA-----VWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQK  495 (589)
Q Consensus       422 ~~~~~~g~~~~A~~~~~~~-~~~p~~~-----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  495 (589)
                      ....+.++|.++++-.++. ..+|...     .+..+-.+++..+++.+|++...+++.++|++..++...+.+|.-...
T Consensus       277 e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~  356 (504)
T KOG0624|consen  277 EQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEM  356 (504)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHH
Confidence            2234566777777766663 4445422     344455566788899999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHhCC
Q 048179          496 WEEVAGVRKTMRKSG  510 (589)
Q Consensus       496 ~~~a~~~~~~m~~~g  510 (589)
                      +++|+.-++.+.+.+
T Consensus       357 YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  357 YDDAIHDYEKALELN  371 (504)
T ss_pred             HHHHHHHHHHHHhcC
Confidence            999999999887643

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.12  E-value=8.1e-09  Score=99.50  Aligned_cols=249  Identities=12%  Similarity=0.053  Sum_probs=189.3

Q ss_pred             HhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHH
Q 048179          288 CAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALS  364 (589)
Q Consensus       288 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~  364 (589)
                      +.+.|++..|.-.|+..+...|.+...|.-|.......++-..|+..+.++.+   .|....-+|.-.|...|.-.+|++
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~  374 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALK  374 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHH
Confidence            45677888888888888888888889999999888888888888888888876   355677777778888898899999


Q ss_pred             HHHHHHHcCCC--------CCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHH
Q 048179          365 LFLQMIETMVK--------PDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKI  436 (589)
Q Consensus       365 ~~~~m~~~~~~--------p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  436 (589)
                      .|+.-+...++        ++..+-..  ........+....++|-++....+..+|.++..+|.-+|--.|.+++|.+-
T Consensus       375 ~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDc  452 (579)
T KOG1125|consen  375 MLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDC  452 (579)
T ss_pred             HHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHH
Confidence            98887654311        00000000  122233344556666766666556668899999999999999999999999


Q ss_pred             HHhc-CCCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCccC
Q 048179          437 VDSM-STEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKV  514 (589)
Q Consensus       437 ~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~  514 (589)
                      |+.+ ..+| |...|+-|+.+++.-.+.++|+.+|.+++++.|.-..+.+.|+-.|...|.++||.+.+-.+....-+..
T Consensus       453 f~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~ks~  532 (579)
T KOG1125|consen  453 FEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQRKSR  532 (579)
T ss_pred             HHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhccc
Confidence            9997 4456 6778999999999999999999999999999999999999999999999999999999888765332210


Q ss_pred             CceeEEEECCEEEEEEecCCCCCChHHHHHHHHHHHHHHH
Q 048179          515 PGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMR  554 (589)
Q Consensus       515 ~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~l~~~~~  554 (589)
                      .               ..+..++ .+.|+..|......|.
T Consensus       533 ~---------------~~~~~~~-se~iw~tLR~als~~~  556 (579)
T KOG1125|consen  533 N---------------HNKAPMA-SENIWQTLRLALSAMN  556 (579)
T ss_pred             c---------------cccCCcc-hHHHHHHHHHHHHHcC
Confidence            0               0111222 5778888876555554

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

Probab=99.12  E-value=3.3e-09  Score=94.63  Aligned_cols=238  Identities=12%  Similarity=0.038  Sum_probs=163.3

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHhhcCC--CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHH-HHHH
Q 048179          211 DVKVQTSLVDMYAKTGHLDLASHVFKNMSR--INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVS-ALLA  287 (589)
Q Consensus       211 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~-ll~~  287 (589)
                      |-.--+-+..+|.+.|.+.+|.+.|+...+  +-+.+|-.|-..|.+..+++.|+.++.+-.+.  .|-.+||.. ..+.
T Consensus       222 dwwWk~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi  299 (478)
T KOG1129|consen  222 DWWWKQQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARI  299 (478)
T ss_pred             hHHHHHHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHH
Confidence            334446788999999999999999988754  67789999999999999999999999998886  677777632 3333


Q ss_pred             HhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHH
Q 048179          288 CAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALS  364 (589)
Q Consensus       288 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~  364 (589)
                      +...+.                                  .++|.++|+...+   .++.+...+..+|.-.++++-|+.
T Consensus       300 ~eam~~----------------------------------~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~Alr  345 (478)
T KOG1129|consen  300 HEAMEQ----------------------------------QEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALR  345 (478)
T ss_pred             HHHHHh----------------------------------HHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHH
Confidence            333344                                  4455555554443   234444445556666677777777


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC--hhhHHHHHHHHHHcCCHHHHHHHHHhcCC
Q 048179          365 LFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT--EKHYACMVDLLARAGEVEEALKIVDSMST  442 (589)
Q Consensus       365 ~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  442 (589)
                      .++++.+.|+. ++..|..+.-+|.-.+.+|-++..|.++... .-.|+  .+.|-.+.......|++.-|.+-|+-...
T Consensus       346 yYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~RAlst-at~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~  423 (478)
T KOG1129|consen  346 YYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQRALST-ATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALT  423 (478)
T ss_pred             HHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHHHHHhh-ccCcchhhhhhhccceeEEeccchHHHHHHHHHHhc
Confidence            77777777744 4566666777777777777777777776654 33344  45666677777777777777777766532


Q ss_pred             -CC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHH
Q 048179          443 -EP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALV  486 (589)
Q Consensus       443 -~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  486 (589)
                       .| ....++.|.-.-.+.|+++.|..++..+....|+-.....++
T Consensus       424 ~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P~m~E~~~Nl  469 (478)
T KOG1129|consen  424 SDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVMPDMAEVTTNL  469 (478)
T ss_pred             cCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCccccccccce
Confidence             23 455677777667777777777777777777777654444333

>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=99.06  E-value=1.7e-07  Score=93.98  Aligned_cols=282  Identities=11%  Similarity=0.065  Sum_probs=167.9

Q ss_pred             HHHHhcCCHHHHHHHHhhcCC--CCee-hHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHh----c--
Q 048179          220 DMYAKTGHLDLASHVFKNMSR--INIV-TWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACA----Q--  290 (589)
Q Consensus       220 ~~~~~~g~~~~A~~~~~~~~~--~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~----~--  290 (589)
                      ..+...|++++|.+.++.-..  .|.. ........+.+.|+.++|..+|..+++.  .|+...|...+..+.    .  
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~r--NPdn~~Yy~~L~~~~g~~~~~~   89 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDR--NPDNYDYYRGLEEALGLQLQLS   89 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHhhhcccc
Confidence            344566777777777765443  2332 3344556667777777777777777776  455555554444443    1  


Q ss_pred             cCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCH-HHHHHHHHhcCCCCh-hHHHHHHHHHHhcCCHHHHHHHHHH
Q 048179          291 IGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVP-SCARALFDQMQSRDL-ISWNVIIASYGIHGHGEEALSLFLQ  368 (589)
Q Consensus       291 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~  368 (589)
                      ....+....+++......|-.... ..+.-.+.....+ ..+...+..+..+.+ .+++.+-..|.......-..+++..
T Consensus        90 ~~~~~~~~~~y~~l~~~yp~s~~~-~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~  168 (517)
T PF12569_consen   90 DEDVEKLLELYDELAEKYPRSDAP-RRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEE  168 (517)
T ss_pred             cccHHHHHHHHHHHHHhCccccch-hHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHH
Confidence            113445555555554333222111 1111111111111 123333333334443 3455555555544444444455554


Q ss_pred             HHHc----C----------CCCCH--HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHH
Q 048179          369 MIET----M----------VKPDH--STFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVE  431 (589)
Q Consensus       369 m~~~----~----------~~p~~--~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~  431 (589)
                      ....    +          -+|..  .++..+...|...|++++|+++.+.+.+.   .|+ ++.|..-.+.|-+.|+++
T Consensus       169 ~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h---tPt~~ely~~KarilKh~G~~~  245 (517)
T PF12569_consen  169 YVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH---TPTLVELYMTKARILKHAGDLK  245 (517)
T ss_pred             HHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc---CCCcHHHHHHHHHHHHHCCCHH
Confidence            4322    1          12333  24455566678899999999999998853   466 788888899999999999


Q ss_pred             HHHHHHHhcCC-C-CChhHHHHHHHHHHhcCCchHHHHHHHHHhccC--CCC-------chhHHHHHHHHHhCCChHHHH
Q 048179          432 EALKIVDSMST-E-PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLN--PDD-------LGIHALVSNFFAMEQKWEEVA  500 (589)
Q Consensus       432 ~A~~~~~~~~~-~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p~~-------~~~~~~l~~~~~~~g~~~~a~  500 (589)
                      +|.+.++.... . -|...-+-....+.+.|++++|++.+....+.+  |..       .......|.+|.+.|++..|+
T Consensus       246 ~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~AL  325 (517)
T PF12569_consen  246 EAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLAL  325 (517)
T ss_pred             HHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence            99999988743 3 355555555666788999999999998887654  221       122344678899999999998


Q ss_pred             HHHHHHH
Q 048179          501 GVRKTMR  507 (589)
Q Consensus       501 ~~~~~m~  507 (589)
                      +.+....
T Consensus       326 k~~~~v~  332 (517)
T PF12569_consen  326 KRFHAVL  332 (517)
T ss_pred             HHHHHHH
Confidence            8776654

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 [], [].

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.05  E-value=1.1e-05  Score=82.95  Aligned_cols=144  Identities=12%  Similarity=0.211  Sum_probs=117.1

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHH
Q 048179          342 DLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMV  421 (589)
Q Consensus       342 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  421 (589)
                      .+..|+.+..+-.+.|...+|++-|-+      .-|+..|.-++..+.+.|.+++-.+++..+.++ ...|..+  +.|+
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyik------adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk-~~E~~id--~eLi 1173 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIK------ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKK-VREPYID--SELI 1173 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHh------cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-hcCccch--HHHH
Confidence            345799999999999999999988754      336778999999999999999999999988876 5566654  5689


Q ss_pred             HHHHHcCCHHHHHHHHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHH
Q 048179          422 DLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAG  501 (589)
Q Consensus       422 ~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  501 (589)
                      -+|++.+++.+-++++..    ||..-....+.-|...|.++.|.-++..        .+.|..|+..+...|.+..|..
T Consensus      1174 ~AyAkt~rl~elE~fi~g----pN~A~i~~vGdrcf~~~~y~aAkl~y~~--------vSN~a~La~TLV~LgeyQ~AVD 1241 (1666)
T KOG0985|consen 1174 FAYAKTNRLTELEEFIAG----PNVANIQQVGDRCFEEKMYEAAKLLYSN--------VSNFAKLASTLVYLGEYQGAVD 1241 (1666)
T ss_pred             HHHHHhchHHHHHHHhcC----CCchhHHHHhHHHhhhhhhHHHHHHHHH--------hhhHHHHHHHHHHHHHHHHHHH
Confidence            999999999998877643    7777788888889999999988877754        4567788888888888888876


Q ss_pred             HHHHH
Q 048179          502 VRKTM  506 (589)
Q Consensus       502 ~~~~m  506 (589)
                      .-+++
T Consensus      1242 ~aRKA 1246 (1666)
T KOG0985|consen 1242 AARKA 1246 (1666)
T ss_pred             Hhhhc
Confidence            65544

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.05  E-value=2.7e-07  Score=94.36  Aligned_cols=494  Identities=15%  Similarity=0.053  Sum_probs=262.4

Q ss_pred             chHhHHHHhhhcCCChHHHHHHhccCCC---CCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCC-CCCcccHHHHHHHH
Q 048179           11 NSVGRIIALYGGKNDIVSARKLFEELPL---RGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDV-RPDSSTFTVALKAC   86 (589)
Q Consensus        11 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~   86 (589)
                      ..|..|-..|....+...|.+.|+..-+   .+..++......|++..+++.|..+.-.--+... ..-...|..+--.+
T Consensus       493 paf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yy  572 (1238)
T KOG1127|consen  493 PAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYY  572 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccc
Confidence            4678888888888888889999987654   4567888899999999999999887332222110 00111222233345


Q ss_pred             hccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCcchHHH---HHHHHHhCCCccHHHH
Q 048179           87 VSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSS---MINGLVFNGQPREAVD  163 (589)
Q Consensus        87 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~---li~~~~~~g~~~~A~~  163 (589)
                      ...++...+..-|+...+.. +.|...|..|..+|.++|+...|.++|.+...-++.++-.   .....+..|.+.+|+.
T Consensus       573 Lea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~GkYkeald  651 (1238)
T KOG1127|consen  573 LEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGKYKEALD  651 (1238)
T ss_pred             cCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHHHHH
Confidence            56677888888888877765 4478899999999999999999999998877644333222   1223356788888888


Q ss_pred             HHHHHHHC------CCCCChhhHHHHHHHHHccCCcHHHHHHHHH-------HHHhcCCCchHHHHHHHHHH--------
Q 048179          164 AYKRMKKE------GIDADEVVMMGLIQACADLGDSRFGLSVHGY-------SIRRHLNLDVKVQTSLVDMY--------  222 (589)
Q Consensus       164 ~~~~m~~~------~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~-------~~~~~~~~~~~~~~~l~~~~--------  222 (589)
                      .+......      +...-..++..+...+...|-...+..+++.       ........+...|-.+.+++        
T Consensus       652 ~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~q~e~  731 (1238)
T KOG1127|consen  652 ALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFSQEEP  731 (1238)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHHHhcc
Confidence            77776432      1111122333333333333333333333322       22222122222222222211        


Q ss_pred             -----------Hh----cCCH---H---HHHHHHhhcCC--CCeehHHHHHHHHHh----C----CChhHHHHHHHHHHh
Q 048179          223 -----------AK----TGHL---D---LASHVFKNMSR--INIVTWGALISGFAQ----N----GLAGSTLELLMEMQS  271 (589)
Q Consensus       223 -----------~~----~g~~---~---~A~~~~~~~~~--~~~~~~~~li~~~~~----~----g~~~~a~~~~~~m~~  271 (589)
                                 ..    .+..   +   -+.+.+-.-.+  .+..+|..++..|.+    .    .+...|+..+.+..+
T Consensus       732 ~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~  811 (1238)
T KOG1127|consen  732 SIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVS  811 (1238)
T ss_pred             cchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHH
Confidence                       11    1111   0   01111100000  235667777665544    1    123467777777665


Q ss_pred             cCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHH
Q 048179          272 CGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNV  348 (589)
Q Consensus       272 ~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~  348 (589)
                      .  ..+...+...+......|++.-+...+-......+....+|..+.-.+.+..+++.|...|.....   .|...|-.
T Consensus       812 L--~ann~~~WnaLGVlsg~gnva~aQHCfIks~~sep~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLdP~nl~~WlG  889 (1238)
T KOG1127|consen  812 L--CANNEGLWNALGVLSGIGNVACAQHCFIKSRFSEPTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLDPLNLVQWLG  889 (1238)
T ss_pred             H--hhccHHHHHHHHHhhccchhhhhhhhhhhhhhccccchhheeccceeEEecccHHHhhHHHHhhhhcCchhhHHHHH
Confidence            4  344444444455555556665555555444455566666777777777777777777777776654   23445544


Q ss_pred             HHHHHHhcCCHHHHHHHHHHH--HH--cC--------------------------------------------CCCCHHH
Q 048179          349 IIASYGIHGHGEEALSLFLQM--IE--TM--------------------------------------------VKPDHST  380 (589)
Q Consensus       349 li~~~~~~g~~~~A~~~~~~m--~~--~~--------------------------------------------~~p~~~t  380 (589)
                      ........|+.-++..+|..-  ..  .|                                            .+-+.+.
T Consensus       890 ~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~~~fA  969 (1238)
T KOG1127|consen  890 EALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFLGHPQLCFA  969 (1238)
T ss_pred             HHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHhcCcchhHH
Confidence            444444445544444444431  10  11                                            1222334


Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHH----HHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHHHHHH
Q 048179          381 FASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYA----CMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGC  456 (589)
Q Consensus       381 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~----~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~  456 (589)
                      |...+....+.+.+..|.....+...-...+-+...|+    .+.+.+...|.++.|..-+.....+.|..+..+-+.. 
T Consensus       970 y~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~~~evdEdi~gt~l~l- 1048 (1238)
T KOG1127|consen  970 YAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWKEWMEVDEDIRGTDLTL- 1048 (1238)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcccchhHHHHHhhhhHHH-
Confidence            44444444444444444444433322111112222333    2334444555555555444443333333333222222 


Q ss_pred             HhcCCchHHHHHHHHHhccCCCCch---hHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          457 HNHKKFSIGEKVAKKVLKLNPDDLG---IHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       457 ~~~~~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      .-.|+++++.+.|++++.+..++..   ....++......+.-+.|...+-+...
T Consensus      1049 Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~~ 1103 (1238)
T KOG1127|consen 1049 FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVKS 1103 (1238)
T ss_pred             HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHHH
Confidence            3467889999999999987654433   334455556667777778776555543

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

Probab=99.01  E-value=2.1e-07  Score=79.60  Aligned_cols=168  Identities=13%  Similarity=0.071  Sum_probs=87.6

Q ss_pred             ChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHH
Q 048179          311 NLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPD-HSTFASLLS  386 (589)
Q Consensus       311 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~t~~~ll~  386 (589)
                      +..++..+...|.+.|+.+.|.+-|++..+   .+-...|....-+|..|++++|...|++....-.-|. ..||..+.-
T Consensus        68 ~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~  147 (250)
T COG3063          68 YYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGL  147 (250)
T ss_pred             cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHH
Confidence            333444445555555555555555555432   2334445555555555666666666665554322222 235555555


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchH
Q 048179          387 ALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSI  464 (589)
Q Consensus       387 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~  464 (589)
                      +..+.|+.+.|..+|++..+.  .+-.......+.+.....|++-.|..+++....  .++..++...+..-...||.+.
T Consensus       148 Cal~~gq~~~A~~~l~raL~~--dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~~~A~sL~L~iriak~~gd~~~  225 (250)
T COG3063         148 CALKAGQFDQAEEYLKRALEL--DPQFPPALLELARLHYKAGDYAPARLYLERYQQRGGAQAESLLLGIRIAKRLGDRAA  225 (250)
T ss_pred             HHhhcCCchhHHHHHHHHHHh--CcCCChHHHHHHHHHHhcccchHHHHHHHHHHhcccccHHHHHHHHHHHHHhccHHH
Confidence            555666666666666665542  112244455555666666666666666655422  2444455555555555666665


Q ss_pred             HHHHHHHHhccCCCCc
Q 048179          465 GEKVAKKVLKLNPDDL  480 (589)
Q Consensus       465 a~~~~~~~~~~~p~~~  480 (589)
                      +-+.-.++.+..|.+.
T Consensus       226 a~~Y~~qL~r~fP~s~  241 (250)
T COG3063         226 AQRYQAQLQRLFPYSE  241 (250)
T ss_pred             HHHHHHHHHHhCCCcH
Confidence            5555555555555443

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.00  E-value=1.7e-07  Score=89.75  Aligned_cols=90  Identities=12%  Similarity=0.127  Sum_probs=80.0

Q ss_pred             HHHHHHcCCHHHHHHHHHhcCC-CC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHH
Q 048179          421 VDLLARAGEVEEALKIVDSMST-EP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEE  498 (589)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  498 (589)
                      ...+.+.|++..|++.|.++.. .| |...|.....+|.+.|++..|..-.+..++++|+....|..=+.++....+|++
T Consensus       365 Gne~Fk~gdy~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydk  444 (539)
T KOG0548|consen  365 GNEAFKKGDYPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDK  444 (539)
T ss_pred             HHHHHhccCHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHH
Confidence            5667889999999999999743 35 677888888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCC
Q 048179          499 VAGVRKTMRKSG  510 (589)
Q Consensus       499 a~~~~~~m~~~g  510 (589)
                      |.+.|++..+..
T Consensus       445 Aleay~eale~d  456 (539)
T KOG0548|consen  445 ALEAYQEALELD  456 (539)
T ss_pred             HHHHHHHHHhcC
Confidence            999999887644

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

Probab=98.98  E-value=1.2e-06  Score=86.25  Aligned_cols=294  Identities=11%  Similarity=-0.011  Sum_probs=166.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcCC---CCeeh---HHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHH-HHHHHHH
Q 048179          214 VQTSLVDMYAKTGHLDLASHVFKNMSR---INIVT---WGALISGFAQNGLAGSTLELLMEMQSCGFEPDSV-SLVSALL  286 (589)
Q Consensus       214 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~---~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~  286 (589)
                      .+..+...+...|+.+.+.+.+....+   .+...   .......+...|++++|...+++..+.  .|+.. .+.. ..
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~--~P~~~~a~~~-~~   84 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDD--YPRDLLALKL-HL   84 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHH-hH
Confidence            334444444445555554444443321   12111   112233455677777777777777665  33332 2221 11


Q ss_pred             HHh----ccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCH
Q 048179          287 ACA----QIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHG  359 (589)
Q Consensus       287 ~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~  359 (589)
                      .+.    ..+....+.+.........+........+...+...|++++|...+++..+   .+...+..+...+...|++
T Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~  164 (355)
T cd05804          85 GAFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRF  164 (355)
T ss_pred             HHHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCH
Confidence            111    223333343333331133333344555666778888888888888888764   3456677788888888999


Q ss_pred             HHHHHHHHHHHHcCC-CCCH--HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhH-H--HHHHHHHHcCCHHHH
Q 048179          360 EEALSLFLQMIETMV-KPDH--STFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHY-A--CMVDLLARAGEVEEA  433 (589)
Q Consensus       360 ~~A~~~~~~m~~~~~-~p~~--~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~-~--~l~~~~~~~g~~~~A  433 (589)
                      ++|...+++...... .|+.  ..+..+...+...|++++|..+++.+.......+..... +  .+...+...|..+.+
T Consensus       165 ~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~  244 (355)
T cd05804         165 KEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVG  244 (355)
T ss_pred             HHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChH
Confidence            999998888776432 1232  235567777888899999999998875321111111111 1  223333444433333


Q ss_pred             HHH--H-HhcCCC-CC---hhHHHHHHHHHHhcCCchHHHHHHHHHhccCC---------CCchhHHHHHHHHHhCCChH
Q 048179          434 LKI--V-DSMSTE-PG---LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNP---------DDLGIHALVSNFFAMEQKWE  497 (589)
Q Consensus       434 ~~~--~-~~~~~~-p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p---------~~~~~~~~l~~~~~~~g~~~  497 (589)
                      .++  + ...... |.   .........++...|+.+.|...++.+....-         .........+.++...|+++
T Consensus       245 ~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~  324 (355)
T cd05804         245 DRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYA  324 (355)
T ss_pred             HHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHH
Confidence            332  1 111111 11   12223455667888999999999988764321         13456677888899999999


Q ss_pred             HHHHHHHHHHhCC
Q 048179          498 EVAGVRKTMRKSG  510 (589)
Q Consensus       498 ~a~~~~~~m~~~g  510 (589)
                      +|.+.+......+
T Consensus       325 ~A~~~L~~al~~a  337 (355)
T cd05804         325 TALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999887644

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.98  E-value=9.8e-06  Score=90.59  Aligned_cols=195  Identities=11%  Similarity=0.050  Sum_probs=116.2

Q ss_pred             HHHHHHhHhcCCHHHHHHHHHhcCC-------CC----hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCCC--HHH
Q 048179          316 TSVIDMYSKCGVPSCARALFDQMQS-------RD----LISWNVIIASYGIHGHGEEALSLFLQMIETM--VKPD--HST  380 (589)
Q Consensus       316 ~~l~~~~~~~g~~~~A~~~~~~~~~-------~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~--~~p~--~~t  380 (589)
                      ..+...+...|+++.|...+++...       ++    ...+..+...+...|++++|...+.+.....  ..+.  ...
T Consensus       535 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~  614 (903)
T PRK04841        535 LQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQC  614 (903)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHH
Confidence            3445555666677666666554432       11    1223344455666788888888777765421  1121  223


Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhH-----HHHHHHHHHcCCHHHHHHHHHhcCCC--CCh----hHH
Q 048179          381 FASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHY-----ACMVDLLARAGEVEEALKIVDSMSTE--PGL----AVW  449 (589)
Q Consensus       381 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~~--p~~----~~~  449 (589)
                      +..+.......|++++|...++.+............+     ......+...|+.+.|.+++......  ...    ..+
T Consensus       615 ~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~  694 (903)
T PRK04841        615 LAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQW  694 (903)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHH
Confidence            4445556677888888888887775421111111111     11224445678888888888775431  111    113


Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHhccC------CCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          450 VALLSGCHNHKKFSIGEKVAKKVLKLN------PDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       450 ~~l~~~~~~~~~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      ..+..++...|++++|...++++++..      +.....+..++.+|.+.|+.++|...+.++.+..
T Consensus       695 ~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        695 RNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            455666778888889988888887642      1233467778888889999999988888887643

>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=98.96  E-value=8.9e-08  Score=89.38  Aligned_cols=247  Identities=12%  Similarity=0.024  Sum_probs=110.0

Q ss_pred             HHHHhcCCHHHHHHHHhhcCCC----CeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchh
Q 048179          220 DMYAKTGHLDLASHVFKNMSRI----NIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLK  295 (589)
Q Consensus       220 ~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~  295 (589)
                      .-++-.|++..+..-.+ ....    +.....-+.+++...|+++.++   .++.... .|....+..+...+....+-+
T Consensus         9 rn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e   83 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKE   83 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHH
T ss_pred             HHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchH
Confidence            34455677777775444 2221    1223444566777777766543   3333332 555554444444443333333


Q ss_pred             hHHHHHHHHh-hcCC-CChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 048179          296 LGKSIHGYTV-RRFD-FNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETM  373 (589)
Q Consensus       296 ~a~~~~~~~~-~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  373 (589)
                      .+..-+.... .... .+..+......++...|++++|++++...  .+.......+..|.+.+|++.|.+.++.|.+. 
T Consensus        84 ~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~-  160 (290)
T PF04733_consen   84 SALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI-  160 (290)
T ss_dssp             CHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-
T ss_pred             HHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc-
Confidence            3332222222 2111 12222222233344455555555555443  23334444445555555555555555555432 


Q ss_pred             CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCC--CChhHHHH
Q 048179          374 VKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTE--PGLAVWVA  451 (589)
Q Consensus       374 ~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--p~~~~~~~  451 (589)
                       ..|. +...+..++                                +..+.-.+.+.+|..+|+++..+  +++.+++.
T Consensus       161 -~eD~-~l~qLa~aw--------------------------------v~l~~g~e~~~~A~y~f~El~~~~~~t~~~lng  206 (290)
T PF04733_consen  161 -DEDS-ILTQLAEAW--------------------------------VNLATGGEKYQDAFYIFEELSDKFGSTPKLLNG  206 (290)
T ss_dssp             -SCCH-HHHHHHHHH--------------------------------HHHHHTTTCCCHHHHHHHHHHCCS--SHHHHHH
T ss_pred             -CCcH-HHHHHHHHH--------------------------------HHHHhCchhHHHHHHHHHHHHhccCCCHHHHHH
Confidence             2221 222222221                                12221222345555555554322  34445555


Q ss_pred             HHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCCh-HHHHHHHHHHHh
Q 048179          452 LLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKW-EEVAGVRKTMRK  508 (589)
Q Consensus       452 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~-~~a~~~~~~m~~  508 (589)
                      +..++...|++++|+.+++++++.+|+++.+...++.+....|+. +.+.+++.+++.
T Consensus       207 ~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  207 LAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            555566666666666666666666666666666666666666666 445555555554

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.

>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=98.95  E-value=9.4e-08  Score=89.23  Aligned_cols=186  Identities=15%  Similarity=0.065  Sum_probs=98.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCC-CHHHHHHHHHHHhccC
Q 048179          214 VQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEP-DSVSLVSALLACAQIG  292 (589)
Q Consensus       214 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~  292 (589)
                      ....+.++|...|+.+.+..-...-..|.......+...+...++-+.++.-+++.......+ +..........+...|
T Consensus        37 ~~~~~~Rs~iAlg~~~~vl~ei~~~~~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~  116 (290)
T PF04733_consen   37 RDFYQYRSYIALGQYDSVLSEIKKSSSPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEG  116 (290)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHS-TTSSCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCC
T ss_pred             HHHHHHHHHHHcCChhHHHHHhccCCChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcC
Confidence            344455666667776655544443334444444444433333344455555555544333232 2222333334456667


Q ss_pred             chhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCCh-hHHHHHHHHH----HhcCCHHHHHHHHH
Q 048179          293 FLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDL-ISWNVIIASY----GIHGHGEEALSLFL  367 (589)
Q Consensus       293 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~li~~~----~~~g~~~~A~~~~~  367 (589)
                      +++.|.++....     .+.......+.+|.+.++++.|.+.++.|.+-+. .+...+..++    .-.+.+.+|..+|+
T Consensus       117 ~~~~AL~~l~~~-----~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~  191 (290)
T PF04733_consen  117 DYEEALKLLHKG-----GSLELLALAVQILLKMNRPDLAEKELKNMQQIDEDSILTQLAEAWVNLATGGEKYQDAFYIFE  191 (290)
T ss_dssp             HHHHHHCCCTTT-----TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHH
T ss_pred             CHHHHHHHHHcc-----CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhCchhHHHHHHHHH
Confidence            777766544321     3556667788999999999999999999976321 2222222222    22234666777776


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 048179          368 QMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMV  405 (589)
Q Consensus       368 ~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  405 (589)
                      ++.+. ..++..+.+.+..++...|++++|.+++.+..
T Consensus       192 El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al  228 (290)
T PF04733_consen  192 ELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEAL  228 (290)
T ss_dssp             HHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHC
T ss_pred             HHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            65443 34555566666666666666666666655544

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.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.93  E-value=1.6e-06  Score=88.96  Aligned_cols=460  Identities=12%  Similarity=0.045  Sum_probs=273.9

Q ss_pred             hHHHHHHhccCCCCC---cccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHH
Q 048179           26 IVSARKLFEELPLRG---VDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKA  102 (589)
Q Consensus        26 ~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  102 (589)
                      ...|...|=+..+.|   ...|..|...|...-+...|.+.|....+.+ ..|..........+++..+++.|..+.-..
T Consensus       474 ~~~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~  552 (1238)
T KOG1127|consen  474 SALALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRA  552 (1238)
T ss_pred             HHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHH
Confidence            444444443333333   3468888888877778888888888887765 336677778888888888888888873222


Q ss_pred             HHhCC-CCChhhHHHHHHHHHhCCChHHHHHHHHhcCC---CCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChh
Q 048179          103 VELGY-GNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR---KDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEV  178 (589)
Q Consensus       103 ~~~g~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  178 (589)
                      -+... ..-..-|..+.-.|...+++..|..-|+....   .|...|..+..+|.+.|++..|+++|.+....  .|+. 
T Consensus       553 ~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s-  629 (1238)
T KOG1127|consen  553 AQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLS-  629 (1238)
T ss_pred             hhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHh-
Confidence            21110 00111222244456667888888888887765   36778888999999999999999999887664  4543 


Q ss_pred             hHHHHH--HHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHH-------HhcCCHHHHHHHHhhcCC---------
Q 048179          179 VMMGLI--QACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMY-------AKTGHLDLASHVFKNMSR---------  240 (589)
Q Consensus       179 t~~~ll--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-------~~~g~~~~A~~~~~~~~~---------  240 (589)
                      +|....  ..-+..|.+.++...+..++..- ..-....+.|...+       .-.|-..+|.+.|++-.+         
T Consensus       630 ~y~~fk~A~~ecd~GkYkeald~l~~ii~~~-s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~  708 (1238)
T KOG1127|consen  630 KYGRFKEAVMECDNGKYKEALDALGLIIYAF-SLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHS  708 (1238)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH-HHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHh
Confidence            333222  22356788888888888776532 11112222333333       333444445555544321         


Q ss_pred             --CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCch---h---hHHHHHHHHhhcCCCCh
Q 048179          241 --INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFL---K---LGKSIHGYTVRRFDFNL  312 (589)
Q Consensus       241 --~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~---~---~a~~~~~~~~~~~~~~~  312 (589)
                        .+...|-.+          ..|..+|....- . .|+......+..-....+..   +   .|-..+... .....++
T Consensus       709 ~~~~~~~Wi~a----------sdac~~f~q~e~-~-~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~h-lsl~~~~  775 (1238)
T KOG1127|consen  709 LQSDRLQWIVA----------SDACYIFSQEEP-S-IVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAH-LSLAIHM  775 (1238)
T ss_pred             hhhhHHHHHHH----------hHHHHHHHHhcc-c-chHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHH-HHHhhcc
Confidence              112222222          223333433331 1 23322222222212222222   1   111111111 1112224


Q ss_pred             hHHHHHHHHhHh----cC----CHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 048179          313 VLGTSVIDMYSK----CG----VPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTF  381 (589)
Q Consensus       313 ~~~~~l~~~~~~----~g----~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~  381 (589)
                      ..|..|+..|.+    +|    +...|...+.+..+   .+...||++.-. ...|++.-|.-.|-+-.... +....+|
T Consensus       776 ~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W  853 (1238)
T KOG1127|consen  776 YPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQW  853 (1238)
T ss_pred             chHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhhe
Confidence            444444443333    22    22356777766543   677888887655 55577777777776655442 3456688


Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc-----CC--CCChhHHHHHHH
Q 048179          382 ASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM-----ST--EPGLAVWVALLS  454 (589)
Q Consensus       382 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-----~~--~p~~~~~~~l~~  454 (589)
                      ..+.-.|....+++.|...|...+.  -.+.+...|..........|+.-++..+|..-     ..  -|+..-|.+-..
T Consensus       854 ~NlgvL~l~n~d~E~A~~af~~~qS--LdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te  931 (1238)
T KOG1127|consen  854 LNLGVLVLENQDFEHAEPAFSSVQS--LDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATE  931 (1238)
T ss_pred             eccceeEEecccHHHhhHHHHhhhh--cCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHH
Confidence            8888888999999999999999874  33444667776666777888888888888762     11  266666666555


Q ss_pred             HHHhcCCchHHHHH----------HHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHH
Q 048179          455 GCHNHKKFSIGEKV----------AKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       455 ~~~~~~~~~~a~~~----------~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      -...+|++++-+..          +++.++-.|+...+|...+....+.+.+.+|.+...+..
T Consensus       932 ~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~Rli  994 (1238)
T KOG1127|consen  932 IHLQNGNIEESINTARKISSASLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLI  994 (1238)
T ss_pred             HHHhccchHHHHHHhhhhhhhHHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            56667766655444          445556679999999999999999999999888777654

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.92  E-value=7.9e-06  Score=81.22  Aligned_cols=261  Identities=16%  Similarity=0.177  Sum_probs=155.4

Q ss_pred             HHHHHhcCCHHHHHHHHhhcCCCCee--hHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhh
Q 048179          219 VDMYAKTGHLDLASHVFKNMSRINIV--TWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKL  296 (589)
Q Consensus       219 ~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~  296 (589)
                      +.+.....+|.+|..+++.+.+.++.  -|..+...|...|+++.|.++|.+.-         .+.-.+..|.+.|.++.
T Consensus       739 ieaai~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~d  809 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWED  809 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHH
Confidence            34445566677777777666654432  24455566666677777766664421         23445556666666666


Q ss_pred             HHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 048179          297 GKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKP  376 (589)
Q Consensus       297 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  376 (589)
                      |..+-... .+-+.....|-+-..-.-+.|++.+|.++|-.+..|+.     .|..|-++|..+..+++..+-     .|
T Consensus       810 a~kla~e~-~~~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~-----aiqmydk~~~~ddmirlv~k~-----h~  878 (1636)
T KOG3616|consen  810 AFKLAEEC-HGPEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDK-----AIQMYDKHGLDDDMIRLVEKH-----HG  878 (1636)
T ss_pred             HHHHHHHh-cCchhHHHHHHHhHHhHHhhcchhhhhheeEEccCchH-----HHHHHHhhCcchHHHHHHHHh-----Ch
Confidence            65543322 23333444455555556677888888888877777764     356777888888877776652     33


Q ss_pred             C--HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCC----CChhHHH
Q 048179          377 D--HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTE----PGLAVWV  450 (589)
Q Consensus       377 ~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----p~~~~~~  450 (589)
                      +  ..|...+..-+...|+...|...|-+..          -|.+-+++|...+.|++|.++-+.-.-.    .-...|.
T Consensus       879 d~l~dt~~~f~~e~e~~g~lkaae~~flea~----------d~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flwa  948 (1636)
T KOG3616|consen  879 DHLHDTHKHFAKELEAEGDLKAAEEHFLEAG----------DFKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWA  948 (1636)
T ss_pred             hhhhHHHHHHHHHHHhccChhHHHHHHHhhh----------hHHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHH
Confidence            3  3466666777777788888877766553          2556677777777788777776543211    0111221


Q ss_pred             H------HHHHHHhcC-------------CchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048179          451 A------LLSGCHNHK-------------KFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       451 ~------l~~~~~~~~-------------~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  511 (589)
                      -      ....+.++|             -++-|..+.+-..+  ...+..+..++..+...|++++|.+-+-+..+.+.
T Consensus       949 ksiggdaavkllnk~gll~~~id~a~d~~afd~afdlari~~k--~k~~~vhlk~a~~ledegk~edaskhyveaiklnt 1026 (1636)
T KOG3616|consen  949 KSIGGDAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAAK--DKMGEVHLKLAMFLEDEGKFEDASKHYVEAIKLNT 1026 (1636)
T ss_pred             HhhCcHHHHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhhh--ccCccchhHHhhhhhhccchhhhhHhhHHHhhccc
Confidence            1      111223333             34444444333322  33556788888888999999999887777765443

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.91  E-value=2e-06  Score=82.63  Aligned_cols=167  Identities=13%  Similarity=0.104  Sum_probs=116.9

Q ss_pred             HHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCcHHH
Q 048179          318 VIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHS-TFASLLSALSHSGLVEE  396 (589)
Q Consensus       318 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~-t~~~ll~a~~~~g~~~~  396 (589)
                      +..+|.+.++++.|...|.+...+...     -....+....++++.......-  +.|+.. -...-...+.+.|++..
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~--~~pe~A~e~r~kGne~Fk~gdy~~  376 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAY--INPEKAEEEREKGNEAFKKGDYPE  376 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHh--hChhHHHHHHHHHHHHHhccCHHH
Confidence            445777888899999988875531111     0111223334455544444332  334331 22233667888999999


Q ss_pred             HHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhc
Q 048179          397 GRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLK  474 (589)
Q Consensus       397 a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  474 (589)
                      |...|.+++..  .+.|...|....-+|.+.|.+..|++-.+... ..|+ ...|.--+.++....+++.|.+.|++.++
T Consensus       377 Av~~YteAIkr--~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale  454 (539)
T KOG0548|consen  377 AVKHYTEAIKR--DPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALE  454 (539)
T ss_pred             HHHHHHHHHhc--CCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999874  35568899999999999999999998877653 3444 44566666677778899999999999999


Q ss_pred             cCCCCchhHHHHHHHHHhC
Q 048179          475 LNPDDLGIHALVSNFFAME  493 (589)
Q Consensus       475 ~~p~~~~~~~~l~~~~~~~  493 (589)
                      .+|++......+..++..+
T Consensus       455 ~dp~~~e~~~~~~rc~~a~  473 (539)
T KOG0548|consen  455 LDPSNAEAIDGYRRCVEAQ  473 (539)
T ss_pred             cCchhHHHHHHHHHHHHHh
Confidence            9999988888887777653

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.91  E-value=8.4e-05  Score=76.83  Aligned_cols=218  Identities=10%  Similarity=0.139  Sum_probs=129.7

Q ss_pred             hHHHHhhhcCCChHHHHHHhccCCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHH
Q 048179           14 GRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLK   93 (589)
Q Consensus        14 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~   93 (589)
                      +..+.+|+.+|.++++.-...+...  ..-|-.+|+...+ -+++.+.++...|.+...  ...-++.+...+...+...
T Consensus       485 ~KVi~cfAE~Gqf~KiilY~kKvGy--TPdymflLq~l~r-~sPD~~~qFa~~l~Q~~~--~~~die~I~DlFme~N~iQ  559 (1666)
T KOG0985|consen  485 AKVIQCFAETGQFKKIILYAKKVGY--TPDYMFLLQQLKR-SSPDQALQFAMMLVQDEE--PLADIEQIVDLFMELNLIQ  559 (1666)
T ss_pred             HHHHHHHHHhcchhHHHHHHHHcCC--CccHHHHHHHHHc-cChhHHHHHHHHhhccCC--CcccHHHHHHHHHHHHhhh
Confidence            4555666666666666555544321  2246667777766 678888888887776432  1222233333332222222


Q ss_pred             HHH-------------------HHHHHHHHhCCC----------CChhhHHHHHHHHHhCCChHHHHHHHHhcCC--C--
Q 048179           94 MGE-------------------EIWRKAVELGYG----------NDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR--K--  140 (589)
Q Consensus        94 ~a~-------------------~~~~~~~~~g~~----------~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~--  140 (589)
                      .+.                   ++++.-...++.          -+..-+..+...|.+.|-...|++.+..+.+  +  
T Consensus       560 q~TSFLLdaLK~~~Pd~g~LQTrLLE~NL~~aPqVADAILgN~mFtHyDra~IAqLCEKAGL~qraLehytDl~DIKR~v  639 (1666)
T KOG0985|consen  560 QCTSFLLDALKLNSPDEGHLQTRLLEMNLVHAPQVADAILGNDMFTHYDRAEIAQLCEKAGLLQRALEHYTDLYDIKRVV  639 (1666)
T ss_pred             hhHHHHHHHhcCCChhhhhHHHHHHHHHhccchHHHHHHHhccccccccHHHHHHHHHhcchHHHHHHhcccHHHHHHHH
Confidence            222                   222222222110          0112245667888899999999988877754  1  


Q ss_pred             ---CcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHH-----------h
Q 048179          141 ---DLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIR-----------R  206 (589)
Q Consensus       141 ---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~-----------~  206 (589)
                         +...-..++. |.-.-.+++++++++.|...+++.|..+...+..-|...=-.+...++|+....           .
T Consensus       640 Vhth~L~pEwLv~-yFg~lsve~s~eclkaml~~NirqNlQi~VQvatky~eqlg~~~li~lFE~fks~eGL~yfLgSiv  718 (1666)
T KOG0985|consen  640 VHTHLLNPEWLVN-YFGSLSVEDSLECLKAMLSANIRQNLQIVVQVATKYHEQLGAQALIELFESFKSYEGLYYFLGSIV  718 (1666)
T ss_pred             HHhccCCHHHHHH-HHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCHHHHHHHHHhhccchhHHHHHHHHh
Confidence               1112222333 344456789999999999988888887777766666554444455555554332           1


Q ss_pred             cCCCchHHHHHHHHHHHhcCCHHHHHHHHhh
Q 048179          207 HLNLDVKVQTSLVDMYAKTGHLDLASHVFKN  237 (589)
Q Consensus       207 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  237 (589)
                      ++..|+.+.--.|.+.++.|++.+.+++.++
T Consensus       719 n~seDpevh~KYIqAA~kt~QikEvERicre  749 (1666)
T KOG0985|consen  719 NFSEDPEVHFKYIQAACKTGQIKEVERICRE  749 (1666)
T ss_pred             ccccCchHHHHHHHHHHhhccHHHHHHHHhc
Confidence            3456777788889999999999999888765

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

Probab=98.90  E-value=3.2e-05  Score=75.40  Aligned_cols=408  Identities=13%  Similarity=0.024  Sum_probs=242.6

Q ss_pred             HHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCcchH--HHHHHHHHhCCCccH
Q 048179           83 LKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCW--SSMINGLVFNGQPRE  160 (589)
Q Consensus        83 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~li~~~~~~g~~~~  160 (589)
                      +.-+...+++++|.+...+++..+ +.+...+..=+-+....+++++|+.+.+.-........  -.=..+..+.+..++
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~~~~~~~fEKAYc~Yrlnk~De   97 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGALLVINSFFFEKAYCEYRLNKLDE   97 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhhhcchhhHHHHHHHHHcccHHH
Confidence            445667789999999999998876 55677777777788899999999977665543211111  122334457899999


Q ss_pred             HHHHHHHHHHCCCCCCh-hhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHhcCCHHHHHHHHhhc
Q 048179          161 AVDAYKRMKKEGIDADE-VVMMGLIQACADLGDSRFGLSVHGYSIRRHLNL-DVKVQTSLVDMYAKTGHLDLASHVFKNM  238 (589)
Q Consensus       161 A~~~~~~m~~~~~~p~~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  238 (589)
                      |+..++     |..++. .+...-...|-+.+++++|..++.++.+.+.+. +...-..++..-.    .-.+. +.+..
T Consensus        98 alk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a----~l~~~-~~q~v  167 (652)
T KOG2376|consen   98 ALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAA----ALQVQ-LLQSV  167 (652)
T ss_pred             HHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHH----hhhHH-HHHhc
Confidence            999988     334433 356666677889999999999999999887532 2322223322211    11111 34444


Q ss_pred             CCCCeehHHHH---HHHHHhCCChhHHHHHHHHHHhcC-------CCCCH-------HHHHHHHHHHhccCchhhHHHHH
Q 048179          239 SRINIVTWGAL---ISGFAQNGLAGSTLELLMEMQSCG-------FEPDS-------VSLVSALLACAQIGFLKLGKSIH  301 (589)
Q Consensus       239 ~~~~~~~~~~l---i~~~~~~g~~~~a~~~~~~m~~~g-------~~p~~-------~~~~~ll~~~~~~~~~~~a~~~~  301 (589)
                      +.....+|..+   ...+...|++.+|++++....+.+       -..+.       ..-..+.-.+-..|+.+++..++
T Consensus       168 ~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy  247 (652)
T KOG2376|consen  168 PEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIY  247 (652)
T ss_pred             cCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHH
Confidence            44333344443   456778999999999998883211       01111       11223444567789999999999


Q ss_pred             HHHhhcCCCChhH----HHHHHHHhHhcCCHH-HHHHHHHhcCCCChhH--------------HH-HHHHHHHhcCCHHH
Q 048179          302 GYTVRRFDFNLVL----GTSVIDMYSKCGVPS-CARALFDQMQSRDLIS--------------WN-VIIASYGIHGHGEE  361 (589)
Q Consensus       302 ~~~~~~~~~~~~~----~~~l~~~~~~~g~~~-~A~~~~~~~~~~~~~~--------------~~-~li~~~~~~g~~~~  361 (589)
                      .......++|...    .|.|+.+-.-..-++ .++..++.........              .| .++..|.  +..+.
T Consensus       248 ~~~i~~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~t--nk~~q  325 (652)
T KOG2376|consen  248 VDIIKRNPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFT--NKMDQ  325 (652)
T ss_pred             HHHHHhcCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHh--hhHHH
Confidence            9998555555422    244443322211111 2333333332211111              11 1222221  22233


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHhc--CCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHH
Q 048179          362 ALSLFLQMIETMVKPDHSTFASLLSALSH--SGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVD  438 (589)
Q Consensus       362 A~~~~~~m~~~~~~p~~~t~~~ll~a~~~--~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~  438 (589)
                      +.++.....  +..|. ..+..++..+..  ......+..++.....  +.+.+ ..+.-.++......|+++.|.+++.
T Consensus       326 ~r~~~a~lp--~~~p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~--~~p~~s~~v~L~~aQl~is~gn~~~A~~il~  400 (652)
T KOG2376|consen  326 VRELSASLP--GMSPE-SLFPILLQEATKVREKKHKKAIELLLQFAD--GHPEKSKVVLLLRAQLKISQGNPEVALEILS  400 (652)
T ss_pred             HHHHHHhCC--ccCch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhc--cCCchhHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            333332211  12232 344455544432  2246777777777765  33333 4456677788899999999999998


Q ss_pred             --------hcCC-CCChhHHHHHHHHHHhcCCchHHHHHHHHHhcc----CCC---CchhHHHHHHHHHhCCChHHHHHH
Q 048179          439 --------SMST-EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKL----NPD---DLGIHALVSNFFAMEQKWEEVAGV  502 (589)
Q Consensus       439 --------~~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~p~---~~~~~~~l~~~~~~~g~~~~a~~~  502 (589)
                              .+.. .-.+.+..++..-+.+-++.+-|..++.+++.-    .+.   -...+..++..-.+.|+-++|..+
T Consensus       401 ~~~~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~  480 (652)
T KOG2376|consen  401 LFLESWKSSILEAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSL  480 (652)
T ss_pred             HHhhhhhhhhhhhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHH
Confidence                    3322 233445556666677888888888888888742    222   223445556666778999999999


Q ss_pred             HHHHHh
Q 048179          503 RKTMRK  508 (589)
Q Consensus       503 ~~~m~~  508 (589)
                      ++++.+
T Consensus       481 leel~k  486 (652)
T KOG2376|consen  481 LEELVK  486 (652)
T ss_pred             HHHHHH
Confidence            999876

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.88  E-value=1.4e-06  Score=77.26  Aligned_cols=412  Identities=11%  Similarity=0.040  Sum_probs=207.8

Q ss_pred             HHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHh
Q 048179           44 YNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVK  123 (589)
Q Consensus        44 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  123 (589)
                      +++.+..+.+..++++|++++..-.++.. .+....+.+..+|-...++..|...++++-..-  |...-|...      
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p-~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~~qYrlY------   83 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSP-RSRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYRLY------   83 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHH------
Confidence            45555555666666666666666555531 144444445555555556666666666654432  222222110      


Q ss_pred             CCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHH--HccCCcHHHHHHHH
Q 048179          124 CGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQAC--ADLGDSRFGLSVHG  201 (589)
Q Consensus       124 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~--~~~~~~~~a~~~~~  201 (589)
                                              -...+.+.+.+.+|+++...|.+.   |+...-..-+.+.  -+.+++..+..+.+
T Consensus        84 ------------------------~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLve  136 (459)
T KOG4340|consen   84 ------------------------QAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVE  136 (459)
T ss_pred             ------------------------HHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHH
Confidence                                    012223344444444444444321   1111111111111  12344444444444


Q ss_pred             HHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC----CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCC
Q 048179          202 YSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR----INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPD  277 (589)
Q Consensus       202 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  277 (589)
                      +....   .+..+.+.......+.|+++.|.+-|+...+    .....||.-+. ..+.|+++.|++...++++.|++..
T Consensus       137 Qlp~e---n~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniALa-Hy~~~qyasALk~iSEIieRG~r~H  212 (459)
T KOG4340|consen  137 QLPSE---NEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALA-HYSSRQYASALKHISEIIERGIRQH  212 (459)
T ss_pred             hccCC---CccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHHH-HHhhhhHHHHHHHHHHHHHhhhhcC
Confidence            33211   1333444445555677888888888887765    23456665444 4567888999999999988876532


Q ss_pred             HHHHH-HHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC-----CChhHHHHHHH
Q 048179          278 SVSLV-SALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS-----RDLISWNVIIA  351 (589)
Q Consensus       278 ~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~  351 (589)
                      +..=. ....+ .....+.....++...      -+..+|.-...+.+.|+.+.|.+.+..|+.     -|++|...+.-
T Consensus       213 PElgIGm~teg-iDvrsvgNt~~lh~Sa------l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al  285 (459)
T KOG4340|consen  213 PELGIGMTTEG-IDVRSVGNTLVLHQSA------LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQAL  285 (459)
T ss_pred             CccCccceecc-CchhcccchHHHHHHH------HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHH
Confidence            21000 00000 0000000111111111      112234445567789999999999999984     36666655432


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH-HcCCH
Q 048179          352 SYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLA-RAGEV  430 (589)
Q Consensus       352 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~-~~g~~  430 (589)
                      . -..+++.+..+-+.-+.+... -...||..++-.|++..-++.|-.++-+-....-.-.+...|+ |++++. -.-..
T Consensus       286 ~-n~~~~p~~g~~KLqFLL~~nP-fP~ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~-LLdaLIt~qT~p  362 (459)
T KOG4340|consen  286 M-NMDARPTEGFEKLQFLLQQNP-FPPETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYD-LLDALITCQTAP  362 (459)
T ss_pred             h-cccCCccccHHHHHHHHhcCC-CChHHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHH-HHHHHHhCCCCH
Confidence            2 234555566665666665543 3356999999999999989888877654321100001223333 334433 34456


Q ss_pred             HHHHHHHHhcCCCCChhHHHHHHHH-HHhcCCchH----HHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHH
Q 048179          431 EEALKIVDSMSTEPGLAVWVALLSG-CHNHKKFSI----GEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKT  505 (589)
Q Consensus       431 ~~A~~~~~~~~~~p~~~~~~~l~~~-~~~~~~~~~----a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  505 (589)
                      ++|.+-++.+...-....-..-+.. -.++.+-++    +.+-+++.+++-   -......+++|.+..++..+.+.|..
T Consensus       363 Eea~KKL~~La~~l~~kLRklAi~vQe~r~~~dd~a~R~ai~~Yd~~LE~Y---LPVlMa~AkiyW~~~Dy~~vEk~Fr~  439 (459)
T KOG4340|consen  363 EEAFKKLDGLAGMLTEKLRKLAIQVQEARHNRDDEAIRKAVNEYDETLEKY---LPVLMAQAKIYWNLEDYPMVEKIFRK  439 (459)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHH---HHHHHHHHHhhccccccHHHHHHHHH
Confidence            6666655554211000111111111 112222222    233344444432   23566778899999999999999986


Q ss_pred             HHh
Q 048179          506 MRK  508 (589)
Q Consensus       506 m~~  508 (589)
                      -.+
T Consensus       440 Sve  442 (459)
T KOG4340|consen  440 SVE  442 (459)
T ss_pred             HHh
Confidence            554

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.82  E-value=5.5e-07  Score=79.37  Aligned_cols=148  Identities=9%  Similarity=0.105  Sum_probs=114.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048179          350 IASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGE  429 (589)
Q Consensus       350 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  429 (589)
                      +..|...|+++......+.+..    |.        ..+...++.+++...++...+  .-+.+...|..+...|...|+
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~--~~P~~~~~w~~Lg~~~~~~g~   88 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIR--ANPQNSEQWALLGEYYLWRND   88 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCC
Confidence            3467788887776444322211    11        012235677888888888776  345668899999999999999


Q ss_pred             HHHHHHHHHhcC-CCC-ChhHHHHHHHH-HHhcCC--chHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHH
Q 048179          430 VEEALKIVDSMS-TEP-GLAVWVALLSG-CHNHKK--FSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRK  504 (589)
Q Consensus       430 ~~~A~~~~~~~~-~~p-~~~~~~~l~~~-~~~~~~--~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  504 (589)
                      +++|...|++.. ..| +...+..+..+ +...|+  .++|.++++++++.+|+++.++..++..+.+.|++++|...++
T Consensus        89 ~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         89 YDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999999873 345 56677777776 467777  5999999999999999999999999999999999999999999


Q ss_pred             HHHhCCC
Q 048179          505 TMRKSGM  511 (589)
Q Consensus       505 ~m~~~g~  511 (589)
                      ++.+...
T Consensus       169 ~aL~l~~  175 (198)
T PRK10370        169 KVLDLNS  175 (198)
T ss_pred             HHHhhCC
Confidence            9987443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.81  E-value=1.1e-05  Score=81.35  Aligned_cols=240  Identities=14%  Similarity=0.084  Sum_probs=151.0

Q ss_pred             CCcchHhHHHH--hhhcCCChHHHHHHhccCCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHC-C--------CCCCc
Q 048179            8 AYGNSVGRIIA--LYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKE-D--------VRPDS   76 (589)
Q Consensus         8 ~~~~~~~~l~~--~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~--------~~p~~   76 (589)
                      .|..+-.++++  +|.--|+.+.|.+-.+.+.  +-..|..|.+.|.+..+.+-|.-.+-.|... |        -.|+ 
T Consensus       724 Cd~~TRkaml~FSfyvtiG~MD~AfksI~~Ik--S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-  800 (1416)
T KOG3617|consen  724 CDESTRKAMLDFSFYVTIGSMDAAFKSIQFIK--SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-  800 (1416)
T ss_pred             cCHHHHHhhhceeEEEEeccHHHHHHHHHHHh--hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-
Confidence            35556666664  4677799998888777654  3457999999999988888887777665431 1        1222 


Q ss_pred             ccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCC-CcchHHHHHHHHHhC
Q 048179           77 STFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRK-DLVCWSSMINGLVFN  155 (589)
Q Consensus        77 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~~  155 (589)
                      .+=.-+.-.....|.+++|+.++.+..+.         ..|=..|...|.+++|.++-+.-..- =..||..-...+-..
T Consensus       801 e~eakvAvLAieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear  871 (1416)
T KOG3617|consen  801 EDEAKVAVLAIELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEAR  871 (1416)
T ss_pred             chhhHHHHHHHHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhh
Confidence            33333333456788999999999987765         23556677889999998876544321 123555556666667


Q ss_pred             CCccHHHHHHHHHH----------HCC---------CCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHH
Q 048179          156 GQPREAVDAYKRMK----------KEG---------IDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQT  216 (589)
Q Consensus       156 g~~~~A~~~~~~m~----------~~~---------~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  216 (589)
                      ++.+.|++.|++-.          ...         -.-|...|.-...-.-..|+.+.|..++..+.+         |-
T Consensus       872 ~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~f  942 (1416)
T KOG3617|consen  872 RDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YF  942 (1416)
T ss_pred             ccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hh
Confidence            77888877776431          111         012333333333444455666666666554432         33


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHHHHH
Q 048179          217 SLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQ  270 (589)
Q Consensus       217 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  270 (589)
                      +++...|-.|+.++|-++-++-  .|..+...+...|-..|++.+|...|.+.+
T Consensus       943 s~VrI~C~qGk~~kAa~iA~es--gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  943 SMVRIKCIQGKTDKAARIAEES--GDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             hheeeEeeccCchHHHHHHHhc--ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            4455555566666666665542  355566677888888888888888887765

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

Probab=98.81  E-value=6.1e-07  Score=94.97  Aligned_cols=208  Identities=15%  Similarity=0.131  Sum_probs=175.3

Q ss_pred             HHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--------CChhHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048179          300 IHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS--------RDLISWNVIIASYGIHGHGEEALSLFLQMIE  371 (589)
Q Consensus       300 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  371 (589)
                      =|+......|.+...|-..|......++++.|++++++...        .-...|-++++.....|.-+...++|+++.+
T Consensus      1446 DferlvrssPNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcq 1525 (1710)
T KOG1070|consen 1446 DFERLVRSSPNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQ 1525 (1710)
T ss_pred             HHHHHHhcCCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHH
Confidence            34455566777888899999999999999999999998864        1345799999988888988999999999987


Q ss_pred             cCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCCC---h
Q 048179          372 TMVKPD-HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEPG---L  446 (589)
Q Consensus       372 ~~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~---~  446 (589)
                      ..   | ...|..|...|.+.+.+++|.++++.|.++++  -....|..+++.+.+..+-+.|..++.++. .-|.   .
T Consensus      1526 yc---d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv 1600 (1710)
T KOG1070|consen 1526 YC---DAYTVHLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHV 1600 (1710)
T ss_pred             hc---chHHHHHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhH
Confidence            52   3 34688899999999999999999999999776  567789999999999999999999998863 2233   3


Q ss_pred             hHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCc
Q 048179          447 AVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMK  512 (589)
Q Consensus       447 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~  512 (589)
                      ....-.+..-.++||.++++.+|+..+.-.|.....|..+++.-.++|..+.++.+|++....++.
T Consensus      1601 ~~IskfAqLEFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~ 1666 (1710)
T KOG1070|consen 1601 EFISKFAQLEFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLS 1666 (1710)
T ss_pred             HHHHHHHHHHhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCC
Confidence            344455556789999999999999999999999999999999999999999999999999987653

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.80  E-value=7.3e-07  Score=82.04  Aligned_cols=182  Identities=10%  Similarity=-0.031  Sum_probs=115.7

Q ss_pred             CChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--CC-h---hHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH--HHH
Q 048179          310 FNLVLGTSVIDMYSKCGVPSCARALFDQMQS--RD-L---ISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDH--STF  381 (589)
Q Consensus       310 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~--~t~  381 (589)
                      .....+..++..+.+.|+++.|...|+++..  |+ .   .+|..+..++...|++++|+..++++.+.......  .++
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            3455566667777777777777777776653  22 1   35566667777777777777777777764321111  134


Q ss_pred             HHHHHHHhcC--------CcHHHHHHHHHHHHHhcCCCCCh-hhHHHHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHH
Q 048179          382 ASLLSALSHS--------GLVEEGRYWFDLMVSKYKIQPTE-KHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVAL  452 (589)
Q Consensus       382 ~~ll~a~~~~--------g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l  452 (589)
                      ..+..++...        |++++|.+.|+.+...+   |+. ..+..+....    ......           ......+
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~---p~~~~~~~a~~~~~----~~~~~~-----------~~~~~~~  172 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY---PNSEYAPDAKKRMD----YLRNRL-----------AGKELYV  172 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC---CCChhHHHHHHHHH----HHHHHH-----------HHHHHHH
Confidence            4444445443        56777777777776532   332 2222211110    000000           0011245


Q ss_pred             HHHHHhcCCchHHHHHHHHHhccCCCC---chhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          453 LSGCHNHKKFSIGEKVAKKVLKLNPDD---LGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       453 ~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      ...+...|+++.|...++++++..|++   +..+..++.+|.+.|++++|..+++.+...
T Consensus       173 a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       173 ARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            566889999999999999999987764   478999999999999999999999988754

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).

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.79  E-value=1.9e-05  Score=78.54  Aligned_cols=190  Identities=15%  Similarity=0.167  Sum_probs=100.5

Q ss_pred             hccCchhhHHHHHHHHh-hcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHH
Q 048179          289 AQIGFLKLGKSIHGYTV-RRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFL  367 (589)
Q Consensus       289 ~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  367 (589)
                      .....+..|..+.+.+. +..  -..-|..+.+-|+..|+++.|.++|.+.-     .++-.|..|.+.|+++.|.++-.
T Consensus       743 i~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~~-----~~~dai~my~k~~kw~da~kla~  815 (1636)
T KOG3616|consen  743 IGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEAD-----LFKDAIDMYGKAGKWEDAFKLAE  815 (1636)
T ss_pred             hhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhcc-----hhHHHHHHHhccccHHHHHHHHH
Confidence            33444555555554443 111  11223445566666666666666665443     34445566666666666666554


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCChh
Q 048179          368 QMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLA  447 (589)
Q Consensus       368 ~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~  447 (589)
                      +.  .|.......|..-..-.-+.|.+.+|.+++-.+..     |+     ..|.+|-+.|..++.+++.++-....-..
T Consensus       816 e~--~~~e~t~~~yiakaedldehgkf~eaeqlyiti~~-----p~-----~aiqmydk~~~~ddmirlv~k~h~d~l~d  883 (1636)
T KOG3616|consen  816 EC--HGPEATISLYIAKAEDLDEHGKFAEAEQLYITIGE-----PD-----KAIQMYDKHGLDDDMIRLVEKHHGDHLHD  883 (1636)
T ss_pred             Hh--cCchhHHHHHHHhHHhHHhhcchhhhhheeEEccC-----ch-----HHHHHHHhhCcchHHHHHHHHhChhhhhH
Confidence            32  22222233343333445556666666655543321     32     23456666666666666666654322234


Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHH
Q 048179          448 VWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKT  505 (589)
Q Consensus       448 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  505 (589)
                      +...+..-+-..|+...|+.-|-++-+        +..-.++|...+.|++|.++-+.
T Consensus       884 t~~~f~~e~e~~g~lkaae~~flea~d--------~kaavnmyk~s~lw~dayriakt  933 (1636)
T KOG3616|consen  884 THKHFAKELEAEGDLKAAEEHFLEAGD--------FKAAVNMYKASELWEDAYRIAKT  933 (1636)
T ss_pred             HHHHHHHHHHhccChhHHHHHHHhhhh--------HHHHHHHhhhhhhHHHHHHHHhc
Confidence            455555556666777776666554422        44455667777777777666544

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

Probab=98.76  E-value=2.4e-05  Score=77.15  Aligned_cols=298  Identities=15%  Similarity=0.064  Sum_probs=149.3

Q ss_pred             chHHHHHHHHHhCCCccHHHHHHHHHHHCCC-CCChhhH-HHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHH---
Q 048179          143 VCWSSMINGLVFNGQPREAVDAYKRMKKEGI-DADEVVM-MGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTS---  217 (589)
Q Consensus       143 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~~~t~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---  217 (589)
                      ..|..+...+...|+.+.+.+.+.+..+... .++.... ......+...|+++.+..+++...+..+ .+...+..   
T Consensus         7 ~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P-~~~~a~~~~~~   85 (355)
T cd05804           7 LGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYP-RDLLALKLHLG   85 (355)
T ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHhHH
Confidence            3555666666677777777666666544311 1222111 1112234556777777777777666532 23323221   


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCCCCe---ehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCch
Q 048179          218 LVDMYAKTGHLDLASHVFKNMSRINI---VTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFL  294 (589)
Q Consensus       218 l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  294 (589)
                      +.......+..+.+.+.++.....+.   .....+...+...|++++|...+++..+.                      
T Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~----------------------  143 (355)
T cd05804          86 AFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALEL----------------------  143 (355)
T ss_pred             HHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh----------------------
Confidence            11111123344444444443222111   12223334555566666666666666554                      


Q ss_pred             hhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC-----CCh--hHHHHHHHHHHhcCCHHHHHHHHH
Q 048179          295 KLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS-----RDL--ISWNVIIASYGIHGHGEEALSLFL  367 (589)
Q Consensus       295 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~--~~~~~li~~~~~~g~~~~A~~~~~  367 (589)
                                   .+.+...+..+...|...|++++|...+++..+     ++.  ..|..+...+...|++++|..+++
T Consensus       144 -------------~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~  210 (355)
T cd05804         144 -------------NPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYD  210 (355)
T ss_pred             -------------CCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence                         233344445666666777777777777766543     111  234456667777888888888887


Q ss_pred             HHHHcCC-CCCHHHH-H--HHHHHHhcCCcHHHHHHH---HHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc
Q 048179          368 QMIETMV-KPDHSTF-A--SLLSALSHSGLVEEGRYW---FDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM  440 (589)
Q Consensus       368 ~m~~~~~-~p~~~t~-~--~ll~a~~~~g~~~~a~~~---~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  440 (589)
                      +...... .+..... .  .++.-+...|..+.+.+.   ....................+.++...|+.++|..+++.+
T Consensus       211 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l  290 (355)
T cd05804         211 THIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAAL  290 (355)
T ss_pred             HHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            7654322 1111111 1  223333334433332222   1111110000011112224666778888899998888776


Q ss_pred             CC--CC---C------hhHHHHHHHHHHhcCCchHHHHHHHHHhccC
Q 048179          441 ST--EP---G------LAVWVALLSGCHNHKKFSIGEKVAKKVLKLN  476 (589)
Q Consensus       441 ~~--~p---~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  476 (589)
                      ..  +.   .      ........-++...|+.+.|.+.+..++.+.
T Consensus       291 ~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         291 KGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            32  11   1      1111222234678899999999998887643

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.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.76  E-value=6e-06  Score=73.31  Aligned_cols=300  Identities=13%  Similarity=0.077  Sum_probs=159.1

Q ss_pred             HHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC--CCeehHHH-HHHHHHhC
Q 048179          180 MMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR--INIVTWGA-LISGFAQN  256 (589)
Q Consensus       180 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~-li~~~~~~  256 (589)
                      +.+++..+.+..++..+++++....++. +.+....+.|..+|.+..++..|-..++++.+  |...-|.. -...+.+.
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY~A   91 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLYKA   91 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHHh
Confidence            4445555555566666666666555443 22555666777888888888888888888765  22222221 23456678


Q ss_pred             CChhHHHHHHHHHHhcCCCCCHHHHHHHHHH--HhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHH
Q 048179          257 GLAGSTLELLMEMQSCGFEPDSVSLVSALLA--CAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARAL  334 (589)
Q Consensus       257 g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  334 (589)
                      +.+..|+.+...|.+.   |+...-..-+++  .-..+++..++.+.+....  +.+..+.+...-...+.|+.+.|.+-
T Consensus        92 ~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~--en~Ad~~in~gCllykegqyEaAvqk  166 (459)
T KOG4340|consen   92 CIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPS--ENEADGQINLGCLLYKEGQYEAAVQK  166 (459)
T ss_pred             cccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccC--CCccchhccchheeeccccHHHHHHH
Confidence            8888888888887753   322111111111  1223333333333322221  01122222223333444555555555


Q ss_pred             HHhcCC----CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHH---------HH
Q 048179          335 FDQMQS----RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRY---------WF  401 (589)
Q Consensus       335 ~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~---------~~  401 (589)
                      |+...+    .....||..+. ..+.|+++.|++...++++.|++--+.. .        -|...++..         +.
T Consensus       167 FqaAlqvsGyqpllAYniALa-Hy~~~qyasALk~iSEIieRG~r~HPEl-g--------IGm~tegiDvrsvgNt~~lh  236 (459)
T KOG4340|consen  167 FQAALQVSGYQPLLAYNLALA-HYSSRQYASALKHISEIIERGIRQHPEL-G--------IGMTTEGIDVRSVGNTLVLH  236 (459)
T ss_pred             HHHHHhhcCCCchhHHHHHHH-HHhhhhHHHHHHHHHHHHHhhhhcCCcc-C--------ccceeccCchhcccchHHHH
Confidence            544433    22233433322 2233444555555555555444311110 0        000000000         00


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC----CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCC
Q 048179          402 DLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST----EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNP  477 (589)
Q Consensus       402 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  477 (589)
                      ...        =...++.-...+.+.|+++.|.+.+..|+.    +.|++|...+.-. -..+++..+.+-+.-+++++|
T Consensus       237 ~Sa--------l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~nP  307 (459)
T KOG4340|consen  237 QSA--------LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQNP  307 (459)
T ss_pred             HHH--------HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcCC
Confidence            000        011233333456788999999999999964    3577777665432 234566667777777888899


Q ss_pred             CCchhHHHHHHHHHhCCChHHHHHHHH
Q 048179          478 DDLGIHALVSNFFAMEQKWEEVAGVRK  504 (589)
Q Consensus       478 ~~~~~~~~l~~~~~~~g~~~~a~~~~~  504 (589)
                      -.+.++..+.-+|++..-++-|..++-
T Consensus       308 fP~ETFANlLllyCKNeyf~lAADvLA  334 (459)
T KOG4340|consen  308 FPPETFANLLLLYCKNEYFDLAADVLA  334 (459)
T ss_pred             CChHHHHHHHHHHhhhHHHhHHHHHHh
Confidence            888899999999999988888887764

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.75  E-value=2.7e-07  Score=76.91  Aligned_cols=92  Identities=11%  Similarity=-0.052  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhcC-CC-CChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCC
Q 048179          417 YACMVDLLARAGEVEEALKIVDSMS-TE-PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQ  494 (589)
Q Consensus       417 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  494 (589)
                      +..+...+...|++++|...|+... .. .+...|..+..++...|++++|+..++++++++|+++..+..++.++...|
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcC
Confidence            3344555555566666665555542 12 244555555555666666666666666666666666666666666666666


Q ss_pred             ChHHHHHHHHHHHh
Q 048179          495 KWEEVAGVRKTMRK  508 (589)
Q Consensus       495 ~~~~a~~~~~~m~~  508 (589)
                      ++++|...++...+
T Consensus       107 ~~~eAi~~~~~Al~  120 (144)
T PRK15359        107 EPGLAREAFQTAIK  120 (144)
T ss_pred             CHHHHHHHHHHHHH
Confidence            66666666665554

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.74  E-value=3.5e-05  Score=70.01  Aligned_cols=312  Identities=14%  Similarity=0.135  Sum_probs=197.8

Q ss_pred             HHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHH---HHHHHccCCcHHHHHHHHHHHHhcCCCchH-HHHHHHH
Q 048179          145 WSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGL---IQACADLGDSRFGLSVHGYSIRRHLNLDVK-VQTSLVD  220 (589)
Q Consensus       145 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~l---l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~  220 (589)
                      .--+-..+...|++.+|+..|...++.    |+..|..+   ...|...|...-|..-+..+++.  +||-. ...--..
T Consensus        41 hlElGk~lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~  114 (504)
T KOG0624|consen   41 HLELGKELLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGV  114 (504)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhch
Confidence            344667778888999999988888764    33334333   44566777777777766666654  34421 1112233


Q ss_pred             HHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHH
Q 048179          221 MYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSI  300 (589)
Q Consensus       221 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~  300 (589)
                      .+.+.|.++.|..=|+.+.+.++.- +....++.+.-..++-                ......+..+...|+...++..
T Consensus       115 vllK~Gele~A~~DF~~vl~~~~s~-~~~~eaqskl~~~~e~----------------~~l~~ql~s~~~~GD~~~ai~~  177 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQHEPSN-GLVLEAQSKLALIQEH----------------WVLVQQLKSASGSGDCQNAIEM  177 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHhcCCCc-chhHHHHHHHHhHHHH----------------HHHHHHHHHHhcCCchhhHHHH
Confidence            4566777777777777666533210 0000111111101111                1122233344556777777777


Q ss_pred             HHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcC---CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Q 048179          301 HGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQ---SRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPD  377 (589)
Q Consensus       301 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  377 (589)
                      ...+..-.+.+..++..-..+|...|++..|+.-+....   ..+....--+-..+...|+.+.++...++-++  +.||
T Consensus       178 i~~llEi~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpd  255 (504)
T KOG0624|consen  178 ITHLLEIQPWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDPD  255 (504)
T ss_pred             HHHHHhcCcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcc
Confidence            777777777778888888888888888888887666554   35666666666777788888888877777665  4566


Q ss_pred             HH-H---HHHH---------HHHHhcCCcHHHHHHHHHHHHHhcCCCCC-----hhhHHHHHHHHHHcCCHHHHHHHHHh
Q 048179          378 HS-T---FASL---------LSALSHSGLVEEGRYWFDLMVSKYKIQPT-----EKHYACMVDLLARAGEVEEALKIVDS  439 (589)
Q Consensus       378 ~~-t---~~~l---------l~a~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~  439 (589)
                      .. +   |..|         .......+.|.++.+..+...+.   .|.     ...+..+-.++...|++.+|++...+
T Consensus       256 HK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~---ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~e  332 (504)
T KOG0624|consen  256 HKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN---EPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKE  332 (504)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc---CCcccceeeeeeheeeecccccCCHHHHHHHHHH
Confidence            43 1   2111         11234456777777777766543   343     23344566777888999999999888


Q ss_pred             cC-CCCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHH
Q 048179          440 MS-TEPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHA  484 (589)
Q Consensus       440 ~~-~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  484 (589)
                      .. ..|| +.++.--..+|.....++.|+.-|+++.+.+|+|..+-.
T Consensus       333 vL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~~re  379 (504)
T KOG0624|consen  333 VLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTRARE  379 (504)
T ss_pred             HHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHHHHH
Confidence            63 4565 778888888999999999999999999999998865443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.73  E-value=0.00012  Score=74.23  Aligned_cols=25  Identities=4%  Similarity=0.037  Sum_probs=20.1

Q ss_pred             hhHHHHHHHHHhCCChHHHHHHHHH
Q 048179          481 GIHALVSNFFAMEQKWEEVAGVRKT  505 (589)
Q Consensus       481 ~~~~~l~~~~~~~g~~~~a~~~~~~  505 (589)
                      ..+..++..+.++|.+..|.+-|.+
T Consensus      1146 ~vLeqvae~c~qQG~Yh~AtKKfTQ 1170 (1416)
T KOG3617|consen 1146 QVLEQVAELCLQQGAYHAATKKFTQ 1170 (1416)
T ss_pred             HHHHHHHHHHHhccchHHHHHHHhh
Confidence            4677889999999999888776654

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.72  E-value=3.9e-07  Score=75.92  Aligned_cols=123  Identities=10%  Similarity=0.003  Sum_probs=100.9

Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-C
Q 048179          364 SLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-T  442 (589)
Q Consensus       364 ~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~  442 (589)
                      .+|++.++.  .|+.  +..+..++...|++++|...|+.+..  --+.+...|..+..++.+.|++++|...|++.. .
T Consensus        14 ~~~~~al~~--~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         14 DILKQLLSV--DPET--VYASGYASWQEGDYSRAVIDFSWLVM--AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHHc--CHHH--HHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            355555543  4543  45567788899999999999999885  334458888999999999999999999999973 3


Q ss_pred             CC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHh
Q 048179          443 EP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAM  492 (589)
Q Consensus       443 ~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  492 (589)
                      .| +...|..+..++...|++++|+..+++++++.|+++..+...+.+...
T Consensus        88 ~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~~  138 (144)
T PRK15359         88 DASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQIM  138 (144)
T ss_pred             CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Confidence            34 677899999999999999999999999999999999999888877554

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.71  E-value=0.00028  Score=68.28  Aligned_cols=409  Identities=11%  Similarity=0.076  Sum_probs=196.9

Q ss_pred             CCcchHhHHHHhhhcCCChHHHHHHhccCCC--C-CcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHH
Q 048179            8 AYGNSVGRIIALYGGKNDIVSARKLFEELPL--R-GVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALK   84 (589)
Q Consensus         8 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~   84 (589)
                      -|+..|+.||.-+..+ .+++++..++++..  | ....|..-|..-.+..+++...++|.+-+..-  .+...|..-|.
T Consensus        18 ~di~sw~~lire~qt~-~~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkv--LnlDLW~lYl~   94 (656)
T KOG1914|consen   18 YDIDSWSQLIREAQTQ-PIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKV--LNLDLWKLYLS   94 (656)
T ss_pred             ccHHHHHHHHHHHccC-CHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH--hhHhHHHHHHH
Confidence            3678899999966665 89999999988763  2 35679999999999999999999998877653  34555655554


Q ss_pred             HHhcc-CCHHH----HHHHHHHHH-HhCCCC-ChhhHHHHHHH---------HHhCCChHHHHHHHHhcCC-C--C----
Q 048179           85 ACVSL-MDLKM----GEEIWRKAV-ELGYGN-DVFVGSSMLNL---------YVKCGKMNEAMVAFEKMQR-K--D----  141 (589)
Q Consensus        85 ~~~~~-~~~~~----a~~~~~~~~-~~g~~~-~~~~~~~li~~---------~~~~g~~~~A~~~~~~~~~-~--~----  141 (589)
                      --.+. +....    ..+.|+..+ +.|.++ +...|+..+..         |..+.+++..+++++++.. |  |    
T Consensus        95 YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlEkL  174 (656)
T KOG1914|consen   95 YVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLEKL  174 (656)
T ss_pred             HHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHHHH
Confidence            33322 22222    234444433 445433 23345555543         3344567778888888874 2  1    


Q ss_pred             ---cchHHHHHHHH-------HhCCCccHHHHHHHHHHH--CCCCCChhhHHHHHHHHHccCCcHHH--HHHHHHHHHh-
Q 048179          142 ---LVCWSSMINGL-------VFNGQPREAVDAYKRMKK--EGIDADEVVMMGLIQACADLGDSRFG--LSVHGYSIRR-  206 (589)
Q Consensus       142 ---~~~~~~li~~~-------~~~g~~~~A~~~~~~m~~--~~~~p~~~t~~~ll~~~~~~~~~~~a--~~~~~~~~~~-  206 (589)
                         -..|..=|+..       -+...+-.|.++++++..  .|...+..+       .-..|-.++.  .+++...++. 
T Consensus       175 W~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~-------vp~~~T~~e~~qv~~W~n~I~wE  247 (656)
T KOG1914|consen  175 WKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPA-------VPPKGTKDEIQQVELWKNWIKWE  247 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCC-------CCCCCChHHHHHHHHHHHHHHHH
Confidence               11222111111       123345567777777643  343322222       0001111111  1112112211 


Q ss_pred             ---cCC-Cch--------HHHHHHHHHHHh-cCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCC-------hhHHHHHH
Q 048179          207 ---HLN-LDV--------KVQTSLVDMYAK-TGHLDLASHVFKNMSRINIVTWGALISGFAQNGL-------AGSTLELL  266 (589)
Q Consensus       207 ---~~~-~~~--------~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~-------~~~a~~~~  266 (589)
                         ++. .+.        .+|.-.+....- -.-|-++...+....+           .+...|+       .+++..++
T Consensus       248 ksNpL~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~-----------l~~~~~d~~~a~~~t~e~~~~y  316 (656)
T KOG1914|consen  248 KSNPLRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISD-----------LLTEKGDVPDAKSLTDEAASIY  316 (656)
T ss_pred             hcCCcccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhH-----------HHHHhcccccchhhHHHHHHHH
Confidence               111 000        011100000000 0001111111111110           1111111       23444444


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHhcc---CchhhHHHHHHHHh-hcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--
Q 048179          267 MEMQSCGFEPDSVSLVSALLACAQI---GFLKLGKSIHGYTV-RRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS--  340 (589)
Q Consensus       267 ~~m~~~g~~p~~~~~~~ll~~~~~~---~~~~~a~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--  340 (589)
                      +.....-..-+..+|..+...--..   ...+....++..+. .....-..+|..+++.-.+..-+..|+.+|.++.+  
T Consensus       317 Er~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~  396 (656)
T KOG1914|consen  317 ERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDK  396 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhcc
Confidence            4443322222333332222221111   12333444444444 11122223455566666666666777777766654  


Q ss_pred             ---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC--hh
Q 048179          341 ---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT--EK  415 (589)
Q Consensus       341 ---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~--~~  415 (589)
                         .++...++++.-||. ++..-|.++|+-=.+. ..-++.-....+.-+.+.++-..+..+|++.... ++.|+  ..
T Consensus       397 r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s-~l~~~ks~~  473 (656)
T KOG1914|consen  397 RTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTS-VLSADKSKE  473 (656)
T ss_pred             CCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhc-cCChhhhHH
Confidence               245556666665544 4556666666653332 1122223334455556666666777777776665 55555  45


Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhc
Q 048179          416 HYACMVDLLARAGEVEEALKIVDSM  440 (589)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~  440 (589)
                      .|..+++-=..-|++..+.++-+++
T Consensus       474 Iw~r~l~yES~vGdL~si~~lekR~  498 (656)
T KOG1914|consen  474 IWDRMLEYESNVGDLNSILKLEKRR  498 (656)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHH
Confidence            6777777666777777776666554

>PLN02789 farnesyltranstransferase

Probab=98.69  E-value=1e-05  Score=76.64  Aligned_cols=225  Identities=9%  Similarity=0.055  Sum_probs=143.7

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHh
Q 048179          245 TWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSK  324 (589)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  324 (589)
                      ++..+-..+...++.++|+.+..++++.  .|+..|                                 +|+....++.+
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~l--nP~~yt---------------------------------aW~~R~~iL~~   83 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRL--NPGNYT---------------------------------VWHFRRLCLEA   83 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHH--CchhHH---------------------------------HHHHHHHHHHH
Confidence            3444445556666777777777777664  444332                                 23333333334


Q ss_pred             cC-CHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCH--HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHH
Q 048179          325 CG-VPSCARALFDQMQS---RDLISWNVIIASYGIHGHG--EEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGR  398 (589)
Q Consensus       325 ~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~--~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~  398 (589)
                      .| ++++++..++++.+   .+..+|+.....+.+.|+.  ++++.+++++.+.. +-|..+|.....++.+.|++++++
T Consensus        84 L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL  162 (320)
T PLN02789         84 LDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDEL  162 (320)
T ss_pred             cchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHH
Confidence            44 45667777666553   3344566554444455542  56777777777654 335667777777777778888888


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHHc---CC----HHHHHHHHHh-cCCCC-ChhHHHHHHHHHHhc----CCchHH
Q 048179          399 YWFDLMVSKYKIQPTEKHYACMVDLLARA---GE----VEEALKIVDS-MSTEP-GLAVWVALLSGCHNH----KKFSIG  465 (589)
Q Consensus       399 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---g~----~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~----~~~~~a  465 (589)
                      +.++.+.+.  -+-+...|+....++.+.   |.    .++++++..+ +...| |..+|+.+...+...    ++..+|
T Consensus       163 ~~~~~~I~~--d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~  240 (320)
T PLN02789        163 EYCHQLLEE--DVRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEV  240 (320)
T ss_pred             HHHHHHHHH--CCCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhH
Confidence            888888764  233455566555555444   22    2456666644 34445 677898888888773    455779


Q ss_pred             HHHHHHHhccCCCCchhHHHHHHHHHhCC------------------ChHHHHHHHHHHH
Q 048179          466 EKVAKKVLKLNPDDLGIHALVSNFFAMEQ------------------KWEEVAGVRKTMR  507 (589)
Q Consensus       466 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g------------------~~~~a~~~~~~m~  507 (589)
                      ...+.+++..+|+++.++..|+++|....                  ..++|.++++.+.
T Consensus       241 ~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        241 SSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             HHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhccccccccHHHHHHHHHHHH
Confidence            89999999999999999999999998742                  2366777777773

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

Probab=98.69  E-value=6.3e-07  Score=89.05  Aligned_cols=198  Identities=16%  Similarity=0.155  Sum_probs=137.0

Q ss_pred             cCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048179          307 RFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLS  386 (589)
Q Consensus       307 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~  386 (589)
                      ..+|-...-..+...+.+.|-...|..+|+++.     .|...|.+|...|+..+|..+..+-.+  -+||+..|..++.
T Consensus       393 ~lpp~Wq~q~~laell~slGitksAl~I~Erle-----mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGD  465 (777)
T KOG1128|consen  393 HLPPIWQLQRLLAELLLSLGITKSALVIFERLE-----MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGD  465 (777)
T ss_pred             CCCCcchHHHHHHHHHHHcchHHHHHHHHHhHH-----HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhh
Confidence            345555556677777888888888888887754     577777788888877777777776665  3677777777666


Q ss_pred             HHhcCCcHHHHHHHHHH----------------------------HHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHH
Q 048179          387 ALSHSGLVEEGRYWFDL----------------------------MVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVD  438 (589)
Q Consensus       387 a~~~~g~~~~a~~~~~~----------------------------~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  438 (589)
                      ..-...-+++|.++++.                            -.+-+  +.-..+|-.+.-+..+.++++.|.+.|.
T Consensus       466 v~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~n--plq~~~wf~~G~~ALqlek~q~av~aF~  543 (777)
T KOG1128|consen  466 VLHDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHLERSLEIN--PLQLGTWFGLGCAALQLEKEQAAVKAFH  543 (777)
T ss_pred             hccChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhcC--ccchhHHHhccHHHHHHhhhHHHHHHHH
Confidence            55544445555544443                            33211  1123455556666677778888888777


Q ss_pred             hc-CCCCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCcc
Q 048179          439 SM-STEPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKK  513 (589)
Q Consensus       439 ~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~  513 (589)
                      .. ..+|| ...|+++-.+|.+.++-.+|...++++++.+-++...|.+...+..+.|.|++|.+.+.++.+...++
T Consensus       544 rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~  620 (777)
T KOG1128|consen  544 RCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKY  620 (777)
T ss_pred             HHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhc
Confidence            75 33554 56788888888888888888888888888777777788888788888888888888888877654433

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.67  E-value=3.9e-05  Score=85.85  Aligned_cols=158  Identities=11%  Similarity=0.017  Sum_probs=82.7

Q ss_pred             HHHHHhCCChhHHHHHHHHHHhcC--CCCC--HHHHHHHHHHHhccCchhhHHHHHHHHh---hcCCCChh----HHHHH
Q 048179          250 ISGFAQNGLAGSTLELLMEMQSCG--FEPD--SVSLVSALLACAQIGFLKLGKSIHGYTV---RRFDFNLV----LGTSV  318 (589)
Q Consensus       250 i~~~~~~g~~~~a~~~~~~m~~~g--~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~---~~~~~~~~----~~~~l  318 (589)
                      ...+...|++++|...+.+.....  ..+.  ...+..+.......|+.+.|...+....   ........    .....
T Consensus       580 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~  659 (903)
T PRK04841        580 AQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVR  659 (903)
T ss_pred             HHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHH
Confidence            334444556666555555543311  0111  1222333344455556665555555443   11100000    00112


Q ss_pred             HHHhHhcCCHHHHHHHHHhcCCCCh-------hHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCC-HHHHHHHHH
Q 048179          319 IDMYSKCGVPSCARALFDQMQSRDL-------ISWNVIIASYGIHGHGEEALSLFLQMIET----MVKPD-HSTFASLLS  386 (589)
Q Consensus       319 ~~~~~~~g~~~~A~~~~~~~~~~~~-------~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~-~~t~~~ll~  386 (589)
                      +..+...|+.+.|...+.....+..       ..+..+..++...|++++|...+++....    |..++ ..+...+..
T Consensus       660 ~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~  739 (903)
T PRK04841        660 LIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQ  739 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHH
Confidence            2344556777777777766553211       11334556677788888888888776643    32222 235566667


Q ss_pred             HHhcCCcHHHHHHHHHHHHHh
Q 048179          387 ALSHSGLVEEGRYWFDLMVSK  407 (589)
Q Consensus       387 a~~~~g~~~~a~~~~~~~~~~  407 (589)
                      ++...|+.++|...+.++.+.
T Consensus       740 a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        740 LYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            777888888888888887764

>PF12854 PPR_1: PPR repeat

Probab=98.67  E-value=2e-08  Score=59.37  Aligned_cols=34  Identities=18%  Similarity=0.181  Sum_probs=30.9

Q ss_pred             ccCCCCcchHhHHHHhhhcCCChHHHHHHhccCC
Q 048179            4 TNLSAYGNSVGRIIALYGGKNDIVSARKLFEELP   37 (589)
Q Consensus         4 ~g~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~   37 (589)
                      +|+.||+++||.||+.|++.|++++|.++|++|+
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            4889999999999999999999999999999885

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.65  E-value=2.3e-06  Score=83.04  Aligned_cols=246  Identities=15%  Similarity=0.088  Sum_probs=177.6

Q ss_pred             HHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHH
Q 048179          252 GFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCA  331 (589)
Q Consensus       252 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  331 (589)
                      -+.+.|+..+|.-.|+...... +-+...|..|....+..++-..|+..+.....-.+.+..+..+|.-.|...|.-..|
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHH
Confidence            3567788888888887777653 334456666767777777777777777777777777888888888888888888888


Q ss_pred             HHHHHhcCCCC-hhHHHHHH---------HHHHhcCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHhcCCcHHHHHHH
Q 048179          332 RALFDQMQSRD-LISWNVII---------ASYGIHGHGEEALSLFLQMIE-TMVKPDHSTFASLLSALSHSGLVEEGRYW  400 (589)
Q Consensus       332 ~~~~~~~~~~~-~~~~~~li---------~~~~~~g~~~~A~~~~~~m~~-~~~~p~~~t~~~ll~a~~~~g~~~~a~~~  400 (589)
                      .+.|+.-.... ...|....         ..+..........++|-++.. .+..+|+.....|.-.|--.|.+++|...
T Consensus       373 l~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDc  452 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDC  452 (579)
T ss_pred             HHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHH
Confidence            88887653200 00000000         111111223445555555544 44447777777777778889999999999


Q ss_pred             HHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCCCh-hHHHHHHHHHHhcCCchHHHHHHHHHhccCC
Q 048179          401 FDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSM-STEPGL-AVWVALLSGCHNHKKFSIGEKVAKKVLKLNP  477 (589)
Q Consensus       401 ~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  477 (589)
                      |+.+..   ++|+ ...|+.|.-.++...+.++|+..|++. ..+|+. .++..|.-+|...|.+++|...|-.++.+.+
T Consensus       453 f~~AL~---v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~  529 (579)
T KOG1125|consen  453 FEAALQ---VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQR  529 (579)
T ss_pred             HHHHHh---cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhh
Confidence            999985   4555 788999999999999999999999997 457874 4888999999999999999999999998765


Q ss_pred             CC----------chhHHHHHHHHHhCCChHHHHH
Q 048179          478 DD----------LGIHALVSNFFAMEQKWEEVAG  501 (589)
Q Consensus       478 ~~----------~~~~~~l~~~~~~~g~~~~a~~  501 (589)
                      .+          -.+|..|-.++...++.|-+.+
T Consensus       530 ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~  563 (579)
T KOG1125|consen  530 KSRNHNKAPMASENIWQTLRLALSAMNRSDLLQE  563 (579)
T ss_pred             cccccccCCcchHHHHHHHHHHHHHcCCchHHHH
Confidence            41          2467777777777777664444

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

Probab=98.65  E-value=2.7e-06  Score=84.74  Aligned_cols=187  Identities=13%  Similarity=0.042  Sum_probs=124.3

Q ss_pred             HHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHH
Q 048179          284 ALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEAL  363 (589)
Q Consensus       284 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  363 (589)
                      ++..|...|+...|..+...... .+|++..|..+++......-+++|.++++....+--..|   .....+.++++++.
T Consensus       430 vi~CY~~lg~~~kaeei~~q~le-k~~d~~lyc~LGDv~~d~s~yEkawElsn~~sarA~r~~---~~~~~~~~~fs~~~  505 (777)
T KOG1128|consen  430 VILCYLLLGQHGKAEEINRQELE-KDPDPRLYCLLGDVLHDPSLYEKAWELSNYISARAQRSL---ALLILSNKDFSEAD  505 (777)
T ss_pred             HHHHHHHhcccchHHHHHHHHhc-CCCcchhHHHhhhhccChHHHHHHHHHhhhhhHHHHHhh---ccccccchhHHHHH
Confidence            34444444444444444443333 445555555555554444445555555544332211111   11122357777887


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-
Q 048179          364 SLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-  442 (589)
Q Consensus       364 ~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  442 (589)
                      +.|+.-.+.. +....+|..+..+..+.+++..|.+.|.....  .-+.+...|+.+-.+|.+.|+-.+|...+.+... 
T Consensus       506 ~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcvt--L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKc  582 (777)
T KOG1128|consen  506 KHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVT--LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKC  582 (777)
T ss_pred             HHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHhh--cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhc
Confidence            7777655542 33356788888888899999999999999985  4344488999999999999999999999998742 


Q ss_pred             -CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCC
Q 048179          443 -EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNP  477 (589)
Q Consensus       443 -~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  477 (589)
                       .-+...|.+.+-...+.|.++.|++++.++..+..
T Consensus       583 n~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~  618 (777)
T KOG1128|consen  583 NYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRK  618 (777)
T ss_pred             CCCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhh
Confidence             24556788888888999999999999999987653

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.64  E-value=3e-06  Score=88.53  Aligned_cols=130  Identities=15%  Similarity=0.158  Sum_probs=60.4

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHH
Q 048179          343 LISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDH-STFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMV  421 (589)
Q Consensus       343 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  421 (589)
                      +..+-.+.....+.|++++|..+++...+.  .||. .....+...+.+.+.+++|....++...  .-+.+......+.
T Consensus        86 ~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~--~~p~~~~~~~~~a  161 (694)
T PRK15179         86 ELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS--GGSSSAREILLEA  161 (694)
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh--cCCCCHHHHHHHH
Confidence            344444444445555555555555554442  3332 2334444444555555555555554443  1122234444444


Q ss_pred             HHHHHcCCHHHHHHHHHhcCC-CCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhccC
Q 048179          422 DLLARAGEVEEALKIVDSMST-EPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKLN  476 (589)
Q Consensus       422 ~~~~~~g~~~~A~~~~~~~~~-~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  476 (589)
                      .++.+.|++++|.++|++... .|+ ..+|.++..++...|+.+.|...|+++++..
T Consensus       162 ~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~  218 (694)
T PRK15179        162 KSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI  218 (694)
T ss_pred             HHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            455555555555555555431 222 3444455555555555555555555555443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.63  E-value=9.2e-07  Score=72.20  Aligned_cols=118  Identities=8%  Similarity=0.064  Sum_probs=99.7

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA  491 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  491 (589)
                      .+..-.+...+...|++++|.++|+-.. ..| +..-|..|..+|...|++++|+..|.++..++|+++.++..++.+|.
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L  114 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence            4455567778889999999999999873 344 67789999999999999999999999999999999999999999999


Q ss_pred             hCCChHHHHHHHHHHHhCCCccCCceeEEEECCEEEEEEecCCCCCChHHHHHHHHHHHHHHH
Q 048179          492 MEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMR  554 (589)
Q Consensus       492 ~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~l~~~~~  554 (589)
                      ..|+.+.|.+.|+..+...                       ..+|+..++....+.....+.
T Consensus       115 ~lG~~~~A~~aF~~Ai~~~-----------------------~~~~~~~~l~~~A~~~L~~l~  154 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRIC-----------------------GEVSEHQILRQRAEKMLQQLS  154 (157)
T ss_pred             HcCCHHHHHHHHHHHHHHh-----------------------ccChhHHHHHHHHHHHHHHhh
Confidence            9999999999999887521                       146777777777777766665

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.60  E-value=2.1e-06  Score=75.29  Aligned_cols=126  Identities=15%  Similarity=0.169  Sum_probs=81.2

Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC--CCCChhHHHHHHHHHHhc
Q 048179          382 ASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS--TEPGLAVWVALLSGCHNH  459 (589)
Q Consensus       382 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~  459 (589)
                      ..+-.++...|+-+....+......  ..+.+......++....+.|++.+|+..+++..  .+||...|+.+..+|-+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHc
Confidence            4444555556666666666555432  223334455556677777777777777777652  245666777777777777


Q ss_pred             CCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          460 KKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       460 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      |+++.|...+.+++++.|+++.+..+++..|.-.|+++.|..++......
T Consensus       148 Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~  197 (257)
T COG5010         148 GRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLS  197 (257)
T ss_pred             cChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            77777777777777777777777777777777777777777777666543

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.58  E-value=9.6e-06  Score=71.51  Aligned_cols=155  Identities=14%  Similarity=0.166  Sum_probs=118.8

Q ss_pred             HHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHH
Q 048179          319 IDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGR  398 (589)
Q Consensus       319 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~  398 (589)
                      +-.|...|+++......+.+..+.        ..+...++.++++..+++..+.. +.|...|..+...+...|++++|.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~   93 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNAL   93 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            456788888877655554433221        01223567788888888887764 566788999999999999999999


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHH-HHcCC--HHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHh
Q 048179          399 YWFDLMVSKYKIQPTEKHYACMVDLL-ARAGE--VEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVL  473 (589)
Q Consensus       399 ~~~~~~~~~~~~~p~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  473 (589)
                      ..|+.+.+.  .+.+...+..+..++ .+.|+  .++|.+++++.. ..| +..++..+...+...|++++|+..+++++
T Consensus        94 ~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL  171 (198)
T PRK10370         94 LAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVL  171 (198)
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999999863  334578888888864 77787  599999999974 345 56788888889999999999999999999


Q ss_pred             ccCCCCchhHH
Q 048179          474 KLNPDDLGIHA  484 (589)
Q Consensus       474 ~~~p~~~~~~~  484 (589)
                      ++.|.+..-+.
T Consensus       172 ~l~~~~~~r~~  182 (198)
T PRK10370        172 DLNSPRVNRTQ  182 (198)
T ss_pred             hhCCCCccHHH
Confidence            99987665543

>PF12854 PPR_1: PPR repeat

Probab=98.57  E-value=9.6e-08  Score=56.48  Aligned_cols=33  Identities=30%  Similarity=0.609  Sum_probs=25.2

Q ss_pred             CCCCChhhHHHHHHHHHhCCChHHHHHHHHhcC
Q 048179          106 GYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQ  138 (589)
Q Consensus       106 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  138 (589)
                      |+.||..+|+.||++|++.|++++|.++|++|+
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            667777777777777777777777777777764

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.57  E-value=1.1e-05  Score=70.78  Aligned_cols=156  Identities=9%  Similarity=0.051  Sum_probs=120.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH
Q 048179          347 NVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLAR  426 (589)
Q Consensus       347 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  426 (589)
                      ...-..+...|+-+....+....... .+-|.......+....+.|++.+|...|.++..  .-++|...|+.+.-+|.+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq  146 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQ  146 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHH
Confidence            44455666777777777766664432 123344455577888888999999999888886  667778889999999999


Q ss_pred             cCCHHHHHHHHHhc-CCC-CChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHH
Q 048179          427 AGEVEEALKIVDSM-STE-PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRK  504 (589)
Q Consensus       427 ~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  504 (589)
                      .|++++|..-|.+. ... .++...+.+...+.-.||++.|+.++..+....+.++.+-..|+.+....|++++|..+..
T Consensus       147 ~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         147 LGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            99999998888776 233 4566788888888899999999999999888888888888889999999999998888765


Q ss_pred             H
Q 048179          505 T  505 (589)
Q Consensus       505 ~  505 (589)
                      .
T Consensus       227 ~  227 (257)
T COG5010         227 Q  227 (257)
T ss_pred             c
Confidence            3

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

Probab=98.53  E-value=2.9e-05  Score=82.90  Aligned_cols=219  Identities=13%  Similarity=0.130  Sum_probs=172.3

Q ss_pred             ChhhHHHHHHHHHccCCcHHHHHHHHHHHHhc-C---CCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCC-C-eehHHHH
Q 048179          176 DEVVMMGLIQACADLGDSRFGLSVHGYSIRRH-L---NLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRI-N-IVTWGAL  249 (589)
Q Consensus       176 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~-~~~~~~l  249 (589)
                      +...|-.-+......++.+.|+++.+++++.- +   .--..+|.+++++-..-|.-+...++|++..+- | ...|..|
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L 1536 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKL 1536 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHH
Confidence            34556667777888889999999988887642 1   112357888888888888888889999998872 3 3578889


Q ss_pred             HHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCC--ChhHHHHHHHHhHhcCC
Q 048179          250 ISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDF--NLVLGTSVIDMYSKCGV  327 (589)
Q Consensus       250 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~  327 (589)
                      ...|.+.+.+++|.++|+.|.+. +.-....|...+..+.+...-+.|+.++..+....|.  ...+..-.+.+-.++|+
T Consensus      1537 ~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GD 1615 (1710)
T KOG1070|consen 1537 LGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGD 1615 (1710)
T ss_pred             HHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCC
Confidence            99999999999999999999876 4556677888888889999989999999998865555  56666777888889999


Q ss_pred             HHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhcCCcHH
Q 048179          328 PSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDH--STFASLLSALSHSGLVE  395 (589)
Q Consensus       328 ~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~--~t~~~ll~a~~~~g~~~  395 (589)
                      .+.++.+|+....   .-...|+..|..-.++|+.+.+..+|++....++.|-.  ..|...|..=.+.|+-+
T Consensus      1616 aeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~ 1688 (1710)
T KOG1070|consen 1616 AERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEK 1688 (1710)
T ss_pred             chhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchh
Confidence            9999999998765   24578999999999999999999999999999888754  34555554444445433

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.49  E-value=1.4e-05  Score=73.41  Aligned_cols=181  Identities=12%  Similarity=0.041  Sum_probs=127.6

Q ss_pred             CCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCCh---hHHHHHHHHhHhcCCHHHHHHHHHhcCC--CC-hh---HH
Q 048179          276 PDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNL---VLGTSVIDMYSKCGVPSCARALFDQMQS--RD-LI---SW  346 (589)
Q Consensus       276 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~~---~~  346 (589)
                      .....+......+...|+++.|...++.+....+.++   ..+..+..+|.+.|++++|...|+++.+  |+ ..   ++
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            3456677788889999999999999999886555544   4668889999999999999999999864  32 22   45


Q ss_pred             HHHHHHHHhc--------CCHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhH
Q 048179          347 NVIIASYGIH--------GHGEEALSLFLQMIETMVKPDHS-TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHY  417 (589)
Q Consensus       347 ~~li~~~~~~--------g~~~~A~~~~~~m~~~~~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~  417 (589)
                      ..+..++...        |++++|.+.|+++.+.  .|+.. ....+.....    .      .....         ...
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~----~------~~~~~---------~~~  169 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDY----L------RNRLA---------GKE  169 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHH----H------HHHHH---------HHH
Confidence            5555666554        7789999999999876  34432 2221111100    0      00000         112


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhcCC-CC----ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCC
Q 048179          418 ACMVDLLARAGEVEEALKIVDSMST-EP----GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNP  477 (589)
Q Consensus       418 ~~l~~~~~~~g~~~~A~~~~~~~~~-~p----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  477 (589)
                      ..+...|.+.|++++|...+++... .|    ....|..++.++...|++++|...++.+....|
T Consensus       170 ~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       170 LYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            3566788899999999998888632 23    246788899999999999999998888776555

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.48  E-value=2.5e-06  Score=70.71  Aligned_cols=97  Identities=16%  Similarity=0.195  Sum_probs=79.0

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSMST-EP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA  491 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  491 (589)
                      ......+...+...|++++|.+.++.... .| +...|..+...+...|+++.|...++++++.+|+++..+..++.+|.
T Consensus        17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~   96 (135)
T TIGR02552        17 LEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLL   96 (135)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence            45566677788888888888888887632 34 56677788888888899999999999998899999999999999999


Q ss_pred             hCCChHHHHHHHHHHHhCC
Q 048179          492 MEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       492 ~~g~~~~a~~~~~~m~~~g  510 (589)
                      ..|++++|.+.++...+..
T Consensus        97 ~~g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        97 ALGEPESALKALDLAIEIC  115 (135)
T ss_pred             HcCCHHHHHHHHHHHHHhc
Confidence            9999999999998877643

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=98.47  E-value=0.0003  Score=67.59  Aligned_cols=135  Identities=15%  Similarity=0.156  Sum_probs=67.8

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCH
Q 048179          353 YGIHGHGEEALSLFLQMIETMVKPD-HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEV  430 (589)
Q Consensus       353 ~~~~g~~~~A~~~~~~m~~~~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~  430 (589)
                      +...|++++|...++.++..  .|| +.........+...++.++|.+.++.+..   ..|+ ....-.+..+|.+.|++
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~---l~P~~~~l~~~~a~all~~g~~  390 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALA---LDPNSPLLQLNLAQALLKGGKP  390 (484)
T ss_pred             HHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCCccHHHHHHHHHHHhcCCh
Confidence            33445555555555555543  233 23333333445555555555555555553   2233 33344455555555555


Q ss_pred             HHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          431 EEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       431 ~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      .+|+.+++....  +.|+..|..|..+|...|+..++...                 .+..|.-.|+|++|.......++
T Consensus       391 ~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A-----------------~AE~~~~~G~~~~A~~~l~~A~~  453 (484)
T COG4783         391 QEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLA-----------------RAEGYALAGRLEQAIIFLMRASQ  453 (484)
T ss_pred             HHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHH-----------------HHHHHHhCCCHHHHHHHHHHHHH
Confidence            555555555422  22444555555555555554444332                 33345556666677666666665


Q ss_pred             C
Q 048179          509 S  509 (589)
Q Consensus       509 ~  509 (589)
                      +
T Consensus       454 ~  454 (484)
T COG4783         454 Q  454 (484)
T ss_pred             h
Confidence            3

>PLN02789 farnesyltranstransferase

Probab=98.46  E-value=3.5e-05  Score=73.11  Aligned_cols=190  Identities=12%  Similarity=0.052  Sum_probs=139.8

Q ss_pred             HHHHHHhHhcCCHHHHHHHHHhcCCC---ChhHHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC
Q 048179          316 TSVIDMYSKCGVPSCARALFDQMQSR---DLISWNVIIASYGIHG-HGEEALSLFLQMIETMVKPDHSTFASLLSALSHS  391 (589)
Q Consensus       316 ~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~  391 (589)
                      ..+-..+...+..++|+.+.+++...   +..+|+.-...+...| ++++++..++++.+... -+..+|..-...+.+.
T Consensus        41 ~~~ra~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~np-knyqaW~~R~~~l~~l  119 (320)
T PLN02789         41 DYFRAVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNP-KNYQIWHHRRWLAEKL  119 (320)
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCC-cchHHhHHHHHHHHHc
Confidence            34444556677888999999887753   4456776666667777 57999999999998753 3344565554445555


Q ss_pred             Cc--HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-C-CChhHHHHHHHHHHhc---CCc--
Q 048179          392 GL--VEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-E-PGLAVWVALLSGCHNH---KKF--  462 (589)
Q Consensus       392 g~--~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-p~~~~~~~l~~~~~~~---~~~--  462 (589)
                      |.  .+++..+++.+.+.  -+-+...|+....++.+.|+++++++.++++.. . .|..+|+.....+...   |..  
T Consensus       120 ~~~~~~~el~~~~kal~~--dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~  197 (320)
T PLN02789        120 GPDAANKELEFTRKILSL--DAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEA  197 (320)
T ss_pred             CchhhHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhccccccccc
Confidence            65  36788888888863  344578888888999999999999999999843 3 4677888887776554   223  


Q ss_pred             --hHHHHHHHHHhccCCCCchhHHHHHHHHHhC----CChHHHHHHHHHHHh
Q 048179          463 --SIGEKVAKKVLKLNPDDLGIHALVSNFFAME----QKWEEVAGVRKTMRK  508 (589)
Q Consensus       463 --~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~----g~~~~a~~~~~~m~~  508 (589)
                        +.......++++.+|+|.++|..++.++...    ++..+|.+.+.+..+
T Consensus       198 ~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~  249 (320)
T PLN02789        198 MRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLS  249 (320)
T ss_pred             cHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhc
Confidence              4677788899999999999999999999883    455678777776554

>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=98.41  E-value=7.4e-06  Score=79.15  Aligned_cols=123  Identities=15%  Similarity=0.198  Sum_probs=102.9

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CC-ChhHHHHHHHHHH
Q 048179          380 TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-EP-GLAVWVALLSGCH  457 (589)
Q Consensus       380 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~  457 (589)
                      ....|+..+...+.++.|..+|+++.+.   .|+  ....++..+...++-.+|.+++++... .| |...+......|.
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~---~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            4456677777888999999999998864   254  455588888888999999999888633 34 5556666666789


Q ss_pred             hcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHH
Q 048179          458 NHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       458 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      ..++++.|..+++++.++.|++...|..|+.+|.+.|++++|+-.++.+.
T Consensus       246 ~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             hcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999999999999999999999999999999999999999999885

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.40  E-value=5.3e-05  Score=80.15  Aligned_cols=234  Identities=10%  Similarity=0.029  Sum_probs=140.8

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHhhcCC--CC-eehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 048179          211 DVKVQTSLVDMYAKTGHLDLASHVFKNMSR--IN-IVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLA  287 (589)
Q Consensus       211 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  287 (589)
                      +...+..|+..|...+++++|.++.+...+  |+ +..|-.+...+.+.++.+++..+  .+...  .+.          
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~--~~~----------   95 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL--NLIDS--FSQ----------   95 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh--hhhhh--ccc----------
Confidence            566777788888888888888888776544  32 33444444456666666555544  22221  111          


Q ss_pred             HhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHH
Q 048179          288 CAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALS  364 (589)
Q Consensus       288 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~  364 (589)
                         ..++.....+...+. ....+..++..+..+|-+.|+.++|..+++++.+   .|+...|.+.-.|+.. +.++|.+
T Consensus        96 ---~~~~~~ve~~~~~i~-~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~  170 (906)
T PRK14720         96 ---NLKWAIVEHICDKIL-LYGENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAIT  170 (906)
T ss_pred             ---ccchhHHHHHHHHHH-hhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHH
Confidence               112211111111111 1223344556777777777777777777777764   3556677777777777 7777777


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCC
Q 048179          365 LFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEP  444 (589)
Q Consensus       365 ~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p  444 (589)
                      ++.+.+..               +.....+..+.++|..+..  ..+.+...+..+.+.....            .....
T Consensus       171 m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~--~~~~d~d~f~~i~~ki~~~------------~~~~~  221 (906)
T PRK14720        171 YLKKAIYR---------------FIKKKQYVGIEEIWSKLVH--YNSDDFDFFLRIERKVLGH------------REFTR  221 (906)
T ss_pred             HHHHHHHH---------------HHhhhcchHHHHHHHHHHh--cCcccchHHHHHHHHHHhh------------hccch
Confidence            77666543               4444566777777777765  2233333333333222211            11112


Q ss_pred             ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHh
Q 048179          445 GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAM  492 (589)
Q Consensus       445 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  492 (589)
                      -..++.-+-..|...++++.+..+++.+++.+|+|..+...++..|..
T Consensus       222 ~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~~  269 (906)
T PRK14720        222 LVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYKE  269 (906)
T ss_pred             hHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHHH
Confidence            234455566678888999999999999999999999888888888773

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.40  E-value=0.0026  Score=61.90  Aligned_cols=439  Identities=13%  Similarity=0.117  Sum_probs=240.2

Q ss_pred             CCCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHH
Q 048179           38 LRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSM  117 (589)
Q Consensus        38 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  117 (589)
                      +-|+.+|+.||+-+..+ .++++.+.++++... .+-....|..-+..-.+.++++..+.+|.+.+..-  .+...|...
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkv--LnlDLW~lY   92 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKV--LNLDLWKLY   92 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH--hhHhHHHHH
Confidence            34788999999987666 889999999998754 23345567777888888889999999998887663  345566655


Q ss_pred             HHHHHh-CCChHHH----HHHHHhcCC------CCcchHHHHHHHH---------HhCCCccHHHHHHHHHHHCCCCCCh
Q 048179          118 LNLYVK-CGKMNEA----MVAFEKMQR------KDLVCWSSMINGL---------VFNGQPREAVDAYKRMKKEGIDADE  177 (589)
Q Consensus       118 i~~~~~-~g~~~~A----~~~~~~~~~------~~~~~~~~li~~~---------~~~g~~~~A~~~~~~m~~~~~~p~~  177 (589)
                      ++---+ .|....+    .+.|+-..+      .+-..|+..+..+         ..+.+++...++|+++....+.   
T Consensus        93 l~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~---  169 (656)
T KOG1914|consen   93 LSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMH---  169 (656)
T ss_pred             HHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccc---
Confidence            543222 2333221    122222111      2233455554332         2233444555555555443111   


Q ss_pred             hhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC------CCe--------
Q 048179          178 VVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR------INI--------  243 (589)
Q Consensus       178 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------~~~--------  243 (589)
                                    +++   +++..........|..+-.-++.  -+...+..|+++++++..      .+.        
T Consensus       170 --------------nlE---kLW~DY~~fE~~IN~~tarK~i~--e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T  230 (656)
T KOG1914|consen  170 --------------NLE---KLWKDYEAFEQEINIITARKFIG--ERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGT  230 (656)
T ss_pred             --------------cHH---HHHHHHHHHHHHHHHHHHHHHHH--hhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCC
Confidence                          111   11111111100111111111111  122345555655555421      011        


Q ss_pred             -------ehHHHHHHHHHhCCCh--------hHHHHHHHH-HHhcCCCCCHHH-HHH----HHHHHhccCch-------h
Q 048179          244 -------VTWGALISGFAQNGLA--------GSTLELLME-MQSCGFEPDSVS-LVS----ALLACAQIGFL-------K  295 (589)
Q Consensus       244 -------~~~~~li~~~~~~g~~--------~~a~~~~~~-m~~~g~~p~~~~-~~~----ll~~~~~~~~~-------~  295 (589)
                             ..|-.+|.--..++.-        ....-.+++ |.-.+..|+..- +..    .-+.+...|+.       +
T Consensus       231 ~~e~~qv~~W~n~I~wEksNpL~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~  310 (656)
T KOG1914|consen  231 KDEIQQVELWKNWIKWEKSNPLRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTD  310 (656)
T ss_pred             hHHHHHHHHHHHHHHHHhcCCcccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHH
Confidence                   1244444322222111        011111221 122233333211 111    11122333333       3


Q ss_pred             hHHHHHHHHh-hcCCCChhHHHHHHHHhHhcC---CHHHHHHHHHhcCC----CChhHHHHHHHHHHhcCCHHHHHHHHH
Q 048179          296 LGKSIHGYTV-RRFDFNLVLGTSVIDMYSKCG---VPSCARALFDQMQS----RDLISWNVIIASYGIHGHGEEALSLFL  367 (589)
Q Consensus       296 ~a~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~  367 (589)
                      ++..+++... .....+..+|..+.+---..-   ..+.....+++...    .-..+|-..+..-.+..-...|..+|.
T Consensus       311 e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~  390 (656)
T KOG1914|consen  311 EAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFK  390 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHH
Confidence            4445555544 222234444444433221111   13344444444432    233567777887777778899999999


Q ss_pred             HHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCC---
Q 048179          368 QMIETMVKP-DHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTE---  443 (589)
Q Consensus       368 ~m~~~~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---  443 (589)
                      +..+.+..+ +.....+++.-++ .++.+-|.++|+.-.+.++  .+..--.+.++-+.+.++-..|..+|++....   
T Consensus       391 kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkkf~--d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~  467 (656)
T KOG1914|consen  391 KAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKKFG--DSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLS  467 (656)
T ss_pred             HHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHhcC--CChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCC
Confidence            999998888 5667777777666 4899999999999887554  34455577889999999999999999997433   


Q ss_pred             C--ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCc----hhHHHHHHHHHhCCChHHHHHHHHH
Q 048179          444 P--GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDL----GIHALVSNFFAMEQKWEEVAGVRKT  505 (589)
Q Consensus       444 p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~----~~~~~l~~~~~~~g~~~~a~~~~~~  505 (589)
                      |  ....|..++.--..-||...+.++-++....-|.+.    ..-..+.+-|.=.+.+..-..-++.
T Consensus       468 ~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c~~~elk~  535 (656)
T KOG1914|consen  468 ADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYPCSLDELKF  535 (656)
T ss_pred             hhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhcccccccHHHHHh
Confidence            2  357899999999999999999999888876655211    1223345556666655544443333

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.40  E-value=0.00026  Score=62.40  Aligned_cols=155  Identities=14%  Similarity=0.075  Sum_probs=76.4

Q ss_pred             HHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh----cCCcH
Q 048179          319 IDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALS----HSGLV  394 (589)
Q Consensus       319 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~----~~g~~  394 (589)
                      ...|...|++++|.+......  +....-.=+..+.+..+.+-|.+.+++|.+-   -+..|.+.|..++.    ..+.+
T Consensus       115 a~i~~~~~~~deAl~~~~~~~--~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~ggek~  189 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHLGE--NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGEKI  189 (299)
T ss_pred             hHHhhcCCChHHHHHHHhccc--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccchhh
Confidence            445566666666666665532  2222222233444555666666666666542   13345554444433    23445


Q ss_pred             HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCc-hHHHHHHHH
Q 048179          395 EEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKF-SIGEKVAKK  471 (589)
Q Consensus       395 ~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~-~~a~~~~~~  471 (589)
                      .+|.-+|+++.+  ..+|+..+.+.+..+....|++++|..+++....  ..++.++..++..-...|.. +-..+...+
T Consensus       190 qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~l~Q  267 (299)
T KOG3081|consen  190 QDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTERNLSQ  267 (299)
T ss_pred             hhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHHHHH
Confidence            566666666654  3445555555555555555555555555555422  13444444444443344433 223344444


Q ss_pred             HhccCCCCc
Q 048179          472 VLKLNPDDL  480 (589)
Q Consensus       472 ~~~~~p~~~  480 (589)
                      +....|.++
T Consensus       268 Lk~~~p~h~  276 (299)
T KOG3081|consen  268 LKLSHPEHP  276 (299)
T ss_pred             HHhcCCcch
Confidence            444445443

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.39  E-value=5e-05  Score=72.69  Aligned_cols=120  Identities=14%  Similarity=0.103  Sum_probs=106.7

Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCCC-hhHHHHHHHHHHhcCCchH
Q 048179          387 ALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEPG-LAVWVALLSGCHNHKKFSI  464 (589)
Q Consensus       387 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~-~~~~~~l~~~~~~~~~~~~  464 (589)
                      .....|.+++|+..++.+..  ..+.|+..+....+.+.+.++.++|.+.++++. ..|+ ...+-++..++.+.|+..+
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 QTYLAGQYDEALKLLQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHHhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHH
Confidence            45567999999999999987  555668888889999999999999999999984 3576 6678888999999999999


Q ss_pred             HHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          465 GEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       465 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      |+.+++....-+|+++..|..|+.+|...|+..+|...+-++..
T Consensus       393 ai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~  436 (484)
T COG4783         393 AIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYA  436 (484)
T ss_pred             HHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988877653

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.31  E-value=6.7e-05  Score=70.07  Aligned_cols=162  Identities=10%  Similarity=0.075  Sum_probs=119.2

Q ss_pred             hHHHHH-HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHH----
Q 048179          344 ISWNVI-IASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYA----  418 (589)
Q Consensus       344 ~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~----  418 (589)
                      .+|..+ ..++...|++++|...--..++.. ..+......-..++...++.+.|...|++..   .+.|+...-.    
T Consensus       169 ~~a~~lka~cl~~~~~~~~a~~ea~~ilkld-~~n~~al~vrg~~~yy~~~~~ka~~hf~qal---~ldpdh~~sk~~~~  244 (486)
T KOG0550|consen  169 FKAKLLKAECLAFLGDYDEAQSEAIDILKLD-ATNAEALYVRGLCLYYNDNADKAINHFQQAL---RLDPDHQKSKSASM  244 (486)
T ss_pred             hHHHHhhhhhhhhcccchhHHHHHHHHHhcc-cchhHHHHhcccccccccchHHHHHHHhhhh---ccChhhhhHHhHhh
Confidence            445444 345677899999988776666543 2222222222234556788999999999877   4445532211    


Q ss_pred             ---------HHHHHHHHcCCHHHHHHHHHhc-CCC-----CChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhH
Q 048179          419 ---------CMVDLLARAGEVEEALKIVDSM-STE-----PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIH  483 (589)
Q Consensus       419 ---------~l~~~~~~~g~~~~A~~~~~~~-~~~-----p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  483 (589)
                               -=..-..+.|.+.+|.+.|.+. ...     |+...|.....+..+.|+.++|+.-.+.+++++|.-..+|
T Consensus       245 ~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikal  324 (486)
T KOG0550|consen  245 MPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKAL  324 (486)
T ss_pred             hHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHH
Confidence                     1223456889999999999886 233     5566677777788899999999999999999999999999


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          484 ALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       484 ~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      ..-++++...++|++|.+.+++..+.
T Consensus       325 l~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  325 LRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            99999999999999999999988763

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.31  E-value=2e-05  Score=65.26  Aligned_cols=115  Identities=10%  Similarity=0.075  Sum_probs=90.3

Q ss_pred             HHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-C
Q 048179          365 LFLQMIETMVKPD-HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-T  442 (589)
Q Consensus       365 ~~~~m~~~~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~  442 (589)
                      .|++....  .|+ ......+...+...|++++|.+.|+.+...  .+.+...+..+...+.+.|++++|...+++.. .
T Consensus         5 ~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLGL--DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHcC--ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            45555543  443 345666777888899999999999998763  34467888889999999999999999998863 3


Q ss_pred             CC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhH
Q 048179          443 EP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIH  483 (589)
Q Consensus       443 ~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  483 (589)
                      .| +...+..+...+...|+++.|...++++++++|++....
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  122 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPEYS  122 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHH
Confidence            34 567788888889999999999999999999999877543

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.29  E-value=0.00013  Score=63.78  Aligned_cols=102  Identities=12%  Similarity=0.130  Sum_probs=46.0

Q ss_pred             CCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC--CCCChhHHHHHHHHHHhcCCchHHHHH
Q 048179          391 SGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS--TEPGLAVWVALLSGCHNHKKFSIGEKV  468 (589)
Q Consensus       391 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~  468 (589)
                      .|.+++|.++++.+.++  -+.|..++---+-+.-..|+.-+|++-+....  ...|...|.-|...|...|++++|.-+
T Consensus        99 ~~~~~~A~e~y~~lL~d--dpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fC  176 (289)
T KOG3060|consen   99 TGNYKEAIEYYESLLED--DPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFC  176 (289)
T ss_pred             hhchhhHHHHHHHHhcc--CcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHH
Confidence            34455555555554442  12223333333333444444444444333321  123444555555555555555555555


Q ss_pred             HHHHhccCCCCchhHHHHHHHHHhCC
Q 048179          469 AKKVLKLNPDDLGIHALVSNFFAMEQ  494 (589)
Q Consensus       469 ~~~~~~~~p~~~~~~~~l~~~~~~~g  494 (589)
                      +++++=+.|.++..+..++.++.-.|
T Consensus       177 lEE~ll~~P~n~l~f~rlae~~Yt~g  202 (289)
T KOG3060|consen  177 LEELLLIQPFNPLYFQRLAEVLYTQG  202 (289)
T ss_pred             HHHHHHcCCCcHHHHHHHHHHHHHHh
Confidence            55555555555555555555444433

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=98.28  E-value=2.1e-06  Score=61.35  Aligned_cols=65  Identities=12%  Similarity=0.118  Sum_probs=60.6

Q ss_pred             ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCC-ChHHHHHHHHHHHhC
Q 048179          445 GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQ-KWEEVAGVRKTMRKS  509 (589)
Q Consensus       445 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~~  509 (589)
                      ++.+|..+...+...|++++|+..|+++++++|+++.+|..++.+|...| ++++|++.+++..+.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            46789999999999999999999999999999999999999999999999 799999999988753

...

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.27  E-value=0.00014  Score=76.26  Aligned_cols=144  Identities=11%  Similarity=0.084  Sum_probs=111.2

Q ss_pred             hcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--C-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHH
Q 048179          306 RRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS--R-DLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPD-HSTF  381 (589)
Q Consensus       306 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~t~  381 (589)
                      +..+.++..+..|.......|.+++|..+++.+.+  | +...+..++..+.+.+++++|+..+++....  .|+ ....
T Consensus        80 ~~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~  157 (694)
T PRK15179         80 RRYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREI  157 (694)
T ss_pred             HhccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHH
Confidence            66777788888888888999999999999988875  4 4456777888888999999999999888875  444 4456


Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHH
Q 048179          382 ASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALL  453 (589)
Q Consensus       382 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~  453 (589)
                      ..+..++.+.|.+++|..+|+++..  ..+.+...+..+..++...|+.++|...|++...  .|....|+.++
T Consensus       158 ~~~a~~l~~~g~~~~A~~~y~~~~~--~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~  229 (694)
T PRK15179        158 LLEAKSWDEIGQSEQADACFERLSR--QHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHh--cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH
Confidence            6677778888999999999999886  3334477888888889999999999999888732  34444544444

>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=98.19  E-value=7.1e-05  Score=72.46  Aligned_cols=127  Identities=15%  Similarity=0.097  Sum_probs=105.4

Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC
Q 048179          313 VLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSG  392 (589)
Q Consensus       313 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g  392 (589)
                      .+..+|+..+...++++.|..+|+++.+.++..+..++..+...++-.+|++++.+.++.. +-+...+..-...|.+.+
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcC
Confidence            3446677777788999999999999998777777788888888899999999999998753 345556666667788999


Q ss_pred             cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC
Q 048179          393 LVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST  442 (589)
Q Consensus       393 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  442 (589)
                      +++.|..+.+++.+  -.+.+..+|..|+.+|.+.|++++|+..++.++.
T Consensus       249 ~~~lAL~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  249 KYELALEIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             CHHHHHHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            99999999999985  3334477999999999999999999999999874

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.19  E-value=7.6e-05  Score=62.44  Aligned_cols=115  Identities=9%  Similarity=0.100  Sum_probs=70.8

Q ss_pred             CCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhcCCC-CCh----hHHHHHHHHHHhcCCchH
Q 048179          391 SGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSMSTE-PGL----AVWVALLSGCHNHKKFSI  464 (589)
Q Consensus       391 ~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-p~~----~~~~~l~~~~~~~~~~~~  464 (589)
                      .++...+...++.+.+.++-.|- ....-.+...+...|++++|...|+..... ||.    .....|...+...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            56666666667777664321111 223334556667777777777777776332 332    234445566777777877


Q ss_pred             HHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHH
Q 048179          465 GEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTM  506 (589)
Q Consensus       465 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  506 (589)
                      |...++.. .-.+-.+..+..+|++|.+.|++++|...|+..
T Consensus       104 Al~~L~~~-~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  104 ALATLQQI-PDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHhc-cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            77777553 233445567777888888888888888877653

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.17  E-value=3.2e-06  Score=50.88  Aligned_cols=35  Identities=29%  Similarity=0.515  Sum_probs=30.5

Q ss_pred             ccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCc
Q 048179           42 DTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDS   76 (589)
Q Consensus        42 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~   76 (589)
                      .+||++|.+|++.|++++|.++|.+|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            47899999999999999999999999999888874

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.17  E-value=3.4e-06  Score=63.00  Aligned_cols=78  Identities=24%  Similarity=0.356  Sum_probs=57.8

Q ss_pred             cCCHHHHHHHHHhcCC-CC---ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHH
Q 048179          427 AGEVEEALKIVDSMST-EP---GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGV  502 (589)
Q Consensus       427 ~g~~~~A~~~~~~~~~-~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  502 (589)
                      .|++++|+.+++++.. .|   +...|..+..++.+.|++++|..++++ .+.+|.++.....++.+|.+.|++++|++.
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            4677777777777632 23   445566678888888888888888888 777777777777888888888888888888


Q ss_pred             HHH
Q 048179          503 RKT  505 (589)
Q Consensus       503 ~~~  505 (589)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            875

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.16  E-value=4.4e-05  Score=74.25  Aligned_cols=88  Identities=8%  Similarity=0.042  Sum_probs=63.9

Q ss_pred             HHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHH
Q 048179          421 VDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEE  498 (589)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  498 (589)
                      ...+...|++++|++.|+++. ..| +...|..+..+|...|++++|+..++++++++|+++.+|..++.+|...|++++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~e   88 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQT   88 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHH
Confidence            345566777777777777752 233 455666667777777888888888888888888777778888888888888888


Q ss_pred             HHHHHHHHHh
Q 048179          499 VAGVRKTMRK  508 (589)
Q Consensus       499 a~~~~~~m~~  508 (589)
                      |...+++..+
T Consensus        89 A~~~~~~al~   98 (356)
T PLN03088         89 AKAALEKGAS   98 (356)
T ss_pred             HHHHHHHHHH
Confidence            8887777765

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.16  E-value=0.00022  Score=62.31  Aligned_cols=151  Identities=13%  Similarity=0.124  Sum_probs=121.9

Q ss_pred             cCCHHHHHHHHHHHHH---cC-CCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCH
Q 048179          356 HGHGEEALSLFLQMIE---TM-VKPDHS-TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEV  430 (589)
Q Consensus       356 ~g~~~~A~~~~~~m~~---~~-~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  430 (589)
                      ..+.++..+++.++..   .| ..|+.. .|-.+.-+....|..+.|...++.+...+  +-+..+-..-.-.+...|++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhch
Confidence            4567888888888764   34 556665 45667777888899999999999998854  33333333333456778999


Q ss_pred             HHHHHHHHhcCC-CC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          431 EEALKIVDSMST-EP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       431 ~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ++|+++++.... .| |..++.--+......|+.-+|++-+...++..|.|..+|.-++.+|...|++++|.=.++++.-
T Consensus       103 ~~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  103 KEAIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             hhHHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            999999999843 34 6777888888888999999999999999999999999999999999999999999999999874

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.14  E-value=3.7e-06  Score=50.59  Aligned_cols=35  Identities=34%  Similarity=0.670  Sum_probs=31.7

Q ss_pred             chHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCCh
Q 048179          143 VCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADE  177 (589)
Q Consensus       143 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  177 (589)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            47999999999999999999999999999999873

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.

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.14  E-value=7.1e-06  Score=57.77  Aligned_cols=59  Identities=12%  Similarity=0.177  Sum_probs=51.8

Q ss_pred             HHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          452 LLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       452 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      +...+...|++++|+..++++++..|+++.++..++.++...|++++|...++++.+..
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            45678889999999999999999999999999999999999999999999999887643

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.13  E-value=2.8e-05  Score=59.49  Aligned_cols=94  Identities=17%  Similarity=0.194  Sum_probs=77.9

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhC
Q 048179          416 HYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAME  493 (589)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  493 (589)
                      .+..+...+...|++++|...+++.. ..| +...+..+...+...++++.|.+.++++++..|.+...+..++.++...
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHH
Confidence            34567778888899999999988863 234 3467777888888899999999999999999998888999999999999


Q ss_pred             CChHHHHHHHHHHHhC
Q 048179          494 QKWEEVAGVRKTMRKS  509 (589)
Q Consensus       494 g~~~~a~~~~~~m~~~  509 (589)
                      |++++|...++...+.
T Consensus        82 ~~~~~a~~~~~~~~~~   97 (100)
T cd00189          82 GKYEEALEAYEKALEL   97 (100)
T ss_pred             HhHHHHHHHHHHHHcc
Confidence            9999999999887653

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.13  E-value=2.7e-05  Score=69.84  Aligned_cols=96  Identities=22%  Similarity=0.253  Sum_probs=54.2

Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCCC-hhHHHHHHHHHHhcCCchH
Q 048179          388 LSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSM-STEPG-LAVWVALLSGCHNHKKFSI  464 (589)
Q Consensus       388 ~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~  464 (589)
                      ..+.+++.+|+..|.++++   +.|+ ...|..-..+|.+.|.++.|++-.+.. ...|. ..+|..|..+|...|++++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~---l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIE---LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHh---cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHH
Confidence            4455666666666666653   2333 444444555666666666666655554 22332 3456666666666666666


Q ss_pred             HHHHHHHHhccCCCCchhHHHH
Q 048179          465 GEKVAKKVLKLNPDDLGIHALV  486 (589)
Q Consensus       465 a~~~~~~~~~~~p~~~~~~~~l  486 (589)
                      |++.|+++++++|++......|
T Consensus       168 A~~aykKaLeldP~Ne~~K~nL  189 (304)
T KOG0553|consen  168 AIEAYKKALELDPDNESYKSNL  189 (304)
T ss_pred             HHHHHHhhhccCCCcHHHHHHH
Confidence            6666666666666665444444

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.11  E-value=0.018  Score=59.75  Aligned_cols=121  Identities=15%  Similarity=0.155  Sum_probs=70.3

Q ss_pred             CCChHHHHHHhccCCCCC-cccHHHHHHH--HHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHH
Q 048179           23 KNDIVSARKLFEELPLRG-VDTYNSIIIA--YSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIW   99 (589)
Q Consensus        23 ~g~~~~A~~~~~~~~~~~-~~~~~~li~~--~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~   99 (589)
                      .+++..|....+.+..+. ...|..++.+  +.+.|+.++|..+++.....+.. |..|...+-.+|...+..+++..++
T Consensus        22 ~~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Y  100 (932)
T KOG2053|consen   22 SSQFKKALAKLGKLLKKHPNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLY  100 (932)
T ss_pred             hHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHH
Confidence            455666666665554222 1233444443  35667777777777666554433 6666777777777777777777777


Q ss_pred             HHHHHhCCCCChhhHHHHHHHHHhCCChH----HHHHHHHhcCCCCcchHH
Q 048179          100 RKAVELGYGNDVFVGSSMLNLYVKCGKMN----EAMVAFEKMQRKDLVCWS  146 (589)
Q Consensus       100 ~~~~~~g~~~~~~~~~~li~~~~~~g~~~----~A~~~~~~~~~~~~~~~~  146 (589)
                      +++.+.  .|+......+..+|.|.+.+.    .|.++++..+++--.-|+
T Consensus       101 e~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWs  149 (932)
T KOG2053|consen  101 ERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWS  149 (932)
T ss_pred             HHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHH
Confidence            776655  344555566666666665543    356666655544333443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.09  E-value=4.7e-05  Score=61.36  Aligned_cols=94  Identities=15%  Similarity=0.091  Sum_probs=56.7

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhcCC-CCC----hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCC---chhHHHHH
Q 048179          416 HYACMVDLLARAGEVEEALKIVDSMST-EPG----LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD---LGIHALVS  487 (589)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~  487 (589)
                      .+..++..+.+.|++++|.+.++.+.. .|+    ...+..+..++...|+++.|...+++++...|++   +.++..++
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            344455556666666666666665522 222    2344455666666667777777777766666654   34566666


Q ss_pred             HHHHhCCChHHHHHHHHHHHhC
Q 048179          488 NFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       488 ~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      .++.+.|++++|.+.++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            6677777777777777666653

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.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.07  E-value=0.00028  Score=59.06  Aligned_cols=125  Identities=14%  Similarity=0.117  Sum_probs=86.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC--hhhHHHH
Q 048179          346 WNVIIASYGIHGHGEEALSLFLQMIETMVKPD---HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT--EKHYACM  420 (589)
Q Consensus       346 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~---~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~l  420 (589)
                      |..++..+ ..++...+...++.+.+.. +.+   ......+...+...|++++|...|+.+... ...|+  ......|
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHHH
Confidence            44444444 4778888888888888763 222   123344556778889999999999988875 32222  2234457


Q ss_pred             HHHHHHcCCHHHHHHHHHhcCCC-CChhHHHHHHHHHHhcCCchHHHHHHHHHh
Q 048179          421 VDLLARAGEVEEALKIVDSMSTE-PGLAVWVALLSGCHNHKKFSIGEKVAKKVL  473 (589)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  473 (589)
                      ..++...|++++|+..++..... .....+..++..+...|++++|+..|++++
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al  145 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKAL  145 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence            78888899999999998776443 345566677778899999999999988764

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.06  E-value=5.8e-06  Score=49.31  Aligned_cols=33  Identities=30%  Similarity=0.626  Sum_probs=26.5

Q ss_pred             ccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCC
Q 048179           42 DTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRP   74 (589)
Q Consensus        42 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p   74 (589)
                      .+||.+|.+|++.|+++.|.++|+.|.+.|++|
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            578888888888888888888888888887776

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.06  E-value=4.6e-05  Score=68.43  Aligned_cols=100  Identities=18%  Similarity=0.181  Sum_probs=73.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCC
Q 048179          351 ASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGE  429 (589)
Q Consensus       351 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~  429 (589)
                      .-+.+.+++.+|+..|.+.++.. +-|++-|..=..+|++.|.++.|++-.+...   .+.|. ...|..|..+|...|+
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al---~iDp~yskay~RLG~A~~~~gk  164 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESAL---SIDPHYSKAYGRLGLAYLALGK  164 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHH---hcChHHHHHHHHHHHHHHccCc
Confidence            34667788888888888888753 4456667777778888888888888777776   34455 6778888888888888


Q ss_pred             HHHHHHHHHhc-CCCCChhHHHHHHH
Q 048179          430 VEEALKIVDSM-STEPGLAVWVALLS  454 (589)
Q Consensus       430 ~~~A~~~~~~~-~~~p~~~~~~~l~~  454 (589)
                      +++|++.|++. ...|+..+|..=+.
T Consensus       165 ~~~A~~aykKaLeldP~Ne~~K~nL~  190 (304)
T KOG0553|consen  165 YEEAIEAYKKALELDPDNESYKSNLK  190 (304)
T ss_pred             HHHHHHHHHhhhccCCCcHHHHHHHH
Confidence            88888888875 45677666554443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.05  E-value=0.00094  Score=59.01  Aligned_cols=244  Identities=11%  Similarity=0.023  Sum_probs=153.1

Q ss_pred             HHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHH
Q 048179          250 ISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPS  329 (589)
Q Consensus       250 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  329 (589)
                      ++-+.-.|.+..++..-......  +.+...-.-+-++|...|......   ..+..+..+.......+......-++.+
T Consensus        15 iRn~fY~Gnyq~~ine~~~~~~~--~~~~e~d~y~~raylAlg~~~~~~---~eI~~~~~~~lqAvr~~a~~~~~e~~~~   89 (299)
T KOG3081|consen   15 IRNYFYLGNYQQCINEAEKFSSS--KTDVELDVYMYRAYLALGQYQIVI---SEIKEGKATPLQAVRLLAEYLELESNKK   89 (299)
T ss_pred             HHHHHHhhHHHHHHHHHHhhccc--cchhHHHHHHHHHHHHcccccccc---cccccccCChHHHHHHHHHHhhCcchhH
Confidence            34455567777777655544332  233344444555665555443321   2222222333333333333333334333


Q ss_pred             HHH-HHHHhcCCCC---hhHHH-HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHH
Q 048179          330 CAR-ALFDQMQSRD---LISWN-VIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLM  404 (589)
Q Consensus       330 ~A~-~~~~~~~~~~---~~~~~-~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~  404 (589)
                      +-. ++.+.+..+.   ..+|. .-...|+..|++++|++.....    -..+....  =...+.+...++-|.+.++.|
T Consensus        90 ~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~----~~lE~~Al--~VqI~lk~~r~d~A~~~lk~m  163 (299)
T KOG3081|consen   90 SILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLG----ENLEAAAL--NVQILLKMHRFDLAEKELKKM  163 (299)
T ss_pred             HHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhcc----chHHHHHH--HHHHHHHHHHHHHHHHHHHHH
Confidence            322 2333333322   11233 2345688999999999988762    12222222  233455667889999999999


Q ss_pred             HHhcCCCCChhhHHHHHHHH----HHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCC
Q 048179          405 VSKYKIQPTEKHYACMVDLL----ARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPD  478 (589)
Q Consensus       405 ~~~~~~~p~~~~~~~l~~~~----~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  478 (589)
                      .+-    .+-.+.+.|..++    .-.+...+|.-+|++|..  .|+..+.+-...+|...|++++|+.+++.++..+|+
T Consensus       164 q~i----ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~  239 (299)
T KOG3081|consen  164 QQI----DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK  239 (299)
T ss_pred             Hcc----chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC
Confidence            852    3444555455544    445689999999999965  488888899999999999999999999999999999


Q ss_pred             CchhHHHHHHHHHhCCChHHHH-HHHHHHHh
Q 048179          479 DLGIHALVSNFFAMEQKWEEVA-GVRKTMRK  508 (589)
Q Consensus       479 ~~~~~~~l~~~~~~~g~~~~a~-~~~~~m~~  508 (589)
                      ++.++.++.-.-...|+-.++. +.+.+++.
T Consensus       240 dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  240 DPETLANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             CHHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            9999999998888899887764 45555554

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.02  E-value=0.0028  Score=67.60  Aligned_cols=232  Identities=11%  Similarity=0.052  Sum_probs=127.8

Q ss_pred             cHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCC
Q 048179           78 TFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQ  157 (589)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~  157 (589)
                      .+..|+..+...+++++|.++.+...+.. +.....|-.+...+...++.+++..+             .++..+....+
T Consensus        33 a~~~Li~~~~~~~~~deai~i~~~~l~~~-P~~i~~yy~~G~l~~q~~~~~~~~lv-------------~~l~~~~~~~~   98 (906)
T PRK14720         33 ELDDLIDAYKSENLTDEAKDICEEHLKEH-KKSISALYISGILSLSRRPLNDSNLL-------------NLIDSFSQNLK   98 (906)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CcceehHHHHHHHHHhhcchhhhhhh-------------hhhhhcccccc
Confidence            44455555555555555555555444432 11122222222244444544443322             23333333334


Q ss_pred             ccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhh
Q 048179          158 PREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKN  237 (589)
Q Consensus       158 ~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  237 (589)
                      +.-+..+...|...  .-+...+..+..+|.+.|+.+++..+++.+++.. +.|+.+.|.+...|... ++++|..++.+
T Consensus        99 ~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~K  174 (906)
T PRK14720         99 WAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKK  174 (906)
T ss_pred             hhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHH
Confidence            43333333333332  2233466667777777777777777777777766 44778888888888888 88888887766


Q ss_pred             cCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHH-HHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHH
Q 048179          238 MSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSL-VSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGT  316 (589)
Q Consensus       238 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  316 (589)
                      ..           ..|...+++.++.+++.++...  .|+...+ ..+++.....              .+..--..++-
T Consensus       175 AV-----------~~~i~~kq~~~~~e~W~k~~~~--~~~d~d~f~~i~~ki~~~--------------~~~~~~~~~~~  227 (906)
T PRK14720        175 AI-----------YRFIKKKQYVGIEEIWSKLVHY--NSDDFDFFLRIERKVLGH--------------REFTRLVGLLE  227 (906)
T ss_pred             HH-----------HHHHhhhcchHHHHHHHHHHhc--CcccchHHHHHHHHHHhh--------------hccchhHHHHH
Confidence            43           3366677888888888888775  3443322 2222211111              12222334445


Q ss_pred             HHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHH
Q 048179          317 SVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYG  354 (589)
Q Consensus       317 ~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~  354 (589)
                      .+-..|...++++++..+|..+.+   .|..+..-++.+|.
T Consensus       228 ~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        228 DLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence            666677777788888888887765   34445555555554

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.02  E-value=1.2e-05  Score=47.92  Aligned_cols=33  Identities=33%  Similarity=0.510  Sum_probs=27.6

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 048179          344 ISWNVIIASYGIHGHGEEALSLFLQMIETMVKP  376 (589)
Q Consensus       344 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  376 (589)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            578888888888888888888888888888876

>PRK15331 chaperone protein SicA; Provisional

Probab=98.01  E-value=0.00018  Score=59.24  Aligned_cols=90  Identities=11%  Similarity=0.057  Sum_probs=79.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCCh
Q 048179          419 CMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKW  496 (589)
Q Consensus       419 ~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  496 (589)
                      ....-+...|++++|..+|+-+..  .-+..-|..|..+|...+++++|+..|..+..++++||......+..|...|+.
T Consensus        42 ~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         42 AHAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCH
Confidence            445556689999999999988632  346667889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q 048179          497 EEVAGVRKTMRK  508 (589)
Q Consensus       497 ~~a~~~~~~m~~  508 (589)
                      ++|+..|+...+
T Consensus       122 ~~A~~~f~~a~~  133 (165)
T PRK15331        122 AKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998875

>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=97.95  E-value=2.8e-05  Score=55.28  Aligned_cols=52  Identities=15%  Similarity=0.317  Sum_probs=44.2

Q ss_pred             HhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          457 HNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       457 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ...|++++|++.++++++.+|+++.++..++.+|.+.|++++|.++++++..
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4578888999999999999999999999999999999999999998887765

...

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.94  E-value=0.00013  Score=63.17  Aligned_cols=95  Identities=14%  Similarity=0.072  Sum_probs=69.9

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CCC----hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSMST-EPG----LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSN  488 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  488 (589)
                      ...+..+...+.+.|++++|...|++... .|+    ...+..+...+...|+++.|+..++++++..|+++..+..++.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~  114 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence            33456666667777777777777776521 122    3567788888899999999999999999999999989989999


Q ss_pred             HHHhCCC--------------hHHHHHHHHHHHh
Q 048179          489 FFAMEQK--------------WEEVAGVRKTMRK  508 (589)
Q Consensus       489 ~~~~~g~--------------~~~a~~~~~~m~~  508 (589)
                      +|...|+              +++|.+.+++...
T Consensus       115 ~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~  148 (172)
T PRK02603        115 IYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIR  148 (172)
T ss_pred             HHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHh
Confidence            9988776              4556666655554

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.94  E-value=0.00015  Score=65.61  Aligned_cols=106  Identities=10%  Similarity=0.098  Sum_probs=88.5

Q ss_pred             CCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CC-CChhHHHHHHHHHHhc---CCchHHHHHHHHHhccCCCCchhHHH
Q 048179          411 QPTEKHYACMVDLLARAGEVEEALKIVDSMS-TE-PGLAVWVALLSGCHNH---KKFSIGEKVAKKVLKLNPDDLGIHAL  485 (589)
Q Consensus       411 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-p~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~p~~~~~~~~  485 (589)
                      +-|.+.|-.|...|.+.|+.+.|..-|.+.. .. +++..+..+..++...   ....++..+++++++++|.|..+...
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~l  232 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSL  232 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHH
Confidence            4568899999999999999999999998873 23 4666777777764333   35788999999999999999999999


Q ss_pred             HHHHHHhCCChHHHHHHHHHHHhCCCccCCc
Q 048179          486 VSNFFAMEQKWEEVAGVRKTMRKSGMKKVPG  516 (589)
Q Consensus       486 l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~  516 (589)
                      |+..+...|++.+|...|+.|.+.....+|.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~lp~~~~r  263 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLLPADDPR  263 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCCCCCch
Confidence            9999999999999999999999866554443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.93  E-value=0.00018  Score=57.82  Aligned_cols=105  Identities=11%  Similarity=0.079  Sum_probs=71.5

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CCC----hhHHHHHH
Q 048179          380 TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSMST-EPG----LAVWVALL  453 (589)
Q Consensus       380 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~----~~~~~~l~  453 (589)
                      ++..+...+...|++++|...|+.+.+.+.-.+. ...+..+..++.+.|++++|.+.++.+.. .|+    ..++..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            4455566667777778787777777654211111 33455677778888888888888877632 233    34577777


Q ss_pred             HHHHhcCCchHHHHHHHHHhccCCCCchhHH
Q 048179          454 SGCHNHKKFSIGEKVAKKVLKLNPDDLGIHA  484 (589)
Q Consensus       454 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  484 (589)
                      .++...|+.+.|...++++++..|+++....
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  114 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSSAAKL  114 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCChhHHH
Confidence            7788888888888888888888887765443

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.

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.88  E-value=0.00025  Score=69.05  Aligned_cols=106  Identities=11%  Similarity=0.091  Sum_probs=79.9

Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCch
Q 048179          386 SALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFS  463 (589)
Q Consensus       386 ~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~  463 (589)
                      ..+...|++++|+..|+++.+.  -+.+...|..+..+|.+.|++++|+..++++. ..| +...|..+..+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHH
Confidence            4455667888888888887753  23346677777788888888888888888763 334 5667788888888899999


Q ss_pred             HHHHHHHHHhccCCCCchhHHHHHHHHHhC
Q 048179          464 IGEKVAKKVLKLNPDDLGIHALVSNFFAME  493 (589)
Q Consensus       464 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  493 (589)
                      .|+..++++++++|+++.....+..+..+.
T Consensus        88 eA~~~~~~al~l~P~~~~~~~~l~~~~~kl  117 (356)
T PLN03088         88 TAKAALEKGASLAPGDSRFTKLIKECDEKI  117 (356)
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            999999999999998888877776664444

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.87  E-value=0.00016  Score=62.28  Aligned_cols=93  Identities=12%  Similarity=-0.109  Sum_probs=75.4

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCCC----hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSMS-TEPG----LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSN  488 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  488 (589)
                      ...|..++..+...|++++|+..|++.. ..|+    ..+|..+...+...|++++|+..+++++++.|.....+..++.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~  114 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHH
Confidence            4556677778888899999998888762 2222    3478889999999999999999999999999999999999999


Q ss_pred             HHH-------hCCChHHHHHHHHHH
Q 048179          489 FFA-------MEQKWEEVAGVRKTM  506 (589)
Q Consensus       489 ~~~-------~~g~~~~a~~~~~~m  506 (589)
                      +|.       ..|++++|...+++.
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHHH
Confidence            988       888888766666554

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.86  E-value=4.6e-05  Score=55.09  Aligned_cols=59  Identities=14%  Similarity=0.130  Sum_probs=52.9

Q ss_pred             HHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048179          453 LSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       453 ~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  511 (589)
                      ...+...++++.|.++++++++++|+++..+...+.+|.+.|++++|.+.++...+.+.
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p   60 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSP   60 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCC
Confidence            35688899999999999999999999999999999999999999999999999886543

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.83  E-value=0.058  Score=56.24  Aligned_cols=218  Identities=12%  Similarity=0.053  Sum_probs=146.9

Q ss_pred             HHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHh--ccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChH
Q 048179           51 YSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACV--SLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMN  128 (589)
Q Consensus        51 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  128 (589)
                      ....+++..|+....++.+.  .||. .|..+++++.  +.|..++|..+++.....+.. |..+...+-..|...|+.+
T Consensus        19 ~ld~~qfkkal~~~~kllkk--~Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d   94 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKK--HPNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLD   94 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHH--CCCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhh
Confidence            34567889999999998876  3443 4566666664  889999999888887666544 8889999999999999999


Q ss_pred             HHHHHHHhcCC--CCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCC----------cHHH
Q 048179          129 EAMVAFEKMQR--KDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGD----------SRFG  196 (589)
Q Consensus       129 ~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~----------~~~a  196 (589)
                      +|..++++..+  |+......+..+|++.+.+.+-.+.--+|-+ ..+-+.+.|.++++...+.-.          ...|
T Consensus        95 ~~~~~Ye~~~~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA  173 (932)
T KOG2053|consen   95 EAVHLYERANQKYPSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPILLALA  173 (932)
T ss_pred             HHHHHHHHHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccchhHHHH
Confidence            99999999987  4555555666777887777654444434433 244467778888776654321          2234


Q ss_pred             HHHHHHHHHhc-CCCchHHHHHHHHHHHhcCCHHHHHHHHhh-c----CCCCeehHHHHHHHHHhCCChhHHHHHHHHHH
Q 048179          197 LSVHGYSIRRH-LNLDVKVQTSLVDMYAKTGHLDLASHVFKN-M----SRINIVTWGALISGFAQNGLAGSTLELLMEMQ  270 (589)
Q Consensus       197 ~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~-~----~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  270 (589)
                      ....+.+++.+ .-.+..=...........|++++|.+++.. .    ..-+...-+.-+..+...+++.+..++-.++.
T Consensus       174 ~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll  253 (932)
T KOG2053|consen  174 EKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLL  253 (932)
T ss_pred             HHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            55555555543 211222222233445667889999998832 2    22233334455667778889999999888888


Q ss_pred             hcC
Q 048179          271 SCG  273 (589)
Q Consensus       271 ~~g  273 (589)
                      ..|
T Consensus       254 ~k~  256 (932)
T KOG2053|consen  254 EKG  256 (932)
T ss_pred             HhC
Confidence            875

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.80  E-value=0.0012  Score=67.23  Aligned_cols=63  Identities=11%  Similarity=0.031  Sum_probs=35.8

Q ss_pred             hHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          447 AVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       447 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      .++..+.-.....|++++|...++++++++| +...|..++.+|...|+.++|.+.++++....
T Consensus       421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        421 RIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            4444444444455666666666666666665 35556666666666666666666665555433

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.77  E-value=0.036  Score=52.04  Aligned_cols=288  Identities=16%  Similarity=0.138  Sum_probs=185.9

Q ss_pred             cCCHHHHHHHHhhcC---CCCeehHHHHHH--HHHhCCChhHHHHHHHHHHhcCCCCCHH--HHHHHHHHHhccCchhhH
Q 048179          225 TGHLDLASHVFKNMS---RINIVTWGALIS--GFAQNGLAGSTLELLMEMQSCGFEPDSV--SLVSALLACAQIGFLKLG  297 (589)
Q Consensus       225 ~g~~~~A~~~~~~~~---~~~~~~~~~li~--~~~~~g~~~~a~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~~~~~~a  297 (589)
                      .|+-..|++.-.+..   ..|-...-.++.  +-.-.|+++.|.+-|+.|..   .|...  .+..+.-.--+.|+.+.+
T Consensus        97 AGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~---dPEtRllGLRgLyleAqr~GareaA  173 (531)
T COG3898          97 AGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD---DPETRLLGLRGLYLEAQRLGAREAA  173 (531)
T ss_pred             cCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc---ChHHHHHhHHHHHHHHHhcccHHHH
Confidence            466666666655433   234444444443  33457888999999988876   34332  233333344567888888


Q ss_pred             HHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC-----CChh--HHHHHHHHH---HhcCCHHHHHHHHH
Q 048179          298 KSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS-----RDLI--SWNVIIASY---GIHGHGEEALSLFL  367 (589)
Q Consensus       298 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~--~~~~li~~~---~~~g~~~~A~~~~~  367 (589)
                      +++-+.....-+.-.....+.+...+..|+++.|+++.+.-..     +++.  .--.|+.+-   .-.-+...|...-.
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            8887777766666677788999999999999999999986543     4432  112222211   11234566666555


Q ss_pred             HHHHcCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc----CC
Q 048179          368 QMIETMVKPDHS-TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM----ST  442 (589)
Q Consensus       368 ~m~~~~~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~  442 (589)
                      +..+  +.||.. .-.....++.+.|+..++-.+++.+-+.   .|.+..+..  ..+.|.|+  .+..-+++.    ..
T Consensus       254 ~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~---ePHP~ia~l--Y~~ar~gd--ta~dRlkRa~~L~sl  324 (531)
T COG3898         254 EANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKA---EPHPDIALL--YVRARSGD--TALDRLKRAKKLESL  324 (531)
T ss_pred             HHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhc---CCChHHHHH--HHHhcCCC--cHHHHHHHHHHHHhc
Confidence            5444  566644 3344567789999999999999999854   566655533  23345554  333333322    12


Q ss_pred             C-CChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhC-CChHHHHHHHHHHHhCCCccCCceeEE
Q 048179          443 E-PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAME-QKWEEVAGVRKTMRKSGMKKVPGYSVV  520 (589)
Q Consensus       443 ~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~~g~~~~~~~s~~  520 (589)
                      + .+..+..++..+....|++..|..-.+.+....| ..+.|..|+++-... |+-.++...+-+..+.  ..+|.++-.
T Consensus       325 k~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~p-res~~lLlAdIeeAetGDqg~vR~wlAqav~A--PrdPaW~ad  401 (531)
T COG3898         325 KPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAP-RESAYLLLADIEEAETGDQGKVRQWLAQAVKA--PRDPAWTAD  401 (531)
T ss_pred             CccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCc-hhhHHHHHHHHHhhccCchHHHHHHHHHHhcC--CCCCccccc
Confidence            3 3566777788888899999999999999999999 567888899987665 9999998888776542  234444333


Q ss_pred             EECCEEE
Q 048179          521 EVNGELH  527 (589)
Q Consensus       521 ~~~~~~~  527 (589)
                      .+.+..+
T Consensus       402 g~vse~w  408 (531)
T COG3898         402 GVVSEAW  408 (531)
T ss_pred             Ccccccc
Confidence            3333333

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.76  E-value=2e-05  Score=46.50  Aligned_cols=33  Identities=24%  Similarity=0.430  Sum_probs=31.0

Q ss_pred             HHHHhccCCCCchhHHHHHHHHHhCCChHHHHH
Q 048179          469 AKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAG  501 (589)
Q Consensus       469 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  501 (589)
                      ++++++++|+++.+|..|+.+|...|++++|++
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            689999999999999999999999999999863

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.73  E-value=3.7e-05  Score=44.58  Aligned_cols=31  Identities=35%  Similarity=0.652  Sum_probs=23.8

Q ss_pred             chHHHHHHHHHhCCCccHHHHHHHHHHHCCC
Q 048179          143 VCWSSMINGLVFNGQPREAVDAYKRMKKEGI  173 (589)
Q Consensus       143 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  173 (589)
                      ++||.++++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4678888888888888888888888877653

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.73  E-value=4.3e-05  Score=44.31  Aligned_cols=30  Identities=30%  Similarity=0.458  Sum_probs=22.4

Q ss_pred             ccHHHHHHHHHcCCCchhHHHHHHHHHHCC
Q 048179           42 DTYNSIIIAYSRKESPFEVLGLYNQMIKED   71 (589)
Q Consensus        42 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~   71 (589)
                      ++||++|++|++.|++++|.++|++|++.|
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            367777777777777777777777777765

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.

>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=97.71  E-value=0.00041  Score=52.81  Aligned_cols=91  Identities=16%  Similarity=0.188  Sum_probs=46.8

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCc
Q 048179          385 LSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKF  462 (589)
Q Consensus       385 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~  462 (589)
                      ...+...|++++|...++.+.+.  .+.+...+..+...+...|++++|.+.++... ..| +..++..+...+...|++
T Consensus         7 a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (100)
T cd00189           7 GNLYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKY   84 (100)
T ss_pred             HHHHHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHhH
Confidence            33444445555555555554432  11222344445555555555555555555532 122 234555555666666666


Q ss_pred             hHHHHHHHHHhccCC
Q 048179          463 SIGEKVAKKVLKLNP  477 (589)
Q Consensus       463 ~~a~~~~~~~~~~~p  477 (589)
                      +.|...++++++..|
T Consensus        85 ~~a~~~~~~~~~~~~   99 (100)
T cd00189          85 EEALEAYEKALELDP   99 (100)
T ss_pred             HHHHHHHHHHHccCC
Confidence            666666666666555

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.71  E-value=0.0014  Score=61.60  Aligned_cols=135  Identities=13%  Similarity=0.181  Sum_probs=98.9

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048179          344 ISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSA-LSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVD  422 (589)
Q Consensus       344 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a-~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  422 (589)
                      .+|-.++...-+.+..+.|..+|.+.++.+ ..+...|...... +...++.+.|..+|+...+.  ++.+...|...++
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~--f~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK--FPSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH--HTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHH
Confidence            367777888888888889999999888543 2233334333333 33356777799999999885  4556788999999


Q ss_pred             HHHHcCCHHHHHHHHHhcCCC-CC----hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCch
Q 048179          423 LLARAGEVEEALKIVDSMSTE-PG----LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLG  481 (589)
Q Consensus       423 ~~~~~g~~~~A~~~~~~~~~~-p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  481 (589)
                      .+.+.++.+.|..+|++.... |.    ...|...+.--.+.|+.+....+.+++.+..|++..
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~~  142 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDNS  142 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-H
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhhH
Confidence            999999999999999997442 33    348999999999999999999999999998887443

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.

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.70  E-value=0.0011  Score=57.34  Aligned_cols=130  Identities=12%  Similarity=0.136  Sum_probs=82.7

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHH
Q 048179          343 LISWNVIIASYGIHGHGEEALSLFLQMIETMVKPD--HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACM  420 (589)
Q Consensus       343 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  420 (589)
                      ...+..+...+...|++++|+..|++..+....+.  ...+..+..++.+.|++++|...++++.+.  .+.+...+..+
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l  112 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNNI  112 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHH
Confidence            34566666777777888888888887776543322  346666777777778888888887777753  22235555666


Q ss_pred             HHHHHHcCCHHHHHHHHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCC
Q 048179          421 VDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQK  495 (589)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  495 (589)
                      ..++...|+...+..-++..                  ...+++|.++++++++.+|++   +..+...+...|+
T Consensus       113 g~~~~~~g~~~~a~~~~~~A------------------~~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~~  166 (172)
T PRK02603        113 AVIYHKRGEKAEEAGDQDEA------------------EALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHcCChHhHhhCHHHH------------------HHHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcCc
Confidence            66776666665554333321                  112677889999999999976   4444444444443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.69  E-value=0.00013  Score=51.29  Aligned_cols=61  Identities=18%  Similarity=0.345  Sum_probs=49.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCc
Q 048179          420 MVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDL  480 (589)
Q Consensus       420 l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  480 (589)
                      +...+.+.|++++|.+.|++.. ..| +...|..+..++...|++++|...++++++.+|+++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            4667888999999999999874 345 566888888899999999999999999999999875

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.67  E-value=0.00013  Score=54.29  Aligned_cols=79  Identities=22%  Similarity=0.341  Sum_probs=34.6

Q ss_pred             cCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHH
Q 048179          356 HGHGEEALSLFLQMIETMVK-PDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEA  433 (589)
Q Consensus       356 ~g~~~~A~~~~~~m~~~~~~-p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A  433 (589)
                      .|+++.|+.+++++.+.... |+...+..+..++.+.|++++|..+++. .   ...|+ ....-.+..++.+.|++++|
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~---~~~~~~~~~~~l~a~~~~~l~~y~eA   77 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-L---KLDPSNPDIHYLLARCLLKLGKYEEA   77 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-H---THHHCHHHHHHHHHHHHHHTT-HHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-h---CCCCCCHHHHHHHHHHHHHhCCHHHH
Confidence            34555555555555554321 1223333345555555555555555554 1   11121 12222334555555555555


Q ss_pred             HHHHH
Q 048179          434 LKIVD  438 (589)
Q Consensus       434 ~~~~~  438 (589)
                      ++.++
T Consensus        78 i~~l~   82 (84)
T PF12895_consen   78 IKALE   82 (84)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            55544

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.65  E-value=0.0027  Score=54.65  Aligned_cols=80  Identities=10%  Similarity=0.034  Sum_probs=47.6

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHH
Q 048179          344 ISWNVIIASYGIHGHGEEALSLFLQMIETMVKPD--HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMV  421 (589)
Q Consensus       344 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  421 (589)
                      ..|..+...+...|++++|+..|++.......|.  ..++..+...+...|++++|...++...+.  .+.....+..+.
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~--~~~~~~~~~~la  113 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER--NPFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCcHHHHHHHH
Confidence            3556666666677777777777777765432221  235666667777777777777777776642  122234444444


Q ss_pred             HHHH
Q 048179          422 DLLA  425 (589)
Q Consensus       422 ~~~~  425 (589)
                      ..+.
T Consensus       114 ~i~~  117 (168)
T CHL00033        114 VICH  117 (168)
T ss_pred             HHHH
Confidence            4444

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.63  E-value=0.012  Score=49.27  Aligned_cols=132  Identities=11%  Similarity=0.103  Sum_probs=105.9

Q ss_pred             CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC---ChhHH
Q 048179          374 VKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP---GLAVW  449 (589)
Q Consensus       374 ~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p---~~~~~  449 (589)
                      ..|+...-..|..+....|+..+|...|++.... -+..|......+..+....+++..|...++.+. ..|   ++...
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG-~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~  163 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSG-IFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGH  163 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhcc-ccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCch
Confidence            4677777778889999999999999999998873 445667788888999999999999999998863 222   23345


Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHH
Q 048179          450 VALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       450 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      -.+..++...|.++.|+..|+.++...| .+..-...+..+.++|+.++|..-+....
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~yp-g~~ar~~Y~e~La~qgr~~ea~aq~~~v~  220 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYP-GPQARIYYAEMLAKQGRLREANAQYVAVV  220 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCC-CHHHHHHHHHHHHHhcchhHHHHHHHHHH
Confidence            5667789999999999999999999988 56666777888999999888876554443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.63  E-value=0.0019  Score=65.81  Aligned_cols=142  Identities=13%  Similarity=0.095  Sum_probs=103.7

Q ss_pred             CCChhHHHHHHHHHHhc--C---CHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcC--------CcHHHHHHHHHHHH
Q 048179          340 SRDLISWNVIIASYGIH--G---HGEEALSLFLQMIETMVKPD-HSTFASLLSALSHS--------GLVEEGRYWFDLMV  405 (589)
Q Consensus       340 ~~~~~~~~~li~~~~~~--g---~~~~A~~~~~~m~~~~~~p~-~~t~~~ll~a~~~~--------g~~~~a~~~~~~~~  405 (589)
                      ..+...|...+.+....  +   ....|..+|++.++.  .|+ ...+..+..++...        .+...+.+......
T Consensus       334 ~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        334 PHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            46788999998875542  2   377899999999986  565 45666555444322        12334444444433


Q ss_pred             HhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhH
Q 048179          406 SKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM-STEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIH  483 (589)
Q Consensus       406 ~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  483 (589)
                      .....+.+...|..+.-.....|++++|...++++ ...|+...|..+...+...|+.++|.+.+++++.++|.++..|
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt~~  490 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENTLY  490 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCchHH
Confidence            22123344577888877778899999999999997 4468888999999999999999999999999999999888543

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.63  E-value=0.00038  Score=65.04  Aligned_cols=129  Identities=9%  Similarity=0.020  Sum_probs=95.0

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHH---HHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhc-------CC-CCCh
Q 048179          379 STFASLLSALSHSGLVEEGRYWFDLM---VSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSM-------ST-EPGL  446 (589)
Q Consensus       379 ~t~~~ll~a~~~~g~~~~a~~~~~~~---~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~-~p~~  446 (589)
                      ..|..|...|.-.|+++.|+.+.+.-   .+.||-... ...+..+..++.-.|+++.|.+.|+.-       .. ....
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            34666666666778999998887652   333443322 456788899999999999999988763       11 1345


Q ss_pred             hHHHHHHHHHHhcCCchHHHHHHHHHhccC------CCCchhHHHHHHHHHhCCChHHHHHHHHHHH
Q 048179          447 AVWVALLSGCHNHKKFSIGEKVAKKVLKLN------PDDLGIHALVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       447 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      .+..+|.++|....++++|+..+.+=+.+.      -....++..|+++|...|..+.|+.+.+.-.
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            567788999999999999999887766432      2345678889999999999999988776654

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.60  E-value=0.11  Score=52.74  Aligned_cols=361  Identities=14%  Similarity=0.151  Sum_probs=174.1

Q ss_pred             CCCcccHHHHHHHHhccCCHHHHHHHHHHHHHh-CCC--------CChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCcc
Q 048179           73 RPDSSTFTVALKACVSLMDLKMGEEIWRKAVEL-GYG--------NDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLV  143 (589)
Q Consensus        73 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-g~~--------~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  143 (589)
                      .|.+..|..+.......-.++.|+..|-+.... |++        .+.....+=+.+|  -|++++|++++-++..+|. 
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feeaek~yld~drrDL-  765 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEAEKLYLDADRRDL-  765 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHhhhhhhccchhhh-
Confidence            577888888887777766777777766543221 111        1111222333333  4899999999988887764 


Q ss_pred             hHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCC----hhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHH
Q 048179          144 CWSSMINGLVFNGQPREAVDAYKRMKKEGIDAD----EVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLV  219 (589)
Q Consensus       144 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~----~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  219 (589)
                          .|..+.+.|++-.+.++++.   -|-..|    ...|+.+...++....|+.|.+++...-..         ...+
T Consensus       766 ----Aielr~klgDwfrV~qL~r~---g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~---------e~~~  829 (1189)
T KOG2041|consen  766 ----AIELRKKLGDWFRVYQLIRN---GGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT---------ENQI  829 (1189)
T ss_pred             ----hHHHHHhhhhHHHHHHHHHc---cCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch---------HhHH
Confidence                34555666776655555432   111111    245666666677777777777766543211         2355


Q ss_pred             HHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHH
Q 048179          220 DMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKS  299 (589)
Q Consensus       220 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~  299 (589)
                      +++.+..++++-+.+-+.+++ |....-.+...+.+.|.-++|.+.|-+--    .|.     ..+.+|...+.+.+|.+
T Consensus       830 ecly~le~f~~LE~la~~Lpe-~s~llp~~a~mf~svGMC~qAV~a~Lr~s----~pk-----aAv~tCv~LnQW~~ave  899 (1189)
T KOG2041|consen  830 ECLYRLELFGELEVLARTLPE-DSELLPVMADMFTSVGMCDQAVEAYLRRS----LPK-----AAVHTCVELNQWGEAVE  899 (1189)
T ss_pred             HHHHHHHhhhhHHHHHHhcCc-ccchHHHHHHHHHhhchHHHHHHHHHhcc----CcH-----HHHHHHHHHHHHHHHHH
Confidence            566666666665555555554 33444555666666666666666553321    121     22334444444444443


Q ss_pred             HHHHHh-hcCCC-----------ChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChh---HHHHH----HHHHHhcCCHH
Q 048179          300 IHGYTV-RRFDF-----------NLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLI---SWNVI----IASYGIHGHGE  360 (589)
Q Consensus       300 ~~~~~~-~~~~~-----------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~l----i~~~~~~g~~~  360 (589)
                      +.+... ..+..           +..+ .--|..+.+.|+.-+|.+++.+|.++...   .+..+    +-+-.-..++.
T Consensus       900 laq~~~l~qv~tliak~aaqll~~~~~-~eaIe~~Rka~~~~daarll~qmae~e~~K~~p~lr~KklYVL~AlLvE~h~  978 (1189)
T KOG2041|consen  900 LAQRFQLPQVQTLIAKQAAQLLADANH-MEAIEKDRKAGRHLDAARLLSQMAEREQEKYVPYLRLKKLYVLGALLVENHR  978 (1189)
T ss_pred             HHHhccchhHHHHHHHHHHHHHhhcch-HHHHHHhhhcccchhHHHHHHHHhHHHhhccCCHHHHHHHHHHHHHHHHHHH
Confidence            332221 10000           0000 12245556666665566666555431110   01110    00111112233


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc
Q 048179          361 EALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM  440 (589)
Q Consensus       361 ~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  440 (589)
                      ++++-.++....|...|...       +...|...++-++.+..-+  |  ....+|-.|..--...|..+.|+..--.+
T Consensus       979 ~~ik~~~~~~~~g~~~dat~-------lles~~l~~~~ri~~n~Wr--g--AEAyHFmilAQrql~eg~v~~Al~Tal~L 1047 (1189)
T KOG2041|consen  979 QTIKELRKIDKHGFLEDATD-------LLESGLLAEQSRILENTWR--G--AEAYHFMILAQRQLFEGRVKDALQTALIL 1047 (1189)
T ss_pred             HHHHHhhhhhhcCcchhhhh-------hhhhhhhhhHHHHHHhhhh--h--HHHHHHHHHHHHHHHhchHHHHHHHHhhh
Confidence            34444444444443322221       1222333333334333222  1  22345555555566778888887654443


Q ss_pred             CC----CCChhHHHHHHHHHHhcCCchHHHHHHHHHhc
Q 048179          441 ST----EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLK  474 (589)
Q Consensus       441 ~~----~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  474 (589)
                      ..    -|-..+|..|.-+.+..+.+.-.-++|-++..
T Consensus      1048 ~DYEd~lpP~eiySllALaaca~raFGtCSKAfmkLe~ 1085 (1189)
T KOG2041|consen 1048 SDYEDFLPPAEIYSLLALAACAVRAFGTCSKAFMKLEA 1085 (1189)
T ss_pred             ccHhhcCCHHHHHHHHHHHHhhhhhhhhhHHHHHHHHh
Confidence            22    14444554444343333444444444544443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.60  E-value=0.00059  Score=64.26  Aligned_cols=85  Identities=16%  Similarity=0.129  Sum_probs=74.2

Q ss_pred             hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCceeEEEECCE
Q 048179          446 LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGE  525 (589)
Q Consensus       446 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~  525 (589)
                      ..++..|..+|.+.+++..|++...++++++|+|.-+++.-+.+|...|+++.|+..|+++.+                 
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k-----------------  319 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALK-----------------  319 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHH-----------------
Confidence            456778888899999999999999999999999999999999999999999999999999986                 


Q ss_pred             EEEEEecCCCCCChHHHHHHHHHHHHHHHhc
Q 048179          526 LHAFIMEDKSHNQYEDIVYVLKKLYLEMRAI  556 (589)
Q Consensus       526 ~~~f~~~~~~~~~~~~~~~~~~~l~~~~~~~  556 (589)
                               ..|.++.|...|..+..++++.
T Consensus       320 ---------~~P~Nka~~~el~~l~~k~~~~  341 (397)
T KOG0543|consen  320 ---------LEPSNKAARAELIKLKQKIREY  341 (397)
T ss_pred             ---------hCCCcHHHHHHHHHHHHHHHHH
Confidence                     3456788888888877777643

>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=97.59  E-value=0.00013  Score=51.81  Aligned_cols=62  Identities=18%  Similarity=0.407  Sum_probs=34.2

Q ss_pred             HcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHH
Q 048179          426 RAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVS  487 (589)
Q Consensus       426 ~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  487 (589)
                      ..|++++|++.|+++. ..| +..++..+..+|...|++++|.+.++++...+|+++..+..++
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~l~a   66 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQQLLA   66 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHHHHHh
Confidence            4555666666665542 123 4445555666666666666666666666666665555444443

...

>PF14432 DYW_deaminase: DYW family of nucleic acid deaminases

Probab=97.58  E-value=4e-05  Score=60.30  Aligned_cols=68  Identities=24%  Similarity=0.268  Sum_probs=46.4

Q ss_pred             CceeEEEECCEEEEEEecCCCCCChHHHHHHHH-HHHHHHHhcCCcccCCCC----cccc-cccchhhhhhccccccc
Q 048179          515 PGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLK-KLYLEMRAISSWLQGHME----EHEE-HDPLSTAAQYAPTYYLK  586 (589)
Q Consensus       515 ~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~~~~~----~~~~-~~~~~~~~~~~~~~~~~  586 (589)
                      .||||+++    |.|.+||.+||+.+.++..+. .....++..||.++....    ...+ .-+..|++++|.+|||-
T Consensus         1 ~~~~w~~~----h~F~sgd~shp~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~d~~~~~~~~~~HSEKlAiafgli   74 (116)
T PF14432_consen    1 GGCSWIEV----HSFVSGDRSHPQSELINKMKEEGYVPDTKEVGHDVDEEEKHDYDEEEKEESLCYHSEKLAIAFGLI   74 (116)
T ss_pred             CCCCccce----EEEEeCCCcCccHHHHHHHHHcCCcchhhhhCCCchhhhhhhcccccchhhhhccHHHHHHHhccc
Confidence            37999987    999999999999855554332 344555556665443211    1222 24788999999999973

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.51  E-value=0.087  Score=49.62  Aligned_cols=297  Identities=15%  Similarity=0.103  Sum_probs=162.8

Q ss_pred             hHHHHHHHHHh--CCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHH--ccCCcHHHHHHHHHHHHhcCCCchHH--HHH
Q 048179          144 CWSSMINGLVF--NGQPREAVDAYKRMKKEGIDADEVVMMGLIQACA--DLGDSRFGLSVHGYSIRRHLNLDVKV--QTS  217 (589)
Q Consensus       144 ~~~~li~~~~~--~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~  217 (589)
                      .|.+|-.+++.  .|+-..|.++-.+-.+. +.-|...+..++.+-.  -.|+++.|.+-|+.|...   |....  ...
T Consensus        84 gyqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRg  159 (531)
T COG3898          84 GYQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRG  159 (531)
T ss_pred             HHHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHH
Confidence            34445555443  34555555554443322 3445555666665443  357777777777777642   11111  122


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCC--C-CeehHHHHHHHHHhCCChhHHHHHHHHHHhcC-CCCCHHH--HHHHHHHHhc-
Q 048179          218 LVDMYAKTGHLDLASHVFKNMSR--I-NIVTWGALISGFAQNGLAGSTLELLMEMQSCG-FEPDSVS--LVSALLACAQ-  290 (589)
Q Consensus       218 l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~--~~~ll~~~~~-  290 (589)
                      |.-.--+.|..+.|+..-+..-.  | -...+.+.+...+..|+++.|+++++.-+... +.++..-  -..++.+-+. 
T Consensus       160 LyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s  239 (531)
T COG3898         160 LYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMS  239 (531)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHH
Confidence            22333456777777776665543  2 23567788888899999999999888765543 3444321  2223332211 


Q ss_pred             --cCchhhHHHHHHHHhhcCCCChh-HHHHHHHHhHhcCCHHHHHHHHHhcCC--CChhHHHHHHHHHHhcCCHHHHHHH
Q 048179          291 --IGFLKLGKSIHGYTVRRFDFNLV-LGTSVIDMYSKCGVPSCARALFDQMQS--RDLISWNVIIASYGIHGHGEEALSL  365 (589)
Q Consensus       291 --~~~~~~a~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~  365 (589)
                        ..+...++..-.... .+.|+.. .--.-...+.+.|++.++-.+++.+.+  |.+..|..  -.+.+.|  +.++.-
T Consensus       240 ~ldadp~~Ar~~A~~a~-KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia~l--Y~~ar~g--dta~dR  314 (531)
T COG3898         240 LLDADPASARDDALEAN-KLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIALL--YVRARSG--DTALDR  314 (531)
T ss_pred             HhcCChHHHHHHHHHHh-hcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHHHH--HHHhcCC--CcHHHH
Confidence              112333333333322 2222221 222334567778888888888887765  33333322  2233444  344444


Q ss_pred             HHHHHHc-CCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHc-CCHHHHHHHHHhcCC
Q 048179          366 FLQMIET-MVKPDH-STFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARA-GEVEEALKIVDSMST  442 (589)
Q Consensus       366 ~~~m~~~-~~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~  442 (589)
                      +++..+. .++||. .....+..+....|++..|..--+...   ...|....|..|.+.-... |+-.++..++-+...
T Consensus       315 lkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~---r~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~  391 (531)
T COG3898         315 LKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAA---REAPRESAYLLLADIEEAETGDQGKVRQWLAQAVK  391 (531)
T ss_pred             HHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHh---hhCchhhHHHHHHHHHhhccCchHHHHHHHHHHhc
Confidence            4444321 245553 455566677777788877777666655   4467777777777766544 888888888777655


Q ss_pred             CCChhHHHHH
Q 048179          443 EPGLAVWVAL  452 (589)
Q Consensus       443 ~p~~~~~~~l  452 (589)
                      .|....|...
T Consensus       392 APrdPaW~ad  401 (531)
T COG3898         392 APRDPAWTAD  401 (531)
T ss_pred             CCCCCccccc
Confidence            5555555443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.49  E-value=0.00044  Score=66.70  Aligned_cols=65  Identities=14%  Similarity=0.006  Sum_probs=56.6

Q ss_pred             ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchh---HHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          445 GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGI---HALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       445 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~---~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      +...|+.+..+|...|++++|+..++++++++|++..+   |++++.+|...|+.++|++.++++.+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            46688889999999999999999999999999988754   889999999999999999999888874

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.42  E-value=0.083  Score=49.82  Aligned_cols=24  Identities=17%  Similarity=0.199  Sum_probs=13.2

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHh
Q 048179          248 ALISGFAQNGLAGSTLELLMEMQS  271 (589)
Q Consensus       248 ~li~~~~~~g~~~~a~~~~~~m~~  271 (589)
                      .+...+.+.|++++|+++|++...
T Consensus       160 ~~A~l~~~l~~y~~A~~~~e~~~~  183 (282)
T PF14938_consen  160 KAADLYARLGRYEEAIEIYEEVAK  183 (282)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHH
Confidence            344555666666666666665544

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.42  E-value=0.13  Score=49.49  Aligned_cols=418  Identities=12%  Similarity=0.062  Sum_probs=211.0

Q ss_pred             hhcCCChHHHHHHhccCCCC---Ccc------cHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHH--hc
Q 048179           20 YGGKNDIVSARKLFEELPLR---GVD------TYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKAC--VS   88 (589)
Q Consensus        20 ~~~~g~~~~A~~~~~~~~~~---~~~------~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~--~~   88 (589)
                      +.+.+++.+|.++|.++-..   +.+      .-+.+|.+|..+ +.+.....+....+.  .| ...|..+..+.  -+
T Consensus        16 Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~--~~-~s~~l~LF~~L~~Y~   91 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQ--FG-KSAYLPLFKALVAYK   91 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHh--cC-CchHHHHHHHHHHHH
Confidence            45778999999999887522   222      245566776553 344444444444443  33 44555555554  36


Q ss_pred             cCCHHHHHHHHHHHHHh--CCCC------------ChhhHHHHHHHHHhCCChHHHHHHHHhcCC--------CCcchHH
Q 048179           89 LMDLKMGEEIWRKAVEL--GYGN------------DVFVGSSMLNLYVKCGKMNEAMVAFEKMQR--------KDLVCWS  146 (589)
Q Consensus        89 ~~~~~~a~~~~~~~~~~--g~~~------------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~  146 (589)
                      .+.++.|.+.+..-...  +..+            |...-+..++.+...|++.+++.+++++..        =|+.+||
T Consensus        92 ~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd  171 (549)
T PF07079_consen   92 QKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYD  171 (549)
T ss_pred             hhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHH
Confidence            78888888887765544  2211            222335567778889999999999988864        2677788


Q ss_pred             HHHHHHHhC--------CCccHHHHHH-------HHHHHC------CCCCChhhHHHHHHHHHcc--CCcHHHHHHHHHH
Q 048179          147 SMINGLVFN--------GQPREAVDAY-------KRMKKE------GIDADEVVMMGLIQACADL--GDSRFGLSVHGYS  203 (589)
Q Consensus       147 ~li~~~~~~--------g~~~~A~~~~-------~~m~~~------~~~p~~~t~~~ll~~~~~~--~~~~~a~~~~~~~  203 (589)
                      .++-.+.+.        ...+-+.+.|       .+|...      .+.|....+..++....-.  ....--.+++...
T Consensus       172 ~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~W  251 (549)
T PF07079_consen  172 RAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENW  251 (549)
T ss_pred             HHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHH
Confidence            755443321        2222222222       333221      2445555555555544322  2222333444444


Q ss_pred             HHhcCCCch-HHHHHHHHHHHhcCCHHHHHHHHhhcCC--------CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCC
Q 048179          204 IRRHLNLDV-KVQTSLVDMYAKTGHLDLASHVFKNMSR--------INIVTWGALISGFAQNGLAGSTLELLMEMQSCGF  274 (589)
Q Consensus       204 ~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  274 (589)
                      ...-..|+- -+...|..-+..  +.+++..+.+.+..        .=+.++..++....+.++...|-..+.-+.-.  
T Consensus       252 e~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l--  327 (549)
T PF07079_consen  252 ENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKIL--  327 (549)
T ss_pred             HhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc--
Confidence            444444543 233344444443  45555544444322        23456777888888888888888887766543  


Q ss_pred             CCCHHHHHH-------HHHHHh-ccCchhhHHHH---HHHHhhcCCCC-hhHHHHHHHH---hHhcCC-HHHHHHHHHhc
Q 048179          275 EPDSVSLVS-------ALLACA-QIGFLKLGKSI---HGYTVRRFDFN-LVLGTSVIDM---YSKCGV-PSCARALFDQM  338 (589)
Q Consensus       275 ~p~~~~~~~-------ll~~~~-~~~~~~~a~~~---~~~~~~~~~~~-~~~~~~l~~~---~~~~g~-~~~A~~~~~~~  338 (589)
                      .|+...-.-       +-+..+ .-.....-+.+   ++.+. ..+.| .....-|+..   +=+.|. -++|.++++.+
T Consensus       328 dp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~q-s~DiDrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~i  406 (549)
T PF07079_consen  328 DPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQ-SYDIDRQQLVHYLVFGAKHLWEIGQCDEKALNLLKLI  406 (549)
T ss_pred             CCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHH-hhcccHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHH
Confidence            343321111       111111 11111111222   22221 11111 1122222211   222333 56677766665


Q ss_pred             CC---CChhHHHHHHH----HHHh---cCCHHHHHHHHHHHHHcCCCCCHHH----HHHHHHH--HhcCCcHHHHHHHHH
Q 048179          339 QS---RDLISWNVIIA----SYGI---HGHGEEALSLFLQMIETMVKPDHST----FASLLSA--LSHSGLVEEGRYWFD  402 (589)
Q Consensus       339 ~~---~~~~~~~~li~----~~~~---~g~~~~A~~~~~~m~~~~~~p~~~t----~~~ll~a--~~~~g~~~~a~~~~~  402 (589)
                      ..   -|...-|....    .|.+   ......-+.+-+-+.+.|++|-.+.    -+.|..|  +...|++.++.-+-.
T Consensus       407 l~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~  486 (549)
T PF07079_consen  407 LQFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSS  486 (549)
T ss_pred             HHhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHH
Confidence            43   34433333221    2221   1223333333333445566654332    2222222  345677777765555


Q ss_pred             HHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHH
Q 048179          403 LMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVA  451 (589)
Q Consensus       403 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~  451 (589)
                      -+.   .+.|++.+|..++-++....++++|+.++..++  |+..++++
T Consensus       487 WL~---~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP--~n~~~~ds  530 (549)
T PF07079_consen  487 WLT---KIAPSPQAYRLLGLCLMENKRYQEAWEYLQKLP--PNERMRDS  530 (549)
T ss_pred             HHH---HhCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCC--CchhhHHH
Confidence            444   556777777777777777777777777777776  34444433

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>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=97.41  E-value=0.00036  Score=49.64  Aligned_cols=65  Identities=17%  Similarity=0.269  Sum_probs=51.7

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcC-CchHHHHHHHHHhccCC
Q 048179          413 TEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHK-KFSIGEKVAKKVLKLNP  477 (589)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~p  477 (589)
                      ++..|..+...+...|++++|+..|++.. ..| +...|..+..++...| ++++|++.++++++++|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            35567778888888888888888888762 234 5667888888888888 79999999999998887

...

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.40  E-value=0.13  Score=48.99  Aligned_cols=104  Identities=15%  Similarity=0.139  Sum_probs=54.6

Q ss_pred             HHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHH
Q 048179          319 IDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGR  398 (589)
Q Consensus       319 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~  398 (589)
                      +.-+...|+...|.++-.+..-|+-.-|-..+.+++..++|++-..+...      +-.+.-|..++.+|...|...+|.
T Consensus       184 i~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~eA~  257 (319)
T PF04840_consen  184 IRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKKEAS  257 (319)
T ss_pred             HHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHHHHH
Confidence            33444555566666665555555666666666666666666554443221      112344555566666666666665


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHh
Q 048179          399 YWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDS  439 (589)
Q Consensus       399 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  439 (589)
                      .+...+.           +..-+..|.++|++.+|.+.--+
T Consensus       258 ~yI~k~~-----------~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  258 KYIPKIP-----------DEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HHHHhCC-----------hHHHHHHHHHCCCHHHHHHHHHH
Confidence            5554421           13344555666666665554433

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.40  E-value=0.00027  Score=44.83  Aligned_cols=42  Identities=24%  Similarity=0.427  Sum_probs=38.2

Q ss_pred             hHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHH
Q 048179          447 AVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSN  488 (589)
Q Consensus       447 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  488 (589)
                      .+|..+..++...|++++|+++++++++.+|+|+.++..++.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            467888999999999999999999999999999999988864

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.40  E-value=0.0015  Score=60.18  Aligned_cols=93  Identities=14%  Similarity=0.059  Sum_probs=59.7

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhcCC-CCCh----hHHHHHHHHHHhcCCchHHHHHHHHHhccCCCC---chhHHHHH
Q 048179          416 HYACMVDLLARAGEVEEALKIVDSMST-EPGL----AVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD---LGIHALVS  487 (589)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~  487 (589)
                      .|...+..+.+.|++++|...|+.+.. .|+.    .++.-+..++...|+++.|...|+++++..|++   +.++..++
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            344444444556677777766666532 2432    355556666777777777777777777666653   45556667


Q ss_pred             HHHHhCCChHHHHHHHHHHHh
Q 048179          488 NFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       488 ~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      .+|...|++++|.+++++..+
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            777777777777777777665

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.40  E-value=0.0044  Score=58.17  Aligned_cols=127  Identities=15%  Similarity=0.061  Sum_probs=86.0

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHH-HhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhH
Q 048179          245 TWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLA-CAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYS  323 (589)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  323 (589)
                      +|..++...-+.+..+.|..+|.+.++.+ ..+...|...... +...++.+.|..+|+...+.++.+...+...++.+.
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            46666666666666777777777776442 2233334333333 333456666777777777777778888888888888


Q ss_pred             hcCCHHHHHHHHHhcCC--C----ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048179          324 KCGVPSCARALFDQMQS--R----DLISWNVIIASYGIHGHGEEALSLFLQMIET  372 (589)
Q Consensus       324 ~~g~~~~A~~~~~~~~~--~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  372 (589)
                      +.|+.+.|+.+|++...  +    ....|...+.--.+.|+.+.+.++.+++.+.
T Consensus        82 ~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   82 KLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            89999999999988765  2    2347888888888888888888888888774

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.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=97.39  E-value=0.19  Score=50.45  Aligned_cols=405  Identities=12%  Similarity=0.026  Sum_probs=235.5

Q ss_pred             CcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHH-HHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHH
Q 048179           40 GVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFT-VALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSML  118 (589)
Q Consensus        40 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  118 (589)
                      +...|+.+|..--+....+.+..++..++..  .|...-|- ....-=.+.|..+.+.++|++.+.. ++.++..|...+
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~  120 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQA-IPLSVDLWLSYL  120 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHH
Confidence            4567888888766666667777888888765  45554332 3333335778899999999998875 667778887777


Q ss_pred             HHHHh-CCChHHHHHHHHhcCC------CCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHH---
Q 048179          119 NLYVK-CGKMNEAMVAFEKMQR------KDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACA---  188 (589)
Q Consensus       119 ~~~~~-~g~~~~A~~~~~~~~~------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~---  188 (589)
                      ..+.. .|+.+...+.|++...      .....|...|.--..++++.....+|++.++..    ..-++....-+.   
T Consensus       121 ~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRileiP----~~~~~~~f~~f~~~l  196 (577)
T KOG1258|consen  121 AFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEIP----LHQLNRHFDRFKQLL  196 (577)
T ss_pred             HHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhhh----hhHhHHHHHHHHHHH
Confidence            66554 5777788888888764      355678888888888899999999999988742    122222222221   


Q ss_pred             cc------CCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCC-HHHHHHHHhhcCCCCee---hHHHH-------HH
Q 048179          189 DL------GDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGH-LDLASHVFKNMSRINIV---TWGAL-------IS  251 (589)
Q Consensus       189 ~~------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~~~~~---~~~~l-------i~  251 (589)
                      +.      ...+++.++-......             ..-...+. .+.-....+.+..+...   .-+.+       -.
T Consensus       197 ~~~~~~~l~~~d~~~~l~~~~~~~-------------~~~~~~~~~~e~~~~~v~~~~~~s~~l~~~~~~l~~~~~~~~~  263 (577)
T KOG1258|consen  197 NQNEEKILLSIDELIQLRSDVAER-------------SKITHSQEPLEELEIGVKDSTDPSKSLTEEKTILKRIVSIHEK  263 (577)
T ss_pred             hcCChhhhcCHHHHHHHhhhHHhh-------------hhcccccChhHHHHHHHhhccCccchhhHHHHHHHHHHHHHHH
Confidence            11      1122222221111110             00000111 11111111222111110   00000       00


Q ss_pred             HHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHH
Q 048179          252 GFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCA  331 (589)
Q Consensus       252 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  331 (589)
                      .+...-...+....|+.-...   |                        +..+..-.+++...|+..++.-.+.|+.+.+
T Consensus       264 ~~~~s~~~~~kr~~fE~~Ikr---p------------------------Yfhvkpl~~aql~nw~~yLdf~i~~g~~~~~  316 (577)
T KOG1258|consen  264 VYQKSEEEEEKRWGFEEGIKR---P------------------------YFHVKPLDQAQLKNWRYYLDFEITLGDFSRV  316 (577)
T ss_pred             HHHhhHhHHHHHHhhhhhccc---c------------------------ccccCcccHHHHHHHHHHhhhhhhcccHHHH
Confidence            111111111111111111110   0                        0000011223456677778888888999988


Q ss_pred             HHHHHhcCCC---ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc
Q 048179          332 RALFDQMQSR---DLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKY  408 (589)
Q Consensus       332 ~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  408 (589)
                      .-+|+++.-|   -...|-..+.-....|+.+-|..++....+--++-.+.+-..-..-+...|+++.|..+++.+.+.+
T Consensus       317 ~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e~  396 (577)
T KOG1258|consen  317 FILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARFEESNGNFDDAKVILQRIESEY  396 (577)
T ss_pred             HHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhhC
Confidence            8888887653   2345666665555668888888877766654433333332222333566799999999999999853


Q ss_pred             CCCCC-hhhHHHHHHHHHHcCCHHHHH---HHHHhcC-CCCChhHHHHHH----H-HHHhcCCchHHHHHHHHHhccCCC
Q 048179          409 KIQPT-EKHYACMVDLLARAGEVEEAL---KIVDSMS-TEPGLAVWVALL----S-GCHNHKKFSIGEKVAKKVLKLNPD  478 (589)
Q Consensus       409 ~~~p~-~~~~~~l~~~~~~~g~~~~A~---~~~~~~~-~~p~~~~~~~l~----~-~~~~~~~~~~a~~~~~~~~~~~p~  478 (589)
                         |+ ...-..-+....+.|..+.+.   +++.... .+-+......+.    . .+...++.+.|..++.++.+..|+
T Consensus       397 ---pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~~~~  473 (577)
T KOG1258|consen  397 ---PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYKIREDADLARIILLEANDILPD  473 (577)
T ss_pred             ---CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhcCCc
Confidence               55 444444566778899999888   5554442 222222222222    2 245668999999999999999999


Q ss_pred             CchhHHHHHHHHHhCC
Q 048179          479 DLGIHALVSNFFAMEQ  494 (589)
Q Consensus       479 ~~~~~~~l~~~~~~~g  494 (589)
                      +...|..+.+.....+
T Consensus       474 ~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  474 CKVLYLELIRFELIQP  489 (577)
T ss_pred             cHHHHHHHHHHHHhCC
Confidence            9999999998877766

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.36  E-value=0.033  Score=52.51  Aligned_cols=26  Identities=12%  Similarity=0.109  Sum_probs=12.5

Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHH
Q 048179          381 FASLLSALSHSGLVEEGRYWFDLMVS  406 (589)
Q Consensus       381 ~~~ll~a~~~~g~~~~a~~~~~~~~~  406 (589)
                      +..+...+.+.|++++|.++|++...
T Consensus       158 ~~~~A~l~~~l~~y~~A~~~~e~~~~  183 (282)
T PF14938_consen  158 LLKAADLYARLGRYEEAIEIYEEVAK  183 (282)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            34444445555555555555555443

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.35  E-value=0.002  Score=49.04  Aligned_cols=81  Identities=14%  Similarity=0.083  Sum_probs=68.4

Q ss_pred             cHHHHHHHHHcCCCchhHHHHHHHHHHCCC-CCCcccHHHHHHHHhccC--------CHHHHHHHHHHHHHhCCCCChhh
Q 048179           43 TYNSIIIAYSRKESPFEVLGLYNQMIKEDV-RPDSSTFTVALKACVSLM--------DLKMGEEIWRKAVELGYGNDVFV  113 (589)
Q Consensus        43 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~g~~~~~~~  113 (589)
                      +-...|..+..++++.....+|+.+++.|+ .|+..+|+.++.+.++..        .+-..+.+++.|+..+++|+..+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            445567777888999999999999999999 899999999999987543        34567788999999999999999


Q ss_pred             HHHHHHHHHh
Q 048179          114 GSSMLNLYVK  123 (589)
Q Consensus       114 ~~~li~~~~~  123 (589)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9999887654

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.35  E-value=0.0026  Score=50.43  Aligned_cols=88  Identities=13%  Similarity=0.075  Sum_probs=60.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHhcCCC----CC-hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCC---CchhHHHHHHHHH
Q 048179          420 MVDLLARAGEVEEALKIVDSMSTE----PG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPD---DLGIHALVSNFFA  491 (589)
Q Consensus       420 l~~~~~~~g~~~~A~~~~~~~~~~----p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~  491 (589)
                      +..++-..|+.++|+.+|++....    ++ ...+..+..++...|++++|..++++.+...|+   +......++.++.
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            445666677777777777765221    11 235556677788888888888888888877676   6666677777888


Q ss_pred             hCCChHHHHHHHHHHH
Q 048179          492 MEQKWEEVAGVRKTMR  507 (589)
Q Consensus       492 ~~g~~~~a~~~~~~m~  507 (589)
                      ..|+++||++.+-...
T Consensus        87 ~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   87 NLGRPKEALEWLLEAL  102 (120)
T ss_pred             HCCCHHHHHHHHHHHH
Confidence            8888888887765443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.32  E-value=0.044  Score=50.10  Aligned_cols=55  Identities=15%  Similarity=0.110  Sum_probs=46.0

Q ss_pred             HHHHHhcCCchHHHHHHHHHhccCCCCc---hhHHHHHHHHHhCCChHHHHHHHHHHH
Q 048179          453 LSGCHNHKKFSIGEKVAKKVLKLNPDDL---GIHALVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       453 ~~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      ..-|.+.|++.-|..-++.+++.-|+.+   .++..+..+|...|..++|.++.+.+.
T Consensus       182 a~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        182 AEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            3448889999999999999998887654   667788899999999999999887654

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.27  E-value=0.0033  Score=61.40  Aligned_cols=119  Identities=12%  Similarity=-0.003  Sum_probs=89.3

Q ss_pred             CCCChhhHHHHHHHHHhCCChHHHHHHHHhcCC-C-----CcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhH
Q 048179          107 YGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR-K-----DLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVM  180 (589)
Q Consensus       107 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~  180 (589)
                      .+.+......+++.+....+++.+..++-+... |     -..+..++|+.|.+.|..+.++.++..=...|+-||.+|+
T Consensus        62 ~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~  141 (429)
T PF10037_consen   62 KPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSF  141 (429)
T ss_pred             CCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhH
Confidence            344555566667777677777778777776654 2     1235568888899999999999998888888999999999


Q ss_pred             HHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhc
Q 048179          181 MGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKT  225 (589)
Q Consensus       181 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  225 (589)
                      +.++..+.+.|++..|.++...|...+...+..++..-+.++.+.
T Consensus       142 n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  142 NLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            999999999999999988888888777666666665555555554

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 [].

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.23  E-value=0.01  Score=47.10  Aligned_cols=58  Identities=10%  Similarity=0.103  Sum_probs=35.6

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHhcCCCCCH--HHHHHHHHHHhccCchhhHHHHHHHHh
Q 048179          248 ALISGFAQNGLAGSTLELLMEMQSCGFEPDS--VSLVSALLACAQIGFLKLGKSIHGYTV  305 (589)
Q Consensus       248 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~  305 (589)
                      .+..++-..|+.++|+.+|++....|.....  ..+..+.+++...|+.++|..+++...
T Consensus         6 ~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~   65 (120)
T PF12688_consen    6 ELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEAL   65 (120)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3455667788888888888888887755442  234444445555555555555555444

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.21  E-value=0.0026  Score=62.12  Aligned_cols=95  Identities=16%  Similarity=0.148  Sum_probs=49.7

Q ss_pred             HHHHHHHHHcCCCchhHHHHHHHHHHC--CCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHH
Q 048179           44 YNSIIIAYSRKESPFEVLGLYNQMIKE--DVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLY  121 (589)
Q Consensus        44 ~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~  121 (589)
                      ...++..+....+.+.+..++.+.+..  ....-+.|..++++.|...|..+.+..++..=...|+-||.+++|.||+.+
T Consensus        69 ld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~f  148 (429)
T PF10037_consen   69 LDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHF  148 (429)
T ss_pred             HHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHH
Confidence            333444444444455555555555443  222233444555555555555555555555555555555555555555555


Q ss_pred             HhCCChHHHHHHHHhcC
Q 048179          122 VKCGKMNEAMVAFEKMQ  138 (589)
Q Consensus       122 ~~~g~~~~A~~~~~~~~  138 (589)
                      .+.|++..|.++...|.
T Consensus       149 l~~~~~~~A~~V~~~~~  165 (429)
T PF10037_consen  149 LKKGNYKSAAKVATEMM  165 (429)
T ss_pred             hhcccHHHHHHHHHHHH
Confidence            55555555555555443

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 [].

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.18  E-value=0.011  Score=48.63  Aligned_cols=90  Identities=10%  Similarity=-0.051  Sum_probs=48.7

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CC-CChhHHHHHHHHHHhcCCc
Q 048179          385 LSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TE-PGLAVWVALLSGCHNHKKF  462 (589)
Q Consensus       385 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-p~~~~~~~l~~~~~~~~~~  462 (589)
                      ..-+...|++++|.++|+-+..-  -+-+..-|-.|.-++...|++++|++.|.... .. .|+..+-.+..++...|+.
T Consensus        42 A~~ly~~G~l~~A~~~f~~L~~~--Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L~lG~~  119 (157)
T PRK15363         42 AMQLMEVKEFAGAARLFQLLTIY--DAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYLACDNV  119 (157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHcCCH
Confidence            33344556666666666655531  12224445555566666666666666665542 12 3444555556666666666


Q ss_pred             hHHHHHHHHHhccC
Q 048179          463 SIGEKVAKKVLKLN  476 (589)
Q Consensus       463 ~~a~~~~~~~~~~~  476 (589)
                      +.|++.|+.++..-
T Consensus       120 ~~A~~aF~~Ai~~~  133 (157)
T PRK15363        120 CYAIKALKAVVRIC  133 (157)
T ss_pred             HHHHHHHHHHHHHh
Confidence            66666666666543

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.15  E-value=0.0007  Score=49.55  Aligned_cols=62  Identities=10%  Similarity=0.081  Sum_probs=48.4

Q ss_pred             hHHHHHHHHHHhcCCchHHHHHHHHHhcc----CCC---CchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          447 AVWVALLSGCHNHKKFSIGEKVAKKVLKL----NPD---DLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       447 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      .+++.+...+...|++++|+..+++++++    +++   -..++..++.+|...|++++|.+.+++..+
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            46777888888888888888888888854    222   356788899999999999999999988754

...

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.15  E-value=0.0018  Score=46.65  Aligned_cols=66  Identities=20%  Similarity=0.357  Sum_probs=53.4

Q ss_pred             HHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHH
Q 048179          421 VDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALV  486 (589)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  486 (589)
                      -..|.+.+++++|.+.++.+. ..| +...|......+...|+++.|.+.++++++..|+++......
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~~~   69 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARALR   69 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHHHH
Confidence            356888999999999999873 334 566777788889999999999999999999999887665544

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.14  E-value=0.088  Score=44.23  Aligned_cols=97  Identities=12%  Similarity=0.053  Sum_probs=46.4

Q ss_pred             CCCHHHHHHHHHHHhccCchhhHHHHHHHHh-hcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC-----CChhHHHH
Q 048179          275 EPDSVSLVSALLACAQIGFLKLGKSIHGYTV-RRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS-----RDLISWNV  348 (589)
Q Consensus       275 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~  348 (589)
                      .|+...-..+..+....|+..+|...+++.. -.+..|..+.-.+.++....++...|..+++++.+     +.+.+.-.
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll  165 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLL  165 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHH
Confidence            4544444455555555555555555555555 22344444444455555555555555555554432     12222333


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHH
Q 048179          349 IIASYGIHGHGEEALSLFLQMIE  371 (589)
Q Consensus       349 li~~~~~~g~~~~A~~~~~~m~~  371 (589)
                      +...+...|++.+|...|+....
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~~  188 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAIS  188 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHH
Confidence            34444445555555555544444

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.14  E-value=0.083  Score=48.31  Aligned_cols=55  Identities=9%  Similarity=-0.042  Sum_probs=36.5

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCC--CCee-h---HHHHHHHHHhCCChhHHHHHHHHHHhc
Q 048179          218 LVDMYAKTGHLDLASHVFKNMSR--INIV-T---WGALISGFAQNGLAGSTLELLMEMQSC  272 (589)
Q Consensus       218 l~~~~~~~g~~~~A~~~~~~~~~--~~~~-~---~~~li~~~~~~g~~~~a~~~~~~m~~~  272 (589)
                      ....+...|++++|.+.|+.+..  |+.. .   .-.++.++.+.+++++|...+++..+.
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~   98 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            44445667788888888877765  2221 1   123556677888888888888888775

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.12  E-value=0.0077  Score=55.50  Aligned_cols=102  Identities=14%  Similarity=0.136  Sum_probs=67.3

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CCC----hhHHHHHH
Q 048179          380 TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSMST-EPG----LAVWVALL  453 (589)
Q Consensus       380 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~----~~~~~~l~  453 (589)
                      .|...+....+.|++++|...|+.+.+.|.-.+- ...+-.+..+|...|++++|...|+.+.. -|+    ...+..++
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            3444444445567777777777777765421110 23555677777888888888887777632 132    34555566


Q ss_pred             HHHHhcCCchHHHHHHHHHhccCCCCch
Q 048179          454 SGCHNHKKFSIGEKVAKKVLKLNPDDLG  481 (589)
Q Consensus       454 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~  481 (589)
                      ..+...|+.+.|...++++++..|++..
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~yP~s~~  252 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKKYPGTDG  252 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCcCCHH
Confidence            6777889999999999999988887653

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.12  E-value=0.42  Score=49.19  Aligned_cols=335  Identities=12%  Similarity=0.028  Sum_probs=158.5

Q ss_pred             CCCCCCcccHHH-----HHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCC---ChHHHHHHHHhcCC--
Q 048179           70 EDVRPDSSTFTV-----ALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCG---KMNEAMVAFEKMQR--  139 (589)
Q Consensus        70 ~~~~p~~~~~~~-----ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~--  139 (589)
                      .|++.+..-|..     ++.-+...+.+..|.++-..+-..-.. ...++.....-+.+..   +.+-+..+=+++..  
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 IGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQ-GDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKL  504 (829)
T ss_pred             cCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCcccc-ccHHHHHHHHHHHhccCccchHHHHHHHHHhcccC
Confidence            356555554443     345555566777777776655221111 1455666666666552   22233344444444  


Q ss_pred             CCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCC----CChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHH
Q 048179          140 KDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGID----ADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQ  215 (589)
Q Consensus       140 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~----p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  215 (589)
                      ...++|..+.+--...|+++-|..+++.=...+..    .+..-+...+.-+...|+.+....++-++...-   +...+
T Consensus       505 ~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~---~~s~l  581 (829)
T KOG2280|consen  505 TPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKL---NRSSL  581 (829)
T ss_pred             CCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHH---HHHHH
Confidence            35567777777777888888887776643222111    122234445555666666666666555544321   00000


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcCC-CCeehHHHHHHHHHhCCChhHHHHHHH--HHH----hcCCCCCHHHHHHHHHHH
Q 048179          216 TSLVDMYAKTGHLDLASHVFKNMSR-INIVTWGALISGFAQNGLAGSTLELLM--EMQ----SCGFEPDSVSLVSALLAC  288 (589)
Q Consensus       216 ~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~--~m~----~~g~~p~~~~~~~ll~~~  288 (589)
                            +....+...|..++.+..+ .|..+    +..+...++-.+++..|.  ...    ..|..|+   ......++
T Consensus       582 ------~~~l~~~p~a~~lY~~~~r~~~~~~----l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~---lk~~a~~~  648 (829)
T KOG2280|consen  582 ------FMTLRNQPLALSLYRQFMRHQDRAT----LYDFYNQDDNHQALASFHLQASYAAETIEGRIPA---LKTAANAF  648 (829)
T ss_pred             ------HHHHHhchhhhHHHHHHHHhhchhh----hhhhhhcccchhhhhhhhhhhhhhhhhhcccchh---HHHHHHHH
Confidence                  0111223333444433322 11110    111112222222222211  100    1122233   22333344


Q ss_pred             hccCchhhHHH----------HHHHHh--hcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhc
Q 048179          289 AQIGFLKLGKS----------IHGYTV--RRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIH  356 (589)
Q Consensus       289 ~~~~~~~~a~~----------~~~~~~--~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~  356 (589)
                      ++........+          +...+.  .+....--+.+--+.-+...|+..+|.++-.+..-||-..|-.-+.+++..
T Consensus       649 a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~  728 (829)
T KOG2280|consen  649 AKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADI  728 (829)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhh
Confidence            44333111111          111111  111111112233334455567777777777777767776666667777777


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHH
Q 048179          357 GHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKI  436 (589)
Q Consensus       357 g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  436 (589)
                      +++++-.++-+.+.      .+.-|.....+|.+.|+.++|.+++-+..   +.       .-.+.+|.+.|++.+|.++
T Consensus       729 ~kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~EA~KYiprv~---~l-------~ekv~ay~~~~~~~eAad~  792 (829)
T KOG2280|consen  729 KKWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDEAKKYIPRVG---GL-------QEKVKAYLRVGDVKEAADL  792 (829)
T ss_pred             hhHHHHHHHHhccC------CCCCchhHHHHHHhcccHHHHhhhhhccC---Ch-------HHHHHHHHHhccHHHHHHH
Confidence            77766554443322      13445566677777777777777665543   11       1356667777777776655


Q ss_pred             H
Q 048179          437 V  437 (589)
Q Consensus       437 ~  437 (589)
                      -
T Consensus       793 A  793 (829)
T KOG2280|consen  793 A  793 (829)
T ss_pred             H
Confidence            4

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.10  E-value=0.056  Score=51.85  Aligned_cols=162  Identities=19%  Similarity=0.168  Sum_probs=101.4

Q ss_pred             HHHHHHhHhcCCHHHHHHHHHhcCCC-C------hhHHHHHHHHHHh---cCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048179          316 TSVIDMYSKCGVPSCARALFDQMQSR-D------LISWNVIIASYGI---HGHGEEALSLFLQMIETMVKPDHSTFASLL  385 (589)
Q Consensus       316 ~~l~~~~~~~g~~~~A~~~~~~~~~~-~------~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll  385 (589)
                      ..++-.|....+++...++++.+... +      ...-....-++.+   .|+.++|++++..+....-.+++.|+..+.
T Consensus       145 ~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~G  224 (374)
T PF13281_consen  145 INLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHH
Confidence            34555677788888888888877652 1      1112223344555   788899999988866666677777877776


Q ss_pred             HHHhc---------CCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHH----HHHHH---Hhc-------CC
Q 048179          386 SALSH---------SGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEE----ALKIV---DSM-------ST  442 (589)
Q Consensus       386 ~a~~~---------~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~----A~~~~---~~~-------~~  442 (589)
                      ..|-.         ....++|+..|.+.-   .+.|+...--.++.++...|...+    ..++-   ...       ..
T Consensus       225 RIyKD~~~~s~~~d~~~ldkAi~~Y~kgF---e~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~  301 (374)
T PF13281_consen  225 RIYKDLFLESNFTDRESLDKAIEWYRKGF---EIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEK  301 (374)
T ss_pred             HHHHHHHHHcCccchHHHHHHHHHHHHHH---cCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccc
Confidence            65431         234667777777654   445654332233334444443222    22222   111       11


Q ss_pred             CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCc
Q 048179          443 EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDL  480 (589)
Q Consensus       443 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  480 (589)
                      ..|...+.+++.++.-.||+++|.+.+++++++.|+.-
T Consensus       302 ~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~W  339 (374)
T PF13281_consen  302 MQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPAW  339 (374)
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcch
Confidence            24556668899999999999999999999999987543

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.08  E-value=0.32  Score=47.04  Aligned_cols=434  Identities=9%  Similarity=0.014  Sum_probs=201.5

Q ss_pred             HHcCCCchhHHHHHHHHHHCCCCCCccc------HHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHH--HH
Q 048179           51 YSRKESPFEVLGLYNQMIKEDVRPDSST------FTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNL--YV  122 (589)
Q Consensus        51 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~------~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~--~~  122 (589)
                      +-+++++.+|.++|.+.-+.. ..++..      -+-+++++-. ++.+..........+..  | ...|-.|..+  +.
T Consensus        16 Lqkq~~~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~~--~-~s~~l~LF~~L~~Y   90 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQF--G-KSAYLPLFKALVAY   90 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHhc--C-CchHHHHHHHHHHH
Confidence            346788999999998886652 222222      2345555543 45666666666665542  2 2233333332  34


Q ss_pred             hCCChHHHHHHHHhcCCC------------------CcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCC----CChhhH
Q 048179          123 KCGKMNEAMVAFEKMQRK------------------DLVCWSSMINGLVFNGQPREAVDAYKRMKKEGID----ADEVVM  180 (589)
Q Consensus       123 ~~g~~~~A~~~~~~~~~~------------------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~----p~~~t~  180 (589)
                      +.+.+++|.+.|..-.+.                  |...=+..+.++...|++.++..++++|...=++    -+..+|
T Consensus        91 ~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~y  170 (549)
T PF07079_consen   91 KQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMY  170 (549)
T ss_pred             HhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHH
Confidence            678888888887655421                  1122345567777888888888888888664333    577777


Q ss_pred             HHHHHHHHccCCcHHHHHHHHHHHHhc-CCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHh--CC
Q 048179          181 MGLIQACADLGDSRFGLSVHGYSIRRH-LNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQ--NG  257 (589)
Q Consensus       181 ~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~--~g  257 (589)
                      +.++-.+++        .++-++.+.. ...-+..|. ++-.|.+.=..-++.. +++.. |-......++....-  ..
T Consensus       171 d~~vlmlsr--------SYfLEl~e~~s~dl~pdyYe-milfY~kki~~~d~~~-Y~k~~-peeeL~s~imqhlfi~p~e  239 (549)
T PF07079_consen  171 DRAVLMLSR--------SYFLELKESMSSDLYPDYYE-MILFYLKKIHAFDQRP-YEKFI-PEEELFSTIMQHLFIVPKE  239 (549)
T ss_pred             HHHHHHHhH--------HHHHHHHHhcccccChHHHH-HHHHHHHHHHHHhhch-HHhhC-cHHHHHHHHHHHHHhCCHh
Confidence            765444332        2232222211 011111122 2222222100000000 00000 000000001110000  00


Q ss_pred             ChhHHHHHHHHHHhcCCCCCHHH-HHHHHHHHhccCchhhHHHHHHHHh-hcC----CCChhHHHHHHHHhHhcCCHHHH
Q 048179          258 LAGSTLELLMEMQSCGFEPDSVS-LVSALLACAQIGFLKLGKSIHGYTV-RRF----DFNLVLGTSVIDMYSKCGVPSCA  331 (589)
Q Consensus       258 ~~~~a~~~~~~m~~~g~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~-~~~----~~~~~~~~~l~~~~~~~g~~~~A  331 (589)
                      +..--..++..-...-+.|+... ...+...+..  +.+.+..+.+.+. ..+    +.-...+..++....+.++...|
T Consensus       240 ~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a  317 (549)
T PF07079_consen  240 RLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEA  317 (549)
T ss_pred             hccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            00111111111122223343221 1122222221  2233322222222 100    01123344555555566666666


Q ss_pred             HHHHHhcC--CCChhH-------HHHHHHHHH----hcCCHHHHHHHHHHHHHcCCCCCHH-HHHHHH---HHHhcCCc-
Q 048179          332 RALFDQMQ--SRDLIS-------WNVIIASYG----IHGHGEEALSLFLQMIETMVKPDHS-TFASLL---SALSHSGL-  393 (589)
Q Consensus       332 ~~~~~~~~--~~~~~~-------~~~li~~~~----~~g~~~~A~~~~~~m~~~~~~p~~~-t~~~ll---~a~~~~g~-  393 (589)
                      ...+.-+.  +|+...       -..+-+..+    ..-+...-+.+|++.....+  |.. ....|+   .-+-+.|. 
T Consensus       318 ~q~l~lL~~ldp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~Di--DrqQLvh~L~~~Ak~lW~~g~~  395 (549)
T PF07079_consen  318 KQYLALLKILDPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDI--DRQQLVHYLVFGAKHLWEIGQC  395 (549)
T ss_pred             HHHHHHHHhcCCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcc--cHHHHHHHHHHHHHHHHhcCCc
Confidence            66555433  222210       011111111    11122334445555544432  221 111122   22344444 


Q ss_pred             HHHHHHHHHHHHHhcCCCCChhhHHHHH----HHHHHc---CCHH---HHHHHHHhcCCCC----ChhHHHHHHHH--HH
Q 048179          394 VEEGRYWFDLMVSKYKIQPTEKHYACMV----DLLARA---GEVE---EALKIVDSMSTEP----GLAVWVALLSG--CH  457 (589)
Q Consensus       394 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~----~~~~~~---g~~~---~A~~~~~~~~~~p----~~~~~~~l~~~--~~  457 (589)
                      -++|..+++.+.+-  .+-|...-+.+.    ..|..+   ..+.   .-..++++....|    +...-+.|..|  ..
T Consensus       396 dekalnLLk~il~f--t~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLy  473 (549)
T PF07079_consen  396 DEKALNLLKLILQF--TNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLY  473 (549)
T ss_pred             cHHHHHHHHHHHHh--ccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHH
Confidence            67778888777642  112222222211    112111   1111   2223344444333    44466777776  57


Q ss_pred             hcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHH
Q 048179          458 NHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       458 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      .+|++.++.-...-+.++.| ++.+|..+|-+.....+++||.+++..+.
T Consensus       474 sqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~LP  522 (549)
T PF07079_consen  474 SQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKLP  522 (549)
T ss_pred             hcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhCC
Confidence            89999999999888999999 99999999999999999999999998653

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.07  E-value=0.08  Score=47.05  Aligned_cols=231  Identities=10%  Similarity=-0.000  Sum_probs=130.0

Q ss_pred             ehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHH-hccCc-hhhHH-HHHHHHhhcCCCChhHHHHHHH
Q 048179          244 VTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLAC-AQIGF-LKLGK-SIHGYTVRRFDFNLVLGTSVID  320 (589)
Q Consensus       244 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~-~~~~~-~~~a~-~~~~~~~~~~~~~~~~~~~l~~  320 (589)
                      ..|+.-+..+.+....++|..-+....+.. .||-. |...-..+ .+.|. +.-+. .+|..+. ..-++  -++.|..
T Consensus        70 q~wT~r~~~l~kLR~~~~a~~EL~~f~~lD-~pdl~-Yey~p~iyp~rrGSmVPFsmR~lhAe~~-~~lgn--pqesLdR  144 (366)
T KOG2796|consen   70 QLWTVRLALLVKLRLFQNAEMELEPFGNLD-QPDLY-YEYYPHVYPGRRGSMVPFSMRILHAELQ-QYLGN--PQESLDR  144 (366)
T ss_pred             HHHHHHHHHHHHHhhhHHHHhhhhhhccCC-Cccee-eeeccccCCCCcCccccHHHHHHHHHHH-HhcCC--cHHHHHH
Confidence            456667777888888888876666554432 22210 00000000 01111 11111 2222222 11111  1244555


Q ss_pred             HhHhcCCHHHHHHHHHhcCC--CCh--------hHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 048179          321 MYSKCGVPSCARALFDQMQS--RDL--------ISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSH  390 (589)
Q Consensus       321 ~~~~~g~~~~A~~~~~~~~~--~~~--------~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~  390 (589)
                      .+.-..-+++-...|+.-..  ..+        ..-+.++..+.-+|.+.-.+..+.+.++...+-++.....|.+.-.+
T Consensus       145 l~~L~~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ  224 (366)
T KOG2796|consen  145 LHKLKTVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQ  224 (366)
T ss_pred             HHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHh
Confidence            54443333444444433221  122        23456667777788888888888888887666677777888888888


Q ss_pred             CCcHHHHHHHHHHHHHhcCCCCChhh-----HHHHHHHHHHcCCHHHHHHHHHhcCCC-C-ChhHHHHHHHHHHhcCCch
Q 048179          391 SGLVEEGRYWFDLMVSKYKIQPTEKH-----YACMVDLLARAGEVEEALKIVDSMSTE-P-GLAVWVALLSGCHNHKKFS  463 (589)
Q Consensus       391 ~g~~~~a~~~~~~~~~~~~~~p~~~~-----~~~l~~~~~~~g~~~~A~~~~~~~~~~-p-~~~~~~~l~~~~~~~~~~~  463 (589)
                      .|+.+.|..+|+...+..+ +.+...     .......|.-+.++.+|...+.++... | |+..-|+-.-+..-.|+..
T Consensus       225 ~GD~k~a~~yf~~vek~~~-kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~  303 (366)
T KOG2796|consen  225 IGDIKTAEKYFQDVEKVTQ-KLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLK  303 (366)
T ss_pred             cccHHHHHHHHHHHHHHHh-hhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHH
Confidence            9999999999997665422 222222     223334556677888888888877542 3 3444444444455667888


Q ss_pred             HHHHHHHHHhccCCCCc
Q 048179          464 IGEKVAKKVLKLNPDDL  480 (589)
Q Consensus       464 ~a~~~~~~~~~~~p~~~  480 (589)
                      .|.+.++.+.+..|...
T Consensus       304 DAiK~~e~~~~~~P~~~  320 (366)
T KOG2796|consen  304 DALKQLEAMVQQDPRHY  320 (366)
T ss_pred             HHHHHHHHHhccCCccc
Confidence            88888888888888644

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.06  E-value=0.039  Score=49.06  Aligned_cols=49  Identities=10%  Similarity=-0.044  Sum_probs=37.7

Q ss_pred             HHHHHhcCCchHHHHHHHHHhccCCCCc---hhHHHHHHHHHhCCChHHHHH
Q 048179          453 LSGCHNHKKFSIGEKVAKKVLKLNPDDL---GIHALVSNFFAMEQKWEEVAG  501 (589)
Q Consensus       453 ~~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~  501 (589)
                      ..-|.+.|.+..|..-++.+++.-|+.+   .++..++..|.+.|..+.|..
T Consensus       148 a~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~~  199 (203)
T PF13525_consen  148 ARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAADT  199 (203)
T ss_dssp             HHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHHH
Confidence            4457889999999999999999999865   456778888999998885443

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.06  E-value=0.011  Score=45.18  Aligned_cols=80  Identities=13%  Similarity=0.153  Sum_probs=64.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHhcCC--------cHHHHHHHHHHHHHhcCCCCChhh
Q 048179          346 WNVIIASYGIHGHGEEALSLFLQMIETMV-KPDHSTFASLLSALSHSG--------LVEEGRYWFDLMVSKYKIQPTEKH  416 (589)
Q Consensus       346 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~~~t~~~ll~a~~~~g--------~~~~a~~~~~~~~~~~~~~p~~~~  416 (589)
                      -...|..+...+++...-.+|+.+++.|+ -|+..+|+.++.+.++..        .+-..+.+++.|... +++|+.++
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~-~lKP~~et  106 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSN-KLKPNDET  106 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHh-ccCCcHHH
Confidence            34456666777999999999999999999 899999999998876542        244677888888877 89999999


Q ss_pred             HHHHHHHHHH
Q 048179          417 YACMVDLLAR  426 (589)
Q Consensus       417 ~~~l~~~~~~  426 (589)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9988887754

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 [, , ].

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.02  E-value=0.17  Score=48.21  Aligned_cols=86  Identities=12%  Similarity=0.029  Sum_probs=46.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHHc---CCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHc
Q 048179          352 SYGIHGHGEEALSLFLQMIET---MVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARA  427 (589)
Q Consensus       352 ~~~~~g~~~~A~~~~~~m~~~---~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~  427 (589)
                      -..+.|++..|.+.|.+.+..   ++.|+...|.....+..+.|+..+|+.--+...+   +.|. ...|..-..++...
T Consensus       258 ~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~---iD~syikall~ra~c~l~l  334 (486)
T KOG0550|consen  258 DAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK---IDSSYIKALLRRANCHLAL  334 (486)
T ss_pred             hHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh---cCHHHHHHHHHHHHHHHHH
Confidence            345566666777776666542   2334444555555556666666666666655552   2222 22233333445555


Q ss_pred             CCHHHHHHHHHhc
Q 048179          428 GEVEEALKIVDSM  440 (589)
Q Consensus       428 g~~~~A~~~~~~~  440 (589)
                      ++|++|++-+++.
T Consensus       335 e~~e~AV~d~~~a  347 (486)
T KOG0550|consen  335 EKWEEAVEDYEKA  347 (486)
T ss_pred             HHHHHHHHHHHHH
Confidence            6666666666654

>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=96.96  E-value=0.022  Score=47.67  Aligned_cols=61  Identities=16%  Similarity=0.197  Sum_probs=53.1

Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          448 VWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       448 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      +...++..+...|+++.|...+++++..+|-+...|..+..+|...|+..+|.+.++++..
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~  124 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRR  124 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            4566777788999999999999999999999999999999999999999999999998853

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.92  E-value=0.014  Score=55.29  Aligned_cols=93  Identities=13%  Similarity=0.111  Sum_probs=80.1

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhcC--CCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhC
Q 048179          416 HYACMVDLLARAGEVEEALKIVDSMS--TEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAME  493 (589)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  493 (589)
                      .+..+.-++.+.+++.+|++..++..  .++|...+---..+|...|+++.|+..|+++++++|+|-.+...|+.+-.+.
T Consensus       259 ~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~  338 (397)
T KOG0543|consen  259 CHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKI  338 (397)
T ss_pred             HhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence            56678889999999999999998863  2467888888899999999999999999999999999999999998887777


Q ss_pred             CChHHH-HHHHHHHHh
Q 048179          494 QKWEEV-AGVRKTMRK  508 (589)
Q Consensus       494 g~~~~a-~~~~~~m~~  508 (589)
                      .++++. .++|..|-.
T Consensus       339 ~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  339 REYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            666665 788888865

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.91  E-value=0.011  Score=46.14  Aligned_cols=90  Identities=12%  Similarity=0.058  Sum_probs=73.3

Q ss_pred             HHHHHcCCHHHHHHHHHhcC-C-CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCc----hhHHHHHHHHHhCCC
Q 048179          422 DLLARAGEVEEALKIVDSMS-T-EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDL----GIHALVSNFFAMEQK  495 (589)
Q Consensus       422 ~~~~~~g~~~~A~~~~~~~~-~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~----~~~~~l~~~~~~~g~  495 (589)
                      -++...|+++.|++.|.+.. . +.....|+.-..+++-+|+.++|..-+++++++.-+..    .+|+.-+.+|...|+
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            45678889999999888752 2 34677899999999999999999999999998853322    457778899999999


Q ss_pred             hHHHHHHHHHHHhCCC
Q 048179          496 WEEVAGVRKTMRKSGM  511 (589)
Q Consensus       496 ~~~a~~~~~~m~~~g~  511 (589)
                      -+.|..-|+..-+.|.
T Consensus       131 dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGS  146 (175)
T ss_pred             hHHHHHhHHHHHHhCC
Confidence            9999999999887765

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.85  E-value=0.22  Score=50.07  Aligned_cols=56  Identities=16%  Similarity=0.196  Sum_probs=33.0

Q ss_pred             HHHHHhHhcCCHHHHHHHHHhcCC--CChh-----------HHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048179          317 SVIDMYSKCGVPSCARALFDQMQS--RDLI-----------SWNVIIASYGIHGHGEEALSLFLQMIET  372 (589)
Q Consensus       317 ~l~~~~~~~g~~~~A~~~~~~~~~--~~~~-----------~~~~li~~~~~~g~~~~A~~~~~~m~~~  372 (589)
                      .++++....+++++|..+-++.++  +|+.           -+.-.-.+|.+.|+-.+|..+++++...
T Consensus       778 siVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  778 SLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             HHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence            455566666666666666666654  2321           1111224566777888888888776543

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.83  E-value=0.51  Score=45.56  Aligned_cols=135  Identities=13%  Similarity=0.121  Sum_probs=100.4

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhh-HHH
Q 048179          342 DLISWNVIIASYGIHGHGEEALSLFLQMIETM-VKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKH-YAC  419 (589)
Q Consensus       342 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~-~~~  419 (589)
                      -...|...+..-.+..-.+.|..+|-+..+.| +.++...+.+++.-++ .|+...|..+|+.-...+   ||... -..
T Consensus       396 ~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f---~d~~~y~~k  471 (660)
T COG5107         396 LTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKF---PDSTLYKEK  471 (660)
T ss_pred             hhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhC---CCchHHHHH
Confidence            34567777777777777788888998888888 5677778888877665 478888888888866543   44333 345


Q ss_pred             HHHHHHHcCCHHHHHHHHHhcCC--CCC--hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCc
Q 048179          420 MVDLLARAGEVEEALKIVDSMST--EPG--LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDL  480 (589)
Q Consensus       420 l~~~~~~~g~~~~A~~~~~~~~~--~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  480 (589)
                      .+.-+.+.++-+.|..+|+....  +.+  ...|..++.--...|+..-+..+-+++.++-|...
T Consensus       472 yl~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQen  536 (660)
T COG5107         472 YLLFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQEN  536 (660)
T ss_pred             HHHHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcHh
Confidence            66777888999999999986532  122  55788888888888988888888888888888643

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.81  E-value=0.16  Score=45.07  Aligned_cols=140  Identities=16%  Similarity=0.148  Sum_probs=74.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH
Q 048179          349 IIASYGIHGHGEEALSLFLQMIETMVKPD--HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLAR  426 (589)
Q Consensus       349 li~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  426 (589)
                      ....+...|++++|+..|+++........  ......++.++.+.|+++.|...++...+.+.-.|... +...+.+.+.
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~-~A~Y~~g~~~   89 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKAD-YALYMLGLSY   89 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHH-HHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchh-hHHHHHHHHH
Confidence            34455667777777777777776532111  23445566677777777777777777776654333321 1111111111


Q ss_pred             cCCHHHHHHHHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCc-----------------hhHHHHHHH
Q 048179          427 AGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDL-----------------GIHALVSNF  489 (589)
Q Consensus       427 ~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-----------------~~~~~l~~~  489 (589)
                      ........                   ......+....|...++.+++..|+++                 ..-..++..
T Consensus        90 ~~~~~~~~-------------------~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~  150 (203)
T PF13525_consen   90 YKQIPGIL-------------------RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHELYIARF  150 (203)
T ss_dssp             HHHHHHHH--------------------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhCccch-------------------hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            11111000                   011222334556666666666666654                 233456888


Q ss_pred             HHhCCChHHHHHHHHHHHh
Q 048179          490 FAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       490 ~~~~g~~~~a~~~~~~m~~  508 (589)
                      |.+.|.|..|..-++.+.+
T Consensus       151 Y~~~~~y~aA~~r~~~v~~  169 (203)
T PF13525_consen  151 YYKRGKYKAAIIRFQYVIE  169 (203)
T ss_dssp             HHCTT-HHHHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHH
Confidence            9999999999999999886

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.80  E-value=0.062  Score=47.75  Aligned_cols=234  Identities=14%  Similarity=0.019  Sum_probs=143.5

Q ss_pred             cccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHH-hccCC-HHHHH-HHHHHHHHhCCCCChhhHHHH
Q 048179           41 VDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKAC-VSLMD-LKMGE-EIWRKAVELGYGNDVFVGSSM  117 (589)
Q Consensus        41 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~-~~~~~-~~~a~-~~~~~~~~~g~~~~~~~~~~l  117 (589)
                      ...|+.-+..+.+-..+++|..-++...+.+ .||-. |...=..+ .+.|. +.-+. -++..+.+.    ...-+++|
T Consensus        69 lq~wT~r~~~l~kLR~~~~a~~EL~~f~~lD-~pdl~-Yey~p~iyp~rrGSmVPFsmR~lhAe~~~~----lgnpqesL  142 (366)
T KOG2796|consen   69 LQLWTVRLALLVKLRLFQNAEMELEPFGNLD-QPDLY-YEYYPHVYPGRRGSMVPFSMRILHAELQQY----LGNPQESL  142 (366)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHhhhhhhccCC-Cccee-eeeccccCCCCcCccccHHHHHHHHHHHHh----cCCcHHHH
Confidence            3456777777777777777766665554432 12211 00000000 01121 12222 223333322    12235566


Q ss_pred             HHHHHhCCChHHHHHHHHhcCCC--C--------cchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 048179          118 LNLYVKCGKMNEAMVAFEKMQRK--D--------LVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQAC  187 (589)
Q Consensus       118 i~~~~~~g~~~~A~~~~~~~~~~--~--------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~  187 (589)
                      .+.+.-..-+++-...|+.-..|  .        ....++++..+.-.|.+.-.+..+.+.++...+.++.....+.+..
T Consensus       143 dRl~~L~~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~  222 (366)
T KOG2796|consen  143 DRLHKLKTVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRIS  222 (366)
T ss_pred             HHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHH
Confidence            66665444444444444433321  1        2345667777777888888899999999887777888888888889


Q ss_pred             HccCCcHHHHHHHHHHHHhcCCCch-----HHHHHHHHHHHhcCCHHHHHHHHhhcCC---CCeehHHHHHHHHHhCCCh
Q 048179          188 ADLGDSRFGLSVHGYSIRRHLNLDV-----KVQTSLVDMYAKTGHLDLASHVFKNMSR---INIVTWGALISGFAQNGLA  259 (589)
Q Consensus       188 ~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~  259 (589)
                      .+.||.+.|...++.+.+..-..|.     .+.......|.-.+++..|...|++++.   .|++.-|.-.-+..-.|+.
T Consensus       223 MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l  302 (366)
T KOG2796|consen  223 MQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKL  302 (366)
T ss_pred             HhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHH
Confidence            9999999999999987765433333     3333444456667889999999988876   4556666666666678899


Q ss_pred             hHHHHHHHHHHhcCCCCCHHHHH
Q 048179          260 GSTLELLMEMQSCGFEPDSVSLV  282 (589)
Q Consensus       260 ~~a~~~~~~m~~~g~~p~~~~~~  282 (589)
                      .+|++.+..|.+.  .|...+-.
T Consensus       303 ~DAiK~~e~~~~~--~P~~~l~e  323 (366)
T KOG2796|consen  303 KDALKQLEAMVQQ--DPRHYLHE  323 (366)
T ss_pred             HHHHHHHHHHhcc--CCccchhh
Confidence            9999999999886  45544443

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.78  E-value=0.0095  Score=51.52  Aligned_cols=89  Identities=15%  Similarity=0.212  Sum_probs=57.6

Q ss_pred             CCCcchHHHHHHHHHhC-----CCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHcc----------------CCcHHHH
Q 048179          139 RKDLVCWSSMINGLVFN-----GQPREAVDAYKRMKKEGIDADEVVMMGLIQACADL----------------GDSRFGL  197 (589)
Q Consensus       139 ~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~----------------~~~~~a~  197 (589)
                      .+|-.+|..++..|.+.     |..+=....+..|.+.|+.-|..+|+.||..+-+.                .+.+-|+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            34555555555555432     44555555666666666666667777666655432                1345677


Q ss_pred             HHHHHHHHhcCCCchHHHHHHHHHHHhcCC
Q 048179          198 SVHGYSIRRHLNLDVKVQTSLVDMYAKTGH  227 (589)
Q Consensus       198 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  227 (589)
                      +++++|...|+-||..++..|++.+++.+.
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            888888888888888888888888766554

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK11906 transcriptional regulator; Provisional

Probab=96.77  E-value=0.03  Score=54.54  Aligned_cols=63  Identities=6%  Similarity=-0.141  Sum_probs=31.4

Q ss_pred             ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHH
Q 048179          445 GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       445 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      |+.+...+..+....++++.|...|++++.++|+.+.+|...+++..-.|+.++|.+.+++..
T Consensus       337 Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~al  399 (458)
T PRK11906        337 DGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSL  399 (458)
T ss_pred             CHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            344444444444444445555555555555555555555555555555555555555555433

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.74  E-value=0.019  Score=49.68  Aligned_cols=97  Identities=18%  Similarity=0.281  Sum_probs=76.2

Q ss_pred             HHHHHhc--CCCChhHHHHHHHHHHh-----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC-------------
Q 048179          332 RALFDQM--QSRDLISWNVIIASYGI-----HGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHS-------------  391 (589)
Q Consensus       332 ~~~~~~~--~~~~~~~~~~li~~~~~-----~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~-------------  391 (589)
                      ...|+..  ..++-.+|..++..|.+     .|..+=....++.|.+-|+.-|..+|+.||..+=+.             
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            4455555  45677788888887764     466777777889999999999999999999887652             


Q ss_pred             ---CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048179          392 ---GLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGE  429 (589)
Q Consensus       392 ---g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  429 (589)
                         .+-+-|++++++|... |+.||.+++..+++.+++.+.
T Consensus       114 hyp~Qq~c~i~lL~qME~~-gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMENN-GVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             cCcHHHHHHHHHHHHHHHc-CCCCcHHHHHHHHHHhccccH
Confidence               2356788999999875 999999999999999877765

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=96.74  E-value=0.32  Score=49.01  Aligned_cols=103  Identities=14%  Similarity=0.023  Sum_probs=52.5

Q ss_pred             CChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHH
Q 048179          175 ADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFA  254 (589)
Q Consensus       175 p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~  254 (589)
                      |-...+.+-+..+...|.+++|.++-      ++.....-|..|..-....=+++-|++.+.++..              
T Consensus       554 ~~evp~~~~m~q~Ieag~f~ea~~ia------clgVv~~DW~~LA~~ALeAL~f~~ARkAY~rVRd--------------  613 (1081)
T KOG1538|consen  554 AVEVPQSAPMYQYIERGLFKEAYQIA------CLGVTDTDWRELAMEALEALDFETARKAYIRVRD--------------  613 (1081)
T ss_pred             cccccccccchhhhhccchhhhhccc------ccceecchHHHHHHHHHhhhhhHHHHHHHHHHhc--------------
Confidence            34444444455556666666554432      1112222344444433444444444444443322              


Q ss_pred             hCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHH
Q 048179          255 QNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHG  302 (589)
Q Consensus       255 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  302 (589)
                        -.+-+.+.-+++|++.|-.|+....   ...|+-.|.+.+|..+|.
T Consensus       614 --l~~L~li~EL~~~k~rge~P~~iLl---A~~~Ay~gKF~EAAklFk  656 (1081)
T KOG1538|consen  614 --LRYLELISELEERKKRGETPNDLLL---ADVFAYQGKFHEAAKLFK  656 (1081)
T ss_pred             --cHHHHHHHHHHHHHhcCCCchHHHH---HHHHHhhhhHHHHHHHHH
Confidence              2233445556788888877887543   344566677777666554

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.63  E-value=0.67  Score=44.19  Aligned_cols=106  Identities=16%  Similarity=0.123  Sum_probs=78.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchh
Q 048179          216 TSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLK  295 (589)
Q Consensus       216 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~  295 (589)
                      +..+.-+...|+...|.++-.+..-|+-..|...+.+++..++|++-..+-..      +-.+..|..++.+|...|...
T Consensus       181 ~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~  254 (319)
T PF04840_consen  181 NDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKK  254 (319)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHH
Confidence            34455566778888888888888778888888889999999998877665332      123477888888888888888


Q ss_pred             hHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHH
Q 048179          296 LGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFD  336 (589)
Q Consensus       296 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  336 (589)
                      .|..+...+         .+..-+.+|.++|++.+|.+.--
T Consensus       255 eA~~yI~k~---------~~~~rv~~y~~~~~~~~A~~~A~  286 (319)
T PF04840_consen  255 EASKYIPKI---------PDEERVEMYLKCGDYKEAAQEAF  286 (319)
T ss_pred             HHHHHHHhC---------ChHHHHHHHHHCCCHHHHHHHHH
Confidence            877766552         12566889999999998877543

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.60  E-value=0.081  Score=48.41  Aligned_cols=104  Identities=12%  Similarity=0.091  Sum_probs=77.7

Q ss_pred             CCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcC---CHHHHHHHHHhcC-CCC-ChhHH
Q 048179          375 KPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAG---EVEEALKIVDSMS-TEP-GLAVW  449 (589)
Q Consensus       375 ~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~-~~p-~~~~~  449 (589)
                      +-|...|..|..+|...|+++.|...|....+  -.+++.+.+..+..++....   ...++.++|+++. .+| |..+.
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~r--L~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALR--LAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHH
Confidence            45677888888889989999999888888876  33455777777777665433   4567788888873 345 45566


Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHhccCCCCc
Q 048179          450 VALLSGCHNHKKFSIGEKVAKKVLKLNPDDL  480 (589)
Q Consensus       450 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  480 (589)
                      ..|...+...|++.+|...++.+++..|.+.
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~  261 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPADD  261 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCCCC
Confidence            6666678999999999999999998877554

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.52  E-value=0.017  Score=54.54  Aligned_cols=127  Identities=12%  Similarity=0.052  Sum_probs=86.9

Q ss_pred             HHHHHHHHHhccCchhhHHHHHHHHh---hcCC---CChhHHHHHHHHhHhcCCHHHHHHHHHhcC-------CCCh--h
Q 048179          280 SLVSALLACAQIGFLKLGKSIHGYTV---RRFD---FNLVLGTSVIDMYSKCGVPSCARALFDQMQ-------SRDL--I  344 (589)
Q Consensus       280 ~~~~ll~~~~~~~~~~~a~~~~~~~~---~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~--~  344 (589)
                      .|..+...|.-.|+++.+...|+.-.   +.+.   .....+..|.+++.-.|+++.|.+.|....       ++.+  .
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            45555555666788899888887655   2222   223556778888888999999988887543       2333  3


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH----cC-CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Q 048179          345 SWNVIIASYGIHGHGEEALSLFLQMIE----TM-VKPDHSTFASLLSALSHSGLVEEGRYWFDLMVS  406 (589)
Q Consensus       345 ~~~~li~~~~~~g~~~~A~~~~~~m~~----~~-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  406 (589)
                      +.-++...|.-...+++|+.++.+-..    .+ ..-....+.+|..++...|..++|+.+.+...+
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            455677778888888999888766432    11 122346788899999999999999887776543

>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=96.45  E-value=0.0048  Score=45.04  Aligned_cols=61  Identities=15%  Similarity=0.180  Sum_probs=36.7

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHhcC-------C-CCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhcc
Q 048179          415 KHYACMVDLLARAGEVEEALKIVDSMS-------T-EPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKL  475 (589)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~-~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  475 (589)
                      .+++.+...|.+.|++++|++.+++..       . .|+ ..++..+..++...|++++|++.+++++++
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            345556666666666666666655541       0 122 445666777777777777777777777654

...

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.41  E-value=0.026  Score=47.81  Aligned_cols=90  Identities=17%  Similarity=0.135  Sum_probs=71.0

Q ss_pred             HHHHHcCCHHHHHHHHHhcCC--C-----CChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCC
Q 048179          422 DLLARAGEVEEALKIVDSMST--E-----PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQ  494 (589)
Q Consensus       422 ~~~~~~g~~~~A~~~~~~~~~--~-----p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  494 (589)
                      .-+.+.|++++|..-|.....  +     -..+.|..-..+..+.+.++.|+....++++++|.+..++...+.+|.+..
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~e  182 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKME  182 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhh
Confidence            445567777777776665411  1     123455556667889999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHhCCC
Q 048179          495 KWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       495 ~~~~a~~~~~~m~~~g~  511 (589)
                      ++++|++-++++.+..+
T Consensus       183 k~eealeDyKki~E~dP  199 (271)
T KOG4234|consen  183 KYEEALEDYKKILESDP  199 (271)
T ss_pred             hHHHHHHHHHHHHHhCc
Confidence            99999999999987543

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.40  E-value=0.29  Score=44.74  Aligned_cols=121  Identities=12%  Similarity=0.075  Sum_probs=88.2

Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHH---HHHHHHhcCCc
Q 048179          386 SALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVA---LLSGCHNHKKF  462 (589)
Q Consensus       386 ~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~---l~~~~~~~~~~  462 (589)
                      ......|++.+|...|+.....  .+-+...-..|+++|...|+.+.|..++..++.+-...-|..   -+....+..+.
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~--~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQA--APENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHh--CcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcC
Confidence            3456779999999999988863  334466777889999999999999999999976533333333   23333444444


Q ss_pred             hHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          463 SIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       463 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      .+.. .+++-...+|+|...-..++..|...|+.++|.+.+-.+..+
T Consensus       220 ~~~~-~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~  265 (304)
T COG3118         220 PEIQ-DLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRR  265 (304)
T ss_pred             CCHH-HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4333 344555778999999999999999999999999887666543

>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=96.34  E-value=0.049  Score=43.68  Aligned_cols=97  Identities=11%  Similarity=0.159  Sum_probs=60.2

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC
Q 048179          312 LVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHS  391 (589)
Q Consensus       312 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~  391 (589)
                      ..++.+++-++++.|+++....+++..-..++.       +-...+.         --......|+..+..+++.+++..
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~-------~~~~~~~---------~~~~spl~Pt~~lL~AIv~sf~~n   65 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSVWGIDVN-------GKKKEGD---------YPPSSPLYPTSRLLIAIVHSFGYN   65 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCC-------CccccCc---------cCCCCCCCCCHHHHHHHHHHHHhc
Confidence            345556666666666666666665554322111       0000000         011234568888888888888888


Q ss_pred             CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 048179          392 GLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLL  424 (589)
Q Consensus       392 g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  424 (589)
                      |++..|.++.+...+.|+++-+...|..|+.-.
T Consensus        66 ~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   66 GDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             ccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            888888888888888888777777777776543

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.21  E-value=0.08  Score=49.31  Aligned_cols=162  Identities=8%  Similarity=-0.019  Sum_probs=88.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCC---HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hhh
Q 048179          345 SWNVIIASYGIHGHGEEALSLFLQMIET-MVKPD---HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT----EKH  416 (589)
Q Consensus       345 ~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~---~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~  416 (589)
                      +|..+..++-+.-++.+++.+-+.-... |..|-   .....++..++...+.++++++.|+.+.+.-.-..|    ..+
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            4444445555544555555444332221 22221   122334555566666677777777766543111111    345


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhcCC-----C-CC------hhHHHHHHHHHHhcCCchHHHHHHHHHhccC------CC
Q 048179          417 YACMVDLLARAGEVEEALKIVDSMST-----E-PG------LAVWVALLSGCHNHKKFSIGEKVAKKVLKLN------PD  478 (589)
Q Consensus       417 ~~~l~~~~~~~g~~~~A~~~~~~~~~-----~-p~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------p~  478 (589)
                      +..|...|.+..++++|.-+..+.-.     . .|      ..+...+.-+++..|....|.+.-+++.++.      |-
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            67777777777777777665544310     1 11      1122334456777777777777777766532      23


Q ss_pred             CchhHHHHHHHHHhCCChHHHHHHHHHH
Q 048179          479 DLGIHALVSNFFAMEQKWEEVAGVRKTM  506 (589)
Q Consensus       479 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m  506 (589)
                      .......++++|...|+.|.|..-++.+
T Consensus       245 ~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  245 QARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence            3445566778888888777776666554

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.16  E-value=1.9  Score=44.26  Aligned_cols=205  Identities=12%  Similarity=0.022  Sum_probs=114.6

Q ss_pred             CCChhhHHHHHHHHHhCCChHHHHHHHHhcCC-CCcch------------HHHHHHHHHhCCCccHHHHHHHHHHHCCCC
Q 048179          108 GNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR-KDLVC------------WSSMINGLVFNGQPREAVDAYKRMKKEGID  174 (589)
Q Consensus       108 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~~~------------~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  174 (589)
                      .|.+..|..|.......-.++-|+..|-+... +.+..            -.+=|.+|  -|++++|.++|-+|-.+++ 
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feeaek~yld~drrDL-  765 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEAEKLYLDADRRDL-  765 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHhhhhhhccchhhh-
Confidence            57788888888777777777777777766653 22211            11112222  4778888888877754422 


Q ss_pred             CChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCC----chHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHH
Q 048179          175 ADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNL----DVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALI  250 (589)
Q Consensus       175 p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li  250 (589)
                              .+....+.|++-.+.++++.   -|-..    -...++.+.+.+.....|+.|.+.+..-..     -...+
T Consensus       766 --------Aielr~klgDwfrV~qL~r~---g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~-----~e~~~  829 (1189)
T KOG2041|consen  766 --------AIELRKKLGDWFRVYQLIRN---GGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD-----TENQI  829 (1189)
T ss_pred             --------hHHHHHhhhhHHHHHHHHHc---cCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc-----hHhHH
Confidence                    23445556666555544432   11111    124566777777777777777776655332     12245


Q ss_pred             HHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHH
Q 048179          251 SGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSC  330 (589)
Q Consensus       251 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  330 (589)
                      .++.+..++++-..+-..     ++-+...+-.+..++...|.-++|.+.|-...  .+      .+-+..+...+++.+
T Consensus       830 ecly~le~f~~LE~la~~-----Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s--~p------kaAv~tCv~LnQW~~  896 (1189)
T KOG2041|consen  830 ECLYRLELFGELEVLART-----LPEDSELLPVMADMFTSVGMCDQAVEAYLRRS--LP------KAAVHTCVELNQWGE  896 (1189)
T ss_pred             HHHHHHHhhhhHHHHHHh-----cCcccchHHHHHHHHHhhchHHHHHHHHHhcc--Cc------HHHHHHHHHHHHHHH
Confidence            555555555554433333     23444555666777777777777765443221  11      234556666677777


Q ss_pred             HHHHHHhcCCCChh
Q 048179          331 ARALFDQMQSRDLI  344 (589)
Q Consensus       331 A~~~~~~~~~~~~~  344 (589)
                      |.++-++..-|.+.
T Consensus       897 avelaq~~~l~qv~  910 (1189)
T KOG2041|consen  897 AVELAQRFQLPQVQ  910 (1189)
T ss_pred             HHHHHHhccchhHH
Confidence            77776665544443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.11  E-value=0.037  Score=53.89  Aligned_cols=62  Identities=13%  Similarity=0.096  Sum_probs=45.5

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCCCh----hHHHHHHHHHHhcCCchHHHHHHHHHhcc
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSM-STEPGL----AVWVALLSGCHNHKKFSIGEKVAKKVLKL  475 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  475 (589)
                      ...+..+..+|.+.|++++|+..|++. ...|+.    .+|..+..+|...|++++|++.+++++++
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            556777777777777788877777774 445653    34777777888888888888888888776

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.05  E-value=0.13  Score=41.79  Aligned_cols=88  Identities=11%  Similarity=0.152  Sum_probs=56.9

Q ss_pred             HHHHHHcCCHHHHHHHHHhcCCC-C----ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCch---hHHHHHHHHHh
Q 048179          421 VDLLARAGEVEEALKIVDSMSTE-P----GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLG---IHALVSNFFAM  492 (589)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~~~-p----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~  492 (589)
                      .....+.|++++|.+.|+.+..+ |    ...+--.|+.++.+.+++++|...+++.+++.|.++.   ++...|.++.+
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~   96 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYE   96 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHH
Confidence            34445667777777777776432 2    2334556777788888888888888888888887653   34444555555


Q ss_pred             CCC---------------hHHHHHHHHHHHh
Q 048179          493 EQK---------------WEEVAGVRKTMRK  508 (589)
Q Consensus       493 ~g~---------------~~~a~~~~~~m~~  508 (589)
                      +..               ..+|...|+.+.+
T Consensus        97 ~~~~~~~~~~~~drD~~~~~~A~~~f~~lv~  127 (142)
T PF13512_consen   97 QDEGSLQSFFRSDRDPTPARQAFRDFEQLVR  127 (142)
T ss_pred             HhhhHHhhhcccccCcHHHHHHHHHHHHHHH
Confidence            444               5566666666654

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=96.05  E-value=0.0093  Score=35.12  Aligned_cols=32  Identities=16%  Similarity=0.289  Sum_probs=24.1

Q ss_pred             hHHHHHHHHHHhcCCchHHHHHHHHHhccCCC
Q 048179          447 AVWVALLSGCHNHKKFSIGEKVAKKVLKLNPD  478 (589)
Q Consensus       447 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  478 (589)
                      .+|..++.++...|++++|+..++++++++|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            45777777788888888888888888888775

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 ....

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=96.02  E-value=0.98  Score=44.26  Aligned_cols=150  Identities=15%  Similarity=0.017  Sum_probs=81.8

Q ss_pred             CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC--hh
Q 048179          341 RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKP---DHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT--EK  415 (589)
Q Consensus       341 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p---~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~--~~  415 (589)
                      ....+|..++..+.+.|+++.|...+.++...+..+   ++.....-....-..|+..+|...++..... .+..+  ..
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~-~~~~~~~~~  222 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC-RLSKNIDSI  222 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH-Hhhhccccc
Confidence            344578888888888999999988888887644211   2233333445556678888888888777762 11111  11


Q ss_pred             hHHHHHHHHHHcCCHHHHHHH-HHhcCCCCChhHHHHHHHHHHhc------CCchHHHHHHHHHhccCCCCchhHHHHHH
Q 048179          416 HYACMVDLLARAGEVEEALKI-VDSMSTEPGLAVWVALLSGCHNH------KKFSIGEKVAKKVLKLNPDDLGIHALVSN  488 (589)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~-~~~~~~~p~~~~~~~l~~~~~~~------~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  488 (589)
                      ....+...+..  ..+..... ......+.-..++..+..-+...      ++.+.+...++++.++.|.....|..++.
T Consensus       223 ~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~  300 (352)
T PF02259_consen  223 SNAELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWAL  300 (352)
T ss_pred             cHHHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHHH
Confidence            11111111000  00000000 00000000012233333333333      78889999999999999998888888887


Q ss_pred             HHHhC
Q 048179          489 FFAME  493 (589)
Q Consensus       489 ~~~~~  493 (589)
                      .+.+.
T Consensus       301 ~~~~~  305 (352)
T PF02259_consen  301 FNDKL  305 (352)
T ss_pred             HHHHH
Confidence            76553

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.94  E-value=0.015  Score=34.12  Aligned_cols=32  Identities=19%  Similarity=0.347  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHhccCCCC
Q 048179          448 VWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD  479 (589)
Q Consensus       448 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  479 (589)
                      .|..+...+...|++++|++.++++++++|++
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            45666677777777777777777777777754

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 ....

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.92  E-value=1.8  Score=42.01  Aligned_cols=127  Identities=12%  Similarity=0.088  Sum_probs=92.8

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcC-CCCChhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCCChhHHH-HHHHHH
Q 048179          380 TFASLLSALSHSGLVEEGRYWFDLMVSKYK-IQPTEKHYACMVDLLARAGEVEEALKIVDSM-STEPGLAVWV-ALLSGC  456 (589)
Q Consensus       380 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~-~l~~~~  456 (589)
                      .|-..+.+..+..-++.|..+|-++.+. + +.+++..+++++.-+ ..|+..-|-.+|+-- ..-||...|. -.+.-+
T Consensus       399 v~C~~~N~v~r~~Gl~aaR~~F~k~rk~-~~~~h~vyi~~A~~E~~-~~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fL  476 (660)
T COG5107         399 VFCVHLNYVLRKRGLEAARKLFIKLRKE-GIVGHHVYIYCAFIEYY-ATGDRATAYNIFELGLLKFPDSTLYKEKYLLFL  476 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhcc-CCCCcceeeeHHHHHHH-hcCCcchHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            4555666667777889999999999887 5 667888888888766 467888999999874 3347766653 445556


Q ss_pred             HhcCCchHHHHHHHHHhccCCC--CchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          457 HNHKKFSIGEKVAKKVLKLNPD--DLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       457 ~~~~~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ..-++-+.|..+|+..++.-.+  -..+|..+..--..-|+...|..+=++|.+
T Consensus       477 i~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         477 IRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            6778888999999977743222  256777777777778888777777666654

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.91  E-value=0.51  Score=37.34  Aligned_cols=140  Identities=9%  Similarity=0.075  Sum_probs=82.9

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHH
Q 048179          354 GIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEA  433 (589)
Q Consensus       354 ~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  433 (589)
                      .-.|..++..++..+.....   +..-++.++--....-+-+-..+.++.+-+-|.+.|-. ....++..|.+.|..   
T Consensus        13 ildG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C~-NlKrVi~C~~~~n~~---   85 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKCG-NLKRVIECYAKRNKL---   85 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG-S--THHHHHHHHHTT-----
T ss_pred             HHhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhhhcCchhhc-chHHHHHHHHHhcch---
Confidence            34577777777777766542   34455555544444445555556666665444332221 122344455444443   


Q ss_pred             HHHHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCc
Q 048179          434 LKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMK  512 (589)
Q Consensus       434 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~  512 (589)
                                  .......+.....+|+-+.-.+++..+.+-+..+|..+..++.+|.+.|+..++-++++++=+.|++
T Consensus        86 ------------se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   86 ------------SEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             -------------HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             ------------HHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence                        3344455677788888888888998888766668899999999999999999999999999988875

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.91  E-value=1.2  Score=40.06  Aligned_cols=136  Identities=13%  Similarity=0.130  Sum_probs=78.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHc
Q 048179          350 IASYGIHGHGEEALSLFLQMIETMV--KPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARA  427 (589)
Q Consensus       350 i~~~~~~g~~~~A~~~~~~m~~~~~--~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  427 (589)
                      +..-.+.|++++|.+.|+.+....+  +-...+...++-++.+.+++++|....++..+.++-.||.. |...+.++.  
T Consensus        41 g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~d-Y~~YlkgLs--  117 (254)
T COG4105          41 GLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNAD-YAYYLKGLS--  117 (254)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChh-HHHHHHHHH--
Confidence            3445566777777777777765421  11234555666667777777777777777776665555543 333333333  


Q ss_pred             CCHHHHHHHHHhcCC-CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCc-----------------hhHHHHHHH
Q 048179          428 GEVEEALKIVDSMST-EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDL-----------------GIHALVSNF  489 (589)
Q Consensus       428 g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-----------------~~~~~l~~~  489 (589)
                              .|..+.. ..|.             .-...|...|+.++..-|++.                 ..-...++.
T Consensus       118 --------~~~~i~~~~rDq-------------~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~Iary  176 (254)
T COG4105         118 --------YFFQIDDVTRDQ-------------SAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARY  176 (254)
T ss_pred             --------HhccCCccccCH-------------HHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHH
Confidence                    1111110 0111             112234444455555555432                 334467889


Q ss_pred             HHhCCChHHHHHHHHHHHhC
Q 048179          490 FAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       490 ~~~~g~~~~a~~~~~~m~~~  509 (589)
                      |.+.|.|..|..-++.|.+.
T Consensus       177 Y~kr~~~~AA~nR~~~v~e~  196 (254)
T COG4105         177 YLKRGAYVAAINRFEEVLEN  196 (254)
T ss_pred             HHHhcChHHHHHHHHHHHhc
Confidence            99999999999999999874

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.89  E-value=0.57  Score=41.44  Aligned_cols=143  Identities=13%  Similarity=0.066  Sum_probs=83.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCC----CCChhhHHHH
Q 048179          345 SWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKI----QPTEKHYACM  420 (589)
Q Consensus       345 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~----~p~~~~~~~l  420 (589)
                      .++--...|..+|.++.|-..+++.-+.                ...-++++|++++++.......    ..-.+.+...
T Consensus        93 l~eKAs~lY~E~GspdtAAmaleKAak~----------------lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~  156 (308)
T KOG1585|consen   93 LYEKASELYVECGSPDTAAMALEKAAKA----------------LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKC  156 (308)
T ss_pred             HHHHHHHHHHHhCCcchHHHHHHHHHHH----------------hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHh
Confidence            3444556677777777666666554321                1123344444444443322111    1113455666


Q ss_pred             HHHHHHcCCHHHHHHHHHhcCC-------CCCh-hHHHHHHHHHHhcCCchHHHHHHHHHhcc----CCCCchhHHHHHH
Q 048179          421 VDLLARAGEVEEALKIVDSMST-------EPGL-AVWVALLSGCHNHKKFSIGEKVAKKVLKL----NPDDLGIHALVSN  488 (589)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~~-------~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~p~~~~~~~~l~~  488 (589)
                      .+.|.+..++++|-..+.+-..       -|+. ..+.+.+-.+....|+..|+..++.--++    .|++..+...|..
T Consensus       157 sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~  236 (308)
T KOG1585|consen  157 SRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLT  236 (308)
T ss_pred             hhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHH
Confidence            6778888888887776655421       1222 23455555666777899999998886543    3666777777766


Q ss_pred             HHHhCCChHHHHHHHH
Q 048179          489 FFAMEQKWEEVAGVRK  504 (589)
Q Consensus       489 ~~~~~g~~~~a~~~~~  504 (589)
                      .| ..|+.|++.++..
T Consensus       237 ay-d~gD~E~~~kvl~  251 (308)
T KOG1585|consen  237 AY-DEGDIEEIKKVLS  251 (308)
T ss_pred             Hh-ccCCHHHHHHHHc
Confidence            64 4578888776654

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.85  E-value=0.06  Score=48.59  Aligned_cols=57  Identities=11%  Similarity=0.020  Sum_probs=32.8

Q ss_pred             HHHHHHhcCCchHHHHHHHHHhccCCC---CchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          452 LLSGCHNHKKFSIGEKVAKKVLKLNPD---DLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       452 l~~~~~~~~~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      |+.++...|+++.|..+|..+.+-.|+   -|..+..|+.+..+.|+.++|..++++..+
T Consensus       184 LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         184 LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            455555566666666666655554433   334566666666666666666666666554

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.82  E-value=0.097  Score=47.28  Aligned_cols=95  Identities=21%  Similarity=0.251  Sum_probs=55.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHH
Q 048179          346 WNVIIASYGIHGHGEEALSLFLQMIETMVKP--DHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVD  422 (589)
Q Consensus       346 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p--~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~  422 (589)
                      |+.-+.. .+.|++.+|...|...++....-  ....+..|..++...|++++|..+|..+.+.++-.|. ++.+--|..
T Consensus       145 Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~  223 (262)
T COG1729         145 YNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGV  223 (262)
T ss_pred             HHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHH
Confidence            5544443 34455777777777766643110  1123445666677777777777777777665554444 355556666


Q ss_pred             HHHHcCCHHHHHHHHHhcC
Q 048179          423 LLARAGEVEEALKIVDSMS  441 (589)
Q Consensus       423 ~~~~~g~~~~A~~~~~~~~  441 (589)
                      ...+.|+.++|...|++..
T Consensus       224 ~~~~l~~~d~A~atl~qv~  242 (262)
T COG1729         224 SLGRLGNTDEACATLQQVI  242 (262)
T ss_pred             HHHHhcCHHHHHHHHHHHH
Confidence            6666666666666666553

>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=95.64  E-value=0.14  Score=42.81  Aligned_cols=71  Identities=20%  Similarity=0.228  Sum_probs=42.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH----hcCCCCChhhH
Q 048179          346 WNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVS----KYKIQPTEKHY  417 (589)
Q Consensus       346 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~----~~~~~p~~~~~  417 (589)
                      ...++..+...|++++|+.+++++.... +-|...+..++.++...|+..+|.+.|+.+.+    ..|+.|+..+-
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            4445566667777777777777777654 44566777777777777777777777766533    34666665543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK15331 chaperone protein SicA; Provisional

Probab=95.55  E-value=0.38  Score=40.09  Aligned_cols=85  Identities=7%  Similarity=-0.062  Sum_probs=39.0

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHH
Q 048179          354 GIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEA  433 (589)
Q Consensus       354 ~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  433 (589)
                      ...|++++|..+|+-+...+ .-|..-+..|..+|-..+.+++|...|..+..- . .-|+..+-....+|...|+.+.|
T Consensus        48 y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l-~-~~dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         48 YNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTL-L-KNDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc-c-cCCCCccchHHHHHHHhCCHHHH
Confidence            34555555555555544432 112333344444444455555555555554332 1 12222222344555555555555


Q ss_pred             HHHHHhcC
Q 048179          434 LKIVDSMS  441 (589)
Q Consensus       434 ~~~~~~~~  441 (589)
                      +.-|+...
T Consensus       125 ~~~f~~a~  132 (165)
T PRK15331        125 RQCFELVN  132 (165)
T ss_pred             HHHHHHHH
Confidence            55555443

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.55  E-value=0.91  Score=46.19  Aligned_cols=115  Identities=15%  Similarity=0.135  Sum_probs=80.2

Q ss_pred             CCcHHHHHHHHHHHHHhcCCCCChhhHH-HHHHHHHHcCCHHHHHHHHHhcCC-C-----CChhHHHHHHHHHHhcCCch
Q 048179          391 SGLVEEGRYWFDLMVSKYKIQPTEKHYA-CMVDLLARAGEVEEALKIVDSMST-E-----PGLAVWVALLSGCHNHKKFS  463 (589)
Q Consensus       391 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~-~-----p~~~~~~~l~~~~~~~~~~~  463 (589)
                      ....+.|.++++.+.+.|   |+...|. --.+.+...|++++|++.|++... +     -....+--+...+....+++
T Consensus       246 ~~~~~~a~~lL~~~~~~y---P~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~  322 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKRY---PNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWE  322 (468)
T ss_pred             CCCHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHH
Confidence            456778888888888654   6654443 334667778888888888887532 1     22344556667778888999


Q ss_pred             HHHHHHHHHhccCCCCchhH-HHHHHHHHhCCCh-------HHHHHHHHHHHh
Q 048179          464 IGEKVAKKVLKLNPDDLGIH-ALVSNFFAMEQKW-------EEVAGVRKTMRK  508 (589)
Q Consensus       464 ~a~~~~~~~~~~~p~~~~~~-~~l~~~~~~~g~~-------~~a~~~~~~m~~  508 (589)
                      +|.+.+.++.+...-+...| ...+-+|...|+.       ++|.+++++...
T Consensus       323 ~A~~~f~~L~~~s~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  323 EAAEYFLRLLKESKWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            99999999988766544444 3456667788888       888888887754

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.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.49  E-value=1.8  Score=38.94  Aligned_cols=195  Identities=19%  Similarity=0.112  Sum_probs=126.3

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHHhcCC-----CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048179          312 LVLGTSVIDMYSKCGVPSCARALFDQMQS-----RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLS  386 (589)
Q Consensus       312 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~  386 (589)
                      ..........+...+.+..+...+.....     .....+......+...+++..+...+.........+. ........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHH
Confidence            34445566666667777777666665432     3334555556666667777778877777766433331 12222222


Q ss_pred             -HHhcCCcHHHHHHHHHHHHHhcCC--CCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CCC--hhHHHHHHHHHHhcC
Q 048179          387 -ALSHSGLVEEGRYWFDLMVSKYKI--QPTEKHYACMVDLLARAGEVEEALKIVDSMST-EPG--LAVWVALLSGCHNHK  460 (589)
Q Consensus       387 -a~~~~g~~~~a~~~~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~--~~~~~~l~~~~~~~~  460 (589)
                       ++...|+++.+...++..... .-  ......+......+...++.++|...+.+... .++  ...+..+...+...+
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  216 (291)
T COG0457         138 GALYELGDYEEALELYEKALEL-DPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLG  216 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc-CCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcc
Confidence             677778888888888877431 11  11233344444456677888888888877633 233  566777777788888


Q ss_pred             CchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          461 KFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       461 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      +++.|...+.++.+..|.....+..++..+...|.++++...+.....
T Consensus       217 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         217 KYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             cHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            888888888888888887666677777777777778888888777665

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.45  E-value=0.51  Score=38.39  Aligned_cols=112  Identities=15%  Similarity=0.067  Sum_probs=53.8

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCH
Q 048179          353 YGIHGHGEEALSLFLQMIETMVK--PDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEV  430 (589)
Q Consensus       353 ~~~~g~~~~A~~~~~~m~~~~~~--p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  430 (589)
                      ..+.|++++|.+.|+.+...-..  -....-..++.++.+.+++++|...+++..+.+.-.|++ .|...+.++..-...
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~v-dYa~Y~~gL~~~~~~   98 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNV-DYAYYMRGLSYYEQD   98 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCc-cHHHHHHHHHHHHHh
Confidence            34556666666666665544111  112344455556666666666666666665543333332 233333333322222


Q ss_pred             HHHHHHHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCc
Q 048179          431 EEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDL  480 (589)
Q Consensus       431 ~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  480 (589)
                      +..+.-+-  ..             =+..+....|...|+++++.-|++.
T Consensus        99 ~~~~~~~~--~~-------------drD~~~~~~A~~~f~~lv~~yP~S~  133 (142)
T PF13512_consen   99 EGSLQSFF--RS-------------DRDPTPARQAFRDFEQLVRRYPNSE  133 (142)
T ss_pred             hhHHhhhc--cc-------------ccCcHHHHHHHHHHHHHHHHCcCCh
Confidence            21111111  00             1112235578888888988889765

>PRK11906 transcriptional regulator; Provisional

Probab=95.44  E-value=0.84  Score=44.89  Aligned_cols=143  Identities=9%  Similarity=0.075  Sum_probs=98.0

Q ss_pred             HHHHHHHHHHHHH-cCCCCCH-HHHHHHHHHHhc---------CCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHc
Q 048179          359 GEEALSLFLQMIE-TMVKPDH-STFASLLSALSH---------SGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARA  427 (589)
Q Consensus       359 ~~~A~~~~~~m~~-~~~~p~~-~t~~~ll~a~~~---------~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  427 (589)
                      .+.|+.+|.+... ....|+. ..|..+..++..         ..+..+|.+.-+...+  --+.|......+..++.-.
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAve--ld~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSD--ITTVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHhh
Confidence            4667778888772 2245553 344444333221         2345667777777775  2344567777788888888


Q ss_pred             CCHHHHHHHHHhcC-CCCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHH--HHHHHHhCCChHHHHHHH
Q 048179          428 GEVEEALKIVDSMS-TEPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHAL--VSNFFAMEQKWEEVAGVR  503 (589)
Q Consensus       428 g~~~~A~~~~~~~~-~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~--l~~~~~~~g~~~~a~~~~  503 (589)
                      |+++.|..+|++.. ..|| ..+|......+.-.|+.++|.+.++++++++|....+-..  ..+.|...+ .++|.+++
T Consensus       352 ~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~~-~~~~~~~~  430 (458)
T PRK11906        352 GQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPNP-LKNNIKLY  430 (458)
T ss_pred             cchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCCc-hhhhHHHH
Confidence            88999999999974 3565 5577777778889999999999999999999976554443  344566554 67777776


Q ss_pred             H
Q 048179          504 K  504 (589)
Q Consensus       504 ~  504 (589)
                      -
T Consensus       431 ~  431 (458)
T PRK11906        431 Y  431 (458)
T ss_pred             h
Confidence            4

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.42  E-value=5.3  Score=43.93  Aligned_cols=24  Identities=17%  Similarity=0.329  Sum_probs=11.4

Q ss_pred             HHHHHHHHHhcC--CHHHHHHHHhhc
Q 048179          215 QTSLVDMYAKTG--HLDLASHVFKNM  238 (589)
Q Consensus       215 ~~~l~~~~~~~g--~~~~A~~~~~~~  238 (589)
                      .-.++..|.+.+  .++.|.....++
T Consensus       793 ~~~ilTs~vk~~~~~ie~aL~kI~~l  818 (1265)
T KOG1920|consen  793 NLFILTSYVKSNPPEIEEALQKIKEL  818 (1265)
T ss_pred             hHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            334555555554  444444444443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.39  E-value=2  Score=38.71  Aligned_cols=192  Identities=17%  Similarity=0.119  Sum_probs=124.1

Q ss_pred             HHHHhccCchhhHHHHHHHHhh--cCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--CCh-hHHHHHHH-HHHhcCC
Q 048179          285 LLACAQIGFLKLGKSIHGYTVR--RFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS--RDL-ISWNVIIA-SYGIHGH  358 (589)
Q Consensus       285 l~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~-~~~~~li~-~~~~~g~  358 (589)
                      ...+...+....+...+.....  ........+......+...+....+...+.....  ++. ........ .+...|+
T Consensus        66 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  145 (291)
T COG0457          66 ALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGD  145 (291)
T ss_pred             HHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHHHHHcCC
Confidence            3333333444444333333331  2333344445555566666667777777776654  221 22333333 6788899


Q ss_pred             HHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHH
Q 048179          359 GEEALSLFLQMIETMV--KPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQP-TEKHYACMVDLLARAGEVEEALK  435 (589)
Q Consensus       359 ~~~A~~~~~~m~~~~~--~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~  435 (589)
                      ++.|...+.+......  ......+......+...++.+.+...+......  .+. ....+..+...+...+++++|..
T Consensus       146 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~a~~  223 (291)
T COG0457         146 YEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKL--NPDDDAEALLNLGLLYLKLGKYEEALE  223 (291)
T ss_pred             HHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh--CcccchHHHHHhhHHHHHcccHHHHHH
Confidence            9999999998855221  112334444445567788999999999998863  333 36778888889999999999999


Q ss_pred             HHHhcCC-CCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCC
Q 048179          436 IVDSMST-EPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPD  478 (589)
Q Consensus       436 ~~~~~~~-~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  478 (589)
                      .+..... .|+ ...+..+...+...++.+.+...+.+.++..|.
T Consensus       224 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         224 YYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             HHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            9988743 344 455666666666777899999999999999886

>PRK11619 lytic murein transglycosylase; Provisional

Probab=95.35  E-value=4.7  Score=42.82  Aligned_cols=113  Identities=11%  Similarity=0.137  Sum_probs=49.8

Q ss_pred             CCHHHHHHHHHHHHHcC-CCCCHH--HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHH
Q 048179          357 GHGEEALSLFLQMIETM-VKPDHS--TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEA  433 (589)
Q Consensus       357 g~~~~A~~~~~~m~~~~-~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  433 (589)
                      .+.+.|..++.+..... +.+...  ....+.......+...++...++.....   ..+......-+....+.++++.+
T Consensus       255 ~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~---~~~~~~~e~r~r~Al~~~dw~~~  331 (644)
T PRK11619        255 QDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMR---SQSTSLLERRVRMALGTGDRRGL  331 (644)
T ss_pred             hCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhcccc---cCCcHHHHHHHHHHHHccCHHHH
Confidence            44566666666553322 222221  2222222222222234444444443321   12333334444444566666666


Q ss_pred             HHHHHhcCCC-CChhHHHH-HHHHHHhcCCchHHHHHHHHH
Q 048179          434 LKIVDSMSTE-PGLAVWVA-LLSGCHNHKKFSIGEKVAKKV  472 (589)
Q Consensus       434 ~~~~~~~~~~-p~~~~~~~-l~~~~~~~~~~~~a~~~~~~~  472 (589)
                      ...+..|+.. .+..-|.- +..+....|+.++|...|+++
T Consensus       332 ~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~  372 (644)
T PRK11619        332 NTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQL  372 (644)
T ss_pred             HHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            6666666431 11122222 233444466666666666665

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.19  E-value=2  Score=39.48  Aligned_cols=154  Identities=14%  Similarity=0.121  Sum_probs=99.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCH
Q 048179          351 ASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEV  430 (589)
Q Consensus       351 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  430 (589)
                      ......|++.+|..+|+...... +-+...-..+..++...|+++.|..++..+-.. .-.........-+..+.+....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~-~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQ-AQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCccc-chhhHHHHHHHHHHHHHHHhcC
Confidence            34567788888888888887753 223455567778888888888888888876542 1111112223345666666666


Q ss_pred             HHHHHHHHhcCCCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccC--CCCchhHHHHHHHHHhCCChHHH-HHHHHHH
Q 048179          431 EEALKIVDSMSTEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLN--PDDLGIHALVSNFFAMEQKWEEV-AGVRKTM  506 (589)
Q Consensus       431 ~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~a-~~~~~~m  506 (589)
                      .+...+-.+....| |...-..+...+...|+.+.|.+.+-.+++.+  -++...-..+..++...|.-+.+ .+.+++|
T Consensus       220 ~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~~~~~RRkL  299 (304)
T COG3118         220 PEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPLVLAYRRKL  299 (304)
T ss_pred             CCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            66666666665566 55566667777888888888888877777554  34666677777777777744443 3344433

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=95.17  E-value=4.2  Score=41.25  Aligned_cols=121  Identities=9%  Similarity=0.053  Sum_probs=74.1

Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHH
Q 048179          378 HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSG  455 (589)
Q Consensus       378 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~  455 (589)
                      ..+|...+.--...|+.+...-.|+.+.-  .+.--...|--.++-....|+.+-|..++.....  .|+......+-.+
T Consensus       297 l~nw~~yLdf~i~~g~~~~~~~l~ercli--~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~  374 (577)
T KOG1258|consen  297 LKNWRYYLDFEITLGDFSRVFILFERCLI--PCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEAR  374 (577)
T ss_pred             HHHHHHHhhhhhhcccHHHHHHHHHHHHh--HHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHH
Confidence            34666666666777777777777777654  2222244555556666666777777776665422  2333322222222


Q ss_pred             -HHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHH
Q 048179          456 -CHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVA  500 (589)
Q Consensus       456 -~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  500 (589)
                       +-..||++.|..+++++.+--|.....-..-+.+..+.|+.+.+.
T Consensus       375 f~e~~~n~~~A~~~lq~i~~e~pg~v~~~l~~~~~e~r~~~~~~~~  420 (577)
T KOG1258|consen  375 FEESNGNFDDAKVILQRIESEYPGLVEVVLRKINWERRKGNLEDAN  420 (577)
T ss_pred             HHHhhccHHHHHHHHHHHHhhCCchhhhHHHHHhHHHHhcchhhhh
Confidence             455678888888888887555766655555666677777777776

>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=95.14  E-value=0.39  Score=48.07  Aligned_cols=134  Identities=15%  Similarity=0.182  Sum_probs=82.0

Q ss_pred             HHHHhcCCHHHHHHHHHH-HHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048179          351 ASYGIHGHGEEALSLFLQ-MIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGE  429 (589)
Q Consensus       351 ~~~~~~g~~~~A~~~~~~-m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  429 (589)
                      ......++++++.+..+. -.-..++  ..-...++.-+.+.|..+.|+++-..-..             -.++..++|+
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i~--~~~~~~i~~fL~~~G~~e~AL~~~~D~~~-------------rFeLAl~lg~  333 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNIP--KDQGQSIARFLEKKGYPELALQFVTDPDH-------------RFELALQLGN  333 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HHH-------------HHHHHHHCT-
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccCC--hhHHHHHHHHHHHCCCHHHHHhhcCChHH-------------HhHHHHhcCC
Confidence            344556777777666541 1111122  33466677777788888888777554332             2366778888


Q ss_pred             HHHHHHHHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          430 VEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       430 ~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      ++.|.++.++..   +...|..|......+|+++.|++++++.-.        +..|.-+|.-.|+.+.-.++.+....+
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            888888776644   677888888888888888888888887743        455667777777777766666666554


Q ss_pred             C
Q 048179          510 G  510 (589)
Q Consensus       510 g  510 (589)
                      |
T Consensus       403 ~  403 (443)
T PF04053_consen  403 G  403 (443)
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 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.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.13  E-value=1.6  Score=36.05  Aligned_cols=85  Identities=11%  Similarity=0.082  Sum_probs=39.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHc
Q 048179          348 VIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARA  427 (589)
Q Consensus       348 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  427 (589)
                      .++..+...+........++.+...+ ..+...++.++..+++.+ ......+++.       .++.......++.+.+.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~-------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN-------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh-------ccccCCHHHHHHHHHHc
Confidence            34444444555555566665555554 234445555555555432 2223333331       01222233345555555


Q ss_pred             CCHHHHHHHHHhcC
Q 048179          428 GEVEEALKIVDSMS  441 (589)
Q Consensus       428 g~~~~A~~~~~~~~  441 (589)
                      +.++++.-++.++.
T Consensus        83 ~l~~~~~~l~~k~~   96 (140)
T smart00299       83 KLYEEAVELYKKDG   96 (140)
T ss_pred             CcHHHHHHHHHhhc
Confidence            55555555555554

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=94.99  E-value=0.072  Score=41.81  Aligned_cols=56  Identities=9%  Similarity=-0.013  Sum_probs=52.3

Q ss_pred             HHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          453 LSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       453 ~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      .-+....|+.+.|++.|.+++.+-|.++++|+.-+..|.-+|+.++|++-+++..+
T Consensus        50 ~valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~Ale  105 (175)
T KOG4555|consen   50 AIALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALE  105 (175)
T ss_pred             HHHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHH
Confidence            34577889999999999999999999999999999999999999999999998876

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.83  E-value=0.42  Score=44.29  Aligned_cols=159  Identities=12%  Similarity=-0.023  Sum_probs=114.6

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHH----HHHHHHHHcCCH
Q 048179          355 IHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYA----CMVDLLARAGEV  430 (589)
Q Consensus       355 ~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~----~l~~~~~~~g~~  430 (589)
                      -+|+..+|-..++++.+. .+.|...+...=.+|...|+.+.-...++++..  ...|+...|.    .+.-++..+|-+
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip--~wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIP--KWNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhcc--ccCCCCcHHHHHHHHHHhhHHHhccc
Confidence            467888888889888876 466777777778889999999988888888875  3356654443    344556689999


Q ss_pred             HHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCC----chhHHHHHHHHHhCCChHHHHHHHH
Q 048179          431 EEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD----LGIHALVSNFFAMEQKWEEVAGVRK  504 (589)
Q Consensus       431 ~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~----~~~~~~l~~~~~~~g~~~~a~~~~~  504 (589)
                      ++|++.-++...  +.|.-+-.++.......|+..++.+...+--..-.+.    .-.|-..+..+...+.++.|+++|+
T Consensus       192 ~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  192 DDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            999999888743  3455556667777788899999988877764322211    2334456667778899999999998


Q ss_pred             HHHhCCCccCCc
Q 048179          505 TMRKSGMKKVPG  516 (589)
Q Consensus       505 ~m~~~g~~~~~~  516 (589)
                      +=.-....++.+
T Consensus       272 ~ei~k~l~k~Da  283 (491)
T KOG2610|consen  272 REIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHhhccch
Confidence            766555655555

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=94.77  E-value=1.4  Score=36.65  Aligned_cols=90  Identities=20%  Similarity=0.201  Sum_probs=62.4

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCCCh-hhHHHHHHHHHHcCCHHHHHHHHHhcCCC-CChhHHHHHHHHHHhcCCc
Q 048179          385 LSALSHSGLVEEGRYWFDLMVSKYKIQPTE-KHYACMVDLLARAGEVEEALKIVDSMSTE-PGLAVWVALLSGCHNHKKF  462 (589)
Q Consensus       385 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-p~~~~~~~l~~~~~~~~~~  462 (589)
                      +..-...++.+++..++..+.   -+.|.. ..-..-...+.+.|+|.+|+.+|+++... |....-..|+..|.....-
T Consensus        17 ~~~al~~~~~~D~e~lL~ALr---vLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D   93 (160)
T PF09613_consen   17 LSVALRLGDPDDAEALLDALR---VLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGD   93 (160)
T ss_pred             HHHHHccCChHHHHHHHHHHH---HhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCC
Confidence            344456778999999998887   445663 23333456678899999999999998654 5566667777777666555


Q ss_pred             hHHHHHHHHHhccCC
Q 048179          463 SIGEKVAKKVLKLNP  477 (589)
Q Consensus       463 ~~a~~~~~~~~~~~p  477 (589)
                      ..=.....++++-.|
T Consensus        94 ~~Wr~~A~evle~~~  108 (160)
T PF09613_consen   94 PSWRRYADEVLESGA  108 (160)
T ss_pred             hHHHHHHHHHHhcCC
Confidence            555666677777665

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=94.71  E-value=3.8  Score=38.50  Aligned_cols=17  Identities=6%  Similarity=-0.060  Sum_probs=10.1

Q ss_pred             HHhcCCchHHHHHHHHH
Q 048179          456 CHNHKKFSIGEKVAKKV  472 (589)
Q Consensus       456 ~~~~~~~~~a~~~~~~~  472 (589)
                      +.+.++++.|.+.++-+
T Consensus       256 ~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  256 HYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHhhcCHHHHHHHHHHH
Confidence            45556666666666543

It is also involved in sporulation [].

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.70  E-value=6.4  Score=41.05  Aligned_cols=113  Identities=13%  Similarity=0.093  Sum_probs=86.8

Q ss_pred             CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHHHHHH
Q 048179          377 DHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGC  456 (589)
Q Consensus       377 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~  456 (589)
                      ...+.+--+.-+...|...+|.++-.+.+     -||...|-.-+.+++..++|++-+++-+++..   +.-|.-...+|
T Consensus       683 ~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfAkskks---PIGy~PFVe~c  754 (829)
T KOG2280|consen  683 VDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFAKSKKS---PIGYLPFVEAC  754 (829)
T ss_pred             ccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHHhccCC---CCCchhHHHHH
Confidence            33455555667778888899888766553     37888888888999999999998888877653   56677788899


Q ss_pred             HhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHH
Q 048179          457 HNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKT  505 (589)
Q Consensus       457 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  505 (589)
                      .+.|+.++|.+.+-+.-.+.        ....+|.+.|++.+|.++--+
T Consensus       755 ~~~~n~~EA~KYiprv~~l~--------ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  755 LKQGNKDEAKKYIPRVGGLQ--------EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HhcccHHHHhhhhhccCChH--------HHHHHHHHhccHHHHHHHHHH
Confidence            99999999998877663322        567889999999999886543

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=94.67  E-value=4.4  Score=39.31  Aligned_cols=161  Identities=12%  Similarity=0.036  Sum_probs=103.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHHhc---CCcHHHHHHHHHHHHHhcCCCCChhhHHHHH
Q 048179          348 VIIASYGIHGHGEEALSLFLQMIETM---VKPDHSTFASLLSALSH---SGLVEEGRYWFDLMVSKYKIQPTEKHYACMV  421 (589)
Q Consensus       348 ~li~~~~~~g~~~~A~~~~~~m~~~~---~~p~~~t~~~ll~a~~~---~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  421 (589)
                      .++-+|....+++..+++.+.|....   +.-....-....-|+.+   .|+.++|++++..+... .-.+++++|..++
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~-~~~~~~d~~gL~G  224 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLES-DENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhc-cCCCChHHHHHHH
Confidence            44556888999999999999988641   11112222233445566   89999999999995554 6667888998888


Q ss_pred             HHHHH---------cCCHHHHHHHHHhc-CCCCChhHHHHHHHHHHhcCCc-h---HHHHHH---HHHh-cc---C-CCC
Q 048179          422 DLLAR---------AGEVEEALKIVDSM-STEPGLAVWVALLSGCHNHKKF-S---IGEKVA---KKVL-KL---N-PDD  479 (589)
Q Consensus       422 ~~~~~---------~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~-~---~a~~~~---~~~~-~~---~-p~~  479 (589)
                      ..|-+         ...+++|...|.+. ..+||..+--.+.......|.. +   +..++.   ..++ +.   + -.+
T Consensus       225 RIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~d  304 (374)
T PF13281_consen  225 RIYKDLFLESNFTDRESLDKAIEWYRKGFEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQD  304 (374)
T ss_pred             HHHHHHHHHcCccchHHHHHHHHHHHHHHcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccccc
Confidence            77642         23588899999886 4456654433333333333322 1   222222   1111 11   1 234


Q ss_pred             chhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          480 LGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       480 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      ...+..+..+..-.|+.++|.+..++|...
T Consensus       305 YWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  305 YWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            556667888899999999999999999864

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.55  E-value=0.082  Score=31.53  Aligned_cols=26  Identities=4%  Similarity=0.066  Sum_probs=21.4

Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHH
Q 048179          482 IHALVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       482 ~~~~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      +|..|+.+|.+.|+|++|.+++++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46789999999999999999998854

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.55  E-value=0.38  Score=43.42  Aligned_cols=110  Identities=16%  Similarity=0.155  Sum_probs=82.9

Q ss_pred             HHHHHHHhcC--CCChhHHHHHHHHHHhc-----CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC----------
Q 048179          330 CARALFDQMQ--SRDLISWNVIIASYGIH-----GHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSG----------  392 (589)
Q Consensus       330 ~A~~~~~~~~--~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g----------  392 (589)
                      ..+..|..+.  ++|-.+|-+++..+..+     +.++=....++.|.+.|+.-|..+|..||+.+-+..          
T Consensus        52 ~~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~  131 (406)
T KOG3941|consen   52 HVEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKV  131 (406)
T ss_pred             chhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHH
Confidence            3455666666  57888888888877653     456666677899999999999999999998876532          


Q ss_pred             ------cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHH-HHHHHHHhc
Q 048179          393 ------LVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVE-EALKIVDSM  440 (589)
Q Consensus       393 ------~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~-~A~~~~~~~  440 (589)
                            .-+-++.++++|... |+.||.++-..|+.++++.+-.- +..++.--|
T Consensus       132 F~HYP~QQ~C~I~vLeqME~h-GVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  132 FLHYPQQQNCAIKVLEQMEWH-GVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             HhhCchhhhHHHHHHHHHHHc-CCCCchHHHHHHHHHhccccccHHHHHHHHHhh
Confidence                  234578899999875 99999999999999999988643 333333333

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=94.47  E-value=4.5  Score=38.27  Aligned_cols=20  Identities=10%  Similarity=0.282  Sum_probs=13.6

Q ss_pred             hhHHHHHHHHHhCCChHHHH
Q 048179          481 GIHALVSNFFAMEQKWEEVA  500 (589)
Q Consensus       481 ~~~~~l~~~~~~~g~~~~a~  500 (589)
                      ..+..++.+|...|.-++-.
T Consensus       332 K~hcrla~iYrs~gl~d~~~  351 (518)
T KOG1941|consen  332 KLHCRLASIYRSKGLQDELR  351 (518)
T ss_pred             HHHHHHHHHHHhccchhHHH
Confidence            35667888888877666543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.44  E-value=3  Score=41.33  Aligned_cols=102  Identities=11%  Similarity=0.091  Sum_probs=70.0

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChh--HHHHHHH
Q 048179          379 STFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLA--VWVALLS  454 (589)
Q Consensus       379 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~--~~~~l~~  454 (589)
                      .+-..+..++-+.|..++|.+.|+++.+.+....+......|+..+...+.+.++..++.+-..  -|...  .|+..+-
T Consensus       260 y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALL  339 (539)
T PF04184_consen  260 YAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALL  339 (539)
T ss_pred             hhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHH
Confidence            3334566777788999999999999987543323355667799999999999999999988743  24433  4555443


Q ss_pred             HHHhcCCc---------------hHHHHHHHHHhccCCCCc
Q 048179          455 GCHNHKKF---------------SIGEKVAKKVLKLNPDDL  480 (589)
Q Consensus       455 ~~~~~~~~---------------~~a~~~~~~~~~~~p~~~  480 (589)
                      -.+..+|.               ..|.+++.++.+.+|.-+
T Consensus       340 kaRav~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHVp  380 (539)
T PF04184_consen  340 KARAVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHVP  380 (539)
T ss_pred             HHHhhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCCc
Confidence            34433331               235678888888887544

The molecular function of this protein is uncertain.

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.40  E-value=0.88  Score=45.60  Aligned_cols=156  Identities=12%  Similarity=0.120  Sum_probs=95.2

Q ss_pred             HHHcCCCchhHHHHHH--HHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCCh
Q 048179           50 AYSRKESPFEVLGLYN--QMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKM  127 (589)
Q Consensus        50 ~~~~~g~~~~a~~~~~--~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~  127 (589)
                      ...-+++++++.+..+  .+.. .+  +..-.+.+++-+-+.|..+.|+++...-            ..-.+...++|++
T Consensus       270 ~av~~~d~~~v~~~i~~~~ll~-~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~------------~~rFeLAl~lg~L  334 (443)
T PF04053_consen  270 TAVLRGDFEEVLRMIAASNLLP-NI--PKDQGQSIARFLEKKGYPELALQFVTDP------------DHRFELALQLGNL  334 (443)
T ss_dssp             HHHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS-H------------HHHHHHHHHCT-H
T ss_pred             HHHHcCChhhhhhhhhhhhhcc-cC--ChhHHHHHHHHHHHCCCHHHHHhhcCCh------------HHHhHHHHhcCCH
Confidence            3455678888766664  2221 11  2344667777777888888887765432            2345566778999


Q ss_pred             HHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhc
Q 048179          128 NEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRH  207 (589)
Q Consensus       128 ~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~  207 (589)
                      +.|.++-++..  +...|..|.....++|+++-|.+.|.+..+         |..++-.+...|+.+.-.++.......|
T Consensus       335 ~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~  403 (443)
T PF04053_consen  335 DIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERG  403 (443)
T ss_dssp             HHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            98888766665  556899999999999999999888887643         5566666777788777777776666555


Q ss_pred             CCCchHHHHHHHHHHHhcCCHHHHHHHHhh
Q 048179          208 LNLDVKVQTSLVDMYAKTGHLDLASHVFKN  237 (589)
Q Consensus       208 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  237 (589)
                      .      +|....++.-.|+.++..+++.+
T Consensus       404 ~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  404 D------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             -------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             C------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            2      34444445556777776666554

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.

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=94.30  E-value=0.059  Score=31.55  Aligned_cols=31  Identities=23%  Similarity=0.260  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHhccCCC
Q 048179          448 VWVALLSGCHNHKKFSIGEKVAKKVLKLNPD  478 (589)
Q Consensus       448 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  478 (589)
                      +|..+...+...|++++|...++++++++|+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~   33 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNPD   33 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            4566666777777777777777777777764

...

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.25  E-value=2.6  Score=34.69  Aligned_cols=84  Identities=13%  Similarity=0.095  Sum_probs=36.9

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccH
Q 048179           81 VALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPRE  160 (589)
Q Consensus        81 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  160 (589)
                      .++..+...+.......+++.+.+.+ ..+...++.++..|++.++ ++..+.++.  ..+......+++.|.+.+.+++
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~~-~~ll~~l~~--~~~~yd~~~~~~~c~~~~l~~~   87 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYDP-QKEIERLDN--KSNHYDIEKVGKLCEKAKLYEE   87 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHCH-HHHHHHHHh--ccccCCHHHHHHHHHHcCcHHH
Confidence            34444444445555555555555444 2344455555555554322 222233321  1222333334444444444444


Q ss_pred             HHHHHHHH
Q 048179          161 AVDAYKRM  168 (589)
Q Consensus       161 A~~~~~~m  168 (589)
                      +.-++.++
T Consensus        88 ~~~l~~k~   95 (140)
T smart00299       88 AVELYKKD   95 (140)
T ss_pred             HHHHHHhh
Confidence            44444443

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=94.19  E-value=16  Score=43.64  Aligned_cols=280  Identities=10%  Similarity=-0.012  Sum_probs=139.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhh-cCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccC
Q 048179          214 VQTSLVDMYAKTGHLDLASHVFKN-MSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIG  292 (589)
Q Consensus       214 ~~~~l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~  292 (589)
                      .+..+...|+.-+++|...-+... ...++   ...-|......|++..|...|+.+.+.+ ++...+++.++......+
T Consensus      1422 l~fllq~lY~~i~dpDgV~Gv~~~r~a~~s---l~~qil~~e~~g~~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~ 1497 (2382)
T KOG0890|consen 1422 LYFLLQNLYGSIHDPDGVEGVSARRFADPS---LYQQILEHEASGNWADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQ 1497 (2382)
T ss_pred             HHHHHHHHHHhcCCcchhhhHHHHhhcCcc---HHHHHHHHHhhccHHHHHHHHHHhhcCC-CccccchhhHHHhhhccc
Confidence            334444466666666665555442 22221   2223334456677777777777777653 233555665665555555


Q ss_pred             chhhHHHHHHHHhhcCCCChhHHHHH-HHHhHhcCCHHHHHHHHHhcCCCChhHHHHH-H-HHHHhcCC--HHHHHHHHH
Q 048179          293 FLKLGKSIHGYTVRRFDFNLVLGTSV-IDMYSKCGVPSCARALFDQMQSRDLISWNVI-I-ASYGIHGH--GEEALSLFL  367 (589)
Q Consensus       293 ~~~~a~~~~~~~~~~~~~~~~~~~~l-~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l-i-~~~~~~g~--~~~A~~~~~  367 (589)
                      .++......+......++...-++++ +.+--+.++++.......   +.+..+|... + ....+..+  .-.-.+..+
T Consensus      1498 ~l~t~i~~~dg~~~~~se~~~~~~s~~~eaaW~l~qwD~~e~~l~---~~n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~ 1574 (2382)
T KOG0890|consen 1498 HLSTEILHLDGLIINRSEEVDELNSLGVEAAWRLSQWDLLESYLS---DRNIEYWSVESIGKLLLRNKKKDEIATLDLIE 1574 (2382)
T ss_pred             chhHHHhhhcchhhccCHHHHHHHHHHHHHHhhhcchhhhhhhhh---cccccchhHHHHHHHHHhhcccchhhHHHHHH
Confidence            55555544433332222222222222 333345566666655554   4555566554 2 22222221  111112333


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHH----------HHhcCCCCCh------hhHHHHHHHHHHcCCHH
Q 048179          368 QMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLM----------VSKYKIQPTE------KHYACMVDLLARAGEVE  431 (589)
Q Consensus       368 ~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~----------~~~~~~~p~~------~~~~~l~~~~~~~g~~~  431 (589)
                      .+++.-+.|        +.+|+..|.+..+.++.-.+          ....++.++.      ..|..-+..-....+..
T Consensus      1575 ~~r~~~i~~--------lsa~s~~~Sy~~~Y~~~~kLH~l~el~~~~~~l~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~ 1646 (2382)
T KOG0890|consen 1575 NSRELVIEN--------LSACSIEGSYVRSYEILMKLHLLLELENSIEELKKVSYDEDSANNSDNWKNRLERTQPSFRIK 1646 (2382)
T ss_pred             HHHHHhhhh--------HHHhhccchHHHHHHHHHHHHHHHHHHHHHHHhhccCccccccccchhHHHHHHHhchhHHHH
Confidence            333221111        22233322222222111111          1111233332      22222222111111122


Q ss_pred             HHHHHHHhc----CCCC-----ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHH
Q 048179          432 EALKIVDSM----STEP-----GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGV  502 (589)
Q Consensus       432 ~A~~~~~~~----~~~p-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  502 (589)
                      +-+--+++.    ..+|     -..+|-.....++..|.++.|....-++.+..  -+.++...+..+...|+-..|+.+
T Consensus      1647 epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~nall~A~e~r--~~~i~~E~AK~lW~~gd~~~Al~~ 1724 (2382)
T KOG0890|consen 1647 EPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQNALLNAKESR--LPEIVLERAKLLWQTGDELNALSV 1724 (2382)
T ss_pred             hHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHHHHHhhhhcc--cchHHHHHHHHHHhhccHHHHHHH
Confidence            222112221    1122     35689999999999999999999998888877  456788899999999999999999


Q ss_pred             HHHHHhCC
Q 048179          503 RKTMRKSG  510 (589)
Q Consensus       503 ~~~m~~~g  510 (589)
                      +++-.+..
T Consensus      1725 Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1725 LQEILSKN 1732 (2382)
T ss_pred             HHHHHHhh
Confidence            99887543

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=94.12  E-value=4.3  Score=36.67  Aligned_cols=169  Identities=17%  Similarity=0.124  Sum_probs=101.9

Q ss_pred             HHhHhcCCHHHHHHHHHhcCCCC------hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHh---
Q 048179          320 DMYSKCGVPSCARALFDQMQSRD------LISWNVIIASYGIHGHGEEALSLFLQMIETMV-KPDHSTFASLLSALS---  389 (589)
Q Consensus       320 ~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~~~t~~~ll~a~~---  389 (589)
                      ..-.+.|++++|.+.|+.+....      ..+--.++-++.+.+++++|+..+++....-. .|| .-|...|.+.+   
T Consensus        42 ~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n-~dY~~YlkgLs~~~  120 (254)
T COG4105          42 LTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPN-ADYAYYLKGLSYFF  120 (254)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCC-hhHHHHHHHHHHhc
Confidence            34457899999999999997632      23444556778899999999999999887633 333 33444444433   


Q ss_pred             cC----CcH---HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCChhHH--HHHHHHHHhcC
Q 048179          390 HS----GLV---EEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVW--VALLSGCHNHK  460 (589)
Q Consensus       390 ~~----g~~---~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~--~~l~~~~~~~~  460 (589)
                      ..    .+.   ..|..-|+....+|   ||..--             .+|..-+..+.   |....  ..+..-|.+.|
T Consensus       121 ~i~~~~rDq~~~~~A~~~f~~~i~ry---PnS~Ya-------------~dA~~~i~~~~---d~LA~~Em~IaryY~kr~  181 (254)
T COG4105         121 QIDDVTRDQSAARAAFAAFKELVQRY---PNSRYA-------------PDAKARIVKLN---DALAGHEMAIARYYLKRG  181 (254)
T ss_pred             cCCccccCHHHHHHHHHHHHHHHHHC---CCCcch-------------hhHHHHHHHHH---HHHHHHHHHHHHHHHHhc
Confidence            21    222   34444555555443   442210             11111111100   11111  12345578888


Q ss_pred             CchHHHHHHHHHhccCCCCc---hhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          461 KFSIGEKVAKKVLKLNPDDL---GIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       461 ~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      .+.-|..-++++++--|+.+   ..+..+..+|.+.|..++|.+.-+-+..
T Consensus       182 ~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         182 AYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             ChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            88888888888887766544   4556667778889988888887766543

>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=94.11  E-value=0.87  Score=36.58  Aligned_cols=96  Identities=21%  Similarity=0.082  Sum_probs=66.7

Q ss_pred             CHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHh--cCCCChhHHHHHHHHHH
Q 048179          277 DSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQ--MQSRDLISWNVIIASYG  354 (589)
Q Consensus       277 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~--~~~~~~~~~~~li~~~~  354 (589)
                      |..++..++.++++.|+++....+.+..- |+..+...         ..+.       +..  -..|+..+..+++.+|+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W-gI~~~~~~---------~~~~-------~~~~spl~Pt~~lL~AIv~sf~   63 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW-GIDVNGKK---------KEGD-------YPPSSPLYPTSRLLIAIVHSFG   63 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc-CCCCCCcc---------ccCc-------cCCCCCCCCCHHHHHHHHHHHH
Confidence            56788999999999999999988886543 22211100         0000       111  11378888899999999


Q ss_pred             hcCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHh
Q 048179          355 IHGHGEEALSLFLQMIET-MVKPDHSTFASLLSALS  389 (589)
Q Consensus       355 ~~g~~~~A~~~~~~m~~~-~~~p~~~t~~~ll~a~~  389 (589)
                      .+|++..|+++.+...+. +++.+..++..|+.-+.
T Consensus        64 ~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   64 YNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             hcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            999999999998887753 66666778888876544

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.10  E-value=3.7  Score=35.86  Aligned_cols=178  Identities=13%  Similarity=0.051  Sum_probs=91.5

Q ss_pred             cCCHHHHHHHHHhcC--CCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHH
Q 048179          325 CGVPSCARALFDQMQ--SRD-LISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWF  401 (589)
Q Consensus       325 ~g~~~~A~~~~~~~~--~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~  401 (589)
                      .|-.+-|+--|.+..  .|+ +..||-+.--+...|+++.|.+.|+...+....- ..++..-.-++.-.|++.-|.+-|
T Consensus        78 lGL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y-~Ya~lNRgi~~YY~gR~~LAq~d~  156 (297)
T COG4785          78 LGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTY-NYAHLNRGIALYYGGRYKLAQDDL  156 (297)
T ss_pred             hhHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcc-hHHHhccceeeeecCchHhhHHHH
Confidence            344444444444433  233 3456666666667777777777777766653222 222222222344457777776655


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCC--
Q 048179          402 DLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD--  479 (589)
Q Consensus       402 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~--  479 (589)
                      -..-+...-.|-...|--+   -.+.-++.+|..-+.+--...|..-|...+-.+.- |+.. -+.+++++.+-..++  
T Consensus       157 ~~fYQ~D~~DPfR~LWLYl---~E~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~a~~n~~  231 (297)
T COG4785         157 LAFYQDDPNDPFRSLWLYL---NEQKLDPKQAKTNLKQRAEKSDKEQWGWNIVEFYL-GKIS-EETLMERLKADATDNTS  231 (297)
T ss_pred             HHHHhcCCCChHHHHHHHH---HHhhCCHHHHHHHHHHHHHhccHhhhhHHHHHHHH-hhcc-HHHHHHHHHhhccchHH
Confidence            5544321222222222222   22334555555433332223344556555544322 2211 123344444332232  


Q ss_pred             -----chhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          480 -----LGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       480 -----~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                           ..+|.-|+.-|...|+.++|..+|+....
T Consensus       232 ~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaia  265 (297)
T COG4785         232 LAEHLTETYFYLGKYYLSLGDLDEATALFKLAVA  265 (297)
T ss_pred             HHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence                 35788899999999999999999998775

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=93.90  E-value=3.5  Score=42.01  Aligned_cols=112  Identities=15%  Similarity=0.077  Sum_probs=57.7

Q ss_pred             chhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCC-------ChhHHHHHHHHHHhcCCHHHHHHH
Q 048179          293 FLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSR-------DLISWNVIIASYGIHGHGEEALSL  365 (589)
Q Consensus       293 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~~g~~~~A~~~  365 (589)
                      ..+.+.+++..+....|.+....-.-.+.+...|++++|.+.|++....       ....+--+.-.+.-..++++|.+.
T Consensus       248 ~~~~a~~lL~~~~~~yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~  327 (468)
T PF10300_consen  248 PLEEAEELLEEMLKRYPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEY  327 (468)
T ss_pred             CHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHH
Confidence            3344444444444444444444444455666677777777777754421       111222233445566777777777


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHH-hcCCcH-------HHHHHHHHHHH
Q 048179          366 FLQMIETMVKPDHSTFASLLSAL-SHSGLV-------EEGRYWFDLMV  405 (589)
Q Consensus       366 ~~~m~~~~~~p~~~t~~~ll~a~-~~~g~~-------~~a~~~~~~~~  405 (589)
                      |.++.+.. .-...+|..+..+| ...|+.       ++|.++|.+..
T Consensus       328 f~~L~~~s-~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  328 FLRLLKES-KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHhcc-ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            77777643 22233343333332 344555       55666665543

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.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=93.86  E-value=0.15  Score=47.23  Aligned_cols=111  Identities=11%  Similarity=0.058  Sum_probs=79.3

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCC
Q 048179          385 LSALSHSGLVEEGRYWFDLMVSKYKIQP-TEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKK  461 (589)
Q Consensus       385 l~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~  461 (589)
                      ..-|.++|.+++|+..|.....   +.| +...+..-..+|.+..++..|..-.+....  +.-...|..-+.+-...|+
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia---~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~  180 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIA---VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGN  180 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhc---cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhh
Confidence            5668899999999999998774   445 777888888899999999988877766532  1123345555566667789


Q ss_pred             chHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHH
Q 048179          462 FSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGV  502 (589)
Q Consensus       462 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  502 (589)
                      ..+|.+-++.+++++|++...    -..|.+..-..|+.-+
T Consensus       181 ~~EAKkD~E~vL~LEP~~~EL----kK~~a~i~Sl~E~~I~  217 (536)
T KOG4648|consen  181 NMEAKKDCETVLALEPKNIEL----KKSLARINSLRERKIA  217 (536)
T ss_pred             HHHHHHhHHHHHhhCcccHHH----HHHHHHhcchHhhhHH
Confidence            999999999999999986543    3344444444444433

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.81  E-value=1.8  Score=42.83  Aligned_cols=59  Identities=15%  Similarity=0.144  Sum_probs=35.1

Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHhccCCC--CchhHHHHHHHHHhCCChHHHHHHHHHH
Q 048179          448 VWVALLSGCHNHKKFSIGEKVAKKVLKLNPD--DLGIHALVSNFFAMEQKWEEVAGVRKTM  506 (589)
Q Consensus       448 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m  506 (589)
                      +-..|..++++.|+.++|++.++.+++..|.  +-.++..|...+...+.+.++..++.+-
T Consensus       261 ~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kY  321 (539)
T PF04184_consen  261 AKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKY  321 (539)
T ss_pred             hHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence            3344555566666666666666666655543  3445566666666666666666666554

The molecular function of this protein is uncertain.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=93.73  E-value=0.44  Score=43.03  Aligned_cols=98  Identities=16%  Similarity=0.180  Sum_probs=69.8

Q ss_pred             HHHHHHhcC--CCCcchHHHHHHHHHhC-----CCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccC-----------
Q 048179          130 AMVAFEKMQ--RKDLVCWSSMINGLVFN-----GQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLG-----------  191 (589)
Q Consensus       130 A~~~~~~~~--~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~-----------  191 (589)
                      .+..|....  ++|-.+|-+.+..|...     +..+-.-..++.|.+.|+.-|..+|+.||..+-+..           
T Consensus        53 ~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F  132 (406)
T KOG3941|consen   53 VEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVF  132 (406)
T ss_pred             hhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHH
Confidence            455666665  56777777777777543     455666667788888899999999998888765432           


Q ss_pred             -----CcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCC
Q 048179          192 -----DSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGH  227 (589)
Q Consensus       192 -----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  227 (589)
                           +-+-+..++++|...|+-||..+-..|++++.+.+-
T Consensus       133 ~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                 234566777777778887887777777777776654

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.63  E-value=0.091  Score=31.31  Aligned_cols=28  Identities=11%  Similarity=0.032  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHhcc
Q 048179          448 VWVALLSGCHNHKKFSIGEKVAKKVLKL  475 (589)
Q Consensus       448 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  475 (589)
                      +|..|...|...|++++|++++++++.+
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l   28 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALAL   28 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4677888888888888888888886543

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.63  E-value=2.6  Score=39.34  Aligned_cols=155  Identities=12%  Similarity=0.089  Sum_probs=107.9

Q ss_pred             hcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHH----HHHHHHhcCCcHHH
Q 048179          324 KCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFA----SLLSALSHSGLVEE  396 (589)
Q Consensus       324 ~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~----~ll~a~~~~g~~~~  396 (589)
                      -.|+..+|-..++++.+   .|..+|+--=.+|...|+.+.-...+++.... ..||...|.    .+.-++...|-+++
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            45777777777777765   47788888888999999999999999888764 345543333    23344568899999


Q ss_pred             HHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCC-------hhHHHHHHHHHHhcCCchHHHHHH
Q 048179          397 GRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPG-------LAVWVALLSGCHNHKKFSIGEKVA  469 (589)
Q Consensus       397 a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~-------~~~~~~l~~~~~~~~~~~~a~~~~  469 (589)
                      |.+.-++..+-  -+-|...-.++...+.-.|+..++.++..+-...-+       .--|.. .-.+...+.++.|+++|
T Consensus       194 AEk~A~ralqi--N~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~-Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  194 AEKQADRALQI--NRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHT-ALFHIEGAEYEKALEIY  270 (491)
T ss_pred             HHHHHHhhccC--CCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHH-HHhhhcccchhHHHHHH
Confidence            99998887742  123355556778888999999999999988653211       111222 22244558999999999


Q ss_pred             HHHh--ccCCCCchh
Q 048179          470 KKVL--KLNPDDLGI  482 (589)
Q Consensus       470 ~~~~--~~~p~~~~~  482 (589)
                      .+-+  +++.+++.+
T Consensus       271 D~ei~k~l~k~Da~a  285 (491)
T KOG2610|consen  271 DREIWKRLEKDDAVA  285 (491)
T ss_pred             HHHHHHHhhccchhh
Confidence            7655  566767643

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.47  E-value=12  Score=39.70  Aligned_cols=53  Identities=13%  Similarity=0.273  Sum_probs=37.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHHHh
Q 048179          420 MVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVL  473 (589)
Q Consensus       420 l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  473 (589)
                      ++..+....+.+++..+.+..... ++..|..++..+.+.+..+...+...+++
T Consensus       711 l~~~~~q~~d~E~~it~~~~~g~~-~p~l~~~~L~yF~~~~~i~~~~~~v~~vl  763 (933)
T KOG2114|consen  711 LMLYFQQISDPETVITLCERLGKE-DPSLWLHALKYFVSEESIEDCYEIVYKVL  763 (933)
T ss_pred             HHHHHHHhhChHHHHHHHHHhCcc-ChHHHHHHHHHHhhhcchhhHHHHHHHHH
Confidence            455666777788888887777644 67788888888888877666666555554

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=93.42  E-value=3.1  Score=35.15  Aligned_cols=134  Identities=13%  Similarity=0.119  Sum_probs=85.2

Q ss_pred             HHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCC--ChHHHHHHHHhcC
Q 048179           61 LGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCG--KMNEAMVAFEKMQ  138 (589)
Q Consensus        61 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~~~  138 (589)
                      ++.++.+.+.+++|+...+..++..+.+.|.+....+    ++..++-+|.......+-.+....  -..-|.+.+.++.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~q----llq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQ----LLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH----HHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            4556667778899999999999999999988765544    444555555544443332222211  1233445555543


Q ss_pred             CCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHh
Q 048179          139 RKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRR  206 (589)
Q Consensus       139 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~  206 (589)
                          ..+..++..+...|++-+|+++.+.....    +...-..++.+..+.+|...-..++.....+
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                35677888889999999999998775332    2233355677777777766666666655554

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.38  E-value=13  Score=39.60  Aligned_cols=116  Identities=17%  Similarity=0.080  Sum_probs=63.2

Q ss_pred             HHHHhhhcCCChHHHHHHhccCCCCCcccHHHHHH----HHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccC
Q 048179           15 RIIALYGGKNDIVSARKLFEELPLRGVDTYNSIII----AYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLM   90 (589)
Q Consensus        15 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~----~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~   90 (589)
                      .-+.+..+..-++.|..+-..-. .|...-..+.+    -+.+.|++++|...|-+-... +.|     ..+++-+....
T Consensus       339 ~kL~iL~kK~ly~~Ai~LAk~~~-~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLdaq  411 (933)
T KOG2114|consen  339 TKLDILFKKNLYKVAINLAKSQH-LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDAQ  411 (933)
T ss_pred             HHHHHHHHhhhHHHHHHHHHhcC-CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCHH
Confidence            34555666666777777665533 22222222222    344667777777766554322 122     23444555555


Q ss_pred             CHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcC
Q 048179           91 DLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQ  138 (589)
Q Consensus        91 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  138 (589)
                      +...-..+++.+.+.|+. +...-+.|+.+|.+.++.+.-.+..+...
T Consensus       412 ~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~  458 (933)
T KOG2114|consen  412 RIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD  458 (933)
T ss_pred             HHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC
Confidence            566666666666666654 34444566677776666665555554444

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=93.34  E-value=0.18  Score=31.67  Aligned_cols=32  Identities=3%  Similarity=-0.097  Sum_probs=27.9

Q ss_pred             chhHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048179          480 LGIHALVSNFFAMEQKWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       480 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  511 (589)
                      |..+..++.+|.+.|++++|.++++++.+..+
T Consensus         1 p~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P   32 (44)
T PF13428_consen    1 PAAWLALARAYRRLGQPDEAERLLRRALALDP   32 (44)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            35788999999999999999999999987443

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=93.01  E-value=0.7  Score=38.40  Aligned_cols=50  Identities=8%  Similarity=0.158  Sum_probs=23.5

Q ss_pred             hcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHH
Q 048179          458 NHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       458 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      ..++.+.++.++..+.-+.|..+..-..-++++...|+|.+|..+++.+.
T Consensus        22 ~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~   71 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELE   71 (160)
T ss_pred             ccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHh
Confidence            33444444444444444444444444444444444444444444444443

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=92.96  E-value=18  Score=40.18  Aligned_cols=113  Identities=15%  Similarity=0.082  Sum_probs=57.7

Q ss_pred             HHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHH
Q 048179          320 DMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRY  399 (589)
Q Consensus       320 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~  399 (589)
                      +.--+.|.+++|..++..-.+.-...|.+...-+...+.+++|.-.|+..=+         ..-.+.++..+|+|.+|..
T Consensus       916 n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~  986 (1265)
T KOG1920|consen  916 NYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALS  986 (1265)
T ss_pred             HHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHH
Confidence            3334455555555554322222223344444444555666666655543211         1234556667777777777


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCC
Q 048179          400 WFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTE  443 (589)
Q Consensus       400 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  443 (589)
                      +..++..  +-.--..+-..|+..+...++.-+|-++..+....
T Consensus       987 ~a~ql~~--~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd 1028 (1265)
T KOG1920|consen  987 LAAQLSE--GKDELVILAEELVSRLVEQRKHYEAAKILLEYLSD 1028 (1265)
T ss_pred             HHHhhcC--CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC
Confidence            7665542  11111222345666677777777777776665443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=92.87  E-value=8.1  Score=37.75  Aligned_cols=68  Identities=12%  Similarity=0.173  Sum_probs=56.7

Q ss_pred             CChhHHHHHHHHHHhcCCchHHHHHHHHHhccCC----CCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048179          444 PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNP----DDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       444 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p----~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  511 (589)
                      ....+|..+...+++.|+++.|...+.++....+    ..+......+......|+.++|...++...+..+
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~  215 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRL  215 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHh
Confidence            4566899999999999999999999999998652    2466777789999999999999999988876333

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.83  E-value=0.21  Score=29.06  Aligned_cols=29  Identities=7%  Similarity=-0.022  Sum_probs=25.2

Q ss_pred             hhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          481 GIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       481 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      ..+..++.+|...|++++|++.+++..+.
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            56889999999999999999999998764

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 ....

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=92.68  E-value=0.57  Score=38.16  Aligned_cols=53  Identities=9%  Similarity=0.115  Sum_probs=37.1

Q ss_pred             hcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          458 NHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       458 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      ..++.+.++.++..+.-+.|+.+..-..-++++...|+|+||.++++...+.+
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            36667777777777777777777777777777777777777777777666544

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=92.66  E-value=0.59  Score=43.07  Aligned_cols=61  Identities=8%  Similarity=0.086  Sum_probs=45.1

Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          448 VWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       448 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ++..++..+...|+++.+...+++++..+|-+...|..+..+|.+.|+...|+..++.+.+
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            4555666677777777777777777777777777777777777777777777777777654

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.59  E-value=7.8  Score=35.10  Aligned_cols=237  Identities=14%  Similarity=0.148  Sum_probs=135.6

Q ss_pred             cCCHHHHHHHHhhcCCC----C---eehHHHHHHHHHhCCChhHHHHHHHHHHhc---CC--CCCHHHHHHHHHHHhccC
Q 048179          225 TGHLDLASHVFKNMSRI----N---IVTWGALISGFAQNGLAGSTLELLMEMQSC---GF--EPDSVSLVSALLACAQIG  292 (589)
Q Consensus       225 ~g~~~~A~~~~~~~~~~----~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---g~--~p~~~~~~~ll~~~~~~~  292 (589)
                      ..++++|..-|+++.+.    .   ..+.-.+|..+.+.+++++.++.+.+|..-   .+  .-+..+.++++...+.+.
T Consensus        40 e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~  119 (440)
T KOG1464|consen   40 EDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSK  119 (440)
T ss_pred             ccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhh
Confidence            34667777777666431    1   123344677788888888888888877531   11  234456677777666666


Q ss_pred             chhhHHHHHHHHh------hcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--------C-------ChhHHHHHHH
Q 048179          293 FLKLGKSIHGYTV------RRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS--------R-------DLISWNVIIA  351 (589)
Q Consensus       293 ~~~~a~~~~~~~~------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~-------~~~~~~~li~  351 (589)
                      +.+.-..+++...      ..-..-..+-+-|...|...|.+....+++.++..        .       -...|..=|+
T Consensus       120 ~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQ  199 (440)
T KOG1464|consen  120 NMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQ  199 (440)
T ss_pred             hhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhh
Confidence            6666665555433      11111223335667777777888877777776642        1       1245666788


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHH-----hcCCcHHHHHHHHHHHHHhcCCCCChh-----hHHHH
Q 048179          352 SYGIHGHGEEALSLFLQMIETMV-KPDHSTFASLLSAL-----SHSGLVEEGRYWFDLMVSKYKIQPTEK-----HYACM  420 (589)
Q Consensus       352 ~~~~~g~~~~A~~~~~~m~~~~~-~p~~~t~~~ll~a~-----~~~g~~~~a~~~~~~~~~~~~~~p~~~-----~~~~l  420 (589)
                      .|...++-..-..++++...-.. -|.+. ...+++-|     .+.|.+++|..-|=++-+.|.-..++.     -|..|
T Consensus       200 mYT~qKnNKkLK~lYeqalhiKSAIPHPl-ImGvIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVL  278 (440)
T KOG1464|consen  200 MYTEQKNNKKLKALYEQALHIKSAIPHPL-IMGVIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVL  278 (440)
T ss_pred             hhhhhcccHHHHHHHHHHHHhhccCCchH-HHhHHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHH
Confidence            88888887777788887654322 23333 34555555     356888887654444444333222222     24455


Q ss_pred             HHHHHHcCCHHHHHHHHHhc-----CCCCChhHHHHHHHHHHhcCCchHHHHH
Q 048179          421 VDLLARAGEVEEALKIVDSM-----STEPGLAVWVALLSGCHNHKKFSIGEKV  468 (589)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~-----~~~p~~~~~~~l~~~~~~~~~~~~a~~~  468 (589)
                      ..++.+.|--     -|+.-     ...|...+.+.|+.+|..+ +..+-+++
T Consensus       279 ANMLmkS~iN-----PFDsQEAKPyKNdPEIlAMTnlv~aYQ~N-dI~eFE~I  325 (440)
T KOG1464|consen  279 ANMLMKSGIN-----PFDSQEAKPYKNDPEILAMTNLVAAYQNN-DIIEFERI  325 (440)
T ss_pred             HHHHHHcCCC-----CCcccccCCCCCCHHHHHHHHHHHHHhcc-cHHHHHHH
Confidence            6666665521     11111     1235666788899888654 44333333

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.39  E-value=0.26  Score=28.71  Aligned_cols=30  Identities=10%  Similarity=-0.027  Sum_probs=25.8

Q ss_pred             hhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          481 GIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       481 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      ..|..+|.+|...|++++|...++++.+..
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            578899999999999999999999988643

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 ....

>PRK10941 hypothetical protein; Provisional

Probab=92.32  E-value=0.99  Score=41.72  Aligned_cols=62  Identities=10%  Similarity=0.051  Sum_probs=56.2

Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          448 VWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       448 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      ..+.|-.+|.+.++++.|.++.+.++.+.|+++.-+.-.|.+|.+.|.+..|..-++...+.
T Consensus       183 ml~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~  244 (269)
T PRK10941        183 LLDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQ  244 (269)
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHh
Confidence            35667778999999999999999999999999999999999999999999999998887653

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=92.20  E-value=0.54  Score=43.67  Aligned_cols=87  Identities=18%  Similarity=0.142  Sum_probs=60.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHc-
Q 048179          350 IASYGIHGHGEEALSLFLQMIETMVKP-DHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARA-  427 (589)
Q Consensus       350 i~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-  427 (589)
                      ..-|.++|.+++|+..|.+-+..  .| |++++..-..+|.+...+..|..-...+...     |    ...+.+|.|. 
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaL-----d----~~Y~KAYSRR~  172 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIAL-----D----KLYVKAYSRRM  172 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHh-----h----HHHHHHHHHHH
Confidence            56789999999999999887664  56 8888988889999998888887766665532     1    2344555554 


Q ss_pred             ------CCHHHHHHHHHhc-CCCCChh
Q 048179          428 ------GEVEEALKIVDSM-STEPGLA  447 (589)
Q Consensus       428 ------g~~~~A~~~~~~~-~~~p~~~  447 (589)
                            |...+|.+-++.. ..+|+..
T Consensus       173 ~AR~~Lg~~~EAKkD~E~vL~LEP~~~  199 (536)
T KOG4648|consen  173 QARESLGNNMEAKKDCETVLALEPKNI  199 (536)
T ss_pred             HHHHHHhhHHHHHHhHHHHHhhCcccH
Confidence                  5555555555543 3356643

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=92.15  E-value=1.1  Score=29.33  Aligned_cols=50  Identities=2%  Similarity=-0.124  Sum_probs=38.1

Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCceeEEEECCEEEEEEecCCCCCChHHHHHHHHHHHHHHHhcC
Q 048179          482 IHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMRAIS  557 (589)
Q Consensus       482 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~l~~~~~~~g  557 (589)
                      .+..++..+.+.|++++|.+..+.+.+                          ..|.+.+..+....+..+|++.|
T Consensus         3 ~lY~lAig~ykl~~Y~~A~~~~~~lL~--------------------------~eP~N~Qa~~L~~~i~~~i~kdg   52 (53)
T PF14853_consen    3 CLYYLAIGHYKLGEYEKARRYCDALLE--------------------------IEPDNRQAQSLKELIEDKIQKDG   52 (53)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH--------------------------HTTS-HHHHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHhhhHHHHHHHHHHHHh--------------------------hCCCcHHHHHHHHHHHHHHhccC
Confidence            456788889999999999999999986                          35667777676677777777766

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.89  E-value=4.1  Score=34.20  Aligned_cols=117  Identities=15%  Similarity=0.048  Sum_probs=58.7

Q ss_pred             hcCCHHHHHHHHhhcCCCCeehHHHHH-----HHHHhCCChhHHHHHHHHHHhcCCCCCHH-HHHHH--HHHHhccCchh
Q 048179          224 KTGHLDLASHVFKNMSRINIVTWGALI-----SGFAQNGLAGSTLELLMEMQSCGFEPDSV-SLVSA--LLACAQIGFLK  295 (589)
Q Consensus       224 ~~g~~~~A~~~~~~~~~~~~~~~~~li-----~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~l--l~~~~~~~~~~  295 (589)
                      +.+..++|..-|..+.+.+.-.|-.|.     ....+.|+...|...|.+.-.....|-.. -...+  .-.+...|.++
T Consensus        70 ~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy~  149 (221)
T COG4649          70 QENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSYD  149 (221)
T ss_pred             HcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccHH
Confidence            445566666666666554444443332     23455666777777777665543333222 11111  11233445554


Q ss_pred             hHHHHHHHHh-hcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC
Q 048179          296 LGKSIHGYTV-RRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS  340 (589)
Q Consensus       296 ~a~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  340 (589)
                      ....-.+.+. .+.+.....-.+|.-+-.+.|++..|.+.|..+..
T Consensus       150 dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         150 DVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            4444444433 34444444445555555666666666666666554

>PRK09687 putative lyase; Provisional

Probab=91.83  E-value=11  Score=35.29  Aligned_cols=233  Identities=12%  Similarity=0.034  Sum_probs=96.4

Q ss_pred             CchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCCh----hHHHHHHHHHHhcCCCCCHHHHHHHH
Q 048179          210 LDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLA----GSTLELLMEMQSCGFEPDSVSLVSAL  285 (589)
Q Consensus       210 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~----~~a~~~~~~m~~~g~~p~~~~~~~ll  285 (589)
                      +|..+....+..+...|..+-...+..-+..+|...-...+.++.+.|+.    ++++..+..+...  .|+...-...+
T Consensus        35 ~d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~~A~  112 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRASAI  112 (280)
T ss_pred             CCHHHHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHHHHH
Confidence            34444445555555555433323333322334554445555566666653    3566666665333  45555555555


Q ss_pred             HHHhccCchhh--HHHHHHHHh-hcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcC-CHHH
Q 048179          286 LACAQIGFLKL--GKSIHGYTV-RRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHG-HGEE  361 (589)
Q Consensus       286 ~~~~~~~~~~~--a~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~  361 (589)
                      .+++..+....  ......... ....++..+-...+.++.+.++.+....+..-+.++|...-...+.++...+ ....
T Consensus       113 ~aLG~~~~~~~~~~~~a~~~l~~~~~D~~~~VR~~a~~aLg~~~~~~ai~~L~~~L~d~~~~VR~~A~~aLg~~~~~~~~  192 (280)
T PRK09687        113 NATGHRCKKNPLYSPKIVEQSQITAFDKSTNVRFAVAFALSVINDEAAIPLLINLLKDPNGDVRNWAAFALNSNKYDNPD  192 (280)
T ss_pred             HHHhcccccccccchHHHHHHHHHhhCCCHHHHHHHHHHHhccCCHHHHHHHHHHhcCCCHHHHHHHHHHHhcCCCCCHH
Confidence            55544432111  011111121 2222344444455555555554333222333333343333333333333332 1233


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC
Q 048179          362 ALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS  441 (589)
Q Consensus       362 A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  441 (589)
                      +...+..+..   .+|...-...+.++.+.|+. .+...+-...+.    ++  .....+.+++..|.. +|+..+..+.
T Consensus       193 ~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~~----~~--~~~~a~~ALg~ig~~-~a~p~L~~l~  261 (280)
T PRK09687        193 IREAFVAMLQ---DKNEEIRIEAIIGLALRKDK-RVLSVLIKELKK----GT--VGDLIIEAAGELGDK-TLLPVLDTLL  261 (280)
T ss_pred             HHHHHHHHhc---CCChHHHHHHHHHHHccCCh-hHHHHHHHHHcC----Cc--hHHHHHHHHHhcCCH-hHHHHHHHHH
Confidence            4444444442   23444444445555555542 333333333321    11  122344555555553 3444444443


Q ss_pred             C-CCChhHHHHHHHH
Q 048179          442 T-EPGLAVWVALLSG  455 (589)
Q Consensus       442 ~-~p~~~~~~~l~~~  455 (589)
                      . .||..+-...+.+
T Consensus       262 ~~~~d~~v~~~a~~a  276 (280)
T PRK09687        262 YKFDDNEIITKAIDK  276 (280)
T ss_pred             hhCCChhHHHHHHHH
Confidence            2 3444444333333

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.64  E-value=0.13  Score=47.72  Aligned_cols=102  Identities=18%  Similarity=0.130  Sum_probs=71.3

Q ss_pred             HcCCHHHHHHHHHhcC-CC-CChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHH
Q 048179          426 RAGEVEEALKIVDSMS-TE-PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVR  503 (589)
Q Consensus       426 ~~g~~~~A~~~~~~~~-~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  503 (589)
                      ..|.+++|++.|.... .. |....+.--.+++.+.++...|++-+..+++++|+...-|-.-+.+....|+|++|...+
T Consensus       126 n~G~~~~ai~~~t~ai~lnp~~a~l~~kr~sv~lkl~kp~~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~e~aa~dl  205 (377)
T KOG1308|consen  126 NDGEFDTAIELFTSAIELNPPLAILYAKRASVFLKLKKPNAAIRDCDFAIEINPDSAKGYKFRGYAERLLGNWEEAAHDL  205 (377)
T ss_pred             cCcchhhhhcccccccccCCchhhhcccccceeeeccCCchhhhhhhhhhccCcccccccchhhHHHHHhhchHHHHHHH
Confidence            3456777777776653 22 344455555566778888888888888888888888888888888888888888888888


Q ss_pred             HHHHhCCCccCCceeEEEECCEEE
Q 048179          504 KTMRKSGMKKVPGYSVVEVNGELH  527 (589)
Q Consensus       504 ~~m~~~g~~~~~~~s~~~~~~~~~  527 (589)
                      ...-+.+.....+...-+|....|
T Consensus       206 ~~a~kld~dE~~~a~lKeV~p~a~  229 (377)
T KOG1308|consen  206 ALACKLDYDEANSATLKEVFPNAG  229 (377)
T ss_pred             HHHHhccccHHHHHHHHHhccchh
Confidence            888877776655543334433333

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=90.56  E-value=0.44  Score=25.82  Aligned_cols=24  Identities=4%  Similarity=0.021  Sum_probs=19.4

Q ss_pred             hhHHHHHHHHHhCCChHHHHHHHH
Q 048179          481 GIHALVSNFFAMEQKWEEVAGVRK  504 (589)
Q Consensus       481 ~~~~~l~~~~~~~g~~~~a~~~~~  504 (589)
                      .....++.++...|++++|..+++
T Consensus         2 ~a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    2 RARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHh
Confidence            456778888999999999888775

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=90.54  E-value=1.5  Score=37.90  Aligned_cols=75  Identities=16%  Similarity=0.183  Sum_probs=55.0

Q ss_pred             HHcCCHHHHHHHHHhcCCCC--ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCC----CCchhHHHHHHHHHhCCChHH
Q 048179          425 ARAGEVEEALKIVDSMSTEP--GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNP----DDLGIHALVSNFFAMEQKWEE  498 (589)
Q Consensus       425 ~~~g~~~~A~~~~~~~~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p----~~~~~~~~l~~~~~~~g~~~~  498 (589)
                      .+.|+ ++|.+.|-.+...|  +....-..+..|....|.+++++++-+++++.+    -|+..+..|+.+|.+.|+++.
T Consensus       118 sr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~  196 (203)
T PF11207_consen  118 SRFGD-QEALRRFLQLEGTPELETAELQYALATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQ  196 (203)
T ss_pred             hccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhh
Confidence            34444 66777777775543  344455555666668899999999999998753    268899999999999999988


Q ss_pred             HH
Q 048179          499 VA  500 (589)
Q Consensus       499 a~  500 (589)
                      |-
T Consensus       197 AY  198 (203)
T PF11207_consen  197 AY  198 (203)
T ss_pred             hh
Confidence            74

>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=90.51  E-value=2  Score=36.39  Aligned_cols=33  Identities=15%  Similarity=0.136  Sum_probs=22.5

Q ss_pred             chHHHHHHHHHhccCCCCchhHHHHHHHHHhCC
Q 048179          462 FSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQ  494 (589)
Q Consensus       462 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  494 (589)
                      +++|+.-|++++.++|+...++..++++|...+
T Consensus        51 iedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A   83 (186)
T PF06552_consen   51 IEDAISKFEEALKINPNKHDALWCLGNAYTSLA   83 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHH
Confidence            345666677777788888888888888877655

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=90.50  E-value=12  Score=32.98  Aligned_cols=178  Identities=10%  Similarity=-0.006  Sum_probs=101.8

Q ss_pred             cCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChh-HHHHHHH--HHHhcCCHHHHHHHHH
Q 048179          291 IGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLI-SWNVIIA--SYGIHGHGEEALSLFL  367 (589)
Q Consensus       291 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~li~--~~~~~g~~~~A~~~~~  367 (589)
                      .|-...|+--|.....-.|.-+.++|-|.--+...|+++.|.+.|+...+-|+. -|..+=+  ++--.|++.-|.+-|.
T Consensus        78 lGL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq~d~~  157 (297)
T COG4785          78 LGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDDLL  157 (297)
T ss_pred             hhHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHhhHHHHH
Confidence            344455555555555555666778888888888999999999999998875442 2222222  2334688998988777


Q ss_pred             HHHHcCCCCCHH--HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH-HHHHcCCHHHHHHHHHhcCCC-
Q 048179          368 QMIETMVKPDHS--TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVD-LLARAGEVEEALKIVDSMSTE-  443 (589)
Q Consensus       368 ~m~~~~~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~-~~~~~g~~~~A~~~~~~~~~~-  443 (589)
                      +.-+.. +.|+.  .|..+.   ...-++.+|..-+.+--+  +  .|.+-|...+- .|.-.=..+.+.+-...-..+ 
T Consensus       158 ~fYQ~D-~~DPfR~LWLYl~---E~k~dP~~A~tnL~qR~~--~--~d~e~WG~~iV~~yLgkiS~e~l~~~~~a~a~~n  229 (297)
T COG4785         158 AFYQDD-PNDPFRSLWLYLN---EQKLDPKQAKTNLKQRAE--K--SDKEQWGWNIVEFYLGKISEETLMERLKADATDN  229 (297)
T ss_pred             HHHhcC-CCChHHHHHHHHH---HhhCCHHHHHHHHHHHHH--h--ccHhhhhHHHHHHHHhhccHHHHHHHHHhhccch
Confidence            776654 22332  222222   233456666554433222  2  24444443332 222222222222222222211 


Q ss_pred             -----CChhHHHHHHHHHHhcCCchHHHHHHHHHhccC
Q 048179          444 -----PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLN  476 (589)
Q Consensus       444 -----p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  476 (589)
                           .-..+|--|..-+...|+.++|..+|+-++..+
T Consensus       230 ~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         230 TSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             HHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence                 113466777788889999999999999887654

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=90.43  E-value=8.9  Score=36.22  Aligned_cols=137  Identities=11%  Similarity=0.186  Sum_probs=79.3

Q ss_pred             hHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc--cCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHh
Q 048179          260 GSTLELLMEMQSCGFEPDSVSLVSALLACAQ--IGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQ  337 (589)
Q Consensus       260 ~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  337 (589)
                      ++.+.+++.|.+.|+.-+..+|.+.......  ..+.+                              .....|..+|+.
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~------------------------------~~~~ra~~iy~~  128 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYD------------------------------EIIQRAKEIYKE  128 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHH------------------------------HHHHHHHHHHHH
Confidence            4456788888999888887777554333222  11110                              123456677777


Q ss_pred             cCC-------CChhHHHHHHHHHHhcCC----HHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHhcCCc--HHHHHHHHH
Q 048179          338 MQS-------RDLISWNVIIASYGIHGH----GEEALSLFLQMIETMVKPDHS--TFASLLSALSHSGL--VEEGRYWFD  402 (589)
Q Consensus       338 ~~~-------~~~~~~~~li~~~~~~g~----~~~A~~~~~~m~~~~~~p~~~--t~~~ll~a~~~~g~--~~~a~~~~~  402 (589)
                      |.+       ++-.++..++..  ..++    .+.+..+|+.+.+.|+.....  ....++..+.....  ...+.++++
T Consensus       129 mKk~H~fLTs~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~  206 (297)
T PF13170_consen  129 MKKKHPFLTSPEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYN  206 (297)
T ss_pred             HHHhCccccCccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHH
Confidence            764       233344444433  2222    355677888888878765533  34444443333222  447788888


Q ss_pred             HHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048179          403 LMVSKYKIQPTEKHYACMVDLLARAGE  429 (589)
Q Consensus       403 ~~~~~~~~~p~~~~~~~l~~~~~~~g~  429 (589)
                      .+.+. ++++...+|..++-+-.-.+.
T Consensus       207 ~l~~~-~~kik~~~yp~lGlLall~~~  232 (297)
T PF13170_consen  207 ALKKN-GVKIKYMHYPTLGLLALLEDP  232 (297)
T ss_pred             HHHHc-CCccccccccHHHHHHhcCCc
Confidence            88887 888888888766544433333

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=90.32  E-value=0.72  Score=26.73  Aligned_cols=28  Identities=7%  Similarity=0.008  Sum_probs=25.6

Q ss_pred             hhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          481 GIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       481 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      .+|..++.+|...|++++|.+.+++..+
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4688999999999999999999998875

...

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=90.26  E-value=0.57  Score=28.71  Aligned_cols=28  Identities=11%  Similarity=0.173  Sum_probs=23.6

Q ss_pred             hhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          481 GIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       481 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      .++..|+.+|...|++++|..++++..+
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4678899999999999999999998865

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=90.06  E-value=3.7  Score=32.86  Aligned_cols=48  Identities=8%  Similarity=0.059  Sum_probs=27.9

Q ss_pred             CchHHHHHHHHHhc-cCCC-CchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          461 KFSIGEKVAKKVLK-LNPD-DLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       461 ~~~~a~~~~~~~~~-~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      |..+++.+++.+.+ -.|. ......-|+-.+.+.|+++.++++.+.+.+
T Consensus        50 dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~   99 (149)
T KOG3364|consen   50 DVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLE   99 (149)
T ss_pred             HHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHh
Confidence            45566666666665 3332 223444455566677777777777666654

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=90.04  E-value=5.3  Score=34.44  Aligned_cols=94  Identities=14%  Similarity=0.100  Sum_probs=49.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChh------h
Q 048179          345 SWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHS--TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEK------H  416 (589)
Q Consensus       345 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~------~  416 (589)
                      .+..+...|.+.|+.++|++.|.++.+....|...  .+..++..+...+++..+..+..++........|..      .
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            45555666666666666666666666654444432  344555566666666666666665544311111111      1


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhc
Q 048179          417 YACMVDLLARAGEVEEALKIVDSM  440 (589)
Q Consensus       417 ~~~l~~~~~~~g~~~~A~~~~~~~  440 (589)
                      |..+  .+...+++.+|-+.|-..
T Consensus       118 ~~gL--~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  118 YEGL--ANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHH--HHHHhchHHHHHHHHHcc
Confidence            2111  223456777777766655

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.

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.98  E-value=29  Score=36.75  Aligned_cols=102  Identities=12%  Similarity=0.080  Sum_probs=68.0

Q ss_pred             HHHHhccCCHHHHHHHHHHHHHhCCCC---ChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCcc
Q 048179           83 LKACVSLMDLKMGEEIWRKAVELGYGN---DVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPR  159 (589)
Q Consensus        83 l~~~~~~~~~~~a~~~~~~~~~~g~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~  159 (589)
                      ++.+.+.+.+++|..+.+...  |..+   -..++...|..+...|++++|-...-.|...+..-|.-.+..+...++..
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~--~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~  440 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASI--GNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLT  440 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhcc--CCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccc
Confidence            344455566666665554432  2233   34567788888889999999999999999999999998888888888776


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 048179          160 EAVDAYKRMKKEGIDADEVVMMGLIQACAD  189 (589)
Q Consensus       160 ~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~  189 (589)
                      ....+   +.....+.+...|-.++..+..
T Consensus       441 ~Ia~~---lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  441 DIAPY---LPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             hhhcc---CCCCCcccCchHHHHHHHHHHH
Confidence            54433   2222222345566666666655

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=89.92  E-value=1.8  Score=40.04  Aligned_cols=74  Identities=19%  Similarity=0.387  Sum_probs=54.2

Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHhcCCC---CcchHHHHHHHHHhCCCccHHHHHHHHHHH-----CCCCCChhhHHHHH
Q 048179          113 VGSSMLNLYVKCGKMNEAMVAFEKMQRK---DLVCWSSMINGLVFNGQPREAVDAYKRMKK-----EGIDADEVVMMGLI  184 (589)
Q Consensus       113 ~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~t~~~ll  184 (589)
                      ++..++..+..+|+.+.+...++++...   |...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+.....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y~  234 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALYE  234 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHHH
Confidence            4556777788888888888888887753   566788888888888888888888888765     46666665554444


Q ss_pred             HH
Q 048179          185 QA  186 (589)
Q Consensus       185 ~~  186 (589)
                      ..
T Consensus       235 ~~  236 (280)
T COG3629         235 EI  236 (280)
T ss_pred             HH
Confidence            43

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=89.81  E-value=5.9  Score=38.95  Aligned_cols=88  Identities=23%  Similarity=0.230  Sum_probs=39.4

Q ss_pred             hcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCC--CChhHHHHHHHHHHhcCCchHHH
Q 048179          389 SHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTE--PGLAVWVALLSGCHNHKKFSIGE  466 (589)
Q Consensus       389 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--p~~~~~~~l~~~~~~~~~~~~a~  466 (589)
                      .+.|+++.+.+.+.....  -+.....+..++++...+.|++++|...-+.|...  .+..+...........|-++++.
T Consensus       334 ~~lg~ye~~~~~~s~~~~--~~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~  411 (831)
T PRK15180        334 SHLGYYEQAYQDISDVEK--IIGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSY  411 (831)
T ss_pred             HHhhhHHHHHHHhhchhh--hhcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccCChhheeeecccHHHHhHHHHHH
Confidence            444555555555544443  22233444455555555555555555555444211  12222222222233444455555


Q ss_pred             HHHHHHhccCCC
Q 048179          467 KVAKKVLKLNPD  478 (589)
Q Consensus       467 ~~~~~~~~~~p~  478 (589)
                      ..+++++.++|.
T Consensus       412 ~~wk~~~~~~~~  423 (831)
T PRK15180        412 HYWKRVLLLNPE  423 (831)
T ss_pred             HHHHHHhccCCh
Confidence            555555555443

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=89.67  E-value=7.9  Score=31.78  Aligned_cols=68  Identities=21%  Similarity=0.170  Sum_probs=43.7

Q ss_pred             hcCCcHHHHHHHHHHHHHhcCCCCCh-hhHHHHHHHHHHcCCHHHHHHHHHhcCCCC-ChhHHHHHHHHHHhc
Q 048179          389 SHSGLVEEGRYWFDLMVSKYKIQPTE-KHYACMVDLLARAGEVEEALKIVDSMSTEP-GLAVWVALLSGCHNH  459 (589)
Q Consensus       389 ~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~  459 (589)
                      ...++.+++..+++.+.   -+.|+. ..-..-+..+.+.|+|++|..+|++....+ ....-..|+..|...
T Consensus        21 L~~~d~~D~e~lLdALr---vLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~CL~a   90 (153)
T TIGR02561        21 LRSADPYDAQAMLDALR---VLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAGAPPYGKALLALCLNA   90 (153)
T ss_pred             HhcCCHHHHHHHHHHHH---HhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCchHHHHHHHHHHHh
Confidence            34788888888888887   344552 222233456778899999999999886653 444444555555443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>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=89.32  E-value=9.8  Score=30.45  Aligned_cols=83  Identities=8%  Similarity=0.111  Sum_probs=49.4

Q ss_pred             cCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHH
Q 048179          325 CGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLM  404 (589)
Q Consensus       325 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~  404 (589)
                      ||++......+-.+- .+.......+..+...|+-+.-.+++.++.+. -.|++.....+..||.+.|+..++.+++.++
T Consensus        69 C~NlKrVi~C~~~~n-~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~A  146 (161)
T PF09205_consen   69 CGNLKRVIECYAKRN-KLSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEA  146 (161)
T ss_dssp             -S-THHHHHHHHHTT----HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             hcchHHHHHHHHHhc-chHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHH
Confidence            444444444443332 22334455567777888888888888887653 3677777888888888888888888888888


Q ss_pred             HHhcCC
Q 048179          405 VSKYKI  410 (589)
Q Consensus       405 ~~~~~~  410 (589)
                      .+. |+
T Consensus       147 Cek-G~  151 (161)
T PF09205_consen  147 CEK-GL  151 (161)
T ss_dssp             HHT-T-
T ss_pred             HHh-ch
Confidence            775 54

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=89.31  E-value=1.3  Score=29.16  Aligned_cols=36  Identities=17%  Similarity=0.313  Sum_probs=28.0

Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHH
Q 048179          450 VALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHAL  485 (589)
Q Consensus       450 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  485 (589)
                      -.+.-++.+.|+++.|.+..+.+++++|+|..+...
T Consensus         5 Y~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa~~L   40 (53)
T PF14853_consen    5 YYLAIGHYKLGEYEKARRYCDALLEIEPDNRQAQSL   40 (53)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHHHTTS-HHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhhCCCcHHHHHH
Confidence            345667899999999999999999999998755443

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.17  E-value=14  Score=31.96  Aligned_cols=114  Identities=11%  Similarity=0.070  Sum_probs=67.7

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHH--HHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHH-----HHHHHHHHcCCHHHH
Q 048179          361 EALSLFLQMIETMVKPDHSTFA--SLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYA-----CMVDLLARAGEVEEA  433 (589)
Q Consensus       361 ~A~~~~~~m~~~~~~p~~~t~~--~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~-----~l~~~~~~~g~~~~A  433 (589)
                      +......++.........-++.  .+...+...+++++|...++.....    |.-+.+.     .|.+.....|.+++|
T Consensus        70 ~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~----t~De~lk~l~~lRLArvq~q~~k~D~A  145 (207)
T COG2976          70 KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQ----TKDENLKALAALRLARVQLQQKKADAA  145 (207)
T ss_pred             hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc----chhHHHHHHHHHHHHHHHHHhhhHHHH
Confidence            4444555555543121111222  2344567788888888888876632    2222333     345667788888888


Q ss_pred             HHHHHhcCCC-CChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCC
Q 048179          434 LKIVDSMSTE-PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPD  478 (589)
Q Consensus       434 ~~~~~~~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  478 (589)
                      +..++....+ -.......-...+...|+-++|+..|+++++.+++
T Consensus       146 L~~L~t~~~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~s  191 (207)
T COG2976         146 LKTLDTIKEESWAAIVAELRGDILLAKGDKQEARAAYEKALESDAS  191 (207)
T ss_pred             HHHHhccccccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccCC
Confidence            8888776422 11222233345678888888888888888877643

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=89.06  E-value=0.54  Score=26.98  Aligned_cols=23  Identities=4%  Similarity=0.070  Sum_probs=10.7

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHH
Q 048179          485 LVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       485 ~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      .++.+|.+.|++++|.+.++++.
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~   27 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLI   27 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHH
Confidence            34444444444444444444443

>PRK09687 putative lyase; Provisional

Probab=88.89  E-value=21  Score=33.58  Aligned_cols=74  Identities=14%  Similarity=0.125  Sum_probs=36.3

Q ss_pred             ChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 048179          311 NLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALS  389 (589)
Q Consensus       311 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~  389 (589)
                      +..+-...+.++.+.|+......+.+.+..++  ..-..+.++...|.. +|+..+.++.+.  .||..+-...+.+|.
T Consensus       205 ~~~VR~~A~~aLg~~~~~~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~~  278 (280)
T PRK09687        205 NEEIRIEAIIGLALRKDKRVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKLK  278 (280)
T ss_pred             ChHHHHHHHHHHHccCChhHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHHh
Confidence            33344444555555555332223333333333  223455666666664 566666666653  345555555555543

>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=88.85  E-value=4.6  Score=34.81  Aligned_cols=95  Identities=13%  Similarity=-0.028  Sum_probs=66.1

Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHHhcCCCC------hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC---CCHHHHHH
Q 048179          313 VLGTSVIDMYSKCGVPSCARALFDQMQSRD------LISWNVIIASYGIHGHGEEALSLFLQMIETMVK---PDHSTFAS  383 (589)
Q Consensus       313 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~---p~~~t~~~  383 (589)
                      ..+..+.+.|.+.|+.+.|.+.|.++.+..      +..+-.+|......+++..+.....+....--.   ++...-..
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            345788899999999999999999988632      245677888888999999998888776653222   22221111


Q ss_pred             HH--HHHhcCCcHHHHHHHHHHHHHh
Q 048179          384 LL--SALSHSGLVEEGRYWFDLMVSK  407 (589)
Q Consensus       384 ll--~a~~~~g~~~~a~~~~~~~~~~  407 (589)
                      ..  -++...+++..|-+.|-.....
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~~t  142 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSLST  142 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccCcC
Confidence            11  1244568899988888776543

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.

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=88.64  E-value=5.7  Score=34.30  Aligned_cols=102  Identities=15%  Similarity=0.141  Sum_probs=63.5

Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCCC-hhHHHHHHHHHHhcCCc
Q 048179          388 LSHSGLVEEGRYWFDLMVSKYKIQPT---EKHYACMVDLLARAGEVEEALKIVDSM-STEPG-LAVWVALLSGCHNHKKF  462 (589)
Q Consensus       388 ~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~  462 (589)
                      +...|++++|..-|..+...+.-.+.   ...|..-..++.+.+.++.|++-..+. ...|. ...+..-..+|.+...+
T Consensus       105 ~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek~  184 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEKY  184 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhhH
Confidence            45667777777777777653211111   223444455677778888887776664 22332 22222334467788899


Q ss_pred             hHHHHHHHHHhccCCCCchhHHHHHHH
Q 048179          463 SIGEKVAKKVLKLNPDDLGIHALVSNF  489 (589)
Q Consensus       463 ~~a~~~~~~~~~~~p~~~~~~~~l~~~  489 (589)
                      +.|++-|+++++.+|....+-...+.+
T Consensus       185 eealeDyKki~E~dPs~~ear~~i~rl  211 (271)
T KOG4234|consen  185 EEALEDYKKILESDPSRREAREAIARL  211 (271)
T ss_pred             HHHHHHHHHHHHhCcchHHHHHHHHhc
Confidence            999999999999999766554444443

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=88.62  E-value=1.2  Score=43.74  Aligned_cols=88  Identities=11%  Similarity=0.101  Sum_probs=70.8

Q ss_pred             HHHHHHcCCHHHHHHHHHhc-CCCCChhHHHH-HHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHH
Q 048179          421 VDLLARAGEVEEALKIVDSM-STEPGLAVWVA-LLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEE  498 (589)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  498 (589)
                      .+.+...+.++.|..++.++ ..+||-..|.+ -..++.+.+++..|..-+.++++++|.....|..-+.++.+.+++.+
T Consensus        11 an~~l~~~~fd~avdlysKaI~ldpnca~~~anRa~a~lK~e~~~~Al~Da~kaie~dP~~~K~Y~rrg~a~m~l~~~~~   90 (476)
T KOG0376|consen   11 ANEALKDKVFDVAVDLYSKAIELDPNCAIYFANRALAHLKVESFGGALHDALKAIELDPTYIKAYVRRGTAVMALGEFKK   90 (476)
T ss_pred             HhhhcccchHHHHHHHHHHHHhcCCcceeeechhhhhheeechhhhHHHHHHhhhhcCchhhheeeeccHHHHhHHHHHH
Confidence            34455677888888888776 44675544433 33678899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHh
Q 048179          499 VAGVRKTMRK  508 (589)
Q Consensus       499 a~~~~~~m~~  508 (589)
                      |...++....
T Consensus        91 A~~~l~~~~~  100 (476)
T KOG0376|consen   91 ALLDLEKVKK  100 (476)
T ss_pred             HHHHHHHhhh
Confidence            9999987654

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=88.37  E-value=0.63  Score=26.67  Aligned_cols=30  Identities=13%  Similarity=0.146  Sum_probs=25.8

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHhccCCC
Q 048179          449 WVALLSGCHNHKKFSIGEKVAKKVLKLNPD  478 (589)
Q Consensus       449 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  478 (589)
                      +-.+..++...|++++|.+.++++++..|+
T Consensus         3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~~P~   32 (33)
T PF13174_consen    3 LYRLARCYYKLGDYDEAIEYFQRLIKRYPD   32 (33)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence            445677788999999999999999998884

>smart00028 TPR Tetratricopeptide repeats

Probab=88.36  E-value=0.82  Score=25.48  Aligned_cols=29  Identities=17%  Similarity=0.195  Sum_probs=13.6

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHhccCC
Q 048179          449 WVALLSGCHNHKKFSIGEKVAKKVLKLNP  477 (589)
Q Consensus       449 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  477 (589)
                      |..+...+...|+++.|...+++++++.|
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            33344444444555555555555444444

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.35  E-value=16  Score=31.62  Aligned_cols=90  Identities=11%  Similarity=0.011  Sum_probs=66.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHH-----HHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCC
Q 048179          420 MVDLLARAGEVEEALKIVDSMSTEPGLAVWVAL-----LSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQ  494 (589)
Q Consensus       420 l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l-----~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  494 (589)
                      +...+..+|++++|...++.....|....+.++     .......|.++.|...+....+-.= .+..-..-++++...|
T Consensus        95 lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w-~~~~~elrGDill~kg  173 (207)
T COG2976          95 LAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW-AAIVAELRGDILLAKG  173 (207)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH-HHHHHHHhhhHHHHcC
Confidence            345678999999999999987655555555444     3456788899998888766543211 2233556799999999


Q ss_pred             ChHHHHHHHHHHHhCC
Q 048179          495 KWEEVAGVRKTMRKSG  510 (589)
Q Consensus       495 ~~~~a~~~~~~m~~~g  510 (589)
                      +-++|+.-|++..+.+
T Consensus       174 ~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         174 DKQEARAAYEKALESD  189 (207)
T ss_pred             chHHHHHHHHHHHHcc
Confidence            9999999999998755

>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=88.15  E-value=0.71  Score=38.28  Aligned_cols=50  Identities=18%  Similarity=0.286  Sum_probs=20.5

Q ss_pred             HHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHH
Q 048179           48 IIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEE   97 (589)
Q Consensus        48 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~   97 (589)
                      |..+.+.+.+......++.+...+...+....+.++..|++.++.+....
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~   63 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLE   63 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHH
Confidence            33344444444444444444443333333444444444444443333333

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.

>KOG4279 consensus Serine/threonine protein kinase [Signal transduction mechanisms]

Probab=87.81  E-value=19  Score=37.72  Aligned_cols=101  Identities=20%  Similarity=0.228  Sum_probs=58.1

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHH---HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048179          353 YGIHGHGEEALSLFLQMIETMVKPDHST---FASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGE  429 (589)
Q Consensus       353 ~~~~g~~~~A~~~~~~m~~~~~~p~~~t---~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  429 (589)
                      |...+..+.|.+.|++.-+  +.|+...   +..|+.+-.+  .++...+    +..         .--.|-..++|.|.
T Consensus       297 ytDa~s~~~a~~WyrkaFe--veP~~~sGIN~atLL~aaG~--~Fens~E----lq~---------IgmkLn~LlgrKG~  359 (1226)
T KOG4279|consen  297 YTDAESLNHAIEWYRKAFE--VEPLEYSGINLATLLRAAGE--HFENSLE----LQQ---------IGMKLNSLLGRKGA  359 (1226)
T ss_pred             CcchhhHHHHHHHHHHHhc--cCchhhccccHHHHHHHhhh--hccchHH----HHH---------HHHHHHHHhhccch
Confidence            4445556778888887665  4666542   3334333221  1111111    111         11124456778888


Q ss_pred             HHHHHHHHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCc
Q 048179          430 VEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDL  480 (589)
Q Consensus       430 ~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  480 (589)
                      ++.-.++++-.          ..+.+-.-.+|+.+|.++.+.++++.|..-
T Consensus       360 leklq~YWdV~----------~y~~asVLAnd~~kaiqAae~mfKLk~P~W  400 (1226)
T KOG4279|consen  360 LEKLQEYWDVA----------TYFEASVLANDYQKAIQAAEMMFKLKPPVW  400 (1226)
T ss_pred             HHHHHHHHhHH----------HhhhhhhhccCHHHHHHHHHHHhccCCcee
Confidence            88877777542          234455566888899999999999887654

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.74  E-value=20  Score=32.17  Aligned_cols=24  Identities=0%  Similarity=-0.085  Sum_probs=11.2

Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHH
Q 048179          381 FASLLSALSHSGLVEEGRYWFDLM  404 (589)
Q Consensus       381 ~~~ll~a~~~~g~~~~a~~~~~~~  404 (589)
                      |...+-.+....++..|...++..
T Consensus       193 ~va~ilv~L~~~Dyv~aekc~r~~  216 (308)
T KOG1585|consen  193 YVAAILVYLYAHDYVQAEKCYRDC  216 (308)
T ss_pred             HHHHHHHHhhHHHHHHHHHHhcch
Confidence            333334444444555555555543

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=87.43  E-value=43  Score=35.62  Aligned_cols=86  Identities=14%  Similarity=0.027  Sum_probs=41.9

Q ss_pred             HHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHh--hcCCCChhHHHHHHHHhHh---
Q 048179          250 ISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTV--RRFDFNLVLGTSVIDMYSK---  324 (589)
Q Consensus       250 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~~~~l~~~~~~---  324 (589)
                      ...+.-.|+++.|++.+.+  ..+...|.+.+...+..+.-..-.+...   ..+.  ....+.+.-+..||..|.+   
T Consensus       265 f~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F~  339 (613)
T PF04097_consen  265 FQVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSFE  339 (613)
T ss_dssp             HHHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTTT
T ss_pred             HHHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHHh
Confidence            4456778999999999877  2234666777666665544333222211   2222  1111122445677777776   


Q ss_pred             cCCHHHHHHHHHhcCC
Q 048179          325 CGVPSCARALFDQMQS  340 (589)
Q Consensus       325 ~g~~~~A~~~~~~~~~  340 (589)
                      ..++..|.+.|--+..
T Consensus       340 ~td~~~Al~Y~~li~~  355 (613)
T PF04097_consen  340 ITDPREALQYLYLICL  355 (613)
T ss_dssp             TT-HHHHHHHHHGGGG
T ss_pred             ccCHHHHHHHHHHHHH
Confidence            4677888888766653

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.

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=87.12  E-value=1.6  Score=38.58  Aligned_cols=52  Identities=15%  Similarity=0.282  Sum_probs=25.0

Q ss_pred             HHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHH
Q 048179          455 GCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTM  506 (589)
Q Consensus       455 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  506 (589)
                      .+.+..+++.+.+--++++++.|+....+..++........+++|+..+.+.
T Consensus        53 chlk~~~~~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~eaI~~Lqra  104 (284)
T KOG4642|consen   53 CHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYDEAIKVLQRA  104 (284)
T ss_pred             HHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHHHHhhccccHHHHHHHHH
Confidence            3344444444444444444445544444444444444444444444444444

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.03  E-value=45  Score=35.40  Aligned_cols=128  Identities=17%  Similarity=0.135  Sum_probs=62.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhcc-
Q 048179          213 KVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQI-  291 (589)
Q Consensus       213 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~-  291 (589)
                      .++..+++.+...|++++|-...-.|...+..-|.--+..+...++......++   .....+.+...|..++..+... 
T Consensus       393 kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~~Ia~~l---Pt~~~rL~p~vYemvLve~L~~~  469 (846)
T KOG2066|consen  393 KVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLTDIAPYL---PTGPPRLKPLVYEMVLVEFLASD  469 (846)
T ss_pred             HHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccchhhccC---CCCCcccCchHHHHHHHHHHHHH
Confidence            455566666666677777766666666655555555555555555433322211   0000011222333333333220 


Q ss_pred             ------------CchhhHHHHHHHHh---hcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCCh
Q 048179          292 ------------GFLKLGKSIHGYTV---RRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDL  343 (589)
Q Consensus       292 ------------~~~~~a~~~~~~~~---~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  343 (589)
                                  +++-.+..+.+...   +...-+..+...|+..|...+++..|..++-...++++
T Consensus       470 ~~~F~e~i~~Wp~~Lys~l~iisa~~~q~~q~Se~~~L~e~La~LYl~d~~Y~~Al~~ylklk~~~v  536 (846)
T KOG2066|consen  470 VKGFLELIKEWPGHLYSVLTIISATEPQIKQNSESTALLEVLAHLYLYDNKYEKALPIYLKLQDKDV  536 (846)
T ss_pred             HHHHHHHHHhCChhhhhhhHHHhhcchHHHhhccchhHHHHHHHHHHHccChHHHHHHHHhccChHH
Confidence                        00000111111111   11112233445588888999999999998888876554

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=86.90  E-value=10  Score=28.54  Aligned_cols=63  Identities=17%  Similarity=0.264  Sum_probs=49.6

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHH
Q 048179          218 LVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVS  283 (589)
Q Consensus       218 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  283 (589)
                      -+..+...|++++|..+.+.+..||...|-+|..  .+.|..+++..-+.+|..+| .|...+|..
T Consensus        45 RlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla~sg-~p~lq~Faa  107 (115)
T TIGR02508        45 RLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLAASG-DPRLQTFVA  107 (115)
T ss_pred             HHHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHHhCC-CHHHHHHHH
Confidence            3445677899999999999999999999988765  57788888888888888877 666555543

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.90  E-value=8.1  Score=35.89  Aligned_cols=100  Identities=13%  Similarity=0.137  Sum_probs=70.8

Q ss_pred             CCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCC-C------CcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChh
Q 048179          106 GYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR-K------DLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEV  178 (589)
Q Consensus       106 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  178 (589)
                      |.+....+-..++..-....+.+++...+-.+.. +      +.. -.++++.+ -.-++++++-++..=++.|+-||.+
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~-~~~~irll-lky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWT-IHTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhcccc-HHHHHHHH-HccChHHHHHHHhCcchhccccchh
Confidence            4455555666667666667788888887776664 2      211 12223322 2336778888888888899999999


Q ss_pred             hHHHHHHHHHccCCcHHHHHHHHHHHHhc
Q 048179          179 VMMGLIQACADLGDSRFGLSVHGYSIRRH  207 (589)
Q Consensus       179 t~~~ll~~~~~~~~~~~a~~~~~~~~~~~  207 (589)
                      ++..++..+.+.+++..|.++.-.++...
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            99999999999999998888887777654

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=86.85  E-value=4.8  Score=30.07  Aligned_cols=62  Identities=11%  Similarity=0.100  Sum_probs=47.0

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048179          359 GEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVD  422 (589)
Q Consensus       359 ~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  422 (589)
                      .-++.+-++.+....+.|++....+.+.||-+.+++..|.++|+..+.+.+  .+...|..++.
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~--~~~~~y~~~lq   84 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCG--AHKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--CchhhHHHHHH
Confidence            345566666777777889999999999999999999999999998876433  24446665553

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.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=86.63  E-value=4.2  Score=30.36  Aligned_cols=61  Identities=20%  Similarity=0.294  Sum_probs=45.4

Q ss_pred             chhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHH-HhCCCCChhhHHHHHH
Q 048179           57 PFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAV-ELGYGNDVFVGSSMLN  119 (589)
Q Consensus        57 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-~~g~~~~~~~~~~li~  119 (589)
                      .-++.+-++.+...++.|++....+.+++|.+.+++..|.++++-+. +.|.  +...|..++.
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~lq   84 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHHH
Confidence            33566667777777889999999999999999999999999999776 3332  3345554443

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.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=86.56  E-value=13  Score=35.08  Aligned_cols=125  Identities=15%  Similarity=0.207  Sum_probs=68.7

Q ss_pred             hhHHHHHHHHHHCCCCCCcccHHHHHHHHhc--cC----CHHHHHHHHHHHHHhCC---CCChhhHHHHHHHHHhCCCh-
Q 048179           58 FEVLGLYNQMIKEDVRPDSSTFTVALKACVS--LM----DLKMGEEIWRKAVELGY---GNDVFVGSSMLNLYVKCGKM-  127 (589)
Q Consensus        58 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~--~~----~~~~a~~~~~~~~~~g~---~~~~~~~~~li~~~~~~g~~-  127 (589)
                      .+.+.+++.|.+.|++-+..+|.+..-....  ..    ....+..+|+.|.+..+   .++-.++..|+..  ...+. 
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e  156 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVE  156 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHH
Confidence            4566688889999999888887765444433  22    35578889999988753   3444555555543  33333 


Q ss_pred             ---HHHHHHHHhcCC-----CCcchHHHHHHHHHhC-CC--ccHHHHHHHHHHHCCCCCChhhHHHHH
Q 048179          128 ---NEAMVAFEKMQR-----KDLVCWSSMINGLVFN-GQ--PREAVDAYKRMKKEGIDADEVVMMGLI  184 (589)
Q Consensus       128 ---~~A~~~~~~~~~-----~~~~~~~~li~~~~~~-g~--~~~A~~~~~~m~~~~~~p~~~t~~~ll  184 (589)
                         +.++..|+.+.+     .|..-+-+-+-++... ..  ...+.++++.+.+.|+++....|..+.
T Consensus       157 ~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  157 ELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHH
Confidence               334444444433     1222222222222211 11  335666777777777766665554443

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.18  E-value=13  Score=37.96  Aligned_cols=124  Identities=15%  Similarity=0.123  Sum_probs=58.9

Q ss_pred             cCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHH
Q 048179          225 TGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYT  304 (589)
Q Consensus       225 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  304 (589)
                      .|+++.|..++..++++   ..+.++.-+-+.|-.++|+++         .+|+..-   .....+.|+++.|.++....
T Consensus       599 rrd~~~a~~vLp~I~k~---~rt~va~Fle~~g~~e~AL~~---------s~D~d~r---Felal~lgrl~iA~~la~e~  663 (794)
T KOG0276|consen  599 RRDLEVADGVLPTIPKE---IRTKVAHFLESQGMKEQALEL---------STDPDQR---FELALKLGRLDIAFDLAVEA  663 (794)
T ss_pred             hccccccccccccCchh---hhhhHHhHhhhccchHhhhhc---------CCChhhh---hhhhhhcCcHHHHHHHHHhh
Confidence            46677776666666532   233445555566666666553         2222111   11123345555554443332


Q ss_pred             hhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 048179          305 VRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETM  373 (589)
Q Consensus       305 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  373 (589)
                      .     +..-|..|.++..+.+++..|.++|.+..+     |..|+-.+...|+.+....+-....+.|
T Consensus       664 ~-----s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d-----~~~LlLl~t~~g~~~~l~~la~~~~~~g  722 (794)
T KOG0276|consen  664 N-----SEVKWRQLGDAALSAGELPLASECFLRARD-----LGSLLLLYTSSGNAEGLAVLASLAKKQG  722 (794)
T ss_pred             c-----chHHHHHHHHHHhhcccchhHHHHHHhhcc-----hhhhhhhhhhcCChhHHHHHHHHHHhhc
Confidence            2     333445555555555555555555554442     4444444444555443333333333333

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=86.05  E-value=2.7  Score=31.36  Aligned_cols=44  Identities=18%  Similarity=0.233  Sum_probs=30.6

Q ss_pred             HHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          466 EKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       466 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      ...+++.++.+|+|......++..+...|++++|++.+-.+.+.
T Consensus         8 ~~al~~~~a~~P~D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~   51 (90)
T PF14561_consen    8 IAALEAALAANPDDLDARYALADALLAAGDYEEALDQLLELVRR   51 (90)
T ss_dssp             HHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            44566667777877777777888888888888887777766653

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=86.01  E-value=4.8  Score=30.43  Aligned_cols=60  Identities=10%  Similarity=0.065  Sum_probs=42.6

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048179          361 EALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVD  422 (589)
Q Consensus       361 ~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  422 (589)
                      +..+-+..+....+.|++....+.+.||.+.+++..|.++|+.++.+.+  +....|..++.
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            4555566666677889999999999999999999999999999987644  33447776654

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 ....

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.12  E-value=20  Score=36.72  Aligned_cols=149  Identities=15%  Similarity=0.053  Sum_probs=90.3

Q ss_pred             hcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHH
Q 048179          324 KCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDL  403 (589)
Q Consensus       324 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~  403 (589)
                      -.|+++.|..++..++++   ..+.++.-+..+|-.++|+++-       ..||.. |    ....+.|+++.|.++..+
T Consensus       598 mrrd~~~a~~vLp~I~k~---~rt~va~Fle~~g~~e~AL~~s-------~D~d~r-F----elal~lgrl~iA~~la~e  662 (794)
T KOG0276|consen  598 LRRDLEVADGVLPTIPKE---IRTKVAHFLESQGMKEQALELS-------TDPDQR-F----ELALKLGRLDIAFDLAVE  662 (794)
T ss_pred             hhccccccccccccCchh---hhhhHHhHhhhccchHhhhhcC-------CChhhh-h----hhhhhcCcHHHHHHHHHh
Confidence            356677777666666532   2334445555666666665432       222222 2    123456778877776555


Q ss_pred             HHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhH
Q 048179          404 MVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIH  483 (589)
Q Consensus       404 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  483 (589)
                      ..       +..-|..|.++....|++..|.+-|.+..      -|..|+-.+...|+-+.-..+.....+....|.   
T Consensus       663 ~~-------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~------d~~~LlLl~t~~g~~~~l~~la~~~~~~g~~N~---  726 (794)
T KOG0276|consen  663 AN-------SEVKWRQLGDAALSAGELPLASECFLRAR------DLGSLLLLYTSSGNAEGLAVLASLAKKQGKNNL---  726 (794)
T ss_pred             hc-------chHHHHHHHHHHhhcccchhHHHHHHhhc------chhhhhhhhhhcCChhHHHHHHHHHHhhcccch---
Confidence            43       44567888888888888888888887754      356666667777776655555555544444332   


Q ss_pred             HHHHHHHHhCCChHHHHHHHHH
Q 048179          484 ALVSNFFAMEQKWEEVAGVRKT  505 (589)
Q Consensus       484 ~~l~~~~~~~g~~~~a~~~~~~  505 (589)
                        --.+|...|++++..+++.+
T Consensus       727 --AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  727 --AFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             --HHHHHHHcCCHHHHHHHHHh
Confidence              23456778888888887764

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=85.02  E-value=1.5  Score=26.73  Aligned_cols=29  Identities=7%  Similarity=0.202  Sum_probs=22.2

Q ss_pred             hHHHHHHHHHHhcCCchHHHHHHHHHhcc
Q 048179          447 AVWVALLSGCHNHKKFSIGEKVAKKVLKL  475 (589)
Q Consensus       447 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  475 (589)
                      .+++.|...|...|++++|+.++++++++
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~~   31 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALEI   31 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHHH
Confidence            46777888888888888888888888753

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=84.75  E-value=5.6  Score=39.07  Aligned_cols=136  Identities=16%  Similarity=0.143  Sum_probs=83.9

Q ss_pred             HhcCCHHHHH-HHHHhcCC--CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHH
Q 048179          323 SKCGVPSCAR-ALFDQMQS--RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRY  399 (589)
Q Consensus       323 ~~~g~~~~A~-~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~  399 (589)
                      ...|++-.|- ++|+-+..  .++.........+...|.++.+...+...... +.....+...+++.....|.+++|..
T Consensus       300 ~~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s  378 (831)
T PRK15180        300 LADGDIIAASQQLFAALRNQQQDPVLIQLRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALS  378 (831)
T ss_pred             hhccCHHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHH
Confidence            3456665554 44444432  22222222333456789999998888765543 34456778888889999999999999


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC--CCCChhHHHHHHHH--HHhcCC
Q 048179          400 WFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS--TEPGLAVWVALLSG--CHNHKK  461 (589)
Q Consensus       400 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~--~~~~~~  461 (589)
                      .-.-|... .+ .+.+......-..-..|-++++.-.+++.-  ..|...-|...+..  |...|+
T Consensus       379 ~a~~~l~~-ei-e~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~~~g~v~~~~~~~~~~~~~  442 (831)
T PRK15180        379 TAEMMLSN-EI-EDEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPETQSGWVNFLSSTQYFNDGN  442 (831)
T ss_pred             HHHHHhcc-cc-CChhheeeecccHHHHhHHHHHHHHHHHHhccCChhcccceeeeccceeccCcc
Confidence            88888764 33 233333333334445678888888888863  24556667666665  444443

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=84.28  E-value=1.5  Score=36.34  Aligned_cols=51  Identities=16%  Similarity=0.156  Sum_probs=22.5

Q ss_pred             HHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHH
Q 048179          149 INGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSV  199 (589)
Q Consensus       149 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~  199 (589)
                      +..+.+.+.+.....+++.+...+...+....+.++..|++.++.+....+
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~   64 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEF   64 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHT
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHH
Confidence            344444445555555555554443333344444455555554444443333

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.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=83.66  E-value=1.8  Score=25.28  Aligned_cols=27  Identities=15%  Similarity=-0.045  Sum_probs=15.9

Q ss_pred             hcCCCChhHHHHHHHHhHhcCCHHHHH
Q 048179          306 RRFDFNLVLGTSVIDMYSKCGVPSCAR  332 (589)
Q Consensus       306 ~~~~~~~~~~~~l~~~~~~~g~~~~A~  332 (589)
                      ...|.+...++.+...|...|++++|+
T Consensus         7 e~~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    7 ELNPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHCCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            334555666666666666666666654

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=83.48  E-value=67  Score=34.28  Aligned_cols=189  Identities=14%  Similarity=0.165  Sum_probs=97.7

Q ss_pred             CcccHHHHHHHHHcCCCchhHHHHHHHHHH-CCCCCCc--ccHHHHHHHHh-ccCCHHHHHHHHHHHHHhCCCCChh---
Q 048179           40 GVDTYNSIIIAYSRKESPFEVLGLYNQMIK-EDVRPDS--STFTVALKACV-SLMDLKMGEEIWRKAVELGYGNDVF---  112 (589)
Q Consensus        40 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-~~~~p~~--~~~~~ll~~~~-~~~~~~~a~~~~~~~~~~g~~~~~~---  112 (589)
                      ++..|..||.         .|++.++...+ ..++|..  .++.-+...+. ...+++.|+..+++.....-.++..   
T Consensus        29 ~l~~Y~kLI~---------~ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k   99 (608)
T PF10345_consen   29 QLKQYYKLIA---------TAIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLK   99 (608)
T ss_pred             hHHHHHHHHH---------HHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHH
Confidence            4556666665         45566666663 2233322  23344444443 5677888888888765543232222   


Q ss_pred             --hHHHHHHHHHhCCChHHHHHHHHhcCCC----CcchHHHHH-----HHHHhCCCccHHHHHHHHHHHCC---CCCChh
Q 048179          113 --VGSSMLNLYVKCGKMNEAMVAFEKMQRK----DLVCWSSMI-----NGLVFNGQPREAVDAYKRMKKEG---IDADEV  178 (589)
Q Consensus       113 --~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~li-----~~~~~~g~~~~A~~~~~~m~~~~---~~p~~~  178 (589)
                        ....++..+.+.+... |....++..+.    ....|....     ..+...+++..|++.++.+...-   ..|-..
T Consensus       100 ~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~  178 (608)
T PF10345_consen  100 FRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVF  178 (608)
T ss_pred             HHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHH
Confidence              2234566666666555 77666665431    122232222     22223367888888888775532   233344


Q ss_pred             hHHHHHHHHH--ccCCcHHHHHHHHHHHHhcC---------CCchHHHHHHHHHH--HhcCCHHHHHHHHhhc
Q 048179          179 VMMGLIQACA--DLGDSRFGLSVHGYSIRRHL---------NLDVKVQTSLVDMY--AKTGHLDLASHVFKNM  238 (589)
Q Consensus       179 t~~~ll~~~~--~~~~~~~a~~~~~~~~~~~~---------~~~~~~~~~l~~~~--~~~g~~~~A~~~~~~~  238 (589)
                      .+..++.+..  ..+..+.+.+....+.....         .|...++..+++.+  ...|+++.+...++++
T Consensus       179 v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~l  251 (608)
T PF10345_consen  179 VLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQL  251 (608)
T ss_pred             HHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4444555544  33445566666655533221         23445566665544  3456666665554443

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 [].

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=83.35  E-value=27  Score=29.61  Aligned_cols=119  Identities=13%  Similarity=0.096  Sum_probs=75.0

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHH-----HHHHHH
Q 048179          353 YGIHGHGEEALSLFLQMIETMVKPDHS-TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACM-----VDLLAR  426 (589)
Q Consensus       353 ~~~~g~~~~A~~~~~~m~~~~~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l-----~~~~~~  426 (589)
                      +++.+..++|+.-|..+.+.|...-+. ..........+.|+...|...|+++-...   |.+....-+     .-++..
T Consensus        68 lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt---~~P~~~rd~ARlraa~lLvD  144 (221)
T COG4649          68 LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADT---SIPQIGRDLARLRAAYLLVD  144 (221)
T ss_pred             HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccC---CCcchhhHHHHHHHHHHHhc
Confidence            355677788888888888776442221 22223334567788888888888887542   222222111     234567


Q ss_pred             cCCHHHHHHHHHhcCCCCC---hhHHHHHHHHHHhcCCchHHHHHHHHHhc
Q 048179          427 AGEVEEALKIVDSMSTEPG---LAVWVALLSGCHNHKKFSIGEKVAKKVLK  474 (589)
Q Consensus       427 ~g~~~~A~~~~~~~~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  474 (589)
                      .|.+++.....+-+..+.+   ...-..|.-+-.+.|++..|...|.++..
T Consensus       145 ~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         145 NGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             cccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            7888888777777644322   33445666677788888888888888775

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=83.12  E-value=35  Score=30.75  Aligned_cols=58  Identities=7%  Similarity=-0.018  Sum_probs=47.9

Q ss_pred             HHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          451 ALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       451 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ....++...|++-++++....++...|.|..+|..-+.+.+..=+.++|..-+....+
T Consensus       235 Ny~QC~L~~~e~yevleh~seiL~~~~~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~  292 (329)
T KOG0545|consen  235 NYCQCLLKKEEYYEVLEHCSEILRHHPGNVKAYFRRAKAHAAVWNEAEAKADLQKVLE  292 (329)
T ss_pred             hHHHHHhhHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhcCHHHHHHHHHHHHh
Confidence            3344556778888899999999999999999999999888888888888888887775

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=83.12  E-value=65  Score=33.85  Aligned_cols=151  Identities=9%  Similarity=0.043  Sum_probs=76.9

Q ss_pred             HhcCCHHHHHHHHHHHHH-------cCCCCCHHHHHHHHHHHhcCC-----cHHHHHHHHHHHHHhcCCCCChhhHHHHH
Q 048179          354 GIHGHGEEALSLFLQMIE-------TMVKPDHSTFASLLSALSHSG-----LVEEGRYWFDLMVSKYKIQPTEKHYACMV  421 (589)
Q Consensus       354 ~~~g~~~~A~~~~~~m~~-------~~~~p~~~t~~~ll~a~~~~g-----~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  421 (589)
                      ....+.+.|+..|+.+.+       .|   +......+..+|.+..     +.+.|..++...... + .|+....-...
T Consensus       260 g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~-g-~~~a~~~lg~~  334 (552)
T KOG1550|consen  260 GVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAEL-G-NPDAQYLLGVL  334 (552)
T ss_pred             cccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCccccHHHHHHHHHHHHhc-C-CchHHHHHHHH
Confidence            344566677776666655       33   2223445555555532     456677777776653 2 23333332222


Q ss_pred             HHHHH-cCCHHHHHHHHHhcCCCCChhHHHHHHHHHH----hcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhC-CC
Q 048179          422 DLLAR-AGEVEEALKIVDSMSTEPGLAVWVALLSGCH----NHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAME-QK  495 (589)
Q Consensus       422 ~~~~~-~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~  495 (589)
                      ..... ..+...|.++|......-.....-.+...+.    ...+.+.|...++++-+.+  ++.+...++..+.-. ++
T Consensus       335 ~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g--~~~A~~~~~~~~~~g~~~  412 (552)
T KOG1550|consen  335 YETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELAFAYYKKAAEKG--NPSAAYLLGAFYEYGVGR  412 (552)
T ss_pred             HHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc--ChhhHHHHHHHHHHcccc
Confidence            22222 2356677777777654333333222222221    2346777777777777766  333334444333322 67


Q ss_pred             hHHHHHHHHHHHhCCC
Q 048179          496 WEEVAGVRKTMRKSGM  511 (589)
Q Consensus       496 ~~~a~~~~~~m~~~g~  511 (589)
                      ++.+.-.+..+.+.|.
T Consensus       413 ~~~~~~~~~~~a~~g~  428 (552)
T KOG1550|consen  413 YDTALALYLYLAELGY  428 (552)
T ss_pred             ccHHHHHHHHHHHhhh
Confidence            7776666666655544

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.85  E-value=35  Score=30.55  Aligned_cols=88  Identities=16%  Similarity=0.270  Sum_probs=50.0

Q ss_pred             CcHHHHHHHHHHHHHhcCCC-CChhhHHHHH---HHHHHcCCHHHHHHHHHhcCC---CCChhHHH---HHHHH--HHhc
Q 048179          392 GLVEEGRYWFDLMVSKYKIQ-PTEKHYACMV---DLLARAGEVEEALKIVDSMST---EPGLAVWV---ALLSG--CHNH  459 (589)
Q Consensus       392 g~~~~a~~~~~~~~~~~~~~-p~~~~~~~l~---~~~~~~g~~~~A~~~~~~~~~---~p~~~~~~---~l~~~--~~~~  459 (589)
                      .+++.|+..|+..-+-|... .+...-.|++   ..-+..+++.+|+++|++...   ..+..-|.   -++.+  |.-.
T Consensus       128 ~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~  207 (288)
T KOG1586|consen  128 QDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLC  207 (288)
T ss_pred             HHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHh
Confidence            45666666666655433221 1122222333   334567899999999988632   22222222   22222  4333


Q ss_pred             -CCchHHHHHHHHHhccCCCC
Q 048179          460 -KKFSIGEKVAKKVLKLNPDD  479 (589)
Q Consensus       460 -~~~~~a~~~~~~~~~~~p~~  479 (589)
                       .|.--+...+++-.+++|.-
T Consensus       208 ~~D~v~a~~ALeky~~~dP~F  228 (288)
T KOG1586|consen  208 KADEVNAQRALEKYQELDPAF  228 (288)
T ss_pred             cccHHHHHHHHHHHHhcCCcc
Confidence             67777888899999999963

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=82.01  E-value=7.4  Score=36.13  Aligned_cols=97  Identities=10%  Similarity=0.068  Sum_probs=50.2

Q ss_pred             CcccHHHHHHHHHcCCCchhHHHHHHHHHHCC---CCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHH
Q 048179           40 GVDTYNSIIIAYSRKESPFEVLGLYNQMIKED---VRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSS  116 (589)
Q Consensus        40 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  116 (589)
                      .+.+-..++..-....++++++..+-+++..-   ..|+. +-...++.|.+ -+++.+..++..-+..|+-||.+++..
T Consensus        63 s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-~~~~~irlllk-y~pq~~i~~l~npIqYGiF~dqf~~c~  140 (418)
T KOG4570|consen   63 SSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-TIHTWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQFTFCL  140 (418)
T ss_pred             ceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccc-cHHHHHHHHHc-cChHHHHHHHhCcchhccccchhhHHH
Confidence            34444455555555556666666555554321   11111 12222333322 234556666655566666666666666


Q ss_pred             HHHHHHhCCChHHHHHHHHhcC
Q 048179          117 MLNLYVKCGKMNEAMVAFEKMQ  138 (589)
Q Consensus       117 li~~~~~~g~~~~A~~~~~~~~  138 (589)
                      +|+.+.+.+++.+|.++.-.|.
T Consensus       141 l~D~flk~~n~~~aa~vvt~~~  162 (418)
T KOG4570|consen  141 LMDSFLKKENYKDAASVVTEVM  162 (418)
T ss_pred             HHHHHHhcccHHHHHHHHHHHH
Confidence            6666666666666665555544

>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=81.98  E-value=16  Score=31.24  Aligned_cols=45  Identities=11%  Similarity=0.206  Sum_probs=27.8

Q ss_pred             chHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCcc
Q 048179          462 FSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKK  513 (589)
Q Consensus       462 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~  513 (589)
                      +++|...|+++...+|+|..+...|-..       ++|-++..++.+.+...
T Consensus        96 F~kA~~~FqkAv~~~P~ne~Y~ksLe~~-------~kap~lh~e~~~~~~~~  140 (186)
T PF06552_consen   96 FEKATEYFQKAVDEDPNNELYRKSLEMA-------AKAPELHMEIHKQGLGQ  140 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-HHHHHHHHHH-------HTHHHHHHHHHHSSS--
T ss_pred             HHHHHHHHHHHHhcCCCcHHHHHHHHHH-------HhhHHHHHHHHHHHhhh
Confidence            5678888999999999877555555322       35667777776665543

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.

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=81.93  E-value=61  Score=32.71  Aligned_cols=184  Identities=10%  Similarity=0.163  Sum_probs=115.7

Q ss_pred             HHHHHHHh-hcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 048179          298 KSIHGYTV-RRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS--RDLISWNVIIASYGIHGHGEEALSLFLQMIETMV  374 (589)
Q Consensus       298 ~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  374 (589)
                      .-+-..+. +..+.|....-++++.+.......-.+.+..+|..  .+-..+..++.+|..+ ..+.-..+|+++.+..+
T Consensus        51 lyisg~~~~s~~~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~el~q~y~en-~n~~l~~lWer~ve~df  129 (711)
T COG1747          51 LYISGIISLSKQLLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF  129 (711)
T ss_pred             HHHHHHHHhhhccccchHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc
Confidence            33333343 44455555566777888877777777778777764  5667788888888888 45778888888888643


Q ss_pred             CCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC------hhhHHHHHHHHHHcCCHHHHHHHHHhcCCC----C
Q 048179          375 KPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT------EKHYACMVDLLARAGEVEEALKIVDSMSTE----P  444 (589)
Q Consensus       375 ~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----p  444 (589)
                        |...+..-+..+...++...+..+|..+...  +-|.      .+.|..++...  ..+.+....+..++..+    .
T Consensus       130 --nDvv~~ReLa~~yEkik~sk~a~~f~Ka~yr--fI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~  203 (711)
T COG1747         130 --NDVVIGRELADKYEKIKKSKAAEFFGKALYR--FIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGR  203 (711)
T ss_pred             --hhHHHHHHHHHHHHHhchhhHHHHHHHHHHH--hcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccch
Confidence              3333433344444448888888888888763  3332      23454444322  34555555555555322    2


Q ss_pred             ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHH
Q 048179          445 GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSN  488 (589)
Q Consensus       445 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  488 (589)
                      -...+.-+-.-|....|+.+|++++...++.+..+..+--.+..
T Consensus       204 ~~Vl~qdv~~~Ys~~eN~~eai~Ilk~il~~d~k~~~ar~~~i~  247 (711)
T COG1747         204 GSVLMQDVYKKYSENENWTEAIRILKHILEHDEKDVWARKEIIE  247 (711)
T ss_pred             HHHHHHHHHHHhccccCHHHHHHHHHHHhhhcchhhhHHHHHHH
Confidence            23344444456778889999999999888887766554444443

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.72  E-value=39  Score=30.28  Aligned_cols=90  Identities=9%  Similarity=0.024  Sum_probs=47.9

Q ss_pred             HHHHHHHHc-CCHHHHHHHHHhcC-----CCCChhHHHHHHHH---HHhcCCchHHHHHHHHHhccCCCCch------hH
Q 048179          419 CMVDLLARA-GEVEEALKIVDSMS-----TEPGLAVWVALLSG---CHNHKKFSIGEKVAKKVLKLNPDDLG------IH  483 (589)
Q Consensus       419 ~l~~~~~~~-g~~~~A~~~~~~~~-----~~p~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~p~~~~------~~  483 (589)
                      .+.+.|... .++++|+..|+...     .+.+...-..++.+   -...+++.+|+.+|+++..-.-+|+.      -|
T Consensus       118 ~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~Kdy  197 (288)
T KOG1586|consen  118 EIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDY  197 (288)
T ss_pred             hHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHH
Confidence            445555444 56666666666542     12223333334433   35678999999999999865544432      12


Q ss_pred             H-HHHHHHHhCCChHHHHHHHHHHHh
Q 048179          484 A-LVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       484 ~-~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      . .-+..+.-.++.-.+...+++-.+
T Consensus       198 flkAgLChl~~~D~v~a~~ALeky~~  223 (288)
T KOG1586|consen  198 FLKAGLCHLCKADEVNAQRALEKYQE  223 (288)
T ss_pred             HHHHHHHhHhcccHHHHHHHHHHHHh
Confidence            2 222333333555555555555444

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=81.50  E-value=3.3  Score=25.90  Aligned_cols=27  Identities=7%  Similarity=0.054  Sum_probs=23.0

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          484 ALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       484 ~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      ..|+.+|...|+.+.|.+++++....|
T Consensus         3 LdLA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         3 LDLARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             hHHHHHHHHcCChHHHHHHHHHHHHcC
Confidence            458899999999999999999888644

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=80.98  E-value=11  Score=28.65  Aligned_cols=59  Identities=14%  Similarity=0.117  Sum_probs=36.7

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHH
Q 048179          261 STLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVI  319 (589)
Q Consensus       261 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  319 (589)
                      +..+-++.+....+.|++......+.+|.+.+++..|..+++.+.....+...+|..++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~~Y~~~l   86 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKEIYPYIL   86 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TTHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHHHHHHHH
Confidence            45555666666677888888888888888888888888888877733333333555444

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 ....

>smart00028 TPR Tetratricopeptide repeats

Probab=80.98  E-value=3.2  Score=22.77  Aligned_cols=28  Identities=7%  Similarity=-0.005  Sum_probs=24.9

Q ss_pred             hhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          481 GIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       481 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ..+..++.+|...|++++|...++...+
T Consensus         2 ~~~~~~a~~~~~~~~~~~a~~~~~~~~~   29 (34)
T smart00028        2 EALYNLGNAYLKLGDYDEALEYYEKALE   29 (34)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            4678899999999999999999988765

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=80.97  E-value=22  Score=26.92  Aligned_cols=61  Identities=20%  Similarity=0.193  Sum_probs=43.7

Q ss_pred             HHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 048179          319 IDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFA  382 (589)
Q Consensus       319 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~  382 (589)
                      +..+...|++++|..+.+....||...|-++..  .+.|-.+++..-+.+|...| .|...+|.
T Consensus        46 lsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla~sg-~p~lq~Fa  106 (115)
T TIGR02508        46 LSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLAASG-DPRLQTFV  106 (115)
T ss_pred             HHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHHhCC-CHHHHHHH
Confidence            345567788888888888888888888877654  35677677777777777776 55555554

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>PRK12798 chemotaxis protein; Reviewed

Probab=80.87  E-value=60  Score=31.95  Aligned_cols=179  Identities=15%  Similarity=0.172  Sum_probs=113.5

Q ss_pred             cCCHHHHHHHHHhcCC----CChhHHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHhcCCcHH
Q 048179          325 CGVPSCARALFDQMQS----RDLISWNVIIAS-YGIHGHGEEALSLFLQMIETMVKPDH----STFASLLSALSHSGLVE  395 (589)
Q Consensus       325 ~g~~~~A~~~~~~~~~----~~~~~~~~li~~-~~~~g~~~~A~~~~~~m~~~~~~p~~----~t~~~ll~a~~~~g~~~  395 (589)
                      .|+..+|.+.+..+..    +....+-.|+.+ .....++.+|+++|+...-.  .|-.    .....-+......|+.+
T Consensus       125 ~Gr~~~a~~~La~i~~~~l~~~lg~~laLv~a~l~~~~dP~~Al~~lD~aRLl--aPGTLvEEAALRRsi~la~~~g~~~  202 (421)
T PRK12798        125 SGRGREARKLLAGVAPEYLPAELGAYLALVQGNLMVATDPATALKLLDQARLL--APGTLVEEAALRRSLFIAAQLGDAD  202 (421)
T ss_pred             cCCHHHHHHHhhcCChhhcCchhhhHHHHHHHHHhcccCHHHHHHHHHHHHHh--CCchHHHHHHHHHhhHHHHhcCcHH
Confidence            5888888888887764    344566666655 44567889999999987653  3332    23344445567889999


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHH-HHHHHHHHcC---CHHHHHHHHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHH
Q 048179          396 EGRYWFDLMVSKYKIQPTEKHYA-CMVDLLARAG---EVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKK  471 (589)
Q Consensus       396 ~a~~~~~~~~~~~~~~p~~~~~~-~l~~~~~~~g---~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  471 (589)
                      ++..+-......|...|-...|. .+...+.+.+   ..+.-..++..|...-....|..+...-...|+.+.|.-..++
T Consensus       203 rf~~la~~Y~rRF~~S~YA~~F~~~F~~~~~~~~d~~~~~~l~~~ls~~d~~~q~~lYL~iAR~Ali~Gk~~lA~~As~~  282 (421)
T PRK12798        203 KFEALARNYLRRFRHSPYASQFAQRFVDLVVRLDDEIRDARLVEILSFMDPERQRELYLRIARAALIDGKTELARFASER  282 (421)
T ss_pred             HHHHHHHHHHHHhccCchHHHHHHHHHHHHHhccccccHHHHHHHHHhcCchhHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            98888777777666666544333 2333333333   3444555566665333456788888888999999999999999


Q ss_pred             HhccCCCCchhHHHHHHHHHh-----CCChHHHHHHHHHH
Q 048179          472 VLKLNPDDLGIHALVSNFFAM-----EQKWEEVAGVRKTM  506 (589)
Q Consensus       472 ~~~~~p~~~~~~~~l~~~~~~-----~g~~~~a~~~~~~m  506 (589)
                      +..+.+. ...-...+.+|..     ..+.++|.+.+..+
T Consensus       283 A~~L~~~-~~~~~~ra~LY~aaa~v~s~~~~~al~~L~~I  321 (421)
T PRK12798        283 ALKLADP-DSADAARARLYRGAALVASDDAESALEELSQI  321 (421)
T ss_pred             HHHhccC-CCcchHHHHHHHHHHccCcccHHHHHHHHhcC
Confidence            9987632 2222233333332     34566666655544

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=80.68  E-value=6.5  Score=36.11  Aligned_cols=59  Identities=8%  Similarity=-0.087  Sum_probs=52.0

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHH
Q 048179          449 WVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       449 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      ++-....|...|.+.+|.++.++++.++|-+...+-.|..+|+..|+--+|.+-++++.
T Consensus       282 lgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         282 LGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            34445678999999999999999999999999999999999999999888888877774

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=80.67  E-value=47  Score=30.63  Aligned_cols=123  Identities=15%  Similarity=0.152  Sum_probs=58.3

Q ss_pred             HHHHHHhHhcCCHHHHHHHHHhcCC--------CChhHHHHH-HHHHHhcCCHHHHHHHHHHHHH----cCCCCCHHHHH
Q 048179          316 TSVIDMYSKCGVPSCARALFDQMQS--------RDLISWNVI-IASYGIHGHGEEALSLFLQMIE----TMVKPDHSTFA  382 (589)
Q Consensus       316 ~~l~~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~l-i~~~~~~g~~~~A~~~~~~m~~----~~~~p~~~t~~  382 (589)
                      .-++..+.+.|.+.+|..+...+..        ++.++...+ -.+|-...+..++..-+...+.    .-.+|....-.
T Consensus       129 ~Kli~l~y~~~~YsdalalIn~ll~ElKk~DDK~~Li~vhllESKvyh~irnv~KskaSLTaArt~Ans~YCPpqlqa~l  208 (421)
T COG5159         129 CKLIYLLYKTGKYSDALALINPLLHELKKYDDKINLITVHLLESKVYHEIRNVSKSKASLTAARTLANSAYCPPQLQAQL  208 (421)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHHHhhcCccceeehhhhhHHHHHHHHhhhhhhhHHHHHHHHhhccCCCHHHHHHH
Confidence            4566777778888887776654431        222221111 1233333444444333333221    12345444444


Q ss_pred             HHHHHH--hcCCcHHHHHHHHHHHHHhcC-CCCChhhHHHHHHHH---HHcCCHHHHHHHHH
Q 048179          383 SLLSAL--SHSGLVEEGRYWFDLMVSKYK-IQPTEKHYACMVDLL---ARAGEVEEALKIVD  438 (589)
Q Consensus       383 ~ll~a~--~~~g~~~~a~~~~~~~~~~~~-~~p~~~~~~~l~~~~---~~~g~~~~A~~~~~  438 (589)
                      -|+++.  +...++..|..+|-+..+.|. ...+.....+|--++   .-..+.++...+++
T Consensus       209 DL~sGIlhcdd~dyktA~SYF~Ea~Egft~l~~d~kAc~sLkYmlLSkIMlN~~~evk~vl~  270 (421)
T COG5159         209 DLLSGILHCDDRDYKTASSYFIEALEGFTLLKMDVKACVSLKYMLLSKIMLNRREEVKAVLR  270 (421)
T ss_pred             HHhccceeeccccchhHHHHHHHHHhccccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHc
Confidence            555553  334567788888877776432 223333333332222   23344555544443

---

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	589
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-09
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	9e-09
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-06
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-06
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-04

>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 = 58.7 bits (141), Expect = 4e-09
 Identities = 90/636 (14%), Positives = 190/636 (29%), Gaps = 192/636 (30%)

Query: 19  LYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRP---- 74
           +   K+ +    +LF  L  +  +     +    R    F    L + +  E  +P    
Sbjct: 54  IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKF----LMSPIKTEQRQPSMMT 109

Query: 75  ------------DSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFV-GSSMLNLY 121
                       D+  F    K  VS   L+   ++ +  +EL    +V + G  +L   
Sbjct: 110 RMYIEQRDRLYNDNQVFA---KYNVS--RLQPYLKLRQALLELRPAKNVLIDG--VLG-- 160

Query: 122 VKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMM 181
              GK     VA +      + C    ++  +F          +  +K    ++ E V+ 
Sbjct: 161 --SGK---TWVALDVCLSYKVQC---KMDFKIF----------WLNLKNC--NSPETVLE 200

Query: 182 GLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGH------LDLASHV- 234
            L +    +  +    S H  +I+  ++    +Q  L  +     +      L    +V 
Sbjct: 201 MLQKLLYQIDPNWTSRSDHSSNIKLRIH---SIQAELRRLLKSKPYENCLLVLL---NVQ 254

Query: 235 -------FKNMSRINIVTWGALISGFAQN-------------GLAGS-TLELL---MEM- 269
                  F    +I + T    ++ F                 L       LL   ++  
Sbjct: 255 NAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR 314

Query: 270 ------QSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYS 323
                 +     P  +S+++          ++ G +      +  + + +  T++I+   
Sbjct: 315 PQDLPREVLTTNPRRLSIIAES--------IRDGLATWDNW-KHVNCDKL--TTIIESSL 363

Query: 324 KCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLF-LQMIETMVKPDHSTFA 382
               P+  R +FD++    +   +  I            LSL    +I++ V        
Sbjct: 364 NVLEPAEYRKMFDRLS---VFPPSAHIP--------TILLSLIWFDVIKSDVM------- 405

Query: 383 SLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEAL--KIVDSM 440
            +++ L    LVE  +   +  +S   I          ++L  +  E E AL   IVD  
Sbjct: 406 VVVNKLHKYSLVE--KQPKESTISIPSIY---------LELKVKL-ENEYALHRSIVD-- 451

Query: 441 STEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD------LGIHALVSNFFAMEQ 494
                                ++I +      L     D      +G H          +
Sbjct: 452 --------------------HYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE---HPE 488

Query: 495 KWEEVAGV-------RKTMRKSGMKKVPGYSVVEVNGELH---AFIMEDKSHNQYEDIVY 544
           +      V        + +R          S++    +L     +I ++    +YE +V 
Sbjct: 489 RMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDN--DPKYERLVN 546

Query: 545 VLKKLYLEMRAISSWLQGHMEEHEEHDPLSTAAQYA 580
            +            +L    EE+      +   + A
Sbjct: 547 AILD----------FLPKI-EENLICSKYTDLLRIA 571

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 57.5 bits (137), Expect = 9e-09
 Identities = 18/136 (13%), Positives = 44/136 (32%), Gaps = 9/136 (6%)

Query: 317 SVIDMYSKCGVPSCARALFDQMQSR-------DLISWNVIIASYGIHGHGEEALSLFLQM 369
           +             A  L      +        L  +N ++  +   G  +E + +   +
Sbjct: 132 AFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMV 191

Query: 370 IETMVKPDHSTFASLLSALSHSGLVEEG-RYWFDLMVSKYKIQPTEKHYACMVDLLARAG 428
            +  + PD  ++A+ L  +              + M S+  ++      A ++    RA 
Sbjct: 192 KDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQM-SQEGLKLQALFTAVLLSEEDRAT 250

Query: 429 EVEEALKIVDSMSTEP 444
            ++   K+  + S  P
Sbjct: 251 VLKAVHKVKPTFSLPP 266

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 51.0 bits (120), Expect = 1e-06
 Identities = 21/114 (18%), Positives = 41/114 (35%), Gaps = 8/114 (7%)

Query: 183 LIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR-- 240
           L+Q            +  G   +  L+   +   +       T  L LA H+        
Sbjct: 98  LLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQR 157

Query: 241 -----INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACA 289
                + +  + A++ G+A+ G     + +L  ++  G  PD +S  +A L C 
Sbjct: 158 QKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS-YAAALQCM 210

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 49.0 bits (115), Expect = 4e-06
 Identities = 32/360 (8%), Positives = 101/360 (28%), Gaps = 25/360 (6%)

Query: 167 RMKKEGIDADEVVMMGLIQACADLGD---SRFGLSVHGYSIRRHLNLDVKVQTSLVDMYA 223
           +  +  +   +  ++   + C        +   L VH    ++   L + +  +++  +A
Sbjct: 117 QHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWA 176

Query: 224 KTGHLDLASHVFKNMSRI----NIVTWGALISGFAQNGLAGSTLE-LLMEMQSCGFEPDS 278
           + G      +V   +       +++++ A +    +      T+E  L +M   G +  +
Sbjct: 177 RQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQA 236

Query: 279 VSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQM 338
           +     L    +         +     +      +       + +   +           
Sbjct: 237 LFTAVLLSEEDRAT-------VLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVS 289

Query: 339 QSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPD-----HSTFASLLSALSHSGL 393
             +  +    +   +    H E A  + +  +E    P             L       L
Sbjct: 290 YPKLHLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWEKAL 349

Query: 394 VEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALL 453
               R   + +  + ++          + LL     V   L+++ ++  +      +A  
Sbjct: 350 CRALRETKNRL--EREVYEGRFSLYPFLCLLDEREVVRMLLQVLQALPAQGESFTTLARE 407

Query: 454 SGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKK 513
                  +  +  +     ++   +    +       A + +  E    R+     G  +
Sbjct: 408 LSARTFSRHVVQRQRVSGQVQALQNH---YRKYLCLLASDAEVPEPCLPRQYWEALGAPE 464

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 43.3 bits (100), Expect = 2e-04
 Identities = 15/114 (13%), Positives = 42/114 (36%), Gaps = 1/114 (0%)

Query: 26  IVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKA 85
           +V      ++  L  +D YN++++ ++R+ +  E++ +   +    + PD  ++  AL+ 
Sbjct: 150 LVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQC 209

Query: 86  CVSL-MDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQ 138
                 D    E    +  + G        + +L+   +   +           
Sbjct: 210 MGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFS 263

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	589
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.94
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.94
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.93
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.91
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.9
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.88
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.87
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.85
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.84
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.84
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.83
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.83
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.82
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.82
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.82
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.81
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.8
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.8
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.8
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.79
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.79
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.78
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.77
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.76
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.75
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.74
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.7
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.69
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.66
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.65
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.65
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.64
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.64
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.63
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.63
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.62
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.6
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.59
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.59
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.59
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.59
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.59
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.59
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.57
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.56
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.56
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.56
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.55
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.54
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.54
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.54
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.53
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.53
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.53
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.51
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.51
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.47
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.46
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.45
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.43
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.43
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.42
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.42
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.42
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.41
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.41
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.4
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.39
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.38
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.34
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.34
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.34
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.32
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.28
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.23
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.2
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.18
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.18
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.18
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.16
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.15
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.13
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.13
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.13
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.13
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.12
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.12
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.1
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.1
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.06
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.05
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.05
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.04
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.02
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.02
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.0
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.0
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.99
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.98
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.96
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.91
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.91
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.9
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.9
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.9
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.88
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.87
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.87
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.86
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.85
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.85
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.84
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.84
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.83
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.82
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.82
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.81
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.81
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.79
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.78
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.78
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.77
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.77
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.75
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.74
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.72
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.7
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.68
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.67
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.65
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.65
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.63
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.63
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.62
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.62
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.62
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.62
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.61
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.6
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.6
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.6
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.59
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.59
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.58
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.57
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.57
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.56
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.56
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.55
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.54
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.54
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.53
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.52
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.5
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.48
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.48
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.45
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.44
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.44
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.44
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.42
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.42
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.41
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.4
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.4
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.39
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.36
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.36
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.35
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.33
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.33
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.32
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.3
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.29
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.29
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.28
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.27
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.26
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.22
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.21
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.21
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.2
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.18
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.16
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.12
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.12
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.1
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.09
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.07
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.07
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.03
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.03
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	98.01
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.96
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.9
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.88
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.87
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.85
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.81
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.8
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.75
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.74
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.68
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.6
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.54
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.47
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.36
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.3
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.26
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.25
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.19
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.06
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.03
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.98
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.92
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.81
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.59
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.38
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.38
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.34
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	96.27
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	96.23
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	95.98
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.93
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.86
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.61
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.59
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	95.44
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.37
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.24
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.49
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	94.36
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	91.88
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	91.82
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	91.29
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	90.5
2p58_C	116	Putative type III secretion protein YSCG; type III	90.35
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	89.91
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	89.84
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	89.83
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	89.79
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	89.71
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	89.47
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	89.17
2qx5_A	661	Nucleoporin NIC96; mRNA transport, nuclear pore co	88.81
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	87.53
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	87.4
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	86.49
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	86.05
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	85.59
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	85.54
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	85.53
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	85.47
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	84.32
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	83.53
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	82.39
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	82.05
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	81.01

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=2.5e-44  Score=380.27  Aligned_cols=483  Identities=10%  Similarity=-0.020  Sum_probs=404.3

Q ss_pred             HhhhcCCChHHHHHHhccCCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHH
Q 048179           18 ALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEE   97 (589)
Q Consensus        18 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~   97 (589)
                      ..+.+.|.+..+...|+.++.+++..|+.++..|.+.|++++|+.+|++|...  .|+..++..++.+|.+.|++++|..
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~  138 (597)
T 2xpi_A           61 NNTSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKC  138 (597)
T ss_dssp             ---------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccccccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHH
Confidence            34566788888999999998889999999999999999999999999999854  5788999999999999999999999


Q ss_pred             HHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCC-------------------CcchHHHHHHHHHhCCCc
Q 048179           98 IWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRK-------------------DLVCWSSMINGLVFNGQP  158 (589)
Q Consensus        98 ~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-------------------~~~~~~~li~~~~~~g~~  158 (589)
                      +|+.+...  +++..+++.++.+|.++|++++|.++|+++...                   +..+|+.++.+|.+.|++
T Consensus       139 ~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  216 (597)
T 2xpi_A          139 LLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNF  216 (597)
T ss_dssp             HHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCH
Confidence            99987654  678999999999999999999999999965433                   378999999999999999


Q ss_pred             cHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHccCCcHH--HHHH-HHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHH
Q 048179          159 REAVDAYKRMKKEGIDAD-EVVMMGLIQACADLGDSRF--GLSV-HGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHV  234 (589)
Q Consensus       159 ~~A~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~--a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  234 (589)
                      ++|+++|++|.+.+  |+ ...+..+...+...+..+.  +..+ +..+...+..+...+++.++..|.+.|++++|.++
T Consensus       217 ~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~  294 (597)
T 2xpi_A          217 DRAKECYKEALMVD--AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDY  294 (597)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC--chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHH
Confidence            99999999998864  44 3344444433332222211  1111 44444445555666788889999999999999999


Q ss_pred             HhhcCC--CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCCh
Q 048179          235 FKNMSR--INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNL  312 (589)
Q Consensus       235 ~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  312 (589)
                      |+++.+  ++..+|+.++.+|.+.|++++|+.+|+++.+.+ +.+..++..++.++...|+.+.|..+++.+....+.+.
T Consensus       295 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  373 (597)
T 2xpi_A          295 LSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKA  373 (597)
T ss_dssp             HHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSH
T ss_pred             HHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcccH
Confidence            999988  789999999999999999999999999999875 44778899999999999999999999999997778889


Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 048179          313 VLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALS  389 (589)
Q Consensus       313 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~  389 (589)
                      .+++.++.+|.++|++++|.++|+++.+   .+..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..++..++.+|.
T Consensus       374 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  452 (597)
T 2xpi_A          374 VTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHM  452 (597)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHH
Confidence            9999999999999999999999998753   567899999999999999999999999999874 457889999999999


Q ss_pred             cCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc-------CCCCC--hhHHHHHHHHHHhcC
Q 048179          390 HSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM-------STEPG--LAVWVALLSGCHNHK  460 (589)
Q Consensus       390 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~--~~~~~~l~~~~~~~~  460 (589)
                      +.|++++|.++|+.+.+.  .+.+..+|..++.+|.+.|++++|.++|+++       ...|+  ..+|..++.+|...|
T Consensus       453 ~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g  530 (597)
T 2xpi_A          453 QLGNILLANEYLQSSYAL--FQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLK  530 (597)
T ss_dssp             HHTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTT
T ss_pred             HcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhc
Confidence            999999999999999874  3456889999999999999999999999987       33676  679999999999999


Q ss_pred             CchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          461 KFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       461 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      ++++|++.++++++.+|+++.+|..++.+|.+.|++++|.+.++++.+..
T Consensus       531 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  580 (597)
T 2xpi_A          531 MYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAIS  580 (597)
T ss_dssp             CHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999998743

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=2.3e-41  Score=357.56  Aligned_cols=479  Identities=8%  Similarity=-0.028  Sum_probs=412.6

Q ss_pred             CCcchHhHHHHhhhcCCChHHHHHHhccCC--CCCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHH
Q 048179            8 AYGNSVGRIIALYGGKNDIVSARKLFEELP--LRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKA   85 (589)
Q Consensus         8 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~   85 (589)
                      +++..++.++..|.+.|++++|..+|+++.  .|+..+|+.++.+|.+.|++++|+.+|+.+...  +++..+++.++.+
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~  159 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLDITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAAFC  159 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCchHHHHHHHHHHhhCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHHHH
Confidence            577889999999999999999999999885  567789999999999999999999999998653  6788999999999


Q ss_pred             HhccCCHHHHHHHHHHHHHh---------------CCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCC---CcchHHH
Q 048179           86 CVSLMDLKMGEEIWRKAVEL---------------GYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRK---DLVCWSS  147 (589)
Q Consensus        86 ~~~~~~~~~a~~~~~~~~~~---------------g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~  147 (589)
                      +.+.|++++|.++|+++...               |.+.+..+++.++.+|.+.|++++|.++|+++.+.   +...|..
T Consensus       160 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  239 (597)
T 2xpi_A          160 LVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQ  239 (597)
T ss_dssp             HHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHH
Confidence            99999999999999853211               12335789999999999999999999999999753   3445555


Q ss_pred             HHHHHHhCCCccHHHH--H-HHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHh
Q 048179          148 MINGLVFNGQPREAVD--A-YKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAK  224 (589)
Q Consensus       148 li~~~~~~g~~~~A~~--~-~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  224 (589)
                      +...+...+..+.+..  + +..+...+..+...+|+.++..|.+.|++++|.++++.+.+.  +++..+++.++.+|.+
T Consensus       240 l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~  317 (597)
T 2xpi_A          240 LVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFV  317 (597)
T ss_dssp             HHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHH
T ss_pred             HHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHH
Confidence            5554444333222211  1 455555555556667777788899999999999999998876  5789999999999999


Q ss_pred             cCCHHHHHHHHhhcCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHH
Q 048179          225 TGHLDLASHVFKNMSR---INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIH  301 (589)
Q Consensus       225 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~  301 (589)
                      .|++++|.++|+++.+   .+..+|+.++.++.+.|++++|..+++++.+.. +.+..++..+...+.+.|+++.|..++
T Consensus       318 ~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  396 (597)
T 2xpi_A          318 RSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYF  396 (597)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHH
Confidence            9999999999999863   477899999999999999999999999998653 557888999999999999999999999


Q ss_pred             HHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 048179          302 GYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDH  378 (589)
Q Consensus       302 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  378 (589)
                      +.+....+.+..+++.++.+|.+.|++++|.++|+++.+   .+..+|+.++.+|.+.|++++|+++|+++.+.. +.+.
T Consensus       397 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~  475 (597)
T 2xpi_A          397 SKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDP  475 (597)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCH
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCh
Confidence            999976777899999999999999999999999998753   478899999999999999999999999999874 4578


Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhc---CCCCC--hhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CC-ChhHHHH
Q 048179          379 STFASLLSALSHSGLVEEGRYWFDLMVSKY---KIQPT--EKHYACMVDLLARAGEVEEALKIVDSMST-EP-GLAVWVA  451 (589)
Q Consensus       379 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~  451 (589)
                      .+|..++..+.+.|++++|.++|+++.+..   +..|+  ..+|..++.+|.+.|++++|.+.++++.. .| +..+|..
T Consensus       476 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  555 (597)
T 2xpi_A          476 LLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTA  555 (597)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHH
Confidence            899999999999999999999999997642   44676  78999999999999999999999999732 34 7889999


Q ss_pred             HHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHh
Q 048179          452 LLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAM  492 (589)
Q Consensus       452 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  492 (589)
                      ++.+|...|++++|.+.++++++++|+++..+..++++|..
T Consensus       556 l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~  596 (597)
T 2xpi_A          556 IALVYLHKKIPGLAITHLHESLAISPNEIMASDLLKRALEE  596 (597)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTC-
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999988753

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=1.6e-27  Score=237.14  Aligned_cols=371  Identities=15%  Similarity=0.105  Sum_probs=276.8

Q ss_pred             HHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCC---CCcchHHHHHHHHHhCCCcc
Q 048179           83 LKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR---KDLVCWSSMINGLVFNGQPR  159 (589)
Q Consensus        83 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~  159 (589)
                      ...+.+.|++++|.+.+..+.+.. +.+...+..+...+...|++++|...++....   .+..+|..+...|.+.|+++
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~   84 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHH
Confidence            445667788888888888877764 33455666677777778888888877776553   35567777778888888888


Q ss_pred             HHHHHHHHHHHCCCCCC-hhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhc
Q 048179          160 EAVDAYKRMKKEGIDAD-EVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNM  238 (589)
Q Consensus       160 ~A~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  238 (589)
                      +|++.|+++.+.  .|+ ..++..+..++...|++++|...+..+++.. +.+..++..+...+...|++++|.+.|+++
T Consensus        85 ~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  161 (388)
T 1w3b_A           85 EAIEHYRHALRL--KPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc--CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            888888877764  333 3456667777777777777777777766654 223445556666666666666666666655


Q ss_pred             CC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHH
Q 048179          239 SR---INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLG  315 (589)
Q Consensus       239 ~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  315 (589)
                      .+   .+..+|..+...+...|++++|+..|+++.+.                                   .+.+...+
T Consensus       162 l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-----------------------------------~p~~~~~~  206 (388)
T 1w3b_A          162 IETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTL-----------------------------------DPNFLDAY  206 (388)
T ss_dssp             HHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH-----------------------------------CTTCHHHH
T ss_pred             HHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-----------------------------------CCCcHHHH
Confidence            43   23455666666666666666666666666553                                   23344455


Q ss_pred             HHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC
Q 048179          316 TSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSG  392 (589)
Q Consensus       316 ~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g  392 (589)
                      ..+...+...|++++|...|++...   .+..+|..+...+...|++++|+..|+++.+.. +.+..++..+..++.+.|
T Consensus       207 ~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  285 (388)
T 1w3b_A          207 INLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKG  285 (388)
T ss_dssp             HHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcC
Confidence            6677777777888888888776643   356788888899999999999999999998864 334678888999999999


Q ss_pred             cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CC-ChhHHHHHHHHHHhcCCchHHHHHHH
Q 048179          393 LVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-EP-GLAVWVALLSGCHNHKKFSIGEKVAK  470 (589)
Q Consensus       393 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~~~~~~a~~~~~  470 (589)
                      ++++|...|+.+.+.  .+++...+..++.++.+.|++++|.+.++++.. .| +..++..+..++...|++++|...++
T Consensus       286 ~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  363 (388)
T 1w3b_A          286 SVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYK  363 (388)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999999999874  356688899999999999999999999999743 34 57789999999999999999999999


Q ss_pred             HHhccCCCCchhHHHHHHHHHhCCC
Q 048179          471 KVLKLNPDDLGIHALVSNFFAMEQK  495 (589)
Q Consensus       471 ~~~~~~p~~~~~~~~l~~~~~~~g~  495 (589)
                      ++++++|+++.+|..++.++...|+
T Consensus       364 ~a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          364 EAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHhhCCCCHHHHHhHHHHHHHccC
Confidence            9999999999999999999988774

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=4.6e-27  Score=233.90  Aligned_cols=352  Identities=13%  Similarity=0.082  Sum_probs=292.6

Q ss_pred             HHHHHhCCCccHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCC
Q 048179          149 INGLVFNGQPREAVDAYKRMKKEGIDAD-EVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGH  227 (589)
Q Consensus       149 i~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  227 (589)
                      ...+.+.|++++|++.+.++.+.  .|+ ...+..+...+...|+++.|...+...++.. +.+..++..+...|.+.|+
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCC
Confidence            34556777888888888777665  333 3445555566677788888888887777654 4467788888888888888


Q ss_pred             HHHHHHHHhhcCC--C-CeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCchhhHHHHHHH
Q 048179          228 LDLASHVFKNMSR--I-NIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPD-SVSLVSALLACAQIGFLKLGKSIHGY  303 (589)
Q Consensus       228 ~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~  303 (589)
                      +++|...|+++.+  | +..+|..+..++.+.|++++|+..|.++.+.  .|+ ...+..+...+...|+++.|...+..
T Consensus        83 ~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  160 (388)
T 1w3b_A           83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            8888888887753  3 3456888888888889999999888888875  344 34556667777888899999988888


Q ss_pred             HhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHH
Q 048179          304 TVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHST  380 (589)
Q Consensus       304 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t  380 (589)
                      +....+.+..++..+...|.+.|++++|...|+++.+   .+...|..+...+...|++++|+..|++..+.. +.+..+
T Consensus       161 al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~  239 (388)
T 1w3b_A          161 AIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVV  239 (388)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHH
Confidence            8866777888899999999999999999999998864   356788999999999999999999999998864 335778


Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHh
Q 048179          381 FASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHN  458 (589)
Q Consensus       381 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~  458 (589)
                      +..+..++...|++++|...|+.+.+.  .+.+...|..++.++.+.|++++|.+.++++..  +++..+|..+...+..
T Consensus       240 ~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  317 (388)
T 1w3b_A          240 HGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKRE  317 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHH
Confidence            899999999999999999999999863  334578899999999999999999999999732  4577899999999999


Q ss_pred             cCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          459 HKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       459 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      .|++++|+..+++++++.|+++..+..++.+|.+.|++++|.+.++++.+
T Consensus       318 ~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  367 (388)
T 1w3b_A          318 QGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             TTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             cCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999986

>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=99.95  E-value=2.6e-28  Score=247.01  Aligned_cols=212  Identities=11%  Similarity=0.053  Sum_probs=174.4

Q ss_pred             hHHHHHHHHHHCCCCCCc-ccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhc
Q 048179           59 EVLGLYNQMIKEDVRPDS-STFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKM  137 (589)
Q Consensus        59 ~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  137 (589)
                      .+..+.+.+.+.++.+.+ ..++.+|.+|++.|++++|.++|++|.+.|+.||..+||+||.+|++.+...++       
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~-------   80 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES-------   80 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS-------
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh-------
Confidence            445566777777766554 357888999999999999999999999999999999999999999887764432       


Q ss_pred             CCCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHH
Q 048179          138 QRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTS  217 (589)
Q Consensus       138 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  217 (589)
                                     .+.+..++|.++|++|...|+.||..||+++|.+|++.|+++.|.+++++|.+.|+.||..+|++
T Consensus        81 ---------------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~  145 (501)
T 4g26_A           81 ---------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGP  145 (501)
T ss_dssp             ---------------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             ---------------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehH
Confidence                           23455678899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCC----CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccC
Q 048179          218 LVDMYAKTGHLDLASHVFKNMSR----INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIG  292 (589)
Q Consensus       218 l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~  292 (589)
                      +|.+|++.|++++|.++|++|.+    ||..+|++||.+|++.|+.++|.++|++|.+.|..|+..||..++..+...+
T Consensus       146 lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~  224 (501)
T 4g26_A          146 ALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEV  224 (501)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCc
Confidence            99999999999999999999864    7899999999999999999999999999999999999999999999887643

>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=99.95  E-value=9e-28  Score=243.01  Aligned_cols=197  Identities=13%  Similarity=0.138  Sum_probs=174.6

Q ss_pred             HHHHhccCCCCC-----cccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCC---------HHH
Q 048179           29 ARKLFEELPLRG-----VDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMD---------LKM   94 (589)
Q Consensus        29 A~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~---------~~~   94 (589)
                      +..+++.+.+..     ...++.+|.+|++.|++++|+++|++|.+.|++||..||+++|.+|++.+.         ++.
T Consensus         9 ~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~   88 (501)
T 4g26_A            9 SENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSR   88 (501)
T ss_dssp             ---------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHH
T ss_pred             HHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHH
Confidence            444555554332     235889999999999999999999999999999999999999999987654         788


Q ss_pred             HHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcC----CCCcchHHHHHHHHHhCCCccHHHHHHHHHHH
Q 048179           95 GEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQ----RKDLVCWSSMINGLVFNGQPREAVDAYKRMKK  170 (589)
Q Consensus        95 a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  170 (589)
                      |.++|++|.+.|+.||..+|++||.+|++.|++++|.++|++|.    .||..+||+||.+|++.|++++|.++|++|.+
T Consensus        89 A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~  168 (501)
T 4g26_A           89 GFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVE  168 (501)
T ss_dssp             HHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999997    47999999999999999999999999999999


Q ss_pred             CCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhc
Q 048179          171 EGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKT  225 (589)
Q Consensus       171 ~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  225 (589)
                      .|+.||..||+++|.+|++.|++++|.+++++|.+.|..|+..+|+.++..|...
T Consensus       169 ~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          169 SEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             TTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             cCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999999999999999988764

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.94  E-value=1.8e-24  Score=223.59  Aligned_cols=438  Identities=11%  Similarity=-0.011  Sum_probs=252.8

Q ss_pred             cHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHH
Q 048179           43 TYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYV  122 (589)
Q Consensus        43 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~  122 (589)
                      .|......+.+.|++++|+..|+++.+.+  ||..++..+..++...|+++.|...++.+++.+ +.+...+..+..+|.
T Consensus         8 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~   84 (514)
T 2gw1_A            8 ALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANE   84 (514)
T ss_dssp             HHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHH
Confidence            45566677777888888888888877764  577777777778888888888888888877765 345567777777788


Q ss_pred             hCCChHHHHHHHHhcCC---CCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHH
Q 048179          123 KCGKMNEAMVAFEKMQR---KDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSV  199 (589)
Q Consensus       123 ~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~  199 (589)
                      +.|++++|...|+++..   .+......++..+........+.+.+..+...+..|+...+..-...............+
T Consensus        85 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (514)
T 2gw1_A           85 GLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSM  164 (514)
T ss_dssp             HTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHH
T ss_pred             HHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHH
Confidence            88888888877776643   233333334433333222222222222222111111111111100000000000000011


Q ss_pred             HHHHHHhcC---------CCchHHHHHHHHHHHh---cCCHHHHHHHHhhcCC-----C------------CeehHHHHH
Q 048179          200 HGYSIRRHL---------NLDVKVQTSLVDMYAK---TGHLDLASHVFKNMSR-----I------------NIVTWGALI  250 (589)
Q Consensus       200 ~~~~~~~~~---------~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~-----~------------~~~~~~~li  250 (589)
                      ...+.....         +.+...+..+...+..   .|++++|...|+++.+     .            +..+|..+.
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (514)
T 2gw1_A          165 ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTG  244 (514)
T ss_dssp             HHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHH
Confidence            000000000         1123334444444443   6677777776665533     1            234566667


Q ss_pred             HHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHH
Q 048179          251 SGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSC  330 (589)
Q Consensus       251 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  330 (589)
                      ..+...|++++|+..|+++.+..  |+...+..+...+...|+++.|...+..+....+.+..++..+...|...|++++
T Consensus       245 ~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  322 (514)
T 2gw1_A          245 IFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQ  322 (514)
T ss_dssp             HHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHH
Confidence            77777777777777777777653  3356666666667777777777777777665555566666777777777777777


Q ss_pred             HHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHh
Q 048179          331 ARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSK  407 (589)
Q Consensus       331 A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  407 (589)
                      |...|+++.+   .+...|..+...+...|++++|+..|+++.+.. +.+..++..+...+...|++++|...++.+.+.
T Consensus       323 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~  401 (514)
T 2gw1_A          323 AGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIEL  401 (514)
T ss_dssp             HHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            7777766532   345566666677777777777777777766642 234456666666777777777777777766543


Q ss_pred             cCCCCC----hhhHHHHHHHHHH---cCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCC
Q 048179          408 YKIQPT----EKHYACMVDLLAR---AGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPD  478 (589)
Q Consensus       408 ~~~~p~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  478 (589)
                      ..-.++    ...+..+...+.+   .|++++|.+.++++. ..| +..+|..+...+...|++++|...++++++++|+
T Consensus       402 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  481 (514)
T 2gw1_A          402 ENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLART  481 (514)
T ss_dssp             HHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS
T ss_pred             hhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccc
Confidence            211122    2266666777777   777777777776652 122 4556666666777777777777777777777776


Q ss_pred             CchhHHHH
Q 048179          479 DLGIHALV  486 (589)
Q Consensus       479 ~~~~~~~l  486 (589)
                      ++..+..+
T Consensus       482 ~~~~~~~~  489 (514)
T 2gw1_A          482 MEEKLQAI  489 (514)
T ss_dssp             HHHHHHHH
T ss_pred             cHHHHHHH
Confidence            66665554

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.94  E-value=5.1e-24  Score=220.21  Aligned_cols=427  Identities=10%  Similarity=-0.046  Sum_probs=320.6

Q ss_pred             ccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCC--C-CcchHHHHHHHHH
Q 048179           77 STFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR--K-DLVCWSSMINGLV  153 (589)
Q Consensus        77 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~  153 (589)
                      ..+......+.+.|++++|...|+.+++..  |+...+..+..+|.+.|++++|...|+++.+  | +..+|..+..++.
T Consensus         7 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~   84 (514)
T 2gw1_A            7 LALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANE   84 (514)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHH
Confidence            345666778889999999999999999985  6889999999999999999999999998764  3 5678999999999


Q ss_pred             hCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHH---HHHHHhcCCHHH
Q 048179          154 FNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSL---VDMYAKTGHLDL  230 (589)
Q Consensus       154 ~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---~~~~~~~g~~~~  230 (589)
                      ..|++++|+..|+++...+. ++......++..+........+.+.+..+...+..|+......-   ............
T Consensus        85 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (514)
T 2gw1_A           85 GLGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTS  163 (514)
T ss_dssp             HTTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHH
T ss_pred             HHhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHH
Confidence            99999999999999988753 44445445554444333222222222222111111111000000   000111111222


Q ss_pred             HHHHHhhcCC---------C-CeehHHHHHHHHHh---CCChhHHHHHHHHHHh-----cCCC--------CCHHHHHHH
Q 048179          231 ASHVFKNMSR---------I-NIVTWGALISGFAQ---NGLAGSTLELLMEMQS-----CGFE--------PDSVSLVSA  284 (589)
Q Consensus       231 A~~~~~~~~~---------~-~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~-----~g~~--------p~~~~~~~l  284 (589)
                      +...+.....         + +...+......+..   .|++++|+..|+++.+     ..-.        .+..++..+
T Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (514)
T 2gw1_A          164 MASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHT  243 (514)
T ss_dssp             HHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHH
Confidence            2222222211         1 13344445555554   8999999999999987     3112        234567778


Q ss_pred             HHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHH
Q 048179          285 LLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEE  361 (589)
Q Consensus       285 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~  361 (589)
                      ...+...|+++.|...++.+....+. ..++..+...|...|++++|...|+++.+   .+...|..+...+...|++++
T Consensus       244 ~~~~~~~~~~~~A~~~~~~~l~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  322 (514)
T 2gw1_A          244 GIFKFLKNDPLGAHEDIKKAIELFPR-VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQ  322 (514)
T ss_dssp             HHHHHHSSCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcc-HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHH
Confidence            88899999999999999999844444 88899999999999999999999998764   466789999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC
Q 048179          362 ALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS  441 (589)
Q Consensus       362 A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  441 (589)
                      |+..|+++.+.. +.+..++..+...+...|++++|...++.+.+.  .+.+...+..+...+.+.|++++|.+.++++.
T Consensus       323 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  399 (514)
T 2gw1_A          323 AGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFDKALKQYDLAI  399 (514)
T ss_dssp             HHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999999864 335678888999999999999999999999874  33457788999999999999999999999873


Q ss_pred             C----CCC----hhHHHHHHHHHHh---cCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          442 T----EPG----LAVWVALLSGCHN---HKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       442 ~----~p~----~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      .    .++    ..+|..+...+..   .|++++|...++++++.+|+++.++..++.+|.+.|++++|.+.++++.+..
T Consensus       400 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  479 (514)
T 2gw1_A          400 ELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLA  479 (514)
T ss_dssp             HHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhc
Confidence            2    222    3389999999999   9999999999999999999999999999999999999999999999998743

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.93  E-value=4.9e-23  Score=214.18  Aligned_cols=421  Identities=13%  Similarity=0.067  Sum_probs=253.7

Q ss_pred             cccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHH
Q 048179           41 VDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNL  120 (589)
Q Consensus        41 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  120 (589)
                      ...|..+...+.+.|++++|++.|+++.+.. +.+..++..+..++.+.|++++|.+.++++++.. +.+...+..+..+
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHH
Confidence            4567888889999999999999999999875 3477888889999999999999999999999886 4467788889999


Q ss_pred             HHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHHHHHHHC------CCCCChhhHHHHHHHHHccCCcH
Q 048179          121 YVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKE------GIDADEVVMMGLIQACADLGDSR  194 (589)
Q Consensus       121 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------~~~p~~~t~~~ll~~~~~~~~~~  194 (589)
                      +...|++++|...|+.+. .+....+..+..+...+....|+..++++...      ...|+...+.    .+....+.+
T Consensus       103 ~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~----~~~~~~~~~  177 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVLS-LNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLA----SFFGIFDSH  177 (537)
T ss_dssp             HHHHTCHHHHHHHHHHHC------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHH----HHHHTSCHH
T ss_pred             HHHcCCHHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHH----HHHHhcChH
Confidence            999999999999997443 22223333344555556667888888887543      1222222222    222222222


Q ss_pred             HHHHHHHHHHHhcCCCc-hHHHHHHHHHHHhc--------CCHHHHHHHHhhcCCCCe----------ehHHHHHHHHHh
Q 048179          195 FGLSVHGYSIRRHLNLD-VKVQTSLVDMYAKT--------GHLDLASHVFKNMSRINI----------VTWGALISGFAQ  255 (589)
Q Consensus       195 ~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~--------g~~~~A~~~~~~~~~~~~----------~~~~~li~~~~~  255 (589)
                      .+...+.....  ..+. ......+...+...        |++++|..+|+++.+.++          .+|..+...+..
T Consensus       178 ~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~  255 (537)
T 3fp2_A          178 LEVSSVNTSSN--YDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFL  255 (537)
T ss_dssp             HHHHTSCCCCS--SCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhccc--cccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHh
Confidence            22111111000  0010 11222222222211        244455555544433111          123333444444


Q ss_pred             CCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHH
Q 048179          256 NGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALF  335 (589)
Q Consensus       256 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  335 (589)
                      .|++++|+..|++..+.  .|+                                  ...+..+...|...|++++|...|
T Consensus       256 ~~~~~~A~~~~~~~~~~--~~~----------------------------------~~~~~~l~~~~~~~~~~~~A~~~~  299 (537)
T 3fp2_A          256 KNNLLDAQVLLQESINL--HPT----------------------------------PNSYIFLALTLADKENSQEFFKFF  299 (537)
T ss_dssp             TTCHHHHHHHHHHHHHH--CCC----------------------------------HHHHHHHHHHTCCSSCCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHhc--CCC----------------------------------chHHHHHHHHHHHhcCHHHHHHHH
Confidence            55555555555554443  233                                  444455555555556666666666


Q ss_pred             HhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC
Q 048179          336 DQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQP  412 (589)
Q Consensus       336 ~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p  412 (589)
                      +++.+   .+..+|..+...+...|++++|+..|+++.+.. +.+...+..+..++...|++++|..+++.+.+.  .+.
T Consensus       300 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~  376 (537)
T 3fp2_A          300 QKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLK--FPT  376 (537)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT
T ss_pred             HHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC
Confidence            55432   344566666666667777777777777766653 223456666667777777777777777777653  233


Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHhcCC----CC----ChhHHHHHHHHHHhc----------CCchHHHHHHHHHhc
Q 048179          413 TEKHYACMVDLLARAGEVEEALKIVDSMST----EP----GLAVWVALLSGCHNH----------KKFSIGEKVAKKVLK  474 (589)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p----~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~  474 (589)
                      +...+..+...+.+.|++++|.+.++++..    .+    ....+..+...+...          |++++|+..++++++
T Consensus       377 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~  456 (537)
T 3fp2_A          377 LPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACE  456 (537)
T ss_dssp             CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHH
Confidence            355666777777777777777777766521    11    112233444556666          888888888888888


Q ss_pred             cCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          475 LNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       475 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      .+|+++.++..++.+|.+.|++++|.+.++++.+.
T Consensus       457 ~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  491 (537)
T 3fp2_A          457 LDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAIL  491 (537)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            88888888888888888888888888888877763

>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=99.93  E-value=4e-23  Score=209.73  Aligned_cols=336  Identities=14%  Similarity=0.131  Sum_probs=237.3

Q ss_pred             CcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHH
Q 048179          141 DLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVD  220 (589)
Q Consensus       141 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  220 (589)
                      +...|..+...+.+.|++++|+.+|+++.+.. +.+..++..+..++...|+++.|...+..+++.+ +.+..++..+..
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  102 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGH  102 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHH
Confidence            44567777777777777777777777776642 2355666666677777777777777777776654 224556666666


Q ss_pred             HHHhcCCHHHHHHHHhhcCCCCe------ehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCch
Q 048179          221 MYAKTGHLDLASHVFKNMSRINI------VTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFL  294 (589)
Q Consensus       221 ~~~~~g~~~~A~~~~~~~~~~~~------~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  294 (589)
                      +|.+.|++++|...|+++.+.++      ..|..++..+...                       .+......+...|++
T Consensus       103 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------------------~~~~~a~~~~~~~~~  159 (450)
T 2y4t_A          103 LLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQ-----------------------RLRSQALNAFGSGDY  159 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHTCH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHcCCH
Confidence            66666666666666666554222      3444443321000                       011112234445555


Q ss_pred             hhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048179          295 KLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIE  371 (589)
Q Consensus       295 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  371 (589)
                      +.|...+..+....+.+..++..++.+|.+.|++++|...|+++.+   .+..+|..++..|...|++++|+..|+++.+
T Consensus       160 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  239 (450)
T 2y4t_A          160 TAAIAFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLK  239 (450)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5555555555544455666677777888888888888888877653   4667888888888888888888888888886


Q ss_pred             cCCCCCHHHHHHH------------HHHHhcCCcHHHHHHHHHHHHHhcCCCCC-----hhhHHHHHHHHHHcCCHHHHH
Q 048179          372 TMVKPDHSTFASL------------LSALSHSGLVEEGRYWFDLMVSKYKIQPT-----EKHYACMVDLLARAGEVEEAL  434 (589)
Q Consensus       372 ~~~~p~~~t~~~l------------l~a~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~  434 (589)
                      .. +.+...+..+            ..+|.+.|++++|..+|+.+.+.   .|+     ..++..++.++.+.|++++|+
T Consensus       240 ~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~l~~~~~~~g~~~~A~  315 (450)
T 2y4t_A          240 LD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSIAEYTVRSKERICHCFSKDEKPVEAI  315 (450)
T ss_dssp             HC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHTTTCHHHHH
T ss_pred             hC-CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHHHHCCCHHHHH
Confidence            53 2233334333            78899999999999999999864   344     457889999999999999999


Q ss_pred             HHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHH------------HHHhCC-----C
Q 048179          435 KIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSN------------FFAMEQ-----K  495 (589)
Q Consensus       435 ~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~------------~~~~~g-----~  495 (589)
                      +.++++. ..| +..+|..++.+|...|++++|...++++++++|+++.++..++.            .|...|     +
T Consensus       316 ~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~  395 (450)
T 2y4t_A          316 RVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAK  395 (450)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCC
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCccCC
Confidence            9999973 234 67899999999999999999999999999999999999999994            455556     5


Q ss_pred             hHHHHHHHHH
Q 048179          496 WEEVAGVRKT  505 (589)
Q Consensus       496 ~~~a~~~~~~  505 (589)
                      .+++.+.+++
T Consensus       396 ~~~~~~~y~~  405 (450)
T 2y4t_A          396 KQEIIKAYRK  405 (450)
T ss_dssp             TTHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5666777765

>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=99.91  E-value=1.1e-21  Score=199.00  Aligned_cols=365  Identities=10%  Similarity=-0.010  Sum_probs=253.8

Q ss_pred             CCChhhHHHHHHHHHhCCChHHHHHHHHhcCC---CCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHH
Q 048179          108 GNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR---KDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLI  184 (589)
Q Consensus       108 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll  184 (589)
                      +.+...+..+...|.+.|++++|..+|+++.+   .+..+|..+...+...|++++|+..|+++.+.+ +.+..++..+.
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            45677899999999999999999999998864   467889999999999999999999999998874 33577888999


Q ss_pred             HHHHccCCcHHHHHHHHHHHHhcCCCch---HHHHHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhH
Q 048179          185 QACADLGDSRFGLSVHGYSIRRHLNLDV---KVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGS  261 (589)
Q Consensus       185 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  261 (589)
                      ..+...|++++|...++.+.+... .+.   ..+..++..+...+                   +..+...+...|++++
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~-------------------~~~~a~~~~~~~~~~~  161 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKSNP-SENEEKEAQSQLIKSDEMQR-------------------LRSQALNAFGSGDYTA  161 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSCC-CHHHHHHHHHHHHHHHHHHH-------------------HHHHHHHHHHHTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCC-CChhhHHHHHHHHHHHHHHH-------------------HHHHHHHHHHcCCHHH
Confidence            999999999999999999987652 234   56666655422211                   1222334444555555


Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC-
Q 048179          262 TLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS-  340 (589)
Q Consensus       262 a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  340 (589)
                      |+..|+++.+.. +.+...+..+..++...|+++.|...+..+....+.+..++..++.+|...|++++|...|+++.. 
T Consensus       162 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  240 (450)
T 2y4t_A          162 AIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKL  240 (450)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            555555555432 234445555555555555555555555555544445566666666777777777777777766542 


Q ss_pred             -C-ChhHHHHH------------HHHHHhcCCHHHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHhcCCcHHHHHHHH
Q 048179          341 -R-DLISWNVI------------IASYGIHGHGEEALSLFLQMIETMVKPD-----HSTFASLLSALSHSGLVEEGRYWF  401 (589)
Q Consensus       341 -~-~~~~~~~l------------i~~~~~~g~~~~A~~~~~~m~~~~~~p~-----~~t~~~ll~a~~~~g~~~~a~~~~  401 (589)
                       | +...+..+            ...+...|++++|+..|+++.+..  |+     ...+..+..++.+.|++++|...+
T Consensus       241 ~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  318 (450)
T 2y4t_A          241 DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERICHCFSKDEKPVEAIRVC  318 (450)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence             2 33334333            777888899999999998888753  44     336777788888889999999999


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCCC-hhHHHHHHHH------------HHhcC-----Cc
Q 048179          402 DLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM-STEPG-LAVWVALLSG------------CHNHK-----KF  462 (589)
Q Consensus       402 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~------------~~~~~-----~~  462 (589)
                      +.+.+.  .+.+...|..+..+|...|++++|.+.++++ ...|+ ..++..+..+            |...|     +.
T Consensus       319 ~~a~~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~  396 (450)
T 2y4t_A          319 SEVLQM--EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKK  396 (450)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCT
T ss_pred             HHHHHh--CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCccCCH
Confidence            888763  2345788888889999999999999988886 34454 4455555532            33334     66


Q ss_pred             hHHHHHHHH-HhccCCCCch----------hHHHHHHHHHhCCChHH
Q 048179          463 SIGEKVAKK-VLKLNPDDLG----------IHALVSNFFAMEQKWEE  498 (589)
Q Consensus       463 ~~a~~~~~~-~~~~~p~~~~----------~~~~l~~~~~~~g~~~~  498 (589)
                      +++.+.+++ +++..|++..          .+..++.+|...|+.+.
T Consensus       397 ~~~~~~y~~~~l~~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~~  443 (450)
T 2y4t_A          397 QEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPEM  443 (450)
T ss_dssp             THHHHHHHHHHHHSCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGGG
T ss_pred             HHHHHHHHHHHHHhCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHHH
Confidence            788888887 7778876532          34445555555555443

>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=99.90  E-value=1.1e-21  Score=204.09  Aligned_cols=432  Identities=10%  Similarity=0.000  Sum_probs=308.5

Q ss_pred             cchHhHHHHhhhcCCChHHHHHHhccCC---CCCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHH
Q 048179           10 GNSVGRIIALYGGKNDIVSARKLFEELP---LRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKAC   86 (589)
Q Consensus        10 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~   86 (589)
                      ...+..+...|.+.|++++|...|+++.   +.+..+|..+..+|...|++++|++.|+++.+.+ +.+..++..+..++
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~  103 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASAN  103 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHH
Confidence            3566778888999999999999999864   4567889999999999999999999999999875 34677888899999


Q ss_pred             hccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCC------CcchHHHHHHHHHhCCCccH
Q 048179           87 VSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRK------DLVCWSSMINGLVFNGQPRE  160 (589)
Q Consensus        87 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~  160 (589)
                      ...|++++|...++ ....  .|+  .....+..+...+....|...++.+...      ........+..+....+.+.
T Consensus       104 ~~~g~~~~A~~~~~-~~~~--~~~--~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (537)
T 3fp2_A          104 ESLGNFTDAMFDLS-VLSL--NGD--FDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHL  178 (537)
T ss_dssp             HHHTCHHHHHHHHH-HHC---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHH
T ss_pred             HHcCCHHHHHHHHH-HHhc--CCC--CChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHH
Confidence            99999999999996 3332  222  2223344555666778899999988652      22334455566666667666


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHH-HHHc--------cCCcHHHHHHHHHHHHhcCCCc------hHHHHHHHHHHHhc
Q 048179          161 AVDAYKRMKKEGIDADEVVMMGLIQ-ACAD--------LGDSRFGLSVHGYSIRRHLNLD------VKVQTSLVDMYAKT  225 (589)
Q Consensus       161 A~~~~~~m~~~~~~p~~~t~~~ll~-~~~~--------~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~  225 (589)
                      ++..+.....  ..+....+...+. .+..        .++++.|..+++.+++......      ..++..+...+...
T Consensus       179 ~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~  256 (537)
T 3fp2_A          179 EVSSVNTSSN--YDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLK  256 (537)
T ss_dssp             HHHTSCCCCS--SCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHhhccc--cccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhc
Confidence            6555444322  1222222222222 2221        2478889999998887653321      23567777888999


Q ss_pred             CCHHHHHHHHhhcCC--CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHH
Q 048179          226 GHLDLASHVFKNMSR--INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGY  303 (589)
Q Consensus       226 g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  303 (589)
                      |++++|...|++..+  |+...|..+...+...|++++|+..|+++.+..  |+                          
T Consensus       257 ~~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~--------------------------  308 (537)
T 3fp2_A          257 NNLLDAQVLLQESINLHPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN--PE--------------------------  308 (537)
T ss_dssp             TCHHHHHHHHHHHHHHCCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC--TT--------------------------
T ss_pred             ccHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC--CC--------------------------
Confidence            999999999998864  556778888889999999999999999988753  32                          


Q ss_pred             HhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHH
Q 048179          304 TVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHST  380 (589)
Q Consensus       304 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t  380 (589)
                             +..++..+...|...|++++|...|+++.+   .+...|..+...+...|++++|+..|+++.+.. +.+...
T Consensus       309 -------~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~  380 (537)
T 3fp2_A          309 -------YPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEV  380 (537)
T ss_dssp             -------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHH
T ss_pred             -------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHH
Confidence                   233345566667777777777777776643   345678888888888899999999998888764 445667


Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHc----------CCHHHHHHHHHhcCC-C-C
Q 048179          381 FASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT----EKHYACMVDLLARA----------GEVEEALKIVDSMST-E-P  444 (589)
Q Consensus       381 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~-~-p  444 (589)
                      +..+...+...|++++|...|+.+.+...-.++    ...+..+..++.+.          |++++|...++++.. . .
T Consensus       381 ~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~  460 (537)
T 3fp2_A          381 PTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPR  460 (537)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCC
Confidence            888888889999999999999988764211121    12234456777777          999999999998732 3 4


Q ss_pred             ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHH
Q 048179          445 GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHAL  485 (589)
Q Consensus       445 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  485 (589)
                      +..+|..+...+...|++++|.+.+++++++.|+++.....
T Consensus       461 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  501 (537)
T 3fp2_A          461 SEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMDEKLQA  501 (537)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CHHHHHH
T ss_pred             CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHH
Confidence            57788999999999999999999999999999987766543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.88  E-value=4.5e-20  Score=180.88  Aligned_cols=326  Identities=12%  Similarity=0.040  Sum_probs=242.8

Q ss_pred             ChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC---CCeehHHHHHHH
Q 048179          176 DEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR---INIVTWGALISG  252 (589)
Q Consensus       176 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~  252 (589)
                      |...+..+...+...|+++.|...+..+++.. +.+..++..+...+...|++++|...|+++.+   .+...|..+...
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~   80 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHL   80 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHH
Confidence            34566777788888899999999998888765 33677888888888888999999888887754   355678888888


Q ss_pred             HHhCCChhHHHHHHHHHHhcCCCC---CH-HHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCH
Q 048179          253 FAQNGLAGSTLELLMEMQSCGFEP---DS-VSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVP  328 (589)
Q Consensus       253 ~~~~g~~~~a~~~~~~m~~~g~~p---~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  328 (589)
                      +...|++++|+..|++..+.  .|   +. ..+..+....       .               ...+..+...+...|++
T Consensus        81 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~-------~---------------~~~~~~~a~~~~~~~~~  136 (359)
T 3ieg_A           81 LLKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKAD-------E---------------MQRLRSQALDAFDGADY  136 (359)
T ss_dssp             HHHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHH-------H---------------HHHHHHHHHHHHHTTCH
T ss_pred             HHHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHH-------H---------------HHHHHHHHHHHHHccCH
Confidence            88889999999888888875  44   22 2222221110       0               11123345677788888


Q ss_pred             HHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 048179          329 SCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMV  405 (589)
Q Consensus       329 ~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  405 (589)
                      ++|...|+++.+   .+...|..+...+...|++++|+..++++.+.. +.+..++..+...+...|++++|...|+.+.
T Consensus       137 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  215 (359)
T 3ieg_A          137 TAAITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECL  215 (359)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            888888887653   456778888888888888888888888888753 4456778888888888888888888888887


Q ss_pred             HhcCCCCChhhHH------------HHHHHHHHcCCHHHHHHHHHhcCC-CCCh-----hHHHHHHHHHHhcCCchHHHH
Q 048179          406 SKYKIQPTEKHYA------------CMVDLLARAGEVEEALKIVDSMST-EPGL-----AVWVALLSGCHNHKKFSIGEK  467 (589)
Q Consensus       406 ~~~~~~p~~~~~~------------~l~~~~~~~g~~~~A~~~~~~~~~-~p~~-----~~~~~l~~~~~~~~~~~~a~~  467 (589)
                      +..  +.+...+.            .+...+.+.|++++|.+.++++.. .|+.     ..+..+..++...|++++|..
T Consensus       216 ~~~--~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  293 (359)
T 3ieg_A          216 KLD--QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIR  293 (359)
T ss_dssp             HHC--TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hhC--ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHH
Confidence            642  22233322            236678899999999999988632 3442     235557788999999999999


Q ss_pred             HHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCceeEEEECCEEEEEEecCCCCCChHHHHHHHH
Q 048179          468 VAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLK  547 (589)
Q Consensus       468 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  547 (589)
                      .++++++.+|+++..+..++.+|...|++++|.+.++++.+.                          .|...++...+.
T Consensus       294 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~--------------------------~p~~~~~~~~l~  347 (359)
T 3ieg_A          294 ICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEH--------------------------NENDQQIREGLE  347 (359)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--------------------------CTTCHHHHHHHH
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--------------------------CCCChHHHHHHH
Confidence            999999999999999999999999999999999999998863                          345556666666


Q ss_pred             HHHHHHHh
Q 048179          548 KLYLEMRA  555 (589)
Q Consensus       548 ~l~~~~~~  555 (589)
                      .+...+++
T Consensus       348 ~~~~~~~~  355 (359)
T 3ieg_A          348 KAQRLLKQ  355 (359)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66666653

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.87  E-value=2.3e-19  Score=175.76  Aligned_cols=312  Identities=14%  Similarity=0.109  Sum_probs=239.2

Q ss_pred             CcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHH
Q 048179          141 DLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVD  220 (589)
Q Consensus       141 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  220 (589)
                      |+..|..+...+...|++++|+..|+++.+.. +.+..++..+...+...|+++.|...++.+++.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            34567888899999999999999999998863 3357788889999999999999999999999875 336788999999


Q ss_pred             HHHhcCCHHHHHHHHhhcCCCCe------ehHHHH------------HHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHH
Q 048179          221 MYAKTGHLDLASHVFKNMSRINI------VTWGAL------------ISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLV  282 (589)
Q Consensus       221 ~~~~~g~~~~A~~~~~~~~~~~~------~~~~~l------------i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  282 (589)
                      .|...|++++|...|+++.+.++      ..+..+            ...+...|++++|+..|+++.+.          
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~----------  149 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEV----------  149 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----------
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh----------
Confidence            99999999999999999876433      233333            34455555555555555555543          


Q ss_pred             HHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCH
Q 048179          283 SALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHG  359 (589)
Q Consensus       283 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~  359 (589)
                                               .+.+..++..+...|...|++++|...|+++.+   .+...|..+...+...|++
T Consensus       150 -------------------------~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~  204 (359)
T 3ieg_A          150 -------------------------CVWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDH  204 (359)
T ss_dssp             -------------------------CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCH
T ss_pred             -------------------------CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence                                     334445556667777777777777777776653   3556777777778888888


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHH------------HHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-h----hhHHHHHH
Q 048179          360 EEALSLFLQMIETMVKPDHSTFA------------SLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-E----KHYACMVD  422 (589)
Q Consensus       360 ~~A~~~~~~m~~~~~~p~~~t~~------------~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~----~~~~~l~~  422 (589)
                      ++|...|++..+.. +.+...+.            .+...+...|++++|...++.+.+..   |+ .    ..+..+..
T Consensus       205 ~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~~~~~la~  280 (359)
T 3ieg_A          205 ELSLSEVRECLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE---PSVAEYTVRSKERICH  280 (359)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---CSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC-ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC---CCchHHHHHHHHHHHH
Confidence            88888888877653 22222222            23566888999999999999988752   33 2    33556888


Q ss_pred             HHHHcCCHHHHHHHHHhcCC-CC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhC
Q 048179          423 LLARAGEVEEALKIVDSMST-EP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAME  493 (589)
Q Consensus       423 ~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  493 (589)
                      ++...|++++|.+.+++... .| +..+|..+...+...|++++|...++++++++|+++.++..+..++...
T Consensus       281 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~  353 (359)
T 3ieg_A          281 CFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQRLL  353 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHH
Confidence            99999999999999998732 34 6778999999999999999999999999999999999998888876554

>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=99.85  E-value=3.8e-19  Score=172.17  Aligned_cols=285  Identities=12%  Similarity=0.023  Sum_probs=206.8

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHhhcCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 048179          211 DVKVQTSLVDMYAKTGHLDLASHVFKNMSR---INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLA  287 (589)
Q Consensus       211 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  287 (589)
                      +..++..++..+...|++++|.++|+++.+   .+...+..++..+...|++++|...+.++.+.. +.+...+..+...
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~   99 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCY   99 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHH
Confidence            444555556666666666666666666543   233455556666666667777777776666542 2344555556666


Q ss_pred             HhccC-chhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHH
Q 048179          288 CAQIG-FLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEAL  363 (589)
Q Consensus       288 ~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~  363 (589)
                      +...| +.+.|...+..+....+.+...+..+...|...|++++|...|+++.+   .+...+..+...+...|++++|+
T Consensus       100 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~  179 (330)
T 3hym_B          100 YLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAE  179 (330)
T ss_dssp             HHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHHH
Confidence            66666 666666666666655555667777888888888888888888887653   34567777888888899999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcC-------CCCChhhHHHHHHHHHHcCCHHHHHHH
Q 048179          364 SLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYK-------IQPTEKHYACMVDLLARAGEVEEALKI  436 (589)
Q Consensus       364 ~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~-------~~p~~~~~~~l~~~~~~~g~~~~A~~~  436 (589)
                      ..+++..+.. +.+...+..+...+...|++++|...++.+.+...       .+.....+..+..+|.+.|++++|.+.
T Consensus       180 ~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  258 (330)
T 3hym_B          180 RFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDY  258 (330)
T ss_dssp             HHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            9998888763 44567788888888899999999999988876421       133466888899999999999999999


Q ss_pred             HHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHH-hCCChH
Q 048179          437 VDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA-MEQKWE  497 (589)
Q Consensus       437 ~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~-~~g~~~  497 (589)
                      +++...  +.+..+|..+...+...|++++|...++++++++|+++..+..++.++. ..|+.+
T Consensus       259 ~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          259 HRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCchh
Confidence            988632  3356788888889999999999999999999999999999999998884 555543

>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=1.5e-18  Score=167.89  Aligned_cols=264  Identities=13%  Similarity=0.036  Sum_probs=231.9

Q ss_pred             CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHH
Q 048179          241 INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVID  320 (589)
Q Consensus       241 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  320 (589)
                      .+...+..++..+...|++++|+.+|+++.+.. +.+...+..++..+...|+.+.|...+..+....+.+..++..+..
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~   98 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPSNPVSWFAVGC   98 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHH
Confidence            466778888999999999999999999998864 3445566677888899999999999999999777888999999999


Q ss_pred             HhHhcC-CHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHH
Q 048179          321 MYSKCG-VPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEE  396 (589)
Q Consensus       321 ~~~~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~  396 (589)
                      .|...| ++++|...|+++.+   .+...|..+...+...|++++|+..|+++.+.. +.+...+..+...+...|++++
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~  177 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKL  177 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHH
Confidence            999999 99999999998764   456789999999999999999999999999874 3345677778999999999999


Q ss_pred             HHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-----------CCChhHHHHHHHHHHhcCCchHH
Q 048179          397 GRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-----------EPGLAVWVALLSGCHNHKKFSIG  465 (589)
Q Consensus       397 a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----------~p~~~~~~~l~~~~~~~~~~~~a  465 (589)
                      |...++.+.+.  .+.+...+..+...+.+.|++++|...++++..           +.+..+|..+...+...|++++|
T Consensus       178 A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  255 (330)
T 3hym_B          178 AERFFSQALSI--APEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEA  255 (330)
T ss_dssp             HHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHh--CCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHH
Confidence            99999999863  344578899999999999999999999988621           23456899999999999999999


Q ss_pred             HHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          466 EKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       466 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      +..+++++++.|+++..+..++.+|...|++++|.+.++++.+
T Consensus       256 ~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  298 (330)
T 3hym_B          256 LDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALG  298 (330)
T ss_dssp             HHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTT
T ss_pred             HHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHc
Confidence            9999999999999999999999999999999999999998765

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.84  E-value=2.2e-17  Score=169.14  Aligned_cols=351  Identities=12%  Similarity=0.036  Sum_probs=214.9

Q ss_pred             cCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHh----CCChHHHHHHHHhcCCC-CcchHHHHHHHHHh----CCCcc
Q 048179           89 LMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVK----CGKMNEAMVAFEKMQRK-DLVCWSSMINGLVF----NGQPR  159 (589)
Q Consensus        89 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~----~g~~~  159 (589)
                      .++++.|...+++..+.|   +...+..|...|..    .++.++|...|++..+. +...+..|...|..    .++++
T Consensus        56 ~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~  132 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKGLPQAQQNLGVMYHEGNGVKVDKA  132 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHH
T ss_pred             CcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHH
Confidence            445555555555554442   33344444444444    44555555555444322 33344444444444    44455


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHc----cCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHh----cCCHHHH
Q 048179          160 EAVDAYKRMKKEGIDADEVVMMGLIQACAD----LGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAK----TGHLDLA  231 (589)
Q Consensus       160 ~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A  231 (589)
                      +|++.|++..+.|   +...+..+...+..    .++++.|...++...+.|   +...+..|..+|..    .++.++|
T Consensus       133 ~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A  206 (490)
T 2xm6_A          133 ESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAIS  206 (490)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             HHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHH
Confidence            5555555544432   23333333333333    344444444444444432   33344444444444    4444444


Q ss_pred             HHHHhhcCC-CCeehHHHHHHHHHh----CCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhh
Q 048179          232 SHVFKNMSR-INIVTWGALISGFAQ----NGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVR  306 (589)
Q Consensus       232 ~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  306 (589)
                      .+.|++..+ .+..++..+...|..    .+++++|+.+|++..+.|                                 
T Consensus       207 ~~~~~~a~~~~~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---------------------------------  253 (490)
T 2xm6_A          207 AQWYRKSATSGDELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---------------------------------  253 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---------------------------------
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---------------------------------
Confidence            444443322 222333333333333    344444444444444322                                 


Q ss_pred             cCCCChhHHHHHHHHhHh----cCCHHHHHHHHHhcCC-CChhHHHHHHHHHHhc-----CCHHHHHHHHHHHHHcCCCC
Q 048179          307 RFDFNLVLGTSVIDMYSK----CGVPSCARALFDQMQS-RDLISWNVIIASYGIH-----GHGEEALSLFLQMIETMVKP  376 (589)
Q Consensus       307 ~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~~~~p  376 (589)
                          +...+..+..+|..    .++.++|...|++..+ .+..++..+...|...     +++++|+..|++..+.|   
T Consensus       254 ----~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---  326 (490)
T 2xm6_A          254 ----NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---  326 (490)
T ss_dssp             ----CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---
T ss_pred             ----CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---
Confidence                23344555666666    7888888888887765 4566777787888777     89999999999998875   


Q ss_pred             CHHHHHHHHHHHhcCC---cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH----cCCHHHHHHHHHhcCCCCChhHH
Q 048179          377 DHSTFASLLSALSHSG---LVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLAR----AGEVEEALKIVDSMSTEPGLAVW  449 (589)
Q Consensus       377 ~~~t~~~ll~a~~~~g---~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~  449 (589)
                      +...+..+...+...|   ++++|.++|+...+.    .+...+..|..+|..    .+++++|.++|++.....+...+
T Consensus       327 ~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~  402 (490)
T 2xm6_A          327 DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK----GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQ  402 (490)
T ss_dssp             CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHH
Confidence            3456666777776656   889999999998874    467788889999998    89999999999998655678888


Q ss_pred             HHHHHHHHh----cCCchHHHHHHHHHhccCCC---CchhHHHHHHHHHh
Q 048179          450 VALLSGCHN----HKKFSIGEKVAKKVLKLNPD---DLGIHALVSNFFAM  492 (589)
Q Consensus       450 ~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~  492 (589)
                      ..|...|..    .+|+++|...++++.+.+|+   ++.+...++.++..
T Consensus       403 ~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~  452 (490)
T 2xm6_A          403 VQLGEIYYYGLGVERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLTAK  452 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHh
Confidence            899998887    89999999999999999854   77777778777664

>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=99.83  E-value=1.9e-18  Score=166.59  Aligned_cols=345  Identities=11%  Similarity=0.069  Sum_probs=146.7

Q ss_pred             hcCCChHHHHHHhccCCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHH
Q 048179           21 GGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWR  100 (589)
Q Consensus        21 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  100 (589)
                      .+.|++++|...+++++.|+  +|..+..++.+.|++++|++.|.+      .+|..+|..++.++...|++++|..+++
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 EHIGNLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQ   85 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            37789999999999997664  999999999999999999999965      3588899999999999999999999888


Q ss_pred             HHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhH
Q 048179          101 KAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVM  180 (589)
Q Consensus       101 ~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~  180 (589)
                      ..++.  .+++.+.+.|+.+|.++|+++++.++++   .|+..+|+.+...|...|++++|...|..+         ..|
T Consensus        86 ~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~---~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~  151 (449)
T 1b89_A           86 MARKK--ARESYVETELIFALAKTNRLAELEEFIN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNF  151 (449)
T ss_dssp             -------------------------CHHHHTTTTT---CC----------------CTTTHHHHHHHT---------TCH
T ss_pred             HHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhH
Confidence            87775  4567889999999999999999988875   477789999999999999999999999976         368


Q ss_pred             HHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChh
Q 048179          181 MGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAG  260 (589)
Q Consensus       181 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~  260 (589)
                      ..+..++.+.|+++.|.+.+..+      .++.+|..++.+|...|+++.|......+. .++.....++..|.+.|+++
T Consensus       152 ~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~e  224 (449)
T 1b89_A          152 GRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFE  224 (449)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHH
Confidence            88888888888888888888776      267888888888888888888877776654 34444446777888888888


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHh--cCCHHHHHHHHHhc
Q 048179          261 STLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSK--CGVPSCARALFDQM  338 (589)
Q Consensus       261 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~--~g~~~~A~~~~~~~  338 (589)
                      +|+.+++...... +-....|                                  +-|.-+|++  -+++.+..+.|..-
T Consensus       225 Eai~lLe~aL~le-~ah~~~f----------------------------------tel~il~~ky~p~k~~ehl~~~~~~  269 (449)
T 1b89_A          225 ELITMLEAALGLE-RAHMGMF----------------------------------TELAILYSKFKPQKMREHLELFWSR  269 (449)
T ss_dssp             HHHHHHHHHTTST-TCCHHHH----------------------------------HHHHHHHHTTCHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHhCCc-HHHHHHH----------------------------------HHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            8888888776543 2233333                                  333333333  33444455555433


Q ss_pred             CC--------CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcC
Q 048179          339 QS--------RDLISWNVIIASYGIHGHGEEALSLFLQMIET-MVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYK  409 (589)
Q Consensus       339 ~~--------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  409 (589)
                      ..        .+...|..+.-.|...++++.|..+   |.+. ...-+...|.-++.--....-+-+|..++-   ..  
T Consensus       270 ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~t---m~~h~~~a~~~~~f~~~~~kv~n~elyYkai~fyl---~~--  341 (449)
T 1b89_A          270 VNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT---MMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYL---EF--  341 (449)
T ss_dssp             SCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH---HHHSTTTTCCHHHHHHHHHHCSSTHHHHHHHHHHH---HH--
T ss_pred             hcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH---HHhCChhhhhhHHHHHHHhchhHHHHHHHHHHHHH---hc--
Confidence            22        2456789999999999999988764   3332 112223344433322222222333333332   11  


Q ss_pred             CCCChhhHHHHHHHHHHcCCHHHHHHHHHhc
Q 048179          410 IQPTEKHYACMVDLLARAGEVEEALKIVDSM  440 (589)
Q Consensus       410 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  440 (589)
                         .+...+-|..++...=+...+.++|++.
T Consensus       342 ---~p~~l~~ll~~l~~~ld~~r~v~~~~~~  369 (449)
T 1b89_A          342 ---KPLLLNDLLMVLSPRLDHTRAVNYFSKV  369 (449)
T ss_dssp             ---CGGGHHHHHHHHGGGCCHHHHHHHHHHT
T ss_pred             ---CHHHHHHHHHHHHhccCcHHHHHHHHHc
Confidence               1223555555555555555555555554

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.83  E-value=7.6e-17  Score=166.84  Aligned_cols=411  Identities=9%  Similarity=0.010  Sum_probs=268.1

Q ss_pred             CcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCC--CCcchHHHHHHHH
Q 048179           75 DSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR--KDLVCWSSMINGL  152 (589)
Q Consensus        75 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~  152 (589)
                      |...|..++.. .+.|+++.|+.+++++++. .+.+...|..++..+.+.|++++|..+|++...  |++..|...+...
T Consensus        12 ~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~-~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~~~lw~~~~~~~   89 (530)
T 2ooe_A           12 DLDAWSILIRE-AQNQPIDKARKTYERLVAQ-FPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLHIDLWKCYLSYV   89 (530)
T ss_dssp             CHHHHHHHHHH-HHSSCHHHHHHHHHHHHTT-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHH-HHhCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCChHHHHHHHHHH
Confidence            55567777763 5677788888888887765 244566777777777777888888888877764  5555666655422


Q ss_pred             -HhCCCccHHHH----HHHHHHHC-CCCCC-hhhHHHHHHHHHc---------cCCcHHHHHHHHHHHHhcCCCchHHHH
Q 048179          153 -VFNGQPREAVD----AYKRMKKE-GIDAD-EVVMMGLIQACAD---------LGDSRFGLSVHGYSIRRHLNLDVKVQT  216 (589)
Q Consensus       153 -~~~g~~~~A~~----~~~~m~~~-~~~p~-~~t~~~ll~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~  216 (589)
                       ...|+.+.|.+    +|++.... |..|+ ...|...+.....         .|+++.|..+++..++........+|.
T Consensus        90 ~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~  169 (530)
T 2ooe_A           90 RETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWR  169 (530)
T ss_dssp             HHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHH
T ss_pred             HHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHH
Confidence             34566666554    55554432 44433 3344444443332         455666666666655521111112222


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHHHH------HhcC---CCCCH--------H
Q 048179          217 SLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEM------QSCG---FEPDS--------V  279 (589)
Q Consensus       217 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m------~~~g---~~p~~--------~  279 (589)
                      .........|. ..+..++.                 .+.+++++|..++.+.      .+..   ++|+.        .
T Consensus       170 ~~~~~e~~~~~-~~~~~~l~-----------------~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~  231 (530)
T 2ooe_A          170 DYNKYEEGINI-HLAKKMIE-----------------DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVD  231 (530)
T ss_dssp             HHHHHHHHHCH-HHHHHHHH-----------------TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHH
T ss_pred             HHHHHHHhhch-hHHHHHHH-----------------HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHH
Confidence            22211100110 00111110                 0234456666655542      2211   23331        2


Q ss_pred             HHHHHHHHHhc----cCch----hhHHHHHHHHhhcCCCChhHHHHHHHHhHh-------cCCHH-------HHHHHHHh
Q 048179          280 SLVSALLACAQ----IGFL----KLGKSIHGYTVRRFDFNLVLGTSVIDMYSK-------CGVPS-------CARALFDQ  337 (589)
Q Consensus       280 ~~~~ll~~~~~----~~~~----~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~g~~~-------~A~~~~~~  337 (589)
                      .|...+.....    .++.    ..+..+++.+....+.++.+|..++..+.+       .|+++       +|..+|++
T Consensus       232 ~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~  311 (530)
T 2ooe_A          232 MWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYER  311 (530)
T ss_dssp             HHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHH
Confidence            33333322211    1222    356677888886677888999999888876       68887       89999998


Q ss_pred             cCC---C-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-H-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCC
Q 048179          338 MQS---R-DLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPD-H-STFASLLSALSHSGLVEEGRYWFDLMVSKYKIQ  411 (589)
Q Consensus       338 ~~~---~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~  411 (589)
                      ..+   | +...|..++..+.+.|++++|..+|+++++.  .|+ . ..|..++..+.+.|++++|..+|+.+.+.   +
T Consensus       312 Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~---~  386 (530)
T 2ooe_A          312 AISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED---A  386 (530)
T ss_dssp             HTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC---T
T ss_pred             HHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc---c
Confidence            764   3 5678999999999999999999999999984  554 2 47888888888899999999999999853   3


Q ss_pred             CC-hhhHHHHHHH-HHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCch----hH
Q 048179          412 PT-EKHYACMVDL-LARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLG----IH  483 (589)
Q Consensus       412 p~-~~~~~~l~~~-~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~----~~  483 (589)
                      |+ ...|...+.. +...|+.++|..+|++.. ..| +...|..++..+...|+.++|..+++++++..|.++.    .|
T Consensus       387 ~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw  466 (530)
T 2ooe_A          387 RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIW  466 (530)
T ss_dssp             TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHH
T ss_pred             CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHH
Confidence            33 3334333322 346899999999999863 234 5788999999999999999999999999998776655    78


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          484 ALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       484 ~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      ...+......|+.+.+.++.+++.+.-
T Consensus       467 ~~~~~~e~~~G~~~~~~~~~~r~~~~~  493 (530)
T 2ooe_A          467 ARFLAFESNIGDLASILKVEKRRFTAF  493 (530)
T ss_dssp             HHHHHHHHHSSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            888888889999999999999987643

>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=99.82  E-value=1e-18  Score=172.00  Aligned_cols=281  Identities=11%  Similarity=-0.057  Sum_probs=223.2

Q ss_pred             HhcCCHHHHHH-HHhhcCC-----C--CeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCch
Q 048179          223 AKTGHLDLASH-VFKNMSR-----I--NIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFL  294 (589)
Q Consensus       223 ~~~g~~~~A~~-~~~~~~~-----~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  294 (589)
                      ...|++++|.. .|++...     +  +...|..+...+.+.|++++|+..|+++.+.. +.+..++..+..++...|++
T Consensus        36 ~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           36 PWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             ----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCH
Confidence            34578888887 7776543     1  35668888888999999999999999988764 44667788888888899999


Q ss_pred             hhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--C-ChhHHHH---------------HHHHHHhc
Q 048179          295 KLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS--R-DLISWNV---------------IIASYGIH  356 (589)
Q Consensus       295 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~---------------li~~~~~~  356 (589)
                      +.|...+..+....+.+..++..+...|...|++++|...|+++..  | +...+..               .+..+...
T Consensus       115 ~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (368)
T 1fch_A          115 LLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSD  194 (368)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhc
Confidence            9999999988866677888889999999999999999999988753  2 2222211               23334488


Q ss_pred             CCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHH
Q 048179          357 GHGEEALSLFLQMIETMVKP-DHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALK  435 (589)
Q Consensus       357 g~~~~A~~~~~~m~~~~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  435 (589)
                      |++++|+..|+++.+..... +..++..+...+...|++++|...|+.+.+.  .+.+...+..++.++.+.|++++|.+
T Consensus       195 ~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~  272 (368)
T 1fch_A          195 SLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVA  272 (368)
T ss_dssp             HHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999999864221 4788999999999999999999999999874  23457889999999999999999999


Q ss_pred             HHHhcC-CC-CChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCC-----------chhHHHHHHHHHhCCChHHHHHH
Q 048179          436 IVDSMS-TE-PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD-----------LGIHALVSNFFAMEQKWEEVAGV  502 (589)
Q Consensus       436 ~~~~~~-~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~~a~~~  502 (589)
                      .++++. .. .+..+|..+..++...|++++|...+++++++.|++           +.+|..++.+|...|++++|..+
T Consensus       273 ~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  352 (368)
T 1fch_A          273 AYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAA  352 (368)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHh
Confidence            999873 23 457789999999999999999999999999998887           78999999999999999999998


Q ss_pred             HHHH
Q 048179          503 RKTM  506 (589)
Q Consensus       503 ~~~m  506 (589)
                      +++.
T Consensus       353 ~~~~  356 (368)
T 1fch_A          353 DARD  356 (368)
T ss_dssp             HTTC
T ss_pred             HHHH
Confidence            8643

>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=9.4e-19  Score=168.65  Aligned_cols=286  Identities=15%  Similarity=0.103  Sum_probs=113.6

Q ss_pred             hCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHH
Q 048179          123 KCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGY  202 (589)
Q Consensus       123 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~  202 (589)
                      +.|++++|.++++++..|  .+|..|..++.+.|++++|++.|.+.      +|..+|..++.++...|++++|+.++..
T Consensus        15 ~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~   86 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQM   86 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            456677777777777544  37777777777777777777777542      4666777777777777777777776666


Q ss_pred             HHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHH
Q 048179          203 SIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLV  282 (589)
Q Consensus       203 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  282 (589)
                      ..+.  .+++.+.+.|+.+|.++|+++++.++++.   |+..+|+.+...|...|++++|...|..+         ..|.
T Consensus        87 ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~  152 (449)
T 1b89_A           87 ARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFG  152 (449)
T ss_dssp             ------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCHH
T ss_pred             HHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHH
Confidence            6553  34466677777777777777777766653   56667777777777777777777777765         2567


Q ss_pred             HHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHH
Q 048179          283 SALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEA  362 (589)
Q Consensus       283 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  362 (589)
                      .+..++.+.|+++.|.+.+..+     .++.+|..++.+|...|+++.|..+...+. .++.-...++..|.+.|++++|
T Consensus       153 ~LA~~L~~Lg~yq~AVea~~KA-----~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~eEa  226 (449)
T 1b89_A          153 RLASTLVHLGEYQAAVDGARKA-----NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFEEL  226 (449)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHH-----TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHc-----CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHHHH
Confidence            7777777777777777777666     266777777777777777777766666544 3333344577778888888888


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHh--cCCcHHHHHHHHHHHHHhcCCCC------ChhhHHHHHHHHHHcCCHHHHH
Q 048179          363 LSLFLQMIETMVKPDHSTFASLLSALS--HSGLVEEGRYWFDLMVSKYKIQP------TEKHYACMVDLLARAGEVEEAL  434 (589)
Q Consensus       363 ~~~~~~m~~~~~~p~~~t~~~ll~a~~--~~g~~~~a~~~~~~~~~~~~~~p------~~~~~~~l~~~~~~~g~~~~A~  434 (589)
                      +.+++...... +--...|+.+..+++  +.+++.+.++.|.   ++-+++|      +...|.-++..|...++++.|.
T Consensus       227 i~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~---~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~  302 (449)
T 1b89_A          227 ITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFW---SRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  302 (449)
T ss_dssp             HHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHS---TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHH---HHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHH
Confidence            88887766433 222334444444444  3344444444444   2225555      4667888888888888888877


Q ss_pred             HHHHhc
Q 048179          435 KIVDSM  440 (589)
Q Consensus       435 ~~~~~~  440 (589)
                      ..+-+-
T Consensus       303 ~tm~~h  308 (449)
T 1b89_A          303 ITMMNH  308 (449)
T ss_dssp             HHHHHS
T ss_pred             HHHHhC
Confidence            655443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.82  E-value=1.6e-16  Score=162.78  Aligned_cols=350  Identities=13%  Similarity=0.051  Sum_probs=242.9

Q ss_pred             ChhhHHHHHHHHHh----CCChHHHHHHHHhcCC-CCcchHHHHHHHHHh----CCCccHHHHHHHHHHHCCCCCChhhH
Q 048179          110 DVFVGSSMLNLYVK----CGKMNEAMVAFEKMQR-KDLVCWSSMINGLVF----NGQPREAVDAYKRMKKEGIDADEVVM  180 (589)
Q Consensus       110 ~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~t~  180 (589)
                      +...+..|...|..    .+++++|...|++..+ .+...+..|...|..    .+++++|++.|++..+.|   +...+
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~  114 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQ  114 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            55555556666655    5667777766665543 345556666666665    666666666666665543   33444


Q ss_pred             HHHHHHHHc----cCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHh----cCCHHHHHHHHhhcCC-CCeehHHHHHH
Q 048179          181 MGLIQACAD----LGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAK----TGHLDLASHVFKNMSR-INIVTWGALIS  251 (589)
Q Consensus       181 ~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~  251 (589)
                      ..+...+..    .+++++|...++...+.|   ++..+..|..+|..    .+++++|.+.|++..+ .+..++..+..
T Consensus       115 ~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~  191 (490)
T 2xm6_A          115 QNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGY  191 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            444444544    455556666655555543   34444445555544    4455555555544332 23334444444


Q ss_pred             HHHh----CCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHh---
Q 048179          252 GFAQ----NGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSK---  324 (589)
Q Consensus       252 ~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~---  324 (589)
                      .|..    .+++++|+..|++..+.|                                     ++..+..+..+|..   
T Consensus       192 ~y~~g~g~~~~~~~A~~~~~~a~~~~-------------------------------------~~~a~~~lg~~y~~g~g  234 (490)
T 2xm6_A          192 MYSRGLGVERNDAISAQWYRKSATSG-------------------------------------DELGQLHLADMYYFGIG  234 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT-------------------------------------CHHHHHHHHHHHHHTSS
T ss_pred             HHhcCCCCCcCHHHHHHHHHHHHHCC-------------------------------------CHHHHHHHHHHHHcCCC
Confidence            4444    444444544444444332                                     33445666677775   


Q ss_pred             -cCCHHHHHHHHHhcCC-CChhHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC-----Cc
Q 048179          325 -CGVPSCARALFDQMQS-RDLISWNVIIASYGI----HGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHS-----GL  393 (589)
Q Consensus       325 -~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~-----g~  393 (589)
                       .+++++|...|++..+ .+..++..+...|..    .+++++|+..|++..+.|   +...+..+...+...     ++
T Consensus       235 ~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~  311 (490)
T 2xm6_A          235 VTQDYTQSRVLFSQSAEQGNSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKN  311 (490)
T ss_dssp             SCCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCC
T ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCC
Confidence             7899999999998765 566777778888877    899999999999998765   455666777777776     89


Q ss_pred             HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcC---CHHHHHHHHHhcCCCCChhHHHHHHHHHHh----cCCchHHH
Q 048179          394 VEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAG---EVEEALKIVDSMSTEPGLAVWVALLSGCHN----HKKFSIGE  466 (589)
Q Consensus       394 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~  466 (589)
                      +++|...|+...+.    .+...+..+..+|.+.|   ++++|.++|++.....+...+..|...|..    .+++++|.
T Consensus       312 ~~~A~~~~~~a~~~----~~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~  387 (490)
T 2xm6_A          312 REQAISWYTKSAEQ----GDATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAA  387 (490)
T ss_dssp             HHHHHHHHHHHHHT----TCHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHH
T ss_pred             HHHHHHHHHHHHhc----CCHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHH
Confidence            99999999999874    35667888889998877   889999999998655788899999999988    89999999


Q ss_pred             HHHHHHhccCCCCchhHHHHHHHHHh----CCChHHHHHHHHHHHhCCC
Q 048179          467 KVAKKVLKLNPDDLGIHALVSNFFAM----EQKWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       467 ~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~g~  511 (589)
                      ..++++.+.+  ++.++..|+.+|..    .+++++|.+.+++..+.+.
T Consensus       388 ~~~~~A~~~~--~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          388 IWMRKAAEQG--LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             HHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhCC--CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC
Confidence            9999998864  68899999999999    8999999999999998764

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.81  E-value=1.4e-16  Score=164.76  Aligned_cols=408  Identities=12%  Similarity=0.083  Sum_probs=290.5

Q ss_pred             CCCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHH
Q 048179           38 LRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSM  117 (589)
Q Consensus        38 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  117 (589)
                      +.|...|..++. +.+.|++++|..+|+.+.+.. +.+...|...+..+.+.|+++.|..+|+++++..  |++..|..+
T Consensus        10 P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~   85 (530)
T 2ooe_A           10 PYDLDAWSILIR-EAQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCY   85 (530)
T ss_dssp             TTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHH
T ss_pred             CCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHH
Confidence            346779999998 478999999999999999863 4466678899999999999999999999998874  577777777


Q ss_pred             HHHH-HhCCChHHHHH----HHHhcC-----C-CCcchHHHHHHHHHh---------CCCccHHHHHHHHHHHCCCCCCh
Q 048179          118 LNLY-VKCGKMNEAMV----AFEKMQ-----R-KDLVCWSSMINGLVF---------NGQPREAVDAYKRMKKEGIDADE  177 (589)
Q Consensus       118 i~~~-~~~g~~~~A~~----~~~~~~-----~-~~~~~~~~li~~~~~---------~g~~~~A~~~~~~m~~~~~~p~~  177 (589)
                      +... ...|+.+.|.+    +|++..     . ++...|...+....+         .|+++.|..+|++..+.   |+.
T Consensus        86 ~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~---P~~  162 (530)
T 2ooe_A           86 LSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVN---PMI  162 (530)
T ss_dssp             HHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTS---CCT
T ss_pred             HHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhc---hhh
Confidence            7533 45677776655    676553     1 355678888876654         68899999999999873   332


Q ss_pred             ---hhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhh-------cC------CC
Q 048179          178 ---VVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKN-------MS------RI  241 (589)
Q Consensus       178 ---~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~-------~~------~~  241 (589)
                         ..|..........+. ..+                   ..++.  .+.++++.|..++..       +.      .|
T Consensus       163 ~~~~~~~~~~~~e~~~~~-~~~-------------------~~~l~--~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p  220 (530)
T 2ooe_A          163 NIEQLWRDYNKYEEGINI-HLA-------------------KKMIE--DRSRDYMNARRVAKEYETVMKGLDRNAPSVPP  220 (530)
T ss_dssp             THHHHHHHHHHHHHHHCH-HHH-------------------HHHHH--TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCC
T ss_pred             hHHHHHHHHHHHHHhhch-hHH-------------------HHHHH--HhhHHHHHHHHHHHHHHHHHHHhccccccCCC
Confidence               222222111101110 001                   11111  122344555544443       11      11


Q ss_pred             C--------eehHHHHHHHHHhC----CCh----hHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc-------cCchh---
Q 048179          242 N--------IVTWGALISGFAQN----GLA----GSTLELLMEMQSCGFEPDSVSLVSALLACAQ-------IGFLK---  295 (589)
Q Consensus       242 ~--------~~~~~~li~~~~~~----g~~----~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~-------~~~~~---  295 (589)
                      +        ...|...+......    ++.    +++..+|++..... +-+...|......+..       .|+.+   
T Consensus       221 ~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~  299 (530)
T 2ooe_A          221 QNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAK  299 (530)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHH
T ss_pred             CCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhh
Confidence            1        13455555433322    222    36778898888752 3456667666666654       68876   


Q ss_pred             ----hHHHHHHHHhh-cCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--C-Ch-hHHHHHHHHHHhcCCHHHHHHHH
Q 048179          296 ----LGKSIHGYTVR-RFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS--R-DL-ISWNVIIASYGIHGHGEEALSLF  366 (589)
Q Consensus       296 ----~a~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~-~~~~~li~~~~~~g~~~~A~~~~  366 (589)
                          .|..+++.+.. ..|.+..++..++..+.+.|++++|..+|+++.+  | +. ..|...+..+.+.|+.++|.++|
T Consensus       300 ~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~  379 (530)
T 2ooe_A          300 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  379 (530)
T ss_dssp             HHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHH
Confidence                88999999985 5677899999999999999999999999998764  3 32 48999999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHH-HhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC---
Q 048179          367 LQMIETMVKPDHSTFASLLSA-LSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST---  442 (589)
Q Consensus       367 ~~m~~~~~~p~~~t~~~ll~a-~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---  442 (589)
                      ++..+.. +.+...+...... +...|++++|..+|+...+.+  +.+...|..+++.+.+.|+.++|..+|++...   
T Consensus       380 ~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~  456 (530)
T 2ooe_A          380 KKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  456 (530)
T ss_dssp             HHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCC
T ss_pred             HHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccC
Confidence            9998753 2233333332222 335899999999999998753  34578899999999999999999999999732   


Q ss_pred             -CCC--hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCC
Q 048179          443 -EPG--LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPD  478 (589)
Q Consensus       443 -~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  478 (589)
                       .|+  ...|...+.....+|+.+.+..+.+++.+..|+
T Consensus       457 ~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p~  495 (530)
T 2ooe_A          457 LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFRE  495 (530)
T ss_dssp             SCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHTHH
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCch
Confidence             222  348888899899999999999999999998884

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.80  E-value=1.9e-15  Score=162.14  Aligned_cols=383  Identities=11%  Similarity=0.075  Sum_probs=295.3

Q ss_pred             CcccHHHHHHHHhccCCHHHHHHHHHHHHHhC--CCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHH
Q 048179           75 DSSTFTVALKACVSLMDLKMGEEIWRKAVELG--YGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGL  152 (589)
Q Consensus        75 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~  152 (589)
                      |+.--...++++...|.+.++.+++++++-.+  +..+....+.|+....+. +..+..+..++...-+   ...+...+
T Consensus       984 ~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~eIA~Ia 1059 (1630)
T 1xi4_A          984 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD---APDIANIA 1059 (1630)
T ss_pred             CHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHHHHHHH
Confidence            33344667788889999999999999988432  113445666677776666 4466666666655323   45577888


Q ss_pred             HhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHH
Q 048179          153 VFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLAS  232 (589)
Q Consensus       153 ~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  232 (589)
                      ...|++++|..+|++..     -.....+.++.   ..+++++|.++.+.+      .++.+|..+..++...|++++|.
T Consensus      1060 i~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAI 1125 (1630)
T 1xi4_A         1060 ISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAI 1125 (1630)
T ss_pred             HhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHH
Confidence            89999999999999952     11222233332   677899988888754      35788999999999999999999


Q ss_pred             HHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCCh
Q 048179          233 HVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNL  312 (589)
Q Consensus       233 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  312 (589)
                      +.|.+.  .|...|..++.++.+.|++++|++.|...++..  ++....+.++.+|++.++++....+.      ..++.
T Consensus      1126 dsYiKA--dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI------~~~n~ 1195 (1630)
T 1xi4_A         1126 DSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI------NGPNN 1195 (1630)
T ss_pred             HHHHhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH------hCCCH
Confidence            999775  677888899999999999999999999887764  44333445888899998887544432      23355


Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC
Q 048179          313 VLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSG  392 (589)
Q Consensus       313 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g  392 (589)
                      ..+..+.+.|...|++++|..+|..+     ..|..+...|.+.|++++|++.+++.      .+..+|..+..+|...|
T Consensus      1196 ad~~~iGd~le~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~ 1264 (1630)
T 1xi4_A         1196 AHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGK 1264 (1630)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhh
Confidence            56667999999999999999999986     48999999999999999999999875      45688999999999999


Q ss_pred             cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHh--cCCchHHHHH
Q 048179          393 LVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHN--HKKFSIGEKV  468 (589)
Q Consensus       393 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~--~~~~~~a~~~  468 (589)
                      ++..|......+      ..+++.+..++..|.+.|.+++|+.+++... .+| ....|+-|...+.+  -++..++.+.
T Consensus      1265 Ef~LA~~cgl~I------iv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~ 1338 (1630)
T 1xi4_A         1265 EFRLAQMCGLHI------VVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLEL 1338 (1630)
T ss_pred             HHHHHHHHHHhh------hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            999998876543      2466778899999999999999999998863 333 34466666666654  4577788888


Q ss_pred             HHHHhccCC-----CCchhHHHHHHHHHhCCChHHHHHH
Q 048179          469 AKKVLKLNP-----DDLGIHALVSNFFAMEQKWEEVAGV  502 (589)
Q Consensus       469 ~~~~~~~~p-----~~~~~~~~l~~~~~~~g~~~~a~~~  502 (589)
                      |..-..+.|     .++..|..+..+|.+.|+|+.|...
T Consensus      1339 f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~t 1377 (1630)
T 1xi4_A         1339 FWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT 1377 (1630)
T ss_pred             HHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHH
Confidence            887777777     7888999999999999999999853

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.80  E-value=3e-18  Score=168.56  Aligned_cols=261  Identities=12%  Similarity=-0.056  Sum_probs=212.4

Q ss_pred             CeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHH
Q 048179          242 NIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDM  321 (589)
Q Consensus       242 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  321 (589)
                      +...|..+...+.+.|++++|+..|+++.+.. +.+..++..+...+...|+++.|...++.+....+.+..++..+...
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVS  142 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            45568888888888899999999988888764 44667788888888888899999888888886667778888999999


Q ss_pred             hHhcCCHHHHHHHHHhcCCCC-------------hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHH
Q 048179          322 YSKCGVPSCARALFDQMQSRD-------------LISWNVIIASYGIHGHGEEALSLFLQMIETMVK-PDHSTFASLLSA  387 (589)
Q Consensus       322 ~~~~g~~~~A~~~~~~~~~~~-------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~~~t~~~ll~a  387 (589)
                      |...|++++|...|+++.+.+             ...+..+...+...|++++|+..|+++.+.... ++..++..+...
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  222 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVL  222 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHH
Confidence            999999999999998876411             223344578889999999999999999987422 157889999999


Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHH
Q 048179          388 LSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIG  465 (589)
Q Consensus       388 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a  465 (589)
                      +...|++++|...|+.+.+.  .+.+...|..+..+|.+.|++++|++.++++. ..| +..+|..+..+|...|++++|
T Consensus       223 ~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          223 FHLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHH
Confidence            99999999999999999874  34458899999999999999999999999873 244 577899999999999999999


Q ss_pred             HHHHHHHhccCCC------------CchhHHHHHHHHHhCCChHHHHHHHHH
Q 048179          466 EKVAKKVLKLNPD------------DLGIHALVSNFFAMEQKWEEVAGVRKT  505 (589)
Q Consensus       466 ~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~  505 (589)
                      ...+++++++.|+            +...|..++.++...|+.+.+.++.++
T Consensus       301 ~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          301 VSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            9999999998876            367899999999999999999887764

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.80  E-value=2.8e-17  Score=155.32  Aligned_cols=267  Identities=12%  Similarity=0.012  Sum_probs=188.2

Q ss_pred             HhcCCHHHHHHHHhhcCCCCe----ehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHH
Q 048179          223 AKTGHLDLASHVFKNMSRINI----VTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGK  298 (589)
Q Consensus       223 ~~~g~~~~A~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~  298 (589)
                      ...|+++.|+..++.....++    .....+..+|...|++++|+..++.   . -+|+..++..+...+...++.+.|.
T Consensus        10 ~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~~~A~   85 (291)
T 3mkr_A           10 FYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRRDAIV   85 (291)
T ss_dssp             HHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTHHHHH
T ss_pred             HHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcHHHHH
Confidence            344555555555555443221    1223344555555555555544432   1 2344445555555555555555555


Q ss_pred             HHHHHHh-hc-CCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 048179          299 SIHGYTV-RR-FDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKP  376 (589)
Q Consensus       299 ~~~~~~~-~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  376 (589)
                      ..++.+. .+ .|.+...+..+...|...|++++|.+.|++  ..+...+..++..+.+.|++++|.+.|+++.+..  |
T Consensus        86 ~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p  161 (291)
T 3mkr_A           86 AELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--E  161 (291)
T ss_dssp             HHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T
T ss_pred             HHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--c
Confidence            5555554 22 244556667778889999999999999998  4677889999999999999999999999999874  5


Q ss_pred             CHHHH---HHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCC-ChhHHHH
Q 048179          377 DHSTF---ASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM-STEP-GLAVWVA  451 (589)
Q Consensus       377 ~~~t~---~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~  451 (589)
                      +....   ...+..+...|++++|..+|+++.+.  .+.+...++.+..++.+.|++++|.+.++++ ...| +..+|..
T Consensus       162 ~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~~  239 (291)
T 3mkr_A          162 DATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLIN  239 (291)
T ss_dssp             TCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            54311   22334445669999999999999985  4567889999999999999999999999996 3344 6778999


Q ss_pred             HHHHHHhcCCchH-HHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHH
Q 048179          452 LLSGCHNHKKFSI-GEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVR  503 (589)
Q Consensus       452 l~~~~~~~~~~~~-a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  503 (589)
                      ++..+...|+.++ +.+.++++++++|+++.+.    +...+.+.++++..-|
T Consensus       240 l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~----d~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          240 LVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIK----EYRAKENDFDRLVLQY  288 (291)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHH----HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHH----HHHHHHHHHHHHHHHc
Confidence            9999999999976 6789999999999988554    4566666677665543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.79  E-value=5.5e-17  Score=165.50  Aligned_cols=252  Identities=13%  Similarity=-0.008  Sum_probs=137.2

Q ss_pred             hCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHh----ccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHH
Q 048179          255 QNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACA----QIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSC  330 (589)
Q Consensus       255 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  330 (589)
                      ..++.++|++.+++..+.. +.+...+..+...+.    ..++.+.|...++......+.+..++..+...|...|++++
T Consensus       187 ~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~  265 (472)
T 4g1t_A          187 NWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDK  265 (472)
T ss_dssp             HSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHH
T ss_pred             CchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHH
Confidence            3445555555555555432 122233333322222    22344555555555554445555555556666666666666


Q ss_pred             HHHHHHhcCC--C-ChhHHHHHHHHHHh-------------------cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048179          331 ARALFDQMQS--R-DLISWNVIIASYGI-------------------HGHGEEALSLFLQMIETMVKPDHSTFASLLSAL  388 (589)
Q Consensus       331 A~~~~~~~~~--~-~~~~~~~li~~~~~-------------------~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~  388 (589)
                      |...|++..+  | +..+|..+...|..                   .+..++|+..|++..+.. +.+..++..+...+
T Consensus       266 A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~  344 (472)
T 4g1t_A          266 AIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLH  344 (472)
T ss_dssp             HHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHH
T ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHH
Confidence            6666655442  2 23344444333321                   233567888888877754 33455677888889


Q ss_pred             hcCCcHHHHHHHHHHHHHhcCCCCChh----hHHHHHH-HHHHcCCHHHHHHHHHhc-CCCCChhHHHHHHHHHHhcCCc
Q 048179          389 SHSGLVEEGRYWFDLMVSKYKIQPTEK----HYACMVD-LLARAGEVEEALKIVDSM-STEPGLAVWVALLSGCHNHKKF  462 (589)
Q Consensus       389 ~~~g~~~~a~~~~~~~~~~~~~~p~~~----~~~~l~~-~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~  462 (589)
                      ...|++++|...|+++.+.   .|+..    .+..+.. .+...|+.++|+..|++. ...|+...+...         .
T Consensus       345 ~~~~~~~~A~~~~~kaL~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~---------~  412 (472)
T 4g1t_A          345 ALADQYEEAEYYFQKEFSK---ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKM---------K  412 (472)
T ss_dssp             HHTTCHHHHHHHHHHHHHS---CCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHH---------H
T ss_pred             HHhccHHHHHHHHHHHHhc---CCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHH---------H
Confidence            9999999999999998764   23322    2333333 235678999999998875 445655433322         3


Q ss_pred             hHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCceeEE
Q 048179          463 SIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVV  520 (589)
Q Consensus       463 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~~  520 (589)
                      +.+..++++.++.+|+++.+|..||.+|...|++++|.+.+++..+.|.......+|+
T Consensus       413 ~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~  470 (472)
T 4g1t_A          413 DKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWN  470 (472)
T ss_dssp             HHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-----------------------
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcC
Confidence            4456778888899999999999999999999999999999999998776554555554

>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=99.79  E-value=6.2e-15  Score=158.21  Aligned_cols=374  Identities=14%  Similarity=0.082  Sum_probs=193.2

Q ss_pred             hHhHHHHhhhcCCChHHHHHHhccCC-CC-----CcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHH
Q 048179           12 SVGRIIALYGGKNDIVSARKLFEELP-LR-----GVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKA   85 (589)
Q Consensus        12 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~   85 (589)
                      -.+..+..|...|.+.+|..+++++. .+     +....|.++++..+. +..+..+........       ....+...
T Consensus       987 eVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~-------d~~eIA~I 1058 (1630)
T 1xi4_A          987 EVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY-------DAPDIANI 1058 (1630)
T ss_pred             HhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc-------cHHHHHHH
Confidence            33444555555555555555555543 11     123344455444444 333333333332211       12224444


Q ss_pred             HhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHH
Q 048179           86 CVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAY  165 (589)
Q Consensus        86 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  165 (589)
                      |...|.+++|..+|++..     ......+.++.   ..|++++|.++.++..  +..+|..+..++...|++++|++.|
T Consensus      1059 ai~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aervn--~p~vWsqLAKAql~~G~~kEAIdsY 1128 (1630)
T 1xi4_A         1059 AISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAIDSY 1128 (1630)
T ss_pred             HHhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            555566666666665531     11111122221   4455666666665552  3455666666666666666666666


Q ss_pred             HHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCeeh
Q 048179          166 KRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVT  245 (589)
Q Consensus       166 ~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  245 (589)
                      .+.      -|...|..++.+|.+.|+++++.+.+....+..  +++.+.+.++.+|++.+++++...+.   ..++...
T Consensus      1129 iKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI---~~~n~ad 1197 (1630)
T 1xi4_A         1129 IKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI---NGPNNAH 1197 (1630)
T ss_pred             Hhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---hCCCHHH
Confidence            442      245555666666666666666666666555543  22233334666666666666433332   2334445


Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhc
Q 048179          246 WGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKC  325 (589)
Q Consensus       246 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  325 (589)
                      |..+...|...|++++|..+|...         ..|..+...+.+.|+++.|.+....+     .+..+|..+..+|...
T Consensus      1198 ~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA-----~n~~aWkev~~acve~ 1263 (1630)
T 1xi4_A         1198 IQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA-----NSTRTWKEVCFACVDG 1263 (1630)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh-----CCHHHHHHHHHHHhhh
Confidence            555666666666666666666653         25566666666666666666665555     2445555556666666


Q ss_pred             CCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHH--HHHHHHHhcCCcHHHHHHHHH
Q 048179          326 GVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPD-HSTF--ASLLSALSHSGLVEEGRYWFD  402 (589)
Q Consensus       326 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~t~--~~ll~a~~~~g~~~~a~~~~~  402 (589)
                      |++..|..+... ...+...+..++..|.+.|.+++|+.+++.....  .|. ...|  ...+.+-.+.++..++.++|.
T Consensus      1264 ~Ef~LA~~cgl~-Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~L--eraH~gmftELaiLyaKy~peklmEhlk~f~ 1340 (1630)
T 1xi4_A         1264 KEFRLAQMCGLH-IVVHADELEELINYYQDRGYFEELITMLEAALGL--ERAHMGMFTELAILYSKFKPQKMREHLELFW 1340 (1630)
T ss_pred             hHHHHHHHHHHh-hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--ChhHhHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            666666665544 2233444556666666677777777766555432  222 1233  333333334444445555444


Q ss_pred             HHHHhcCCCC------ChhhHHHHHHHHHHcCCHHHHH
Q 048179          403 LMVSKYKIQP------TEKHYACMVDLLARAGEVEEAL  434 (589)
Q Consensus       403 ~~~~~~~~~p------~~~~~~~l~~~~~~~g~~~~A~  434 (589)
                      .-.   +++|      +...|.-++-.|.+.|+++.|.
T Consensus      1341 ~ri---ni~k~~r~~e~~~lW~elv~LY~~~~e~dnA~ 1375 (1630)
T 1xi4_A         1341 SRV---NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI 1375 (1630)
T ss_pred             Hhc---ccchHhHHHHHHHHHHHHHHHHHhcccHHHHH
Confidence            322   3333      2455666667777777777666

>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=99.78  E-value=1.6e-17  Score=160.54  Aligned_cols=259  Identities=10%  Similarity=-0.051  Sum_probs=185.6

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHh
Q 048179          245 TWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSK  324 (589)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  324 (589)
                      .|..+...+...|++++|+.+|+++.+.. +.+...+..+...+...|+++.|...+..+....+.+..++..+...|..
T Consensus        23 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~  101 (327)
T 3cv0_A           23 NPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN  101 (327)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHH
Confidence            34444444555555555555555554432 22334444444455555555555555555554344455555666666677


Q ss_pred             cCCHHHHHHHHHhcCC--C-ChhHHHHH--------------HH-HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048179          325 CGVPSCARALFDQMQS--R-DLISWNVI--------------IA-SYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLS  386 (589)
Q Consensus       325 ~g~~~~A~~~~~~~~~--~-~~~~~~~l--------------i~-~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~  386 (589)
                      .|++++|...|+++.+  | +...+..+              .. .+...|++++|...++++.+.. +.+...+..+..
T Consensus       102 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~  180 (327)
T 3cv0_A          102 EHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGV  180 (327)
T ss_dssp             TTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            7777777777666542  1 12222222              22 3677889999999999998874 446788889999


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchH
Q 048179          387 ALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSI  464 (589)
Q Consensus       387 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~  464 (589)
                      .+...|++++|..+++.+.+.  .+.+...+..+...+.+.|++++|.+.++++. ..| +..+|..+...+...|++++
T Consensus       181 ~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~  258 (327)
T 3cv0_A          181 LYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQYDL  258 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhccHHH
Confidence            999999999999999999874  23457889999999999999999999999863 233 57789999999999999999


Q ss_pred             HHHHHHHHhccCCC------------CchhHHHHHHHHHhCCChHHHHHHHHHHH
Q 048179          465 GEKVAKKVLKLNPD------------DLGIHALVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       465 a~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      |.+.++++++..|+            ++..+..++.+|...|++++|..++++..
T Consensus       259 A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          259 AAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             HHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            99999999999998            78899999999999999999999987543

>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=2.5e-17  Score=162.10  Aligned_cols=271  Identities=12%  Similarity=-0.007  Sum_probs=160.9

Q ss_pred             HHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC---CCeehHHHHHHHHHhC
Q 048179          180 MMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR---INIVTWGALISGFAQN  256 (589)
Q Consensus       180 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~  256 (589)
                      +..+...+...|+++.|...+..+++.. +.+..++..+...|.+.|++++|...|+++.+   .+..+|..+...|...
T Consensus        67 ~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~  145 (368)
T 1fch_A           67 PFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNE  145 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHc
Confidence            3333334444444444444444444332 22344555555555556666666655555432   2445666666677777


Q ss_pred             CChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHH
Q 048179          257 GLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFD  336 (589)
Q Consensus       257 g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  336 (589)
                      |++++|+..|+++....  |+........      +....           ..........+...+ ..|++++|...|+
T Consensus       146 g~~~~A~~~~~~~~~~~--~~~~~~~~~~------~~~~~-----------~~~~~~~~~~~~~~~-~~~~~~~A~~~~~  205 (368)
T 1fch_A          146 SLQRQACEILRDWLRYT--PAYAHLVTPA------EEGAG-----------GAGLGPSKRILGSLL-SDSLFLEVKELFL  205 (368)
T ss_dssp             TCHHHHHHHHHHHHHTS--TTTGGGCC--------------------------------CTTHHHH-HHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC--cCcHHHHHHH------HHHhh-----------hhcccHHHHHHHHHh-hcccHHHHHHHHH
Confidence            77777777777776642  3221110000      00000           000000001122223 6677777777777


Q ss_pred             hcCC--C---ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCC
Q 048179          337 QMQS--R---DLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQ  411 (589)
Q Consensus       337 ~~~~--~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~  411 (589)
                      ++.+  |   +..+|..+...+...|++++|+..|+++.+.. +.+..++..+...+...|++++|...|+.+.+.  .+
T Consensus       206 ~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~  282 (368)
T 1fch_A          206 AAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QP  282 (368)
T ss_dssp             HHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CT
T ss_pred             HHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CC
Confidence            6643  2   35677777778888888888888888877753 334667777888888888888888888887763  23


Q ss_pred             CChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CC-C-----------hhHHHHHHHHHHhcCCchHHHHHHHHHhc
Q 048179          412 PTEKHYACMVDLLARAGEVEEALKIVDSMST-EP-G-----------LAVWVALLSGCHNHKKFSIGEKVAKKVLK  474 (589)
Q Consensus       412 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~-----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  474 (589)
                      .+...+..+..+|.+.|++++|...++++.. .| +           ..+|..+..++...|++++|..++++.++
T Consensus       283 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  358 (368)
T 1fch_A          283 GYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARDLS  358 (368)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTCHH
T ss_pred             CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHHHH
Confidence            3467778888888888888888888877521 12 1           56788888888888888888888776654

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.76  E-value=1.4e-17  Score=163.83  Aligned_cols=232  Identities=11%  Similarity=0.009  Sum_probs=197.3

Q ss_pred             CHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHH
Q 048179          277 DSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASY  353 (589)
Q Consensus       277 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~  353 (589)
                      +...+......+...|+++.|...++.+....+.+..++..+..+|.+.|++++|...|+++.+   .+..+|..+...|
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  143 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVSY  143 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            3455888888999999999999999999977788899999999999999999999999998764   4578999999999


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCH-----------HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048179          354 GIHGHGEEALSLFLQMIETMVKPDH-----------STFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVD  422 (589)
Q Consensus       354 ~~~g~~~~A~~~~~~m~~~~~~p~~-----------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  422 (589)
                      ...|++++|+..|+++.+..  |+.           ..+..+...+...|++++|..+|+++.+...-.++...+..+..
T Consensus       144 ~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          144 TNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            99999999999999998753  322           22334577889999999999999999976332236889999999


Q ss_pred             HHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHH
Q 048179          423 LLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVA  500 (589)
Q Consensus       423 ~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  500 (589)
                      +|.+.|++++|++.++++..  +.+..+|..++.+|...|++++|+..+++++++.|+++.++..++.+|.+.|++++|.
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~  301 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREAV  301 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHH
Confidence            99999999999999999732  3467899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCC
Q 048179          501 GVRKTMRKSG  510 (589)
Q Consensus       501 ~~~~~m~~~g  510 (589)
                      +.++++.+..
T Consensus       302 ~~~~~al~~~  311 (365)
T 4eqf_A          302 SNFLTALSLQ  311 (365)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhC
Confidence            9999998743

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.75  E-value=2.1e-16  Score=149.27  Aligned_cols=247  Identities=11%  Similarity=0.017  Sum_probs=201.8

Q ss_pred             HHHHHhCCChhHHHHHHHHHHhcCCCCCH--HHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCC
Q 048179          250 ISGFAQNGLAGSTLELLMEMQSCGFEPDS--VSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGV  327 (589)
Q Consensus       250 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  327 (589)
                      +.-....|++++|+..+++....  .|+.  .....+.+++...|+.+.|...++   ...+|+...+..+...+...|+
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~---~~~~~~~~a~~~la~~~~~~~~   80 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIK---PSSAPELQAVRMFAEYLASHSR   80 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSC---TTSCHHHHHHHHHHHHHHCSTT
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhc---ccCChhHHHHHHHHHHHcCCCc
Confidence            34456789999999998876554  4443  345667889999999998886443   2356677888899999999999


Q ss_pred             HHHHHHHHHhcC----CC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHH
Q 048179          328 PSCARALFDQMQ----SR-DLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFD  402 (589)
Q Consensus       328 ~~~A~~~~~~~~----~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  402 (589)
                      .++|.+.++++.    .| +...+..+...+...|++++|++.+++      +.+...+..++..+.+.|++++|.+.|+
T Consensus        81 ~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~  154 (291)
T 3mkr_A           81 RDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELK  154 (291)
T ss_dssp             HHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            999999999864    24 456677778899999999999999987      4567788889999999999999999999


Q ss_pred             HHHHhcCCCCChhh---HHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCC
Q 048179          403 LMVSKYKIQPTEKH---YACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNP  477 (589)
Q Consensus       403 ~~~~~~~~~p~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  477 (589)
                      .+.+.   .|+...   ..+++..+...|++++|..+|+++..  +++...|+.+..++...|++++|+..++++++++|
T Consensus       155 ~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p  231 (291)
T 3mkr_A          155 KMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDS  231 (291)
T ss_dssp             HHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            99875   355321   12344555566999999999999843  35778899999999999999999999999999999


Q ss_pred             CCchhHHHHHHHHHhCCChHH-HHHHHHHHHhCC
Q 048179          478 DDLGIHALVSNFFAMEQKWEE-VAGVRKTMRKSG  510 (589)
Q Consensus       478 ~~~~~~~~l~~~~~~~g~~~~-a~~~~~~m~~~g  510 (589)
                      +++.++..++.++...|++++ +.++++++.+..
T Consensus       232 ~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~  265 (291)
T 3mkr_A          232 GHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH  265 (291)
T ss_dssp             TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC
Confidence            999999999999999999987 578999888644

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.74  E-value=4.7e-16  Score=158.61  Aligned_cols=381  Identities=11%  Similarity=0.005  Sum_probs=228.0

Q ss_pred             CcccHHHHHHHHhccCCHHHHHHHHHHHHHh-----C---CCCChhhHHHHHHHHHhCCChHHHHHHHHhcCC-------
Q 048179           75 DSSTFTVALKACVSLMDLKMGEEIWRKAVEL-----G---YGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR-------  139 (589)
Q Consensus        75 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----g---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------  139 (589)
                      ....|+.+...+...|+.++|.+.|++.++.     +   .+....+|+.+..+|...|++++|...|++..+       
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            3456888888888999999999999987653     1   122345788899999999999999888876542       


Q ss_pred             C----CcchHHHHHHHHHh--CCCccHHHHHHHHHHHCCCCCCh-hhHHHHHHH---HHccCCcHHHHHHHHHHHHhcCC
Q 048179          140 K----DLVCWSSMINGLVF--NGQPREAVDAYKRMKKEGIDADE-VVMMGLIQA---CADLGDSRFGLSVHGYSIRRHLN  209 (589)
Q Consensus       140 ~----~~~~~~~li~~~~~--~g~~~~A~~~~~~m~~~~~~p~~-~t~~~ll~~---~~~~~~~~~a~~~~~~~~~~~~~  209 (589)
                      +    ...+++.+..++..  .+++++|++.|++..+.  .|+. ..+..+..+   +...++.+.|.+.+...++... 
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p-  206 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNP-  206 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCS-
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCC-
Confidence            1    23345555545544  45688999999998775  3443 333333333   3456777888888888887653 


Q ss_pred             CchHHHHHHHHHHHh----cCCHHHHHHHHhhcCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCC-HHHH
Q 048179          210 LDVKVQTSLVDMYAK----TGHLDLASHVFKNMSR---INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPD-SVSL  281 (589)
Q Consensus       210 ~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~  281 (589)
                      .+..++..+...+..    .|++++|.+.+++...   .+..++..+...|...|++++|+..|.+..+.  .|+ ..++
T Consensus       207 ~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~  284 (472)
T 4g1t_A          207 DNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPNNAYLH  284 (472)
T ss_dssp             SCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHH
T ss_pred             cchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCChHHHH
Confidence            345556555555444    4567788888877643   35567888888889999999999999888875  344 3444


Q ss_pred             HHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCC
Q 048179          282 VSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGH  358 (589)
Q Consensus       282 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~  358 (589)
                      ..+...+...+....+..               ...........+..+.|...|++..+   .+..+|..+...|...|+
T Consensus       285 ~~lg~~y~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~  349 (472)
T 4g1t_A          285 CQIGCCYRAKVFQVMNLR---------------ENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQ  349 (472)
T ss_dssp             HHHHHHHHHHHHHHHHC---------------------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhhhHH---------------HHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhcc
Confidence            444433322111100000               00001111122335677777776543   456678889999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHH--HHHHHHH-HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHH
Q 048179          359 GEEALSLFLQMIETMVKPDHS--TFASLLS-ALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALK  435 (589)
Q Consensus       359 ~~~A~~~~~~m~~~~~~p~~~--t~~~ll~-a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  435 (589)
                      +++|+..|++..+....|...  .+..+.. .....|++++|+..|++..+   +.|+.......         ...+.+
T Consensus       350 ~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~---i~~~~~~~~~~---------~~~l~~  417 (472)
T 4g1t_A          350 YEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK---INQKSREKEKM---------KDKLQK  417 (472)
T ss_dssp             HHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH---SCCCCHHHHHH---------HHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCcccHHHHHH---------HHHHHH
Confidence            999999999998865443322  2223322 34578999999999999885   44554322222         233344


Q ss_pred             HHHhc-CC-CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHH
Q 048179          436 IVDSM-ST-EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVS  487 (589)
Q Consensus       436 ~~~~~-~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  487 (589)
                      ++++. .. +.+..+|..|+..+...|++++|++.++++++++|.+|.+...+|
T Consensus       418 ~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~G  471 (472)
T 4g1t_A          418 IAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWNG  471 (472)
T ss_dssp             HHHHHHHHCC-CTTHHHHHHHHHHHHHHCC------------------------
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcCC
Confidence            44443 22 346779999999999999999999999999999999888776655

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.70  E-value=2.3e-15  Score=145.26  Aligned_cols=241  Identities=12%  Similarity=0.008  Sum_probs=125.8

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHhhcCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHH-HHHHHHH
Q 048179          211 DVKVQTSLVDMYAKTGHLDLASHVFKNMSR---INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSV-SLVSALL  286 (589)
Q Consensus       211 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~  286 (589)
                      +..++..+...+...|++++|...|+++.+   .+..+|..+...+...|++++|+..++++.+..  |+.. .+..+..
T Consensus        54 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~  131 (327)
T 3cv0_A           54 REEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWLLSQ--PQYEQLGSVNLQ  131 (327)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTTTTC------
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHhH
Confidence            334444445555555555555555554432   234455556666666666666666666666542  2221 1111100


Q ss_pred             HHhccCchhhHHHHHHHHhhcCCCChhHHHHH-HH-HhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHH
Q 048179          287 ACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSV-ID-MYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEE  361 (589)
Q Consensus       287 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l-~~-~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~  361 (589)
                      .+                     ++......+ .. .+...|++++|...|+++.+   .+...+..+...+...|++++
T Consensus       132 ~~---------------------~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  190 (327)
T 3cv0_A          132 AD---------------------VDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHASLGVLYNLSNNYDS  190 (327)
T ss_dssp             -----------------------------------CCTTSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HH---------------------HHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhccHHH
Confidence            00                     000000011 11 24444555555555554432   234555566666666666666


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC
Q 048179          362 ALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS  441 (589)
Q Consensus       362 A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  441 (589)
                      |+..++++.+.. +.+..++..+...+...|++++|...|+.+.+.  .+.+...+..+..+|.+.|++++|.+.++++.
T Consensus       191 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~  267 (327)
T 3cv0_A          191 AAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDI--NPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAI  267 (327)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            666666666543 234555666666666666666666666666543  12335566666666666777777766666542


Q ss_pred             C-CC-------------ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCC
Q 048179          442 T-EP-------------GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNP  477 (589)
Q Consensus       442 ~-~p-------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  477 (589)
                      . .|             +..+|..+..++...|++++|..+++++++..|
T Consensus       268 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~  317 (327)
T 3cv0_A          268 YMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVEPFA  317 (327)
T ss_dssp             HHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSHHHH
T ss_pred             HhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcc
Confidence            1 12             245666677777777777777777766655443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.69  E-value=9.5e-16  Score=138.24  Aligned_cols=195  Identities=14%  Similarity=-0.005  Sum_probs=157.5

Q ss_pred             CCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048179          309 DFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLL  385 (589)
Q Consensus       309 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll  385 (589)
                      |++...+..+...+.+.|++++|...|++..+   .+...|..+...+.+.|++++|+..|++..+.. +.+...+..+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            55677788888999999999999999998765   356788899999999999999999999999864 34567888888


Q ss_pred             HHHhcC-----------CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCCChhHHHHHH
Q 048179          386 SALSHS-----------GLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEPGLAVWVALL  453 (589)
Q Consensus       386 ~a~~~~-----------g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~~~~~~~l~  453 (589)
                      .++...           |++++|...|+++.+.  -+.+...+..+..+|...|++++|++.|++.. ...+...|..+.
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~la  158 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSALA  158 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHHH
Confidence            899999           9999999999999864  23347788999999999999999999999862 126788999999


Q ss_pred             HHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHH
Q 048179          454 SGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTM  506 (589)
Q Consensus       454 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  506 (589)
                      .++...|++++|+..++++++++|+++..+..++.++...|++++|.+.+++.
T Consensus       159 ~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999988754

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.66  E-value=3.3e-14  Score=143.28  Aligned_cols=376  Identities=12%  Similarity=0.027  Sum_probs=226.4

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCCh---HHHHHHHHhcCCCCcchHHHHHHHHHhCC--
Q 048179           82 ALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKM---NEAMVAFEKMQRKDLVCWSSMINGLVFNG--  156 (589)
Q Consensus        82 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~li~~~~~~g--  156 (589)
                      +...+.+.|++++|.+.|+++.+.|   +...+..|..+|...|+.   ++|...|++..+.+...+..|...+...+  
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~   85 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGA   85 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC----------------------------CHHHHHHHHHTC--C
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCC
Confidence            3445566778888888888887775   344455566666667777   78888888877667777777777555555  


Q ss_pred             ---CccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcH---HHHHHHHHHHHhcCCCchHHHHHHHHHHHhcC----
Q 048179          157 ---QPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSR---FGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTG----  226 (589)
Q Consensus       157 ---~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----  226 (589)
                         ++++|+..|++..+.|..   ..+..+...+...+..+   .+.+.+......|   ++.....|...|...+    
T Consensus        86 ~~~~~~~A~~~~~~Aa~~g~~---~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~  159 (452)
T 3e4b_A           86 TEAEHHEAESLLKKAFANGEG---NTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTYDQ  159 (452)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCS---SCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCGGG
T ss_pred             CCcCHHHHHHHHHHHHHCCCH---HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCccc
Confidence               667888888888876532   25555666665544433   3344444444444   4556667777777777    


Q ss_pred             CHHHHHHHHhhcCCCCeehHHHHHHHHHhCC---ChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHH
Q 048179          227 HLDLASHVFKNMSRINIVTWGALISGFAQNG---LAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGY  303 (589)
Q Consensus       227 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  303 (589)
                      ..+.+..+++.....++.++..|...|...|   +.++|+..|++..+.| .++...+..+...+...            
T Consensus       160 ~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g------------  226 (452)
T 3e4b_A          160 HLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDA------------  226 (452)
T ss_dssp             GHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCG------------
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCC------------
Confidence            4455666677777767778888888888888   8888998888888876 34443333333322221            


Q ss_pred             HhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHH-H--HhcCCHHHHHHHHHHHHHcCCCCCHHH
Q 048179          304 TVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIAS-Y--GIHGHGEEALSLFLQMIETMVKPDHST  380 (589)
Q Consensus       304 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~-~--~~~g~~~~A~~~~~~m~~~~~~p~~~t  380 (589)
                                        ....+++++|...|++....+...+..+... +  ...+++++|+..|++..+.|   +...
T Consensus       227 ------------------~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A  285 (452)
T 3e4b_A          227 ------------------TLGTPDEKTAQALLEKIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRA  285 (452)
T ss_dssp             ------------------GGSSCCHHHHHHHHHHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             ------------------CCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence                              0011566667777766553345566666655 3  45778888888888887766   4555


Q ss_pred             HHHHHHHHhcCC-----cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH----cCCHHHHHHHHHhcCCCCChhHHHH
Q 048179          381 FASLLSALSHSG-----LVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLAR----AGEVEEALKIVDSMSTEPGLAVWVA  451 (589)
Q Consensus       381 ~~~ll~a~~~~g-----~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~  451 (589)
                      ...|...|. .|     ++++|...|+...     +.+...+..|..+|..    ..++++|..+|++.....+......
T Consensus       286 ~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~  359 (452)
T 3e4b_A          286 ELLLGKLYY-EGKWVPADAKAAEAHFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADFA  359 (452)
T ss_dssp             HHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHH
T ss_pred             HHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHHH
Confidence            566666665 44     8888888888765     2456677777777766    3488889988888765556666777


Q ss_pred             HHHHHHh----cCCchHHHHHHHHHhccCCCCchhHHHHHHHHHh--CCChHHHHHHHHHHHh
Q 048179          452 LLSGCHN----HKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAM--EQKWEEVAGVRKTMRK  508 (589)
Q Consensus       452 l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~--~g~~~~a~~~~~~m~~  508 (589)
                      |...|..    ..|.++|...++++.+.++..  +...+..+...  .++.++|.++.++.+.
T Consensus       360 Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~~--a~~~l~~l~~~~~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          360 IAQLFSQGKGTKPDPLNAYVFSQLAKAQDTPE--ANDLATQLEAPLTPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             HHHHHHSCTTBCCCHHHHHHHHHHHHTTCCHH--HHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCCCHHHHHHHHHHHHHCCCHH--HHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            7776653    458889999999988876543  33444444332  3455666666665543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.65  E-value=1.8e-14  Score=133.64  Aligned_cols=218  Identities=10%  Similarity=-0.006  Sum_probs=167.9

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHh
Q 048179          245 TWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSK  324 (589)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  324 (589)
                      .|..+...+...|++++|+..|++..+..  .+...+                                  ..+..+|..
T Consensus         7 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~----------------------------------~~~~~~~~~   50 (258)
T 3uq3_A            7 KEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYL----------------------------------NNRAAAEYE   50 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHH----------------------------------HHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHH----------------------------------HHHHHHHHH
Confidence            45566666677777777777777666654  444444                                  555555666


Q ss_pred             cCCHHHHHHHHHhcCC--C----C----hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcH
Q 048179          325 CGVPSCARALFDQMQS--R----D----LISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLV  394 (589)
Q Consensus       325 ~g~~~~A~~~~~~~~~--~----~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~  394 (589)
                      .|++++|...|++..+  |    +    ...|..+...+...|++++|+..|++..+.  .|+..       .+...|++
T Consensus        51 ~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~-------~~~~~~~~  121 (258)
T 3uq3_A           51 KGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTE--HRTAD-------ILTKLRNA  121 (258)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHH-------HHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--CchhH-------HHHHHhHH
Confidence            6666666666665543  1    1    467778888888899999999999988875  34432       35556889


Q ss_pred             HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHHHH
Q 048179          395 EEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAKKV  472 (589)
Q Consensus       395 ~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  472 (589)
                      ++|...++.+...  .+.+...+..+...+...|++++|.+.++++..  +.+..+|..+...+...|++++|+..++++
T Consensus       122 ~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  199 (258)
T 3uq3_A          122 EKELKKAEAEAYV--NPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKA  199 (258)
T ss_dssp             HHHHHHHHHHHHC--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc--CcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            9999999998863  233467788899999999999999999998732  346778999999999999999999999999


Q ss_pred             hccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          473 LKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       473 ~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      ++.+|+++..+..++.+|...|++++|.+.++++.+.
T Consensus       200 l~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          200 IEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999998764

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.65  E-value=6.7e-15  Score=136.59  Aligned_cols=239  Identities=10%  Similarity=0.014  Sum_probs=185.8

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHhhcCC--CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCC--CCCHHHHHHHHH
Q 048179          211 DVKVQTSLVDMYAKTGHLDLASHVFKNMSR--INIVTWGALISGFAQNGLAGSTLELLMEMQSCGF--EPDSVSLVSALL  286 (589)
Q Consensus       211 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p~~~~~~~ll~  286 (589)
                      ....+..+...+...|++++|...|++..+  .+...|..+...+...|++++|+..+.+..+...  .|+...      
T Consensus         4 ~a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~------   77 (258)
T 3uq3_A            4 MADKEKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKV------   77 (258)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHH------
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHH------
Confidence            356788899999999999999999987643  6677899999999999999999999999876421  111100      


Q ss_pred             HHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--CChhHHHHHHHHHHhcCCHHHHHH
Q 048179          287 ACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS--RDLISWNVIIASYGIHGHGEEALS  364 (589)
Q Consensus       287 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~  364 (589)
                                              ...++..+...|.+.|++++|...|+++.+  ++       ...+...|++++|+.
T Consensus        78 ------------------------~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-------~~~~~~~~~~~~a~~  126 (258)
T 3uq3_A           78 ------------------------ISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRT-------ADILTKLRNAEKELK  126 (258)
T ss_dssp             ------------------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-------HHHHHHHHHHHHHHH
T ss_pred             ------------------------HHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCch-------hHHHHHHhHHHHHHH
Confidence                                    123445666777777777777777777653  33       234566788899999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CC
Q 048179          365 LFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TE  443 (589)
Q Consensus       365 ~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~  443 (589)
                      .++++.... +.+...+..+...+...|++++|...|+.+.+.  .+.+...+..+..++.+.|++++|.+.++++. ..
T Consensus       127 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  203 (258)
T 3uq3_A          127 KAEAEAYVN-PEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD  203 (258)
T ss_dssp             HHHHHHHCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcC-cchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            999888753 234557788888899999999999999998874  23457788889999999999999999998873 23


Q ss_pred             C-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccC------CCCchhHHHHHHH
Q 048179          444 P-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLN------PDDLGIHALVSNF  489 (589)
Q Consensus       444 p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~  489 (589)
                      | +..+|..+..++...|++++|...+++++++.      |++...+..+..+
T Consensus       204 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~~~  256 (258)
T 3uq3_A          204 PNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKA  256 (258)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHHHh
Confidence            4 57788899999999999999999999999998      8877777766543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.64  E-value=1.8e-16  Score=164.90  Aligned_cols=131  Identities=11%  Similarity=0.095  Sum_probs=114.8

Q ss_pred             CCChhHHHHHHHHhHhcCCHHHHHHHHHhcC-------CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 048179          309 DFNLVLGTSVIDMYSKCGVPSCARALFDQMQ-------SRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTF  381 (589)
Q Consensus       309 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~  381 (589)
                      .....+||+||++|+++|++++|.++|+.|.       .||+++||+||.+|++.|++++|.++|++|.+.|+.||.+||
T Consensus       124 ~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTY  203 (1134)
T 3spa_A          124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSY  203 (1134)
T ss_dssp             CHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH
Confidence            3345678999999999999999999997753       489999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCc-HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc
Q 048179          382 ASLLSALSHSGL-VEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM  440 (589)
Q Consensus       382 ~~ll~a~~~~g~-~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  440 (589)
                      +++|.++++.|. .++|.++|++|.+. |+.||..+|++++....+.+-++...++...+
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~k-G~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f  262 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQE-GLKLQALFTAVLLSEEDRATVLKAVHKVKPTF  262 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHH-TCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCC
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHc-CCCCChhhcccccChhhHHHHHHHHHHhCccc
Confidence            999999999997 47899999999998 99999999999998877776555555544333

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.64  E-value=1.3e-16  Score=166.00  Aligned_cols=129  Identities=12%  Similarity=0.043  Sum_probs=114.1

Q ss_pred             ChhhHHHHHHHHHhCCChHHHHHHHHhcC-------CCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHH
Q 048179          110 DVFVGSSMLNLYVKCGKMNEAMVAFEKMQ-------RKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMG  182 (589)
Q Consensus       110 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~  182 (589)
                      -..+||+||++|+++|++++|.++|++|.       .||+++||+||.+|++.|++++|.++|++|.+.|+.||..||++
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            34589999999999999999999997753       58999999999999999999999999999999999999999999


Q ss_pred             HHHHHHccCCc-HHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhc
Q 048179          183 LIQACADLGDS-RFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNM  238 (589)
Q Consensus       183 ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  238 (589)
                      +|.++++.|+. +.|.+++++|.+.|+.||..+|++++....+.+-++...+++..+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f  262 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTF  262 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCccc
Confidence            99999999985 789999999999999999999999998777765555554444433

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.63  E-value=1.8e-14  Score=135.13  Aligned_cols=241  Identities=8%  Similarity=-0.051  Sum_probs=183.3

Q ss_pred             hCCChhHHHHHHHHHHhcCC---CCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHH
Q 048179          255 QNGLAGSTLELLMEMQSCGF---EPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCA  331 (589)
Q Consensus       255 ~~g~~~~a~~~~~~m~~~g~---~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  331 (589)
                      ..|++++|+..|+++.+...   +.+..++..+...+...|+++.|...+..+....+.+..++..+...|...|++++|
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A   96 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAA   96 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHHH
Confidence            34667777777777776531   113455666666777777777777777777755666777888889999999999999


Q ss_pred             HHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc
Q 048179          332 RALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKY  408 (589)
Q Consensus       332 ~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  408 (589)
                      ...|+++.+   .+..+|..+...|...|++++|+..|+++.+.  .|+.......+..+...|++++|...++..... 
T Consensus        97 ~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-  173 (275)
T 1xnf_A           97 YEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK-  173 (275)
T ss_dssp             HHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc-
Confidence            999988764   46788999999999999999999999999886  344444444555567779999999999888764 


Q ss_pred             CCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCC-CC-----hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchh
Q 048179          409 KIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTE-PG-----LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGI  482 (589)
Q Consensus       409 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-p~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  482 (589)
                       .+++...+ .++..+...++.++|.+.+++.... |+     ..+|..+...+...|++++|...++++++++|++...
T Consensus       174 -~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~  251 (275)
T 1xnf_A          174 -SDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVE  251 (275)
T ss_dssp             -SCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHH
T ss_pred             -CCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHHH
Confidence             33444444 4777888889999999999987543 32     5788899999999999999999999999999987654


Q ss_pred             HHHHHHHHHhCCChHHHHHHH
Q 048179          483 HALVSNFFAMEQKWEEVAGVR  503 (589)
Q Consensus       483 ~~~l~~~~~~~g~~~~a~~~~  503 (589)
                      +   +.++...|++++|++.+
T Consensus       252 ~---~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          252 H---RYALLELSLLGQDQDDL  269 (275)
T ss_dssp             H---HHHHHHHHHHHHC----
T ss_pred             H---HHHHHHHHHHHhhHHHH
Confidence            4   66788899999998776

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.63  E-value=1.9e-14  Score=134.79  Aligned_cols=246  Identities=11%  Similarity=-0.017  Sum_probs=141.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc
Q 048179          214 VQTSLVDMYAKTGHLDLASHVFKNMSR---INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQ  290 (589)
Q Consensus       214 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  290 (589)
                      ........+...|++++|...|++..+   .+...|..+...|...|++++|+..+++..+..  ++...          
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~----------   72 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKV--NATKA----------   72 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTS--CTTTC----------
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcc--CchhH----------
Confidence            344556667777777777777776643   234467777777777777777777777777632  22111          


Q ss_pred             cCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHH
Q 048179          291 IGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFL  367 (589)
Q Consensus       291 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~  367 (589)
                                          ....+..+...|...|++++|...|++..+   .+...|..+...|...|++++|+..|+
T Consensus        73 --------------------~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  132 (272)
T 3u4t_A           73 --------------------KSADFEYYGKILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYME  132 (272)
T ss_dssp             --------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHG
T ss_pred             --------------------HHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHH
Confidence                                111234444455555555555555554432   233455555555555555666655555


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC---HHHHHHHHHhcC---
Q 048179          368 QMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGE---VEEALKIVDSMS---  441 (589)
Q Consensus       368 ~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~---  441 (589)
                      +..+.. +.+...+..+...+...+++++|...|+.+.+.  .+.+...+..+..++...|+   +++|...++++.   
T Consensus       133 ~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~  209 (272)
T 3u4t_A          133 KQIRPT-TTDPKVFYELGQAYYYNKEYVKADSSFVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVC  209 (272)
T ss_dssp             GGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHH
T ss_pred             HHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHH
Confidence            554431 222334444442333334666666666666542  12224455555566665565   555555555431   


Q ss_pred             -CCCC------hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCC
Q 048179          442 -TEPG------LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQ  494 (589)
Q Consensus       442 -~~p~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  494 (589)
                       ..|+      ..+|..+...|...|++++|.+.++++++++|+++.++..+..+....+
T Consensus       210 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~~  269 (272)
T 3u4t_A          210 APGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALDPTNKKAIDGLKMKLEHHH  269 (272)
T ss_dssp             GGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHC-------
T ss_pred             hcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCccHHHHHHHhhhhhcccc
Confidence             1133      2467778888899999999999999999999999988888877665544

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.62  E-value=7.6e-14  Score=140.61  Aligned_cols=344  Identities=11%  Similarity=0.012  Sum_probs=233.9

Q ss_pred             HHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCc---HHHHHHHHHHHHhcCCCchHHHHHHHHHHH
Q 048179          147 SMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDS---RFGLSVHGYSIRRHLNLDVKVQTSLVDMYA  223 (589)
Q Consensus       147 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  223 (589)
                      .+...+.+.|++++|+++|++..+.|   +...+..+...+...|+.   ++|...+....+.    ++..+..|..++.
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~   80 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLA   80 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHH
Confidence            35667788999999999999998876   334444555556667777   8999999888754    4555666777555


Q ss_pred             hcC-----CHHHHHHHHhhcCCC-CeehHHHHHHHHHhCCChh---HHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCch
Q 048179          224 KTG-----HLDLASHVFKNMSRI-NIVTWGALISGFAQNGLAG---STLELLMEMQSCGFEPDSVSLVSALLACAQIGFL  294 (589)
Q Consensus       224 ~~g-----~~~~A~~~~~~~~~~-~~~~~~~li~~~~~~g~~~---~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  294 (589)
                      ..+     ++++|...|++..++ +...+..|...|...+..+   ++.+.+......|   +......+...+...+.+
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~  157 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTY  157 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCG
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCc
Confidence            554     788999999887653 5568888888888776544   4555555555544   234555566666666755


Q ss_pred             hhHHHHHHHHh-hcCCCChhHHHHHHHHhHhcC---CHHHHHHHHHhcCC---CChhHHHHHHHHHHhc----CCHHHHH
Q 048179          295 KLGKSIHGYTV-RRFDFNLVLGTSVIDMYSKCG---VPSCARALFDQMQS---RDLISWNVIIASYGIH----GHGEEAL  363 (589)
Q Consensus       295 ~~a~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~----g~~~~A~  363 (589)
                      +.+........ .....++..+..|..+|.+.|   +.++|.+.|++..+   ++...+..+...|...    +++++|+
T Consensus       158 ~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~  237 (452)
T 3e4b_A          158 DQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQ  237 (452)
T ss_dssp             GGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHH
T ss_pred             ccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHH
Confidence            55544433333 333334448889999999999   89999999988754   3334446677777654    7899999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH-H--hcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcC-----CHHHHHH
Q 048179          364 SLFLQMIETMVKPDHSTFASLLSA-L--SHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAG-----EVEEALK  435 (589)
Q Consensus       364 ~~~~~m~~~~~~p~~~t~~~ll~a-~--~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-----~~~~A~~  435 (589)
                      ..|++.. .|   +...+..+... +  ...+++++|...|++..+. +   +...+..|..+|. .|     ++++|.+
T Consensus       238 ~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~-g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~  308 (452)
T 3e4b_A          238 ALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA-D---QPRAELLLGKLYY-EGKWVPADAKAAEA  308 (452)
T ss_dssp             HHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHH-HCSSSCCCHHHHHH
T ss_pred             HHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHH-cCCCCCCCHHHHHH
Confidence            9999987 33   34455555555 3  5689999999999998864 3   6777888888887 55     9999999


Q ss_pred             HHHhcCCCCChhHHHHHHHHHHh----cCCchHHHHHHHHHhccCCCCchhHHHHHHHHHh----CCChHHHHHHHHHHH
Q 048179          436 IVDSMSTEPGLAVWVALLSGCHN----HKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAM----EQKWEEVAGVRKTMR  507 (589)
Q Consensus       436 ~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~  507 (589)
                      +|++.. ..+...+..|...|..    ..|+++|...++++.+.  .++.+...|+.+|..    ..+.++|...++...
T Consensus       309 ~~~~Aa-~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~--g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~  385 (452)
T 3e4b_A          309 HFEKAV-GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARN--GQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAK  385 (452)
T ss_dssp             HHHTTT-TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTT--TCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHH
T ss_pred             HHHHHh-CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhh--ChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHH
Confidence            999988 6678888888877766    34999999999999874  567889999999986    568999999999999


Q ss_pred             hCCCc
Q 048179          508 KSGMK  512 (589)
Q Consensus       508 ~~g~~  512 (589)
                      +.|..
T Consensus       386 ~~g~~  390 (452)
T 3e4b_A          386 AQDTP  390 (452)
T ss_dssp             TTCCH
T ss_pred             HCCCH
Confidence            87753

>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=99.60  E-value=1.1e-11  Score=129.11  Aligned_cols=218  Identities=7%  Similarity=-0.075  Sum_probs=170.1

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHH-HHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcC
Q 048179          261 STLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGK-SIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQ  339 (589)
Q Consensus       261 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  339 (589)
                      .+..+|++.+.. ++-+...|...+.-+...|+.+.|. .+++.+....|.+..++..++....+.|+++.|+++|+++.
T Consensus       327 Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l  405 (679)
T 4e6h_A          327 RMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCI  405 (679)
T ss_dssp             HHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            355678877765 3446677777777778888988996 99999997778888889999999999999999999999876


Q ss_pred             C-------------CC------------hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc-CCc
Q 048179          340 S-------------RD------------LISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSH-SGL  393 (589)
Q Consensus       340 ~-------------~~------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~-~g~  393 (589)
                      +             |+            ...|...+....+.|..+.|..+|.+.++....+....|......-.+ .++
T Consensus       406 ~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d  485 (679)
T 4e6h_A          406 DRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKD  485 (679)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSC
T ss_pred             HHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCC
Confidence            3             21            236888888888899999999999999876112222333322222223 356


Q ss_pred             HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CC----ChhHHHHHHHHHHhcCCchHHHHH
Q 048179          394 VEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-EP----GLAVWVALLSGCHNHKKFSIGEKV  468 (589)
Q Consensus       394 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p----~~~~~~~l~~~~~~~~~~~~a~~~  468 (589)
                      .+.|..+|+...+.+  +.+...+...++.....|+.+.|..+|++... .|    ....|...+.--..+|+.+.+..+
T Consensus       486 ~e~Ar~ife~~Lk~~--p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v  563 (679)
T 4e6h_A          486 TKTACKVLELGLKYF--ATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTL  563 (679)
T ss_dssp             CHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHH
T ss_pred             HHHHHHHHHHHHHHC--CCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999854  34566778899999999999999999999754 24    345788888888999999999999


Q ss_pred             HHHHhccCCCCch
Q 048179          469 AKKVLKLNPDDLG  481 (589)
Q Consensus       469 ~~~~~~~~p~~~~  481 (589)
                      .+++.+..|+++.
T Consensus       564 ~~R~~~~~P~~~~  576 (679)
T 4e6h_A          564 EKRFFEKFPEVNK  576 (679)
T ss_dssp             HHHHHHHSTTCCH
T ss_pred             HHHHHHhCCCCcH
Confidence            9999999998753

>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=99.59  E-value=1.4e-13  Score=127.25  Aligned_cols=197  Identities=6%  Similarity=-0.042  Sum_probs=156.1

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048179          312 LVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSAL  388 (589)
Q Consensus       312 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~  388 (589)
                      ...+..+...|...|++++|...|+++.+   .+...|..+...+...|++++|++.|+++.+.. +.+...+..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            44556777777788888888888877653   356677888888888888888888888888764 34567777888888


Q ss_pred             hcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CC-ChhHHHHHHHHHHhcCCchHH
Q 048179          389 SHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSMST-EP-GLAVWVALLSGCHNHKKFSIG  465 (589)
Q Consensus       389 ~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~~~~~~a  465 (589)
                      ...|++++|..+++.+.+. +..|+ ...+..+..++...|++++|.+.++++.. .| +..++..+...+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQD-TLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTC-TTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhC-ccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHH
Confidence            8888999998888888751 34453 66777888888889999999988888632 33 567788888888899999999


Q ss_pred             HHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          466 EKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       466 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      ...++++++..|+++..+..++.+|...|++++|.+.++++.+..
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            999999999889888888889999999999999999998887644

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.59  E-value=4.5e-14  Score=129.71  Aligned_cols=170  Identities=12%  Similarity=0.063  Sum_probs=75.0

Q ss_pred             HHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC
Q 048179          316 TSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSG  392 (589)
Q Consensus       316 ~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g  392 (589)
                      ..+...|.+.|++++|...|+++.+   .+...|..+...+...|++++|+..++++.+.. +.+...+..+...+...|
T Consensus        61 ~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~  139 (243)
T 2q7f_A           61 INFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLE  139 (243)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhc
Confidence            3333444444444444444443321   233344444444444455555555554444432 223334444444444455


Q ss_pred             cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHH
Q 048179          393 LVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAK  470 (589)
Q Consensus       393 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~  470 (589)
                      ++++|..+++.+.+.  .+.+...+..+...+.+.|++++|.+.++++..  +.+..+|..+..++...|++++|...++
T Consensus       140 ~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  217 (243)
T 2q7f_A          140 QPKLALPYLQRAVEL--NENDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLD  217 (243)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            555555555444432  112234444444444444555554444444311  1223344444444445555555555555


Q ss_pred             HHhccCCCCchhHHHHHH
Q 048179          471 KVLKLNPDDLGIHALVSN  488 (589)
Q Consensus       471 ~~~~~~p~~~~~~~~l~~  488 (589)
                      ++++++|+++..+..++.
T Consensus       218 ~~~~~~p~~~~~~~~~~~  235 (243)
T 2q7f_A          218 KAIDIQPDHMLALHAKKL  235 (243)
T ss_dssp             HHHHHCTTCHHHHHHHTC
T ss_pred             HHHccCcchHHHHHHHHH
Confidence            555555544444444433

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.59  E-value=4.2e-14  Score=129.90  Aligned_cols=197  Identities=11%  Similarity=0.055  Sum_probs=157.1

Q ss_pred             ChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048179          311 NLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSA  387 (589)
Q Consensus       311 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a  387 (589)
                      ....+..+...+...|++++|...|+++.+   .+...|..+...+...|++++|+..|+++.+.. +.+..++..+...
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  100 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNV  100 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHH
Confidence            455567778888999999999999998754   356788889999999999999999999999874 4467788889999


Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHH
Q 048179          388 LSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIG  465 (589)
Q Consensus       388 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a  465 (589)
                      +...|++++|..+++.+.+.  .+.+...+..+...+.+.|++++|.+.++++..  +.+...+..+...+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999999874  244577889999999999999999999998732  34677889999999999999999


Q ss_pred             HHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          466 EKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       466 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      +..++++++..|+++..+..++.+|...|++++|.+.++++.+..
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          179 LSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            999999999999999999999999999999999999999998743

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.59  E-value=1.7e-13  Score=124.06  Aligned_cols=198  Identities=12%  Similarity=-0.021  Sum_probs=164.2

Q ss_pred             ChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048179          311 NLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSA  387 (589)
Q Consensus       311 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a  387 (589)
                      +..++..+...|...|++++|...|+++.+   .+...|..+...+...|++++|...++++.+.. +.+..++..+...
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            455667788888888999999998887653   456788888888999999999999999988764 4456788888888


Q ss_pred             HhcC-CcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CC-ChhHHHHHHHHHHhcCCch
Q 048179          388 LSHS-GLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSMST-EP-GLAVWVALLSGCHNHKKFS  463 (589)
Q Consensus       388 ~~~~-g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~~~~~  463 (589)
                      +... |++++|..+++.+.+. +..|+ ...+..+..++...|++++|.+.++++.. .| +...+..+...+...|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALAD-PTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHTS-TTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhcCcHHHHHHHHHHHHcC-cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHH
Confidence            9999 9999999999998862 33344 66788888999999999999999988632 34 5778888888999999999


Q ss_pred             HHHHHHHHHhccCC-CCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          464 IGEKVAKKVLKLNP-DDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       464 ~a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      +|...++++++..| +++..+..++.++...|+.++|..+++.+.+..
T Consensus       165 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          165 DADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            99999999999999 899999889999999999999999999887543

>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=99.59  E-value=1.1e-13  Score=135.14  Aligned_cols=246  Identities=7%  Similarity=0.022  Sum_probs=179.9

Q ss_pred             ehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCc-hhhHHHHHHHHhhcCCCChhHHHHHHHHh
Q 048179          244 VTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGF-LKLGKSIHGYTVRRFDFNLVLGTSVIDMY  322 (589)
Q Consensus       244 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  322 (589)
                      ..|+.+...+.+.|++++|+..|++.+... +-+...|..+..++...|+ ++.|...++.+....+.+..+|..+..+|
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~  176 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            345666666667777777777777776642 2234455566666666664 67777666666666666777778888888


Q ss_pred             HhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc-CCcHHHH-
Q 048179          323 SKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSH-SGLVEEG-  397 (589)
Q Consensus       323 ~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~-~g~~~~a-  397 (589)
                      .+.|++++|+..|+++.+   .+...|..+..++...|++++|+..|+++++.. +-+...|..+..++.. .|..++| 
T Consensus       177 ~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~eA~  255 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAV  255 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             HHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchHHH
Confidence            888888888888887764   466788888888888899999999999988864 3356778888888887 5655666 


Q ss_pred             ----HHHHHHHHHhcCCCCChhhHHHHHHHHHHcC--CHHHHHHHHHhcCCCC-ChhHHHHHHHHHHhcC--------C-
Q 048179          398 ----RYWFDLMVSKYKIQPTEKHYACMVDLLARAG--EVEEALKIVDSMSTEP-GLAVWVALLSGCHNHK--------K-  461 (589)
Q Consensus       398 ----~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~~--------~-  461 (589)
                          +..|+.+.+.  -+-+...|..+..++...|  ++++|++.++++...| +...+..++..+...|        + 
T Consensus       256 ~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~~~~~~  333 (382)
T 2h6f_A          256 LEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDI  333 (382)
T ss_dssp             HHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHH
T ss_pred             HHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccccchHHH
Confidence                4778877753  2234677888888888887  6888988888874444 4567778888887764        2 


Q ss_pred             chHHHHHHHHH-hccCCCCchhHHHHHHHHHhC
Q 048179          462 FSIGEKVAKKV-LKLNPDDLGIHALVSNFFAME  493 (589)
Q Consensus       462 ~~~a~~~~~~~-~~~~p~~~~~~~~l~~~~~~~  493 (589)
                      +++|+++++++ ++++|.....|..++..+..+
T Consensus       334 ~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          334 LNKALELCEILAKEKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             HHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence            58899999999 899999888888887776543

>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=99.59  E-value=6.1e-13  Score=124.63  Aligned_cols=224  Identities=10%  Similarity=-0.024  Sum_probs=161.6

Q ss_pred             CeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHH
Q 048179          242 NIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDM  321 (589)
Q Consensus       242 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  321 (589)
                      +..++..+...+...|++++|+..|++..+.+   +...+                                  ..+..+
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~----------------------------------~~lg~~   47 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGC----------------------------------FNLGVL   47 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHH----------------------------------HHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHH----------------------------------HHHHHH
Confidence            44566667777777788888888887777622   22233                                  445555


Q ss_pred             hHh----cCCHHHHHHHHHhcCC-CChhHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc--
Q 048179          322 YSK----CGVPSCARALFDQMQS-RDLISWNVIIASYGI----HGHGEEALSLFLQMIETMVKPDHSTFASLLSALSH--  390 (589)
Q Consensus       322 ~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~--  390 (589)
                      |..    .+++++|...|++..+ .+..++..+...|..    .+++++|+..|++..+.+   +...+..+...+..  
T Consensus        48 ~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~  124 (273)
T 1ouv_A           48 YYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGK  124 (273)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCS
T ss_pred             HHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCC
Confidence            566    6667777777766543 355667777777777    788888888888777764   56667777777777  


Q ss_pred             --CCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH----cCCHHHHHHHHHhcCCCCChhHHHHHHHHHHh----cC
Q 048179          391 --SGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLAR----AGEVEEALKIVDSMSTEPGLAVWVALLSGCHN----HK  460 (589)
Q Consensus       391 --~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~~  460 (589)
                        .+++++|...|++..+. +   +...+..+...|..    .+++++|.+.+++.....+...+..+...+..    .+
T Consensus       125 ~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~  200 (273)
T 1ouv_A          125 VVTRDFKKAVEYFTKACDL-N---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATK  200 (273)
T ss_dssp             SSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCC
T ss_pred             CcccCHHHHHHHHHHHHhc-C---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCc
Confidence              78888888888887764 2   45666777777777    78888888888876444456677777778877    88


Q ss_pred             CchHHHHHHHHHhccCCCCchhHHHHHHHHHh----CCChHHHHHHHHHHHhCCC
Q 048179          461 KFSIGEKVAKKVLKLNPDDLGIHALVSNFFAM----EQKWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       461 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~g~  511 (589)
                      ++++|+..++++++.+|  +..+..++.+|..    .|++++|.+.+++..+.|.
T Consensus       201 ~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          201 NFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             cHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCC
Confidence            88888888888888765  6677888888888    8888888888888877654

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.57  E-value=2.3e-13  Score=119.08  Aligned_cols=166  Identities=10%  Similarity=0.023  Sum_probs=140.5

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHH
Q 048179          342 DLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMV  421 (589)
Q Consensus       342 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  421 (589)
                      +...|..+...|...|++++|++.|++.++.. +-+..++..+..++.+.|++++|...++.+...  .+.+...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHHH
Confidence            45678888888888999999999999888764 335668888888899999999999999988763  234466777888


Q ss_pred             HHHHHcCCHHHHHHHHHhcCC-C-CChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHH
Q 048179          422 DLLARAGEVEEALKIVDSMST-E-PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEV  499 (589)
Q Consensus       422 ~~~~~~g~~~~A~~~~~~~~~-~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  499 (589)
                      ..+...++++.|.+.+++... . .+..++..+...+...|++++|++.++++++++|+++.+|..++.+|.+.|++++|
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            889999999999999888632 3 35778888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCC
Q 048179          500 AGVRKTMRKSG  510 (589)
Q Consensus       500 ~~~~~~m~~~g  510 (589)
                      .+.++++.+..
T Consensus       161 ~~~~~~al~~~  171 (184)
T 3vtx_A          161 VKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHhCC
Confidence            99999988754

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.56  E-value=6.4e-13  Score=122.78  Aligned_cols=206  Identities=14%  Similarity=0.075  Sum_probs=155.0

Q ss_pred             eehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHh
Q 048179          243 IVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMY  322 (589)
Q Consensus       243 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  322 (589)
                      ...|..+...+...|++++|+..|+++.+..  |                                 .+..++..+...|
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--~---------------------------------~~~~~~~~la~~~   81 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID--P---------------------------------SSADAHAALAVVF   81 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC--T---------------------------------TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--C---------------------------------ChHHHHHHHHHHH
Confidence            4556667777777777777777777776542  2                                 2333445666667


Q ss_pred             HhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHH
Q 048179          323 SKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPD-HSTFASLLSALSHSGLVEEGR  398 (589)
Q Consensus       323 ~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~t~~~ll~a~~~~g~~~~a~  398 (589)
                      ...|++++|.+.|+++.+   .+...|..+...+...|++++|++.|+++.+.+..|+ ...+..+..++...|++++|.
T Consensus        82 ~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  161 (252)
T 2ho1_A           82 QTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAK  161 (252)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHH
Confidence            777777777777776542   3556777788888888888888888888877333453 457777888888999999999


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CC-CChhHHHHHHHHHHhcCCchHHHHHHHHHhccC
Q 048179          399 YWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TE-PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLN  476 (589)
Q Consensus       399 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  476 (589)
                      .+|+.+.+.  .+.+...+..++..+.+.|++++|.+.++++. .. .+...+..+...+...|++++|.+.++++++..
T Consensus       162 ~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          162 EYFEKSLRL--NRNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            999988864  23447788889999999999999999998873 23 456678888888999999999999999999999


Q ss_pred             CCCchhHHH
Q 048179          477 PDDLGIHAL  485 (589)
Q Consensus       477 p~~~~~~~~  485 (589)
                      |+++.....
T Consensus       240 p~~~~~~~~  248 (252)
T 2ho1_A          240 PGSLEYQEF  248 (252)
T ss_dssp             TTSHHHHHH
T ss_pred             CCCHHHHHH
Confidence            988766543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.56  E-value=3.5e-13  Score=126.12  Aligned_cols=228  Identities=7%  Similarity=0.013  Sum_probs=176.0

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHh
Q 048179          245 TWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSK  324 (589)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  324 (589)
                      .+......+...|++++|+..|++..+.  .|                                 .+...+..+...|..
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p---------------------------------~~~~~~~~l~~~~~~   49 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAK--KY---------------------------------NSPYIYNRRAVCYYE   49 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHT--TC---------------------------------CCSTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHh--CC---------------------------------CcHHHHHHHHHHHHH
Confidence            3444555666666666666666666654  22                                 234445667778888


Q ss_pred             cCCHHHHHHHHHhcCC--CC----hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHH
Q 048179          325 CGVPSCARALFDQMQS--RD----LISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGR  398 (589)
Q Consensus       325 ~g~~~~A~~~~~~~~~--~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~  398 (589)
                      .|++++|...|+++.+  ++    ..+|..+...+...|++++|+..|++..+.. +.+..++..+...+...|++++|.
T Consensus        50 ~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  128 (272)
T 3u4t_A           50 LAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAI  128 (272)
T ss_dssp             TTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHH
Confidence            8888888888887654  22    2358889999999999999999999999864 345678999999999999999999


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCC---chHHHHHHHHHh
Q 048179          399 YWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKK---FSIGEKVAKKVL  473 (589)
Q Consensus       399 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~  473 (589)
                      ..|+++.+.  .+.+...+..+...+...+++++|.+.++++. ..| +...+..+..++...|+   +++|...+++++
T Consensus       129 ~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~  206 (272)
T 3u4t_A          129 QYMEKQIRP--TTTDPKVFYELGQAYYYNKEYVKADSSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLI  206 (272)
T ss_dssp             HHHGGGCCS--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHH
T ss_pred             HHHHHHhhc--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHH
Confidence            999998852  23346777778744555669999999999873 234 46778888888888888   999999999999


Q ss_pred             ccC---CCC-----chhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          474 KLN---PDD-----LGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       474 ~~~---p~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      ++.   |+.     ..+|..++.+|...|++++|.+.++++.+..
T Consensus       207 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  251 (272)
T 3u4t_A          207 EVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALD  251 (272)
T ss_dssp             HHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            875   442     2588889999999999999999999998744

>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=99.56  E-value=4.7e-13  Score=130.64  Aligned_cols=226  Identities=6%  Similarity=-0.010  Sum_probs=195.2

Q ss_pred             HHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCC-HHHHHHHHHhcCC---CChhHHHHHHHHHH
Q 048179          279 VSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGV-PSCARALFDQMQS---RDLISWNVIIASYG  354 (589)
Q Consensus       279 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~---~~~~~~~~li~~~~  354 (589)
                      ..+..+...+...|+.+.|...++.++...+.+..+|+.+..++...|+ +++|+..|+++..   .+...|..+..++.
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~  177 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVE  177 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            4566677778889999999999999998888899999999999999997 9999999999874   46789999999999


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH-cCCHHHH
Q 048179          355 IHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLAR-AGEVEEA  433 (589)
Q Consensus       355 ~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~g~~~~A  433 (589)
                      ..|++++|+..|+++++.. +-+...|..+..++...|++++|+..|+++.+.  -+.+...|..+..++.+ .|..++|
T Consensus       178 ~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~~eA  254 (382)
T 2h6f_A          178 WLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDRA  254 (382)
T ss_dssp             HHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcchHH
Confidence            9999999999999999874 446778999999999999999999999999974  23457889999999999 6665777


Q ss_pred             -----HHHHHhc-CCCC-ChhHHHHHHHHHHhcC--CchHHHHHHHHHhccCCCCchhHHHHHHHHHhCC---------C
Q 048179          434 -----LKIVDSM-STEP-GLAVWVALLSGCHNHK--KFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQ---------K  495 (589)
Q Consensus       434 -----~~~~~~~-~~~p-~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g---------~  495 (589)
                           ++.+++. ...| +...|..+...+...|  ++++|.+.++++ +.+|+++.++..++.+|.+.|         .
T Consensus       255 ~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~~~~  333 (382)
T 2h6f_A          255 VLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNKEDI  333 (382)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccchHHH
Confidence                 4777765 3345 5678999999998888  799999999998 999999999999999999975         3


Q ss_pred             hHHHHHHHHHH-Hh
Q 048179          496 WEEVAGVRKTM-RK  508 (589)
Q Consensus       496 ~~~a~~~~~~m-~~  508 (589)
                      .++|.++++++ .+
T Consensus       334 ~~~A~~~~~~l~~~  347 (382)
T 2h6f_A          334 LNKALELCEILAKE  347 (382)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHH
Confidence            58999999998 54

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.55  E-value=2.1e-12  Score=120.98  Aligned_cols=226  Identities=12%  Similarity=-0.023  Sum_probs=181.9

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHhhcCCC-CeehHHHHHHHHHh----CCChhHHHHHHHHHHhcCCCCCHHHHHHHH
Q 048179          211 DVKVQTSLVDMYAKTGHLDLASHVFKNMSRI-NIVTWGALISGFAQ----NGLAGSTLELLMEMQSCGFEPDSVSLVSAL  285 (589)
Q Consensus       211 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll  285 (589)
                      ++..+..+...|...|++++|...|++..++ +..++..+...|..    .+++++|+..|++..+.+   +...+    
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~----   77 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGC----   77 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH----
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHH----
Confidence            6678888999999999999999999987764 55678888899999    999999999999988764   33344    


Q ss_pred             HHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHh----cCCHHHHHHHHHhcCC-CChhHHHHHHHHHHh----c
Q 048179          286 LACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSK----CGVPSCARALFDQMQS-RDLISWNVIIASYGI----H  356 (589)
Q Consensus       286 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~  356 (589)
                                                    ..+..+|..    .+++++|...|++..+ .+..++..+...|..    .
T Consensus        78 ------------------------------~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~  127 (273)
T 1ouv_A           78 ------------------------------HLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVT  127 (273)
T ss_dssp             ------------------------------HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSC
T ss_pred             ------------------------------HHHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCcc
Confidence                                          344555555    6777777777766543 356677778888888    8


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----CCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH----cC
Q 048179          357 GHGEEALSLFLQMIETMVKPDHSTFASLLSALSH----SGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLAR----AG  428 (589)
Q Consensus       357 g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~----~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g  428 (589)
                      +++++|+..|++..+.+   +...+..+...+..    .+++++|...|+...+.    .+...+..+..+|..    .+
T Consensus       128 ~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~~~  200 (273)
T 1ouv_A          128 RDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGATK  200 (273)
T ss_dssp             CCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSCC
T ss_pred             cCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCc
Confidence            89999999999988865   45566677777777    89999999999998864    256778888999999    99


Q ss_pred             CHHHHHHHHHhcCCCCChhHHHHHHHHHHh----cCCchHHHHHHHHHhccCCCCc
Q 048179          429 EVEEALKIVDSMSTEPGLAVWVALLSGCHN----HKKFSIGEKVAKKVLKLNPDDL  480 (589)
Q Consensus       429 ~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~  480 (589)
                      ++++|.+.+++.....+...+..+...+..    .+++++|.+.++++++++|+++
T Consensus       201 ~~~~A~~~~~~a~~~~~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a  256 (273)
T 1ouv_A          201 NFKEALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKGA  256 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHHH
T ss_pred             cHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCCHHH
Confidence            999999999987544447788888888988    9999999999999999998654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.54  E-value=9.8e-14  Score=138.56  Aligned_cols=264  Identities=8%  Similarity=-0.042  Sum_probs=172.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcCC--CC-e----ehHHHHHHHHHhCCChhHHHHHHHHHHhcCC-CCCHHHHHHHHH
Q 048179          215 QTSLVDMYAKTGHLDLASHVFKNMSR--IN-I----VTWGALISGFAQNGLAGSTLELLMEMQSCGF-EPDSVSLVSALL  286 (589)
Q Consensus       215 ~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~~~~~~~ll~  286 (589)
                      +..+...+...|++++|...|+++.+  ++ .    ..|..+...|...|++++|+..|++..+... ..+         
T Consensus        51 l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~---------  121 (411)
T 4a1s_A           51 LALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMND---------  121 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTC---------
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccC---------
Confidence            33445555556666666666655443  11 1    2455555555556666666665555443200 000         


Q ss_pred             HHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC-----C----ChhHHHHHHHHHHhcC
Q 048179          287 ACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS-----R----DLISWNVIIASYGIHG  357 (589)
Q Consensus       287 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~----~~~~~~~li~~~~~~g  357 (589)
                                           .+....++..+...|...|++++|...|++..+     .    ...++..+...|...|
T Consensus       122 ---------------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g  180 (411)
T 4a1s_A          122 ---------------------RLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKG  180 (411)
T ss_dssp             ---------------------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHH
T ss_pred             ---------------------chHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcC
Confidence                                 111233445566666666777766666665442     1    2245666777777777


Q ss_pred             C-----------------HHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC--
Q 048179          358 H-----------------GEEALSLFLQMIET----MVKPD-HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT--  413 (589)
Q Consensus       358 ~-----------------~~~A~~~~~~m~~~----~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~--  413 (589)
                      +                 +++|++.+++..+.    +..|. ..++..+...+...|++++|..+++++.+...-.++  
T Consensus       181 ~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  260 (411)
T 4a1s_A          181 KHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRA  260 (411)
T ss_dssp             HHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             cccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcH
Confidence            7                 78888777776542    21122 246777788888899999999999887754221122  


Q ss_pred             --hhhHHHHHHHHHHcCCHHHHHHHHHhcCC----CC----ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCC----
Q 048179          414 --EKHYACMVDLLARAGEVEEALKIVDSMST----EP----GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD----  479 (589)
Q Consensus       414 --~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~----  479 (589)
                        ...+..+..+|...|++++|.+.+++...    ..    ...++..+...+...|++++|...+++++++.++.    
T Consensus       261 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  340 (411)
T 4a1s_A          261 AERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRI  340 (411)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChH
Confidence              23677888899999999999998887621    11    24577888888999999999999999999775432    


Q ss_pred             --chhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          480 --LGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       480 --~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                        ...+..++.+|...|++++|.+.+++..+
T Consensus       341 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          341 GEARACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence              45888999999999999999999998875

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.54  E-value=3.5e-13  Score=121.30  Aligned_cols=112  Identities=16%  Similarity=0.084  Sum_probs=52.3

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHH
Q 048179          357 GHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKI  436 (589)
Q Consensus       357 g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  436 (589)
                      |++++|+..|++..+.. +-+...+..+..++...|++++|+..|+++.+. .  .+...+..+..+|...|++++|+..
T Consensus        98 g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~--~~~~~~~~la~~~~~~g~~~~A~~~  173 (217)
T 2pl2_A           98 GYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALAL-E--DTPEIRSALAELYLSMGRLDEALAQ  173 (217)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C--CCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhc-c--cchHHHHHHHHHHHHcCCHHHHHHH
Confidence            55555555555555542 123445555555555556666666666655554 2  4455555555566666666666665


Q ss_pred             HHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHH
Q 048179          437 VDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKV  472 (589)
Q Consensus       437 ~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~  472 (589)
                      |++.. ..| +...+..+...+...|++++|+..+++.
T Consensus       174 ~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          174 YAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHSTTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            55542 122 3445555555566666666666555544

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.54  E-value=4e-13  Score=133.68  Aligned_cols=268  Identities=10%  Similarity=-0.015  Sum_probs=164.9

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-C----eehHHHHHHHHHhCCChhHHHHHHHHHHhcCCC-CCHHHHH
Q 048179          211 DVKVQTSLVDMYAKTGHLDLASHVFKNMSR--I-N----IVTWGALISGFAQNGLAGSTLELLMEMQSCGFE-PDSVSLV  282 (589)
Q Consensus       211 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~  282 (589)
                      ....+..+...+...|++++|...|++..+  + +    ..+|..+...+...|++++|+..+++....... .+.    
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~----   83 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQ----   83 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH----
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcccc----
Confidence            334455555666666666666666665543  2 1    134555556666666666666666655432100 000    


Q ss_pred             HHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC-----CC----hhHHHHHHHHH
Q 048179          283 SALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS-----RD----LISWNVIIASY  353 (589)
Q Consensus       283 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~  353 (589)
                                                +....++..+...|...|++++|...|++..+     ++    ..++..+...|
T Consensus        84 --------------------------~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~  137 (406)
T 3sf4_A           84 --------------------------LGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVY  137 (406)
T ss_dssp             --------------------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             --------------------------HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHH
Confidence                                      01123344555566666666666666655432     11    23566666667


Q ss_pred             HhcCC--------------------HHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc
Q 048179          354 GIHGH--------------------GEEALSLFLQMIET----MVKPD-HSTFASLLSALSHSGLVEEGRYWFDLMVSKY  408 (589)
Q Consensus       354 ~~~g~--------------------~~~A~~~~~~m~~~----~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  408 (589)
                      ...|+                    +++|+..+++..+.    +..|. ..++..+...+...|++++|...++++.+..
T Consensus       138 ~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  217 (406)
T 3sf4_A          138 HAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIA  217 (406)
T ss_dssp             HHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHH
T ss_pred             HHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence            77777                    77777777665432    11111 2356677777778888888888888776532


Q ss_pred             CCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHhcCC----CCC----hhHHHHHHHHHHhcCCchHHHHHHHHHhccC
Q 048179          409 KIQPT----EKHYACMVDLLARAGEVEEALKIVDSMST----EPG----LAVWVALLSGCHNHKKFSIGEKVAKKVLKLN  476 (589)
Q Consensus       409 ~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  476 (589)
                      .-.++    ...+..+..+|...|++++|...+++...    .++    ..++..+...+...|++++|...+++++++.
T Consensus       218 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  297 (406)
T 3sf4_A          218 KEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIA  297 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHH
Confidence            22222    23677778888888888888888877521    112    4466777778888888888888888888764


Q ss_pred             CCC------chhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          477 PDD------LGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       477 p~~------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      +..      ..++..++.+|...|++++|.+.+++..+
T Consensus       298 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          298 QELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            432      55777888888888888888888887764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.53  E-value=1.4e-13  Score=137.13  Aligned_cols=292  Identities=11%  Similarity=-0.012  Sum_probs=183.1

Q ss_pred             HHHHHHHHHccCCcHHHHHHHHHHHHhcCCCc---hHHHHHHHHHHHhcCCHHHHHHHHhhcCC-----C----CeehHH
Q 048179          180 MMGLIQACADLGDSRFGLSVHGYSIRRHLNLD---VKVQTSLVDMYAKTGHLDLASHVFKNMSR-----I----NIVTWG  247 (589)
Q Consensus       180 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~----~~~~~~  247 (589)
                      +......+...|+++.|...++.+++......   ..++..+...|...|++++|...|++...     .    ...++.
T Consensus        12 l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   91 (406)
T 3sf4_A           12 LALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASG   91 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHH
Confidence            33444445555555555555555555432111   23555666666667777777666665432     1    134566


Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHhcCC-CCC----HHHHHHHHHHHhccCc-------------hhhHHHHHHHHhhcCC
Q 048179          248 ALISGFAQNGLAGSTLELLMEMQSCGF-EPD----SVSLVSALLACAQIGF-------------LKLGKSIHGYTVRRFD  309 (589)
Q Consensus       248 ~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~~~-------------~~~a~~~~~~~~~~~~  309 (589)
                      .+...|...|++++|+..+.+..+... .++    ..++..+...+...|+             .+.+...         
T Consensus        92 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~---------  162 (406)
T 3sf4_A           92 NLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDA---------  162 (406)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHH---------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHH---------
Confidence            777788888888888888877765310 011    1233333333444444             0000000         


Q ss_pred             CChhHHHHHHHHhHhcCCHHHHHHHHHhcCC-----C----ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCC--
Q 048179          310 FNLVLGTSVIDMYSKCGVPSCARALFDQMQS-----R----DLISWNVIIASYGIHGHGEEALSLFLQMIETMV-KPD--  377 (589)
Q Consensus       310 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~--  377 (589)
                                        +++|...|++..+     .    ...++..+...+...|++++|+..+++..+... .++  
T Consensus       163 ------------------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  224 (406)
T 3sf4_A          163 ------------------LQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKA  224 (406)
T ss_dssp             ------------------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ------------------HHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcH
Confidence                              4444444443321     1    124567777888888888888888888765311 112  


Q ss_pred             --HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHhcCC----CCC--
Q 048179          378 --HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT----EKHYACMVDLLARAGEVEEALKIVDSMST----EPG--  445 (589)
Q Consensus       378 --~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p~--  445 (589)
                        ..++..+...+...|++++|..+++.......-.++    ...+..+...|...|++++|.+.+++...    .++  
T Consensus       225 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~  304 (406)
T 3sf4_A          225 AERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRI  304 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcH
Confidence              236777888888999999999999887653211122    45677888999999999999999887621    122  


Q ss_pred             --hhHHHHHHHHHHhcCCchHHHHHHHHHhccC------CCCchhHHHHHHHHHhCCChHH
Q 048179          446 --LAVWVALLSGCHNHKKFSIGEKVAKKVLKLN------PDDLGIHALVSNFFAMEQKWEE  498 (589)
Q Consensus       446 --~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~~~~~g~~~~  498 (589)
                        ..++..+...+...|++++|...+++++++.      |....++..++.+|...|+...
T Consensus       305 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  365 (406)
T 3sf4_A          305 GEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSYS  365 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhHH
Confidence              4577888889999999999999999998763      3345678889999988887643

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.53  E-value=1.5e-12  Score=117.82  Aligned_cols=206  Identities=9%  Similarity=-0.052  Sum_probs=154.6

Q ss_pred             ehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhH
Q 048179          244 VTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYS  323 (589)
Q Consensus       244 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  323 (589)
                      ..|..+...+...|++++|+..|+++.+.                                   .+.+..++..+...|.
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-----------------------------------~~~~~~~~~~l~~~~~   53 (225)
T 2vq2_A            9 NIKTQLAMEYMRGQDYRQATASIEDALKS-----------------------------------DPKNELAWLVRAEIYQ   53 (225)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----------------------------------CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHh-----------------------------------CccchHHHHHHHHHHH
Confidence            44555666666666666666666666554                                   2233444566667777


Q ss_pred             hcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHH
Q 048179          324 KCGVPSCARALFDQMQS---RDLISWNVIIASYGIH-GHGEEALSLFLQMIETMVKPD-HSTFASLLSALSHSGLVEEGR  398 (589)
Q Consensus       324 ~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~~~~p~-~~t~~~ll~a~~~~g~~~~a~  398 (589)
                      ..|++++|...|+++.+   .+..+|..+...+... |++++|+..++++.+.+..|+ ...+..+..++...|++++|.
T Consensus        54 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  133 (225)
T 2vq2_A           54 YLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAE  133 (225)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHH
Confidence            77777777777776643   3566788888888888 999999999999887333344 467788888899999999999


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--C-CChhHHHHHHHHHHhcCCchHHHHHHHHHhcc
Q 048179          399 YWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST--E-PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKL  475 (589)
Q Consensus       399 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  475 (589)
                      ..|+.+.+.  .+.+...+..++.++.+.|++++|.+.++++..  + .+...+..+...+...|+.+.|...++.+.+.
T Consensus       134 ~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          134 AYLKRSLAA--QPQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHH--STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHh--CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            999998864  233477888899999999999999999988632  2 35666777777788999999999999999999


Q ss_pred             CCCCchhHHHH
Q 048179          476 NPDDLGIHALV  486 (589)
Q Consensus       476 ~p~~~~~~~~l  486 (589)
                      .|+++.....+
T Consensus       212 ~p~~~~~~~~l  222 (225)
T 2vq2_A          212 FPYSEELQTVL  222 (225)
T ss_dssp             CTTCHHHHHHH
T ss_pred             CCCCHHHHHHh
Confidence            99988776554

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.53  E-value=3.8e-13  Score=129.87  Aligned_cols=197  Identities=10%  Similarity=-0.008  Sum_probs=144.7

Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHHhcCC-----CC----hhHHHHHHHHHHhcCC--------------------HHHHH
Q 048179          313 VLGTSVIDMYSKCGVPSCARALFDQMQS-----RD----LISWNVIIASYGIHGH--------------------GEEAL  363 (589)
Q Consensus       313 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~--------------------~~~A~  363 (589)
                      .++..+...|...|++++|...|++..+     ++    ..++..+...+...|+                    +++|.
T Consensus        84 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~  163 (338)
T 3ro2_A           84 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAV  163 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHH
Confidence            3455666677777777777777766542     12    2366677777777788                    88888


Q ss_pred             HHHHHHHHc----CCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHH
Q 048179          364 SLFLQMIET----MVKPD-HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT----EKHYACMVDLLARAGEVEEAL  434 (589)
Q Consensus       364 ~~~~~m~~~----~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~  434 (589)
                      ..+++....    +..|. ..++..+...+...|++++|...++.+.+...-.++    ...+..+...+...|++++|.
T Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  243 (338)
T 3ro2_A          164 DLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETAS  243 (338)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            887776542    21221 346777788888899999999999887654221122    336788889999999999999


Q ss_pred             HHHHhcCC----CCC----hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCC------chhHHHHHHHHHhCCChHHHH
Q 048179          435 KIVDSMST----EPG----LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD------LGIHALVSNFFAMEQKWEEVA  500 (589)
Q Consensus       435 ~~~~~~~~----~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~  500 (589)
                      +.+++...    .++    ..++..+...+...|++++|...+++++++.|..      ..++..++.+|...|++++|.
T Consensus       244 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  323 (338)
T 3ro2_A          244 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAM  323 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHH
Confidence            99987621    122    4567788888999999999999999999875432      457889999999999999999


Q ss_pred             HHHHHHHhC
Q 048179          501 GVRKTMRKS  509 (589)
Q Consensus       501 ~~~~~m~~~  509 (589)
                      +.++++.+.
T Consensus       324 ~~~~~a~~~  332 (338)
T 3ro2_A          324 HFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHHH
Confidence            999998763

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.51  E-value=1.8e-13  Score=138.72  Aligned_cols=204  Identities=8%  Similarity=-0.010  Sum_probs=169.8

Q ss_pred             HHHHHHHhhcCCCChhHHHHHHHHhHhcCCH-HHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 048179          298 KSIHGYTVRRFDFNLVLGTSVIDMYSKCGVP-SCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETM  373 (589)
Q Consensus       298 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  373 (589)
                      ...+.......+.+...+..+...|...|++ ++|.+.|++..+   .+...|..+...|...|++++|+..|++..+. 
T Consensus        88 l~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~-  166 (474)
T 4abn_A           88 LQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH-  166 (474)
T ss_dssp             HHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-
Confidence            3333333333445666777777888888888 888888887653   35678889999999999999999999998875 


Q ss_pred             CCCCHHHHHHHHHHHhcC---------CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHc--------CCHHHHHHH
Q 048179          374 VKPDHSTFASLLSALSHS---------GLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARA--------GEVEEALKI  436 (589)
Q Consensus       374 ~~p~~~t~~~ll~a~~~~---------g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~--------g~~~~A~~~  436 (589)
                       .|+...+..+..++...         |++++|...|+++.+.  .+.+...|..+..+|...        |++++|++.
T Consensus       167 -~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~  243 (474)
T 4abn_A          167 -CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSA  243 (474)
T ss_dssp             -CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHH
Confidence             57778888889999999         9999999999999874  234478889999999998        999999999


Q ss_pred             HHhcCC-CC----ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHH
Q 048179          437 VDSMST-EP----GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKT  505 (589)
Q Consensus       437 ~~~~~~-~p----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  505 (589)
                      |++... .|    +...|..+..++...|++++|++.++++++++|+++.++..++.++...|++++|.+.+.+
T Consensus       244 ~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          244 YAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            998743 45    6788999999999999999999999999999999999999999999999999999975543

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.51  E-value=3.9e-13  Score=125.98  Aligned_cols=218  Identities=10%  Similarity=-0.055  Sum_probs=179.3

Q ss_pred             hccCchhhHHHHHHHHhhcC----CCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHH
Q 048179          289 AQIGFLKLGKSIHGYTVRRF----DFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEE  361 (589)
Q Consensus       289 ~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~  361 (589)
                      ...|+++.|...++.+....    +.+..++..+...|...|++++|...|+++.+   .+..+|..+...+...|++++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHH
Confidence            44578899999999988332    23577889999999999999999999998764   467899999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC
Q 048179          362 ALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS  441 (589)
Q Consensus       362 A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  441 (589)
                      |+..|+++.+.. +.+..++..+..++...|++++|..+|+.+.+.   .|+..........+...|++++|...+++..
T Consensus        96 A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  171 (275)
T 1xnf_A           96 AYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  171 (275)
T ss_dssp             HHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            999999999864 345778899999999999999999999999864   3554445555566678899999999997752


Q ss_pred             -CCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCC----CchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          442 -TEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPD----DLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       442 -~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                       ..|+......++..+...++.++|...++++++..|.    ++..+..++.+|...|++++|.+.++++.+..
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          172 EKSDKEQWGWNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             HHSCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             hcCCcchHHHHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence             2333333344777788889999999999999987764    37889999999999999999999999998744

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.47  E-value=1.8e-10  Score=120.06  Aligned_cols=435  Identities=12%  Similarity=0.022  Sum_probs=282.4

Q ss_pred             CchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCC---hHHHHH
Q 048179           56 SPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGK---MNEAMV  132 (589)
Q Consensus        56 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~---~~~A~~  132 (589)
                      ...+.+..|+..+..+ +-|..+|..++..+.+.+.++.++.+|+.++.. ++.....|...+..-.+.|.   .+.+..
T Consensus        47 ~~~d~i~~lE~~l~~n-p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~  124 (679)
T 4e6h_A           47 DESDVIGKLNDMIEEQ-PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEP  124 (679)
T ss_dssp             CCSCHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHH
T ss_pred             CCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHH
Confidence            4566676777777665 458889999999988888999999999999887 56677788888888888888   999999


Q ss_pred             HHHhcCC-----CCcchHHHHHHHHHhCCCc--------cHHHHHHHHHHH-CCC-CCCh-hhHHHHHHHHHc-------
Q 048179          133 AFEKMQR-----KDLVCWSSMINGLVFNGQP--------REAVDAYKRMKK-EGI-DADE-VVMMGLIQACAD-------  189 (589)
Q Consensus       133 ~~~~~~~-----~~~~~~~~li~~~~~~g~~--------~~A~~~~~~m~~-~~~-~p~~-~t~~~ll~~~~~-------  189 (589)
                      +|++...     +++..|...+....+.++.        +.+.++|+.... .|. .|+. ..|...+.....       
T Consensus       125 lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~  204 (679)
T 4e6h_A          125 VLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKF  204 (679)
T ss_dssp             HHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHH
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcH
Confidence            9988764     5677787777765555543        223466666543 355 4543 444444443322       


Q ss_pred             --cCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHH
Q 048179          190 --LGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLM  267 (589)
Q Consensus       190 --~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  267 (589)
                        .++++.+..+|..++......-..+|......-...+. ..+.+++.+                 ....++.|...+.
T Consensus       205 eeq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~-~~a~~~~~e-----------------~~~~y~~Ar~~~~  266 (679)
T 4e6h_A          205 EEQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQ-LTARRHIGE-----------------LSAQYMNARSLYQ  266 (679)
T ss_dssp             HHHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCT-TTHHHHHHH-----------------HHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCc-chHHHHHHH-----------------hhHHHHHHHHHHH
Confidence              22345566666666542211122333222111110000 001111110                 0112333444443


Q ss_pred             HHHhc--CC----C-----------C-----CH---HHHHHHHHHHhccC-------chhhHHHHHHHHhhcCCCChhHH
Q 048179          268 EMQSC--GF----E-----------P-----DS---VSLVSALLACAQIG-------FLKLGKSIHGYTVRRFDFNLVLG  315 (589)
Q Consensus       268 ~m~~~--g~----~-----------p-----~~---~~~~~ll~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~  315 (589)
                      ++...  ++    +           |     +.   ..|...+.---..+       .......+++.++..++....+|
T Consensus       267 e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~p~~~~lW  346 (679)
T 4e6h_A          267 DWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHVCFAPEIW  346 (679)
T ss_dssp             HHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHcCCCHHHH
Confidence            32210  11    0           1     00   12222222211111       12334567888887788899999


Q ss_pred             HHHHHHhHhcCCHHHHH-HHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC---------CCC-----
Q 048179          316 TSVIDMYSKCGVPSCAR-ALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMV---------KPD-----  377 (589)
Q Consensus       316 ~~l~~~~~~~g~~~~A~-~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~---------~p~-----  377 (589)
                      ...+..+...|+.++|. .+|++...   .+...|-..+...-..|++++|.++|+++++...         .|+     
T Consensus       347 ~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~  426 (679)
T 4e6h_A          347 FNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAI  426 (679)
T ss_dssp             HHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHH
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhh
Confidence            99999999999999996 99988754   3556688888888899999999999999886410         132     


Q ss_pred             -------HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcC-CHHHHHHHHHhcCC--CCChh
Q 048179          378 -------HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAG-EVEEALKIVDSMST--EPGLA  447 (589)
Q Consensus       378 -------~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~--~p~~~  447 (589)
                             ...|...+....+.|..+.|..+|..+.+.. -.+....|...+.+-.+.| +.+.|.++|+....  ..+..
T Consensus       427 ~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~-~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~  505 (679)
T 4e6h_A          427 NQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLK-KLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGE  505 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTG-GGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHH
T ss_pred             hhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-CCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchH
Confidence                   2357777777778899999999999998641 1223445554444555554 58999999998733  23566


Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHhccCCC---CchhHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048179          448 VWVALLSGCHNHKKFSIGEKVAKKVLKLNPD---DLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       448 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  511 (589)
                      .|...+.-....|+.+.|..+|+++++..|+   ....|..+...-.+.|+.+.+.++.+++.+.-+
T Consensus       506 ~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P  572 (679)
T 4e6h_A          506 YINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFP  572 (679)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            7778888888899999999999999998873   557788888888899999999999999986544

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.46  E-value=2.4e-12  Score=112.54  Aligned_cols=168  Identities=11%  Similarity=0.010  Sum_probs=145.1

Q ss_pred             CChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048179          310 FNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLS  386 (589)
Q Consensus       310 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~  386 (589)
                      .+..+|..+...|.+.|++++|.+.|++..+   .+..+|..+...|...|++++|+..+.+..... +.+...+..+..
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            3567889999999999999999999998764   467789999999999999999999999998864 345667777888


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchH
Q 048179          387 ALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSI  464 (589)
Q Consensus       387 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~  464 (589)
                      .+...++++.+...+..+...  .+.+...+..+..+|.+.|++++|++.|++.. ..| +..+|..+..++...|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHH
Confidence            899999999999999998864  34457788999999999999999999999873 244 67789999999999999999


Q ss_pred             HHHHHHHHhccCCCCc
Q 048179          465 GEKVAKKVLKLNPDDL  480 (589)
Q Consensus       465 a~~~~~~~~~~~p~~~  480 (589)
                      |++.++++++++|+++
T Consensus       160 A~~~~~~al~~~p~~a  175 (184)
T 3vtx_A          160 AVKYFKKALEKEEKKA  175 (184)
T ss_dssp             HHHHHHHHHHTTHHHH
T ss_pred             HHHHHHHHHhCCccCH
Confidence            9999999999999764

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.45  E-value=1.9e-11  Score=116.52  Aligned_cols=217  Identities=12%  Similarity=0.057  Sum_probs=127.8

Q ss_pred             hHHHHHHHHHHhcCCCCCHHHHHHHHHHHh-------ccCch-------hhHHHHHHHHhh-cCCCChhHHHHHHHHhHh
Q 048179          260 GSTLELLMEMQSCGFEPDSVSLVSALLACA-------QIGFL-------KLGKSIHGYTVR-RFDFNLVLGTSVIDMYSK  324 (589)
Q Consensus       260 ~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~-------~~~~~-------~~a~~~~~~~~~-~~~~~~~~~~~l~~~~~~  324 (589)
                      ++|+..|++..... +.+...|......+.       ..|+.       +.|..+++.+.. -.+.+..++..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            45556666665531 223334444444332       23443       556666666664 234455566667777777


Q ss_pred             cCCHHHHHHHHHhcCC--C-Chh-HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh-cCCcHHHHHH
Q 048179          325 CGVPSCARALFDQMQS--R-DLI-SWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALS-HSGLVEEGRY  399 (589)
Q Consensus       325 ~g~~~~A~~~~~~~~~--~-~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~-~~g~~~~a~~  399 (589)
                      .|++++|..+|+++.+  | +.. .|..++..+.+.|++++|..+|++..+.. +++...|........ ..|++++|..
T Consensus       112 ~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~  190 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHH
Confidence            7777777777776654  2 233 67777777777777777777777776643 223333433322221 2577777777


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC----CC--ChhHHHHHHHHHHhcCCchHHHHHHHHHh
Q 048179          400 WFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST----EP--GLAVWVALLSGCHNHKKFSIGEKVAKKVL  473 (589)
Q Consensus       400 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  473 (589)
                      +|+.+.+.+  +.+...|..++..+.+.|++++|..+|++...    .|  ....|..++......|+.+.|..++++++
T Consensus       191 ~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          191 IFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            777766532  23456666777777777777777777776522    33  24466666666667777777777777777


Q ss_pred             ccCCCCc
Q 048179          474 KLNPDDL  480 (589)
Q Consensus       474 ~~~p~~~  480 (589)
                      +..|+++
T Consensus       269 ~~~p~~~  275 (308)
T 2ond_A          269 TAFREEY  275 (308)
T ss_dssp             HHTTTTT
T ss_pred             HHccccc
Confidence            7777644

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.43  E-value=1.4e-12  Score=130.18  Aligned_cols=270  Identities=11%  Similarity=0.018  Sum_probs=190.9

Q ss_pred             hhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCc---hHHHHHHHHHHHhcCCHHHHHHHHhhcCC---------CCeeh
Q 048179          178 VVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLD---VKVQTSLVDMYAKTGHLDLASHVFKNMSR---------INIVT  245 (589)
Q Consensus       178 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~~~~~  245 (589)
                      ..+..+...+...|+++.|...++.+++......   ..++..+...|...|++++|...|++..+         ....+
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  128 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKS  128 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHH
Confidence            3455566778899999999999999999854321   15788899999999999999999987643         12356


Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHhcCCC-CCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHh
Q 048179          246 WGALISGFAQNGLAGSTLELLMEMQSCGFE-PDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSK  324 (589)
Q Consensus       246 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  324 (589)
                      +..+...|...|++++|+..|.+..+.... .+..                              ....++..+...|..
T Consensus       129 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~------------------------------~~~~~~~~l~~~~~~  178 (411)
T 4a1s_A          129 SGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRL------------------------------SEGRALYNLGNVYHA  178 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH------------------------------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchH------------------------------HHHHHHHHHHHHHHH
Confidence            778888999999999999999887653100 0100                              011222344444444


Q ss_pred             cCC-----------------HHHHHHHHHhcCC-----C----ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC
Q 048179          325 CGV-----------------PSCARALFDQMQS-----R----DLISWNVIIASYGIHGHGEEALSLFLQMIETMVK-PD  377 (589)
Q Consensus       325 ~g~-----------------~~~A~~~~~~~~~-----~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~  377 (589)
                      .|+                 +++|...|++..+     .    ...+|..+...+...|++++|+..+++..+.... ++
T Consensus       179 ~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  258 (411)
T 4a1s_A          179 KGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGD  258 (411)
T ss_dssp             HHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             cCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCC
Confidence            455                 5555555444321     1    1246777778888888888888888887653211 12


Q ss_pred             ----HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHhcCC----CCC
Q 048179          378 ----HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT----EKHYACMVDLLARAGEVEEALKIVDSMST----EPG  445 (589)
Q Consensus       378 ----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p~  445 (589)
                          ..++..+...+...|++++|...++++.....-..+    ...+..+..+|...|++++|.+.+++...    .++
T Consensus       259 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  338 (411)
T 4a1s_A          259 RAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGD  338 (411)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             cHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCC
Confidence                236777888899999999999999887754211111    45677888999999999999999987632    112


Q ss_pred             ----hhHHHHHHHHHHhcCCchHHHHHHHHHhccCC
Q 048179          446 ----LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNP  477 (589)
Q Consensus       446 ----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  477 (589)
                          ..++..+...+...|++++|.+.+++++++.+
T Consensus       339 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  374 (411)
T 4a1s_A          339 RIGEARACWSLGNAHSAIGGHERALKYAEQHLQLAX  374 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             hHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHh
Confidence                34777888899999999999999999998876

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.43  E-value=2.2e-12  Score=124.47  Aligned_cols=135  Identities=10%  Similarity=0.021  Sum_probs=95.4

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----h
Q 048179          344 ISWNVIIASYGIHGHGEEALSLFLQMIETMV-KPD----HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT----E  414 (589)
Q Consensus       344 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~  414 (589)
                      ..+..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|..+++.......-.++    .
T Consensus       184 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  263 (338)
T 3ro2_A          184 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA  263 (338)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHH
Confidence            3566677777788888888888877664311 111    236677777888889999998888887653211122    4


Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHhcCC----CCC----hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCC
Q 048179          415 KHYACMVDLLARAGEVEEALKIVDSMST----EPG----LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPD  478 (589)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  478 (589)
                      ..+..+...+...|++++|...+++...    .++    ..++..+...+...|++++|...+++++++.+.
T Consensus       264 ~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  335 (338)
T 3ro2_A          264 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISRE  335 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence            5677788889999999999998887621    112    446778888899999999999999999988764

>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=99.42  E-value=6.9e-12  Score=113.87  Aligned_cols=165  Identities=8%  Similarity=-0.029  Sum_probs=95.9

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048179          343 LISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVD  422 (589)
Q Consensus       343 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  422 (589)
                      +..|......+...|++++|+..|++..+...+++...+..+..++...|++++|...|+...+.  .+.+...+..+..
T Consensus         7 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~   84 (228)
T 4i17_A            7 PNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK--NYNLANAYIGKSA   84 (228)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh--CcchHHHHHHHHH
Confidence            34455555555566666666666666555543245555555555566666666666666665532  1122445555666


Q ss_pred             HHHHcCCHHHHHHHHHhcC-CCCC-h-------hHHHHHHHHHHhcCCchHHHHHHHHHhccCCC--CchhHHHHHHHHH
Q 048179          423 LLARAGEVEEALKIVDSMS-TEPG-L-------AVWVALLSGCHNHKKFSIGEKVAKKVLKLNPD--DLGIHALVSNFFA  491 (589)
Q Consensus       423 ~~~~~g~~~~A~~~~~~~~-~~p~-~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~  491 (589)
                      +|...|++++|++.+++.. ..|+ .       .+|..+...+...|++++|+..++++++++|+  ++.++..++.+|.
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~  164 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVLFY  164 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHH
Confidence            6666666666666665542 1222 2       23555555566666666666666666666666  5666666666666


Q ss_pred             hCCCh---------------------------HHHHHHHHHHHhC
Q 048179          492 MEQKW---------------------------EEVAGVRKTMRKS  509 (589)
Q Consensus       492 ~~g~~---------------------------~~a~~~~~~m~~~  509 (589)
                      ..|+.                           ++|...+++..+.
T Consensus       165 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~l  209 (228)
T 4i17_A          165 NNGADVLRKATPLASSNKEKYASEKAKADAAFKKAVDYLGEAVTL  209 (228)
T ss_dssp             HHHHHHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            65555                           8899999888763

>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=99.42  E-value=4.3e-12  Score=133.76  Aligned_cols=162  Identities=19%  Similarity=0.212  Sum_probs=140.2

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHH
Q 048179          343 LISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMV  421 (589)
Q Consensus       343 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~  421 (589)
                      ..+|+.+...|.+.|++++|++.|++.++.. +-+..++..+..++.+.|++++|+..|+++.+.   .|+ ...|..+.
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l---~P~~~~a~~nLg   84 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI---SPTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHH
Confidence            4578888888899999999999999988863 234678888999999999999999999998863   354 77889999


Q ss_pred             HHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHH
Q 048179          422 DLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEV  499 (589)
Q Consensus       422 ~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  499 (589)
                      .+|.+.|++++|++.|++.. ..| +..+|..+..++...|++++|++.++++++++|+++.++..++.+|...|+|++|
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHH
Confidence            99999999999999998863 345 5678999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHh
Q 048179          500 AGVRKTMRK  508 (589)
Q Consensus       500 ~~~~~~m~~  508 (589)
                      .+.++++.+
T Consensus       165 ~~~~~kal~  173 (723)
T 4gyw_A          165 DERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999888764

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.42  E-value=7.4e-12  Score=123.61  Aligned_cols=195  Identities=10%  Similarity=0.057  Sum_probs=137.6

Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHHhcCC-----CC-----hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----
Q 048179          313 VLGTSVIDMYSKCGVPSCARALFDQMQS-----RD-----LISWNVIIASYGIHGHGEEALSLFLQMIETMVK-PD----  377 (589)
Q Consensus       313 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~----  377 (589)
                      .++..+...|...|+++.|...+++..+     ++     ..+++.+...|...|++++|+..|++..+.... ++    
T Consensus       144 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  223 (383)
T 3ulq_A          144 EFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLM  223 (383)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHH
Confidence            3445566666666666666666665432     11     246777778888888888888888877653111 11    


Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc---CC-CCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC------CCC-h
Q 048179          378 HSTFASLLSALSHSGLVEEGRYWFDLMVSKY---KI-QPTEKHYACMVDLLARAGEVEEALKIVDSMST------EPG-L  446 (589)
Q Consensus       378 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------~p~-~  446 (589)
                      ..++..+..++...|++++|..+|++..+..   +. +....++..+..+|.+.|++++|.+.+++...      .|. .
T Consensus       224 ~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  303 (383)
T 3ulq_A          224 GRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYL  303 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            2367778888889999999999988877521   12 22256678888899999999999998887521      121 2


Q ss_pred             hHHHHHHHHHHhcCC---chHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          447 AVWVALLSGCHNHKK---FSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       447 ~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ..+..+...+...|+   +++|...+++. ...|.....+..++.+|...|++++|.+.+++..+
T Consensus       304 ~~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          304 SEFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            234566677888888   77777777776 33455667888899999999999999999998875

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.41  E-value=1.7e-11  Score=121.00  Aligned_cols=231  Identities=10%  Similarity=-0.003  Sum_probs=159.2

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCC-----CC----eehHHHHHHHHHhCCChhHHHHHHHHHHhcCCC-CCHHHHHHHHHH
Q 048179          218 LVDMYAKTGHLDLASHVFKNMSR-----IN----IVTWGALISGFAQNGLAGSTLELLMEMQSCGFE-PDSVSLVSALLA  287 (589)
Q Consensus       218 l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~ll~~  287 (589)
                      ....+...|++++|...|++..+     ++    ..+|..+...|...|++++|+..+.+..+.-.. ++..        
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~--------  180 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYN--------  180 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTH--------
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccch--------
Confidence            44555666777777776666543     11    235566666666777777777666665542100 1000        


Q ss_pred             HhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC-----CC----hhHHHHHHHHHHhcCC
Q 048179          288 CAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS-----RD----LISWNVIIASYGIHGH  358 (589)
Q Consensus       288 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~  358 (589)
                                           +....+++.+...|...|++++|...|++..+     ++    ..++..+...|...|+
T Consensus       181 ---------------------~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~  239 (383)
T 3ulq_A          181 ---------------------IRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQ  239 (383)
T ss_dssp             ---------------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             ---------------------HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCC
Confidence                                 00123446667777777888888777776643     11    1467888889999999


Q ss_pred             HHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHHHcCC-
Q 048179          359 GEEALSLFLQMIET----MVKP-DHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT---EKHYACMVDLLARAGE-  429 (589)
Q Consensus       359 ~~~A~~~~~~m~~~----~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~-  429 (589)
                      +++|+..|++..+.    +..| ...++..+..++...|++++|..++++..+...-.++   ...+..+...|...|+ 
T Consensus       240 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~  319 (383)
T 3ulq_A          240 YEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDE  319 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCH
T ss_pred             HHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcH
Confidence            99999999988762    3323 3567888999999999999999999987754211122   2335678888889999 


Q ss_pred             --HHHHHHHHHhcCCCCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhccCC
Q 048179          430 --VEEALKIVDSMSTEPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNP  477 (589)
Q Consensus       430 --~~~A~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  477 (589)
                        +++|+.++++....|+ ...+..+...|...|++++|...+++++++..
T Consensus       320 ~~~~~al~~~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~~~  370 (383)
T 3ulq_A          320 EAIQGFFDFLESKMLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQVRQ  370 (383)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence              9999999999865443 44677788899999999999999999987643

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.41  E-value=2.9e-11  Score=115.29  Aligned_cols=213  Identities=10%  Similarity=0.018  Sum_probs=174.5

Q ss_pred             hhHHHHHHHHhhcCCCChhHHHHHHHHhHh-------cCCH-------HHHHHHHHhcCC---C-ChhHHHHHHHHHHhc
Q 048179          295 KLGKSIHGYTVRRFDFNLVLGTSVIDMYSK-------CGVP-------SCARALFDQMQS---R-DLISWNVIIASYGIH  356 (589)
Q Consensus       295 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~g~~-------~~A~~~~~~~~~---~-~~~~~~~li~~~~~~  356 (589)
                      +.|..+++.+....+.++.+|..++..+..       .|++       ++|..+|++..+   | +...|..++..+...
T Consensus        33 ~~a~~~~~~al~~~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~  112 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  112 (308)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            567778888887778889999988888764       5886       899999998754   3 456899999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCC-HH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH-HcCCHHHH
Q 048179          357 GHGEEALSLFLQMIETMVKPD-HS-TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLA-RAGEVEEA  433 (589)
Q Consensus       357 g~~~~A~~~~~~m~~~~~~p~-~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~-~~g~~~~A  433 (589)
                      |++++|..+|++.++.  .|+ .. .|..++..+.+.|++++|..+|+++.+.  .+++...|...+.... ..|+.++|
T Consensus       113 ~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          113 MKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             TCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             CCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999984  554 33 7888889999999999999999999863  2334555554444433 36999999


Q ss_pred             HHHHHhcCC-CC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhcc---CCC-CchhHHHHHHHHHhCCChHHHHHHHHHHH
Q 048179          434 LKIVDSMST-EP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKL---NPD-DLGIHALVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       434 ~~~~~~~~~-~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      .++|++... .| +...|..++..+...|++++|+.+|+++++.   .|+ +...|..++..+.+.|++++|..+++++.
T Consensus       189 ~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          189 FKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999998732 23 6778999999999999999999999999985   553 67789999999999999999999999998


Q ss_pred             hCCC
Q 048179          508 KSGM  511 (589)
Q Consensus       508 ~~g~  511 (589)
                      +..+
T Consensus       269 ~~~p  272 (308)
T 2ond_A          269 TAFR  272 (308)
T ss_dssp             HHTT
T ss_pred             HHcc
Confidence            7554

>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=99.40  E-value=1.1e-11  Score=108.13  Aligned_cols=162  Identities=15%  Similarity=0.097  Sum_probs=117.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 048179          345 SWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLL  424 (589)
Q Consensus       345 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  424 (589)
                      .|..+...+...|++++|+..++++.+.. +.+...+..+...+...|++++|..+++.+.+.  .+.+...+..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~   86 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHH
Confidence            34445555666666666666666655432 234556666666667777777777777776653  233456667777777


Q ss_pred             HHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHH
Q 048179          425 ARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGV  502 (589)
Q Consensus       425 ~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  502 (589)
                      ...|++++|.+.++++..  +.+...+..+...+...|++++|...++++++..|+++..+..++.+|...|++++|.+.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  166 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPH  166 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHH
Confidence            777777777777776522  245667788888888999999999999999999998999999999999999999999999


Q ss_pred             HHHHHhC
Q 048179          503 RKTMRKS  509 (589)
Q Consensus       503 ~~~m~~~  509 (589)
                      ++++.+.
T Consensus       167 ~~~~~~~  173 (186)
T 3as5_A          167 FKKANEL  173 (186)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHc
Confidence            9888764

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.39  E-value=2.6e-12  Score=122.58  Aligned_cols=164  Identities=15%  Similarity=0.166  Sum_probs=92.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHc------CCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc-----C-CC
Q 048179          345 SWNVIIASYGIHGHGEEALSLFLQMIET------MVKPD-HSTFASLLSALSHSGLVEEGRYWFDLMVSKY-----K-IQ  411 (589)
Q Consensus       345 ~~~~li~~~~~~g~~~~A~~~~~~m~~~------~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~-----~-~~  411 (589)
                      ++..+...|...|++++|+..|+++.+.      +..|+ ...+..+...+...|++++|..+++.+.+..     + .+
T Consensus       113 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~  192 (311)
T 3nf1_A          113 TLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDP  192 (311)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCH
Confidence            4445555555556666666555555443      11222 3355566666677777777777777665431     0 11


Q ss_pred             CChhhHHHHHHHHHHcCCHHHHHHHHHhcCC----------CCC-------hhHHHHHHHHHHhcCCchHHHHHHHHHhc
Q 048179          412 PTEKHYACMVDLLARAGEVEEALKIVDSMST----------EPG-------LAVWVALLSGCHNHKKFSIGEKVAKKVLK  474 (589)
Q Consensus       412 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----------~p~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  474 (589)
                      .....+..+..+|.+.|++++|.+.++++..          .+.       ...+..+...+...+.+.++...++++..
T Consensus       193 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  272 (311)
T 3nf1_A          193 NVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKV  272 (311)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC--------
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCC
Confidence            1134566677777777777777777766521          111       11222233334556677778888888888


Q ss_pred             cCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          475 LNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       475 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ..|..+.++..++.+|.+.|++++|.+.+++..+
T Consensus       273 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          273 DSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             -CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            8888899999999999999999999999998765

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.38  E-value=1.3e-11  Score=125.05  Aligned_cols=179  Identities=9%  Similarity=0.018  Sum_probs=156.8

Q ss_pred             HHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCH-HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHH
Q 048179          328 PSCARALFDQMQS---RDLISWNVIIASYGIHGHG-EEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDL  403 (589)
Q Consensus       328 ~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~  403 (589)
                      ++++...++....   .+...|..+...+...|++ ++|++.|++..+.. +-+...+..+..++...|++++|...|+.
T Consensus        84 ~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            5566666665543   4667889999999999999 99999999999874 33577899999999999999999999999


Q ss_pred             HHHhcCCCCChhhHHHHHHHHHHc---------CCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhc--------CCchH
Q 048179          404 MVSKYKIQPTEKHYACMVDLLARA---------GEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNH--------KKFSI  464 (589)
Q Consensus       404 ~~~~~~~~p~~~~~~~l~~~~~~~---------g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~--------~~~~~  464 (589)
                      +.+   +.|+...+..+..+|...         |++++|++.+++.. ..| +...|..+..++...        |++++
T Consensus       163 al~---~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~  239 (474)
T 4abn_A          163 ALT---HCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQQ  239 (474)
T ss_dssp             HHT---TCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             HHh---hCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHHH
Confidence            984   458888899999999999         99999999999973 234 578899999999988        99999


Q ss_pred             HHHHHHHHhccCC---CCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          465 GEKVAKKVLKLNP---DDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       465 a~~~~~~~~~~~p---~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      |+..++++++++|   +++..|..++.+|...|++++|.+.++++.+..
T Consensus       240 A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~  288 (474)
T 4abn_A          240 ALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD  288 (474)
T ss_dssp             HHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999   999999999999999999999999999998743

>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=8.3e-11  Score=115.79  Aligned_cols=195  Identities=13%  Similarity=0.047  Sum_probs=136.8

Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHHhcCC-----CC-----hhHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCC-C
Q 048179          313 VLGTSVIDMYSKCGVPSCARALFDQMQS-----RD-----LISWNVIIASYGIHGHGEEALSLFLQMIET----MVKP-D  377 (589)
Q Consensus       313 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p-~  377 (589)
                      .++..+...|...|+++.|...+++..+     ++     ..+++.+...|...|++++|++.|++..+.    +-.+ .
T Consensus       142 ~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~  221 (378)
T 3q15_A          142 EFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFI  221 (378)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            3456666777777777777776665532     11     346777888888889999998888887653    1111 1


Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc---CCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC----C--CCC-hh
Q 048179          378 HSTFASLLSALSHSGLVEEGRYWFDLMVSKY---KIQPTEKHYACMVDLLARAGEVEEALKIVDSMS----T--EPG-LA  447 (589)
Q Consensus       378 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~--~p~-~~  447 (589)
                      ..++..+..++...|++++|..+|++..+..   +.+....++..+..+|.+.|++++|.+.+++..    .  .|. ..
T Consensus       222 ~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  301 (378)
T 3q15_A          222 AISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKE  301 (378)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            2467778888889999999999998887621   112226677888899999999999999988752    1  122 22


Q ss_pred             HHHHHHHHHHhcCC---chHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          448 VWVALLSGCHNHKK---FSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       448 ~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      .+..+...+...++   +++|...+++. ...|.....+..++.+|...|++++|.+.++++.+
T Consensus       302 ~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          302 LFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34555555777777   77777777763 23344556778899999999999999999988764

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.34  E-value=1.1e-09  Score=107.62  Aligned_cols=194  Identities=11%  Similarity=0.025  Sum_probs=136.4

Q ss_pred             HHHHHHHhHhcCCHHHHHHHHHhcCC-------C----ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--C--CHH
Q 048179          315 GTSVIDMYSKCGVPSCARALFDQMQS-------R----DLISWNVIIASYGIHGHGEEALSLFLQMIETMVK--P--DHS  379 (589)
Q Consensus       315 ~~~l~~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~--p--~~~  379 (589)
                      ...+...+...|++++|...+++...       +    ....+..+...+...|++++|...+++.......  +  ...
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  175 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  175 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHH
Confidence            35566667777787777777766542       1    1234566777888889999999999888764321  1  134


Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHH-----HHHHHHHHcCCHHHHHHHHHhcCC-CCC-----hhH
Q 048179          380 TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYA-----CMVDLLARAGEVEEALKIVDSMST-EPG-----LAV  448 (589)
Q Consensus       380 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~-----~l~~~~~~~g~~~~A~~~~~~~~~-~p~-----~~~  448 (589)
                      ++..+...+...|++++|...+++......-......+.     ..+..+...|++++|...+++... .|.     ...
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  255 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  255 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHH
Confidence            667777888889999999999998875422111111222     233457789999999999988743 121     224


Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHhccCCC------CchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          449 WVALLSGCHNHKKFSIGEKVAKKVLKLNPD------DLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       449 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      +..+...+...|++++|...++++++..+.      ....+..++.+|...|++++|...+++...
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            567778889999999999999998865432      124677789999999999999999988765

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.34  E-value=6.2e-11  Score=107.51  Aligned_cols=204  Identities=9%  Similarity=0.028  Sum_probs=121.2

Q ss_pred             CHHHHHHHHHHHhccCchhhHHHHHHHHhhcCC-CChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--C-ChhHHHHHHHH
Q 048179          277 DSVSLVSALLACAQIGFLKLGKSIHGYTVRRFD-FNLVLGTSVIDMYSKCGVPSCARALFDQMQS--R-DLISWNVIIAS  352 (589)
Q Consensus       277 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~  352 (589)
                      |+..+......+...|+++.|...+..+....+ ++...+..+..+|...|++++|...|++..+  | +...|..+...
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   85 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSAA   85 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHHH
Confidence            445566666666666777777777776664333 5555555566666666777777666666543  2 33456666666


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC---hhhHHHHHH
Q 048179          353 YGIHGHGEEALSLFLQMIETMVKPDH-------STFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT---EKHYACMVD  422 (589)
Q Consensus       353 ~~~~g~~~~A~~~~~~m~~~~~~p~~-------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~  422 (589)
                      |...|++++|+..|++..+.. +.+.       ..+..+...+...|++++|...|+.+.+   +.|+   ...+..+..
T Consensus        86 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           86 YRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD---VTSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SSCHHHHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh---cCCCcccHHHHHHHHH
Confidence            666677777776666666542 2223       3355555566666666666666666653   2333   345555555


Q ss_pred             HHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHH
Q 048179          423 LLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA  491 (589)
Q Consensus       423 ~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  491 (589)
                      +|...|+.     .++++..  ..+...+....  ....+++++|...++++++++|+++.+...++.+..
T Consensus       162 ~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~~  225 (228)
T 4i17_A          162 LFYNNGAD-----VLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVKA  225 (228)
T ss_dssp             HHHHHHHH-----HHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHH-----HHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHH
Confidence            55544432     1222211  11222222222  233455699999999999999999988888877643

>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=99.32  E-value=1.1e-10  Score=101.68  Aligned_cols=167  Identities=13%  Similarity=-0.060  Sum_probs=143.7

Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 048179          313 VLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALS  389 (589)
Q Consensus       313 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~  389 (589)
                      ..+..+...+...|++++|...|+++.+   .+...|..+...+...|++++|...++++.+.. +.+...+..+...+.
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            4456778889999999999999999875   356788889999999999999999999998874 446778888899999


Q ss_pred             cCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHH
Q 048179          390 HSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEK  467 (589)
Q Consensus       390 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~  467 (589)
                      ..|++++|.++++.+.+.  .+.+...+..+..++...|++++|.+.++++..  +.+..++..+...+...|++++|..
T Consensus        88 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999999874  345678888999999999999999999998732  3457788999999999999999999


Q ss_pred             HHHHHhccCCCCchh
Q 048179          468 VAKKVLKLNPDDLGI  482 (589)
Q Consensus       468 ~~~~~~~~~p~~~~~  482 (589)
                      .++++++..|+++..
T Consensus       166 ~~~~~~~~~~~~~~~  180 (186)
T 3as5_A          166 HFKKANELDEGASVE  180 (186)
T ss_dssp             HHHHHHHHHHCCCGG
T ss_pred             HHHHHHHcCCCchhh
Confidence            999999999877644

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.28  E-value=6.1e-10  Score=109.55  Aligned_cols=226  Identities=10%  Similarity=0.017  Sum_probs=154.7

Q ss_pred             HHHHhCCChhHHHHHHHHHHhcCC-CCC----HHHHHHHHHHHhccCchhhHHHHHHHHh---hcCCC----ChhHHHHH
Q 048179          251 SGFAQNGLAGSTLELLMEMQSCGF-EPD----SVSLVSALLACAQIGFLKLGKSIHGYTV---RRFDF----NLVLGTSV  318 (589)
Q Consensus       251 ~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~---~~~~~----~~~~~~~l  318 (589)
                      ..+...|++++|+..|++..+... .++    ..++..+...+...|+.+.|...+..+.   .....    ...+++.+
T Consensus       109 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  188 (378)
T 3q15_A          109 MYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVI  188 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHH
T ss_pred             HHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHH
Confidence            344556666666666665544210 111    2344455555566666666666665555   11111    23456777


Q ss_pred             HHHhHhcCCHHHHHHHHHhcCC-----CC----hhHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCCHHHHHHHH
Q 048179          319 IDMYSKCGVPSCARALFDQMQS-----RD----LISWNVIIASYGIHGHGEEALSLFLQMIET----MVKPDHSTFASLL  385 (589)
Q Consensus       319 ~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~~~t~~~ll  385 (589)
                      ...|...|++++|.+.|++..+     ++    ..++..+...|...|++++|+..|++..+.    +.+....++..+.
T Consensus       189 g~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  268 (378)
T 3q15_A          189 AGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLS  268 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHH
Confidence            8888888888888888876653     22    246777888999999999999999988761    2233356788889


Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHHHcCC---HHHHHHHHHhcCCCCC-hhHHHHHHHHHHh
Q 048179          386 SALSHSGLVEEGRYWFDLMVSKYKIQPT---EKHYACMVDLLARAGE---VEEALKIVDSMSTEPG-LAVWVALLSGCHN  458 (589)
Q Consensus       386 ~a~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~p~-~~~~~~l~~~~~~  458 (589)
                      ..+.+.|++++|..++++..+...-.++   ...+..+...+...|+   +++|+..+++....|+ ...+..+...|..
T Consensus       269 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~y~~  348 (378)
T 3q15_A          269 WTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAAVFES  348 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHH
Confidence            9999999999999999998875332222   3345666777778888   8999999998654443 3456678888999


Q ss_pred             cCCchHHHHHHHHHhccC
Q 048179          459 HKKFSIGEKVAKKVLKLN  476 (589)
Q Consensus       459 ~~~~~~a~~~~~~~~~~~  476 (589)
                      .|++++|...++++++..
T Consensus       349 ~g~~~~A~~~~~~al~~~  366 (378)
T 3q15_A          349 SCHFEQAAAFYRKVLKAQ  366 (378)
T ss_dssp             TTCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHH
Confidence            999999999999998653

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.23  E-value=6.2e-10  Score=103.20  Aligned_cols=205  Identities=8%  Similarity=-0.005  Sum_probs=130.0

Q ss_pred             CChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--C-C---hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCC-HHHH
Q 048179          310 FNLVLGTSVIDMYSKCGVPSCARALFDQMQS--R-D---LISWNVIIASYGIHGHGEEALSLFLQMIETMV-KPD-HSTF  381 (589)
Q Consensus       310 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~-~~t~  381 (589)
                      .+...+..+...+.+.|++++|...|+++.+  | +   ...+..+..+|...|++++|+..|++.++... .|. ...+
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            3455555666666666677777766666653  2 2   34555566666666666666666666666421 112 2344


Q ss_pred             HHHHHHHhc--------CCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHH
Q 048179          382 ASLLSALSH--------SGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVAL  452 (589)
Q Consensus       382 ~~ll~a~~~--------~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l  452 (589)
                      ..+..++..        .|++++|...|+.+.+.+   |+ ......+.......+.+               ...+..+
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~---p~~~~~~~a~~~~~~~~~~~---------------~~~~~~l  154 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY---PNHELVDDATQKIRELRAKL---------------ARKQYEA  154 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC---TTCTTHHHHHHHHHHHHHHH---------------HHHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC---cCchhHHHHHHHHHHHHHHH---------------HHHHHHH
Confidence            455555555        666666666666666542   22 22222211111111000               1124667


Q ss_pred             HHHHHhcCCchHHHHHHHHHhccCCCC---chhHHHHHHHHHhC----------CChHHHHHHHHHHHhCCCccCCceeE
Q 048179          453 LSGCHNHKKFSIGEKVAKKVLKLNPDD---LGIHALVSNFFAME----------QKWEEVAGVRKTMRKSGMKKVPGYSV  519 (589)
Q Consensus       453 ~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~----------g~~~~a~~~~~~m~~~g~~~~~~~s~  519 (589)
                      ...+...|++++|+..++++++..|++   +.++..++.+|...          |++++|...++++.+..+        
T Consensus       155 a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p--------  226 (261)
T 3qky_A          155 ARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFP--------  226 (261)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCT--------
T ss_pred             HHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCC--------
Confidence            788999999999999999999999984   45889999999977          999999999999886432        


Q ss_pred             EEECCEEEEEEecCCCCCChHHHHHHHHHHHHHHHh
Q 048179          520 VEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMRA  555 (589)
Q Consensus       520 ~~~~~~~~~f~~~~~~~~~~~~~~~~~~~l~~~~~~  555 (589)
                                     .+|...+....+..+...+++
T Consensus       227 ---------------~~~~~~~a~~~l~~~~~~~~~  247 (261)
T 3qky_A          227 ---------------DSPLLRTAEELYTRARQRLTE  247 (261)
T ss_dssp             ---------------TCTHHHHHHHHHHHHHHHHHH
T ss_pred             ---------------CChHHHHHHHHHHHHHHHHHH
Confidence                           245566777777777777764

>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=99.20  E-value=2.7e-10  Score=106.73  Aligned_cols=220  Identities=13%  Similarity=0.124  Sum_probs=157.3

Q ss_pred             hccCchhhHHHHHHHHhh--------cCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC-----------CChhHHHHH
Q 048179          289 AQIGFLKLGKSIHGYTVR--------RFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS-----------RDLISWNVI  349 (589)
Q Consensus       289 ~~~~~~~~a~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----------~~~~~~~~l  349 (589)
                      ...|+++.|...++....        ..+....++..+...|...|++++|...|+++.+           ....+|..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            456788888888777762        2233567788899999999999999999987652           123578888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHc------CCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc-----C-CCCChhh
Q 048179          350 IASYGIHGHGEEALSLFLQMIET------MVKPD-HSTFASLLSALSHSGLVEEGRYWFDLMVSKY-----K-IQPTEKH  416 (589)
Q Consensus       350 i~~~~~~g~~~~A~~~~~~m~~~------~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~-----~-~~p~~~~  416 (589)
                      ...|...|++++|+..|++..+.      .-.|+ ..++..+...+...|++++|..+++++.+..     + .+.....
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999998764      11232 4578888899999999999999999987641     0 1122567


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhcCC----------CC-ChhHHHHHHHHHHhcCC------chHHHHHHHHHhccCCCC
Q 048179          417 YACMVDLLARAGEVEEALKIVDSMST----------EP-GLAVWVALLSGCHNHKK------FSIGEKVAKKVLKLNPDD  479 (589)
Q Consensus       417 ~~~l~~~~~~~g~~~~A~~~~~~~~~----------~p-~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~p~~  479 (589)
                      +..+..+|.+.|++++|.+.++++..          .+ ....|..+.......+.      +..+...++......|..
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTV  251 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHH
Confidence            88899999999999999999987621          22 23344444444444333      333333344443445667


Q ss_pred             chhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          480 LGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       480 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      +.++..++.+|...|++++|.+++++..+
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            78899999999999999999999998875

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.18  E-value=5.6e-11  Score=113.29  Aligned_cols=52  Identities=13%  Similarity=0.150  Sum_probs=22.9

Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc
Q 048179          387 ALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM  440 (589)
Q Consensus       387 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  440 (589)
                      .+...+.+.++...++....  ..+.....+..+..+|.+.|++++|.+.+++.
T Consensus       253 ~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  304 (311)
T 3nf1_A          253 KQKDGTSFGEYGGWYKACKV--DSPTVTTTLKNLGALYRRQGKFEAAETLEEAA  304 (311)
T ss_dssp             -----CCSCCCC-----------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHHHhhcCC--CCchHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            34444555555555655553  12223555666667777777777777666654

>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=99.18  E-value=2.6e-10  Score=120.22  Aligned_cols=165  Identities=11%  Similarity=0.095  Sum_probs=142.2

Q ss_pred             CCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048179          309 DFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLL  385 (589)
Q Consensus       309 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll  385 (589)
                      |.+...++.|...|.+.|++++|++.|++..+   .+..+|+.+..+|.+.|++++|+..|++.++.. +-+...+..+.
T Consensus         6 P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg   84 (723)
T 4gyw_A            6 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMG   84 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            34567788999999999999999999998764   456889999999999999999999999999864 33467899999


Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCC-ChhHHHHHHHHHHhcCCc
Q 048179          386 SALSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSM-STEP-GLAVWVALLSGCHNHKKF  462 (589)
Q Consensus       386 ~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~  462 (589)
                      .++...|++++|++.|+++.+.   .|+ ...|..+..+|.+.|++++|++.|++. ...| +...|..+..++...|++
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l---~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~  161 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQI---NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDW  161 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccH
Confidence            9999999999999999999864   344 788999999999999999999999986 3355 567899999999999999


Q ss_pred             hHHHHHHHHHhccCC
Q 048179          463 SIGEKVAKKVLKLNP  477 (589)
Q Consensus       463 ~~a~~~~~~~~~~~p  477 (589)
                      ++|++.+++++++.|
T Consensus       162 ~~A~~~~~kal~l~~  176 (723)
T 4gyw_A          162 TDYDERMKKLVSIVA  176 (723)
T ss_dssp             TTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCh
Confidence            999999999987654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.18  E-value=1.6e-09  Score=102.23  Aligned_cols=215  Identities=9%  Similarity=0.034  Sum_probs=127.6

Q ss_pred             CHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHhc----CCCCC-HHHHHHHHHHHhccCchhhHHHHH
Q 048179          227 HLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSC----GFEPD-SVSLVSALLACAQIGFLKLGKSIH  301 (589)
Q Consensus       227 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~  301 (589)
                      ++++|...|++.           ...|...|++++|+..|.+..+.    |-+++ ..++                    
T Consensus        32 ~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~--------------------   80 (292)
T 1qqe_A           32 KFEEAADLCVQA-----------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTY--------------------   80 (292)
T ss_dssp             HHHHHHHHHHHH-----------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHH--------------------
T ss_pred             cHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHH--------------------
Confidence            477777776654           45567788888888888776543    11111 2233                    


Q ss_pred             HHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC-----CC----hhHHHHHHHHHHhc-CCHHHHHHHHHHHHH
Q 048179          302 GYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS-----RD----LISWNVIIASYGIH-GHGEEALSLFLQMIE  371 (589)
Q Consensus       302 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~-g~~~~A~~~~~~m~~  371 (589)
                                    +.+..+|.+.|++++|...|++..+     .+    ..+|+.+...|... |++++|+..|++..+
T Consensus        81 --------------~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~  146 (292)
T 1qqe_A           81 --------------VEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGE  146 (292)
T ss_dssp             --------------HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             --------------HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHH
Confidence                          3344444444444444444443321     11    23566677777775 888888888887765


Q ss_pred             cCCCC-C----HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCh-----hhHHHHHHHHHHcCCHHHHHHHHHhcC
Q 048179          372 TMVKP-D----HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTE-----KHYACMVDLLARAGEVEEALKIVDSMS  441 (589)
Q Consensus       372 ~~~~p-~----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~  441 (589)
                      ..... +    ..++..+...+...|++++|..+|+.+.+...-.+..     ..|..+..++...|++++|...+++..
T Consensus       147 ~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  226 (292)
T 1qqe_A          147 WYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQ  226 (292)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGG
T ss_pred             HHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            32110 1    2456777788888888888888888877642111111     145667777888888888888888763


Q ss_pred             C-CCChh------HHHHHHHHHH--hcCCchHHHHHHHHHhccCCCCchhHHHH
Q 048179          442 T-EPGLA------VWVALLSGCH--NHKKFSIGEKVAKKVLKLNPDDLGIHALV  486 (589)
Q Consensus       442 ~-~p~~~------~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  486 (589)
                      . .|+..      .+..++.++.  ..+++++|+..++++.+++|.+...+..+
T Consensus       227 ~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~~~~~~~  280 (292)
T 1qqe_A          227 SEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKITILNKI  280 (292)
T ss_dssp             CC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHHHHHHHH
T ss_pred             hhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHHHHHHHH
Confidence            2 34321      2344555554  44667888888888888877655444443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.16  E-value=3.2e-09  Score=95.85  Aligned_cols=183  Identities=11%  Similarity=-0.029  Sum_probs=112.2

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHHhcCC--CC----hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH--HHHHH
Q 048179          312 LVLGTSVIDMYSKCGVPSCARALFDQMQS--RD----LISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDH--STFAS  383 (589)
Q Consensus       312 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~--~t~~~  383 (589)
                      ...+..+...+.+.|++++|...|+++.+  |+    ...+..+..+|.+.|++++|+..|+++.+.......  ..+..
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~   83 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHH
Confidence            34445556666777777777777776653  22    135666666777777777777777777665321111  13333


Q ss_pred             HHHHHhc------------------CCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhcCCCC
Q 048179          384 LLSALSH------------------SGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSMSTEP  444 (589)
Q Consensus       384 ll~a~~~------------------~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p  444 (589)
                      +..++..                  .|++++|...|+.+.+.+   |+ ...+.+...+.    ......          
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~---P~~~~a~~a~~~l~----~~~~~~----------  146 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY---PNSQYTTDATKRLV----FLKDRL----------  146 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC---TTCTTHHHHHHHHH----HHHHHH----------
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC---cCChhHHHHHHHHH----HHHHHH----------
Confidence            3333332                  345555555555555321   22 11221111100    000000          


Q ss_pred             ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCc---hhHHHHHHHHHhCCChHHHHHHHHHHHhCCCc
Q 048179          445 GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDL---GIHALVSNFFAMEQKWEEVAGVRKTMRKSGMK  512 (589)
Q Consensus       445 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~  512 (589)
                       ......+...+...|+++.|+..++++++..|+++   .++..++.+|.+.|++++|.+.++.+...+++
T Consensus       147 -~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          147 -AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSN  216 (225)
T ss_dssp             -HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSC
T ss_pred             -HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC
Confidence             00113456678899999999999999999999876   57999999999999999999999999876654

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.15  E-value=2.5e-08  Score=97.76  Aligned_cols=121  Identities=10%  Similarity=-0.139  Sum_probs=57.8

Q ss_pred             HHHhCCCccHHHHHHHHHHHCCCCCChh----hHHHHHHHHHccCCcHHHHHHHHHHHHhcCC-Cc----hHHHHHHHHH
Q 048179          151 GLVFNGQPREAVDAYKRMKKEGIDADEV----VMMGLIQACADLGDSRFGLSVHGYSIRRHLN-LD----VKVQTSLVDM  221 (589)
Q Consensus       151 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~----t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~  221 (589)
                      .+...|++++|...+++........+..    ++..+...+...|+++.|...+......... .+    ..++..+...
T Consensus        23 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~  102 (373)
T 1hz4_A           23 VAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEI  102 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            3445566666666666555432111111    2333334445555666665555555442110 11    1223445555


Q ss_pred             HHhcCCHHHHHHHHhhcCC-------C----CeehHHHHHHHHHhCCChhHHHHHHHHHHh
Q 048179          222 YAKTGHLDLASHVFKNMSR-------I----NIVTWGALISGFAQNGLAGSTLELLMEMQS  271 (589)
Q Consensus       222 ~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  271 (589)
                      +...|++++|...+++..+       +    ....+..+...+...|++++|...+.+...
T Consensus       103 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  163 (373)
T 1hz4_A          103 LFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIE  163 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            5666666666655554421       1    012334455555666666666666665544

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.13  E-value=1.3e-09  Score=102.82  Aligned_cols=228  Identities=11%  Similarity=0.024  Sum_probs=158.3

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHhc--cCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhc
Q 048179          261 STLELLMEMQSCGFEPDSVSLVSALLACAQ--IGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQM  338 (589)
Q Consensus       261 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  338 (589)
                      +|.+++.+..+. .++....+ .++   ..  .++++.|...+..+              ...|...|++++|...|.+.
T Consensus         3 ~a~~~~~~a~k~-~~~~~~~~-~~~---~~~~~~~~~~A~~~~~~a--------------~~~~~~~g~~~~A~~~~~~a   63 (292)
T 1qqe_A            3 DPVELLKRAEKK-GVPSSGFM-KLF---SGSDSYKFEEAADLCVQA--------------ATIYRLRKELNLAGDSFLKA   63 (292)
T ss_dssp             CHHHHHHHHHHH-SSCCCTHH-HHH---SCCSHHHHHHHHHHHHHH--------------HHHHHHTTCTHHHHHHHHHH
T ss_pred             cHHHHHHHHHHH-hCcCCCcc-hhc---CCCCCccHHHHHHHHHHH--------------HHHHHHcCCHHHHHHHHHHH
Confidence            466666666654 23322122 222   21  12467776666544              55678889999999988876


Q ss_pred             CC-----CC----hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC---CCC--HHHHHHHHHHHhcC-CcHHHHHHHHHH
Q 048179          339 QS-----RD----LISWNVIIASYGIHGHGEEALSLFLQMIETMV---KPD--HSTFASLLSALSHS-GLVEEGRYWFDL  403 (589)
Q Consensus       339 ~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~---~p~--~~t~~~ll~a~~~~-g~~~~a~~~~~~  403 (589)
                      .+     .+    ..+|+.+...|...|++++|+..|++..+...   .+.  ..++..+...+... |++++|+..|++
T Consensus        64 l~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~  143 (292)
T 1qqe_A           64 ADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYEL  143 (292)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHH
Confidence            53     12    45788999999999999999999998876321   111  34788888999996 999999999999


Q ss_pred             HHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCCC---h-----hHHHHHHHHHHhcCCchHHHHHHH
Q 048179          404 MVSKYKIQPT----EKHYACMVDLLARAGEVEEALKIVDSMS-TEPG---L-----AVWVALLSGCHNHKKFSIGEKVAK  470 (589)
Q Consensus       404 ~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~---~-----~~~~~l~~~~~~~~~~~~a~~~~~  470 (589)
                      ..+.+.-..+    ..++..+...|.+.|++++|+..|++.. ..|+   .     ..|..++.++...|+++.|+..++
T Consensus       144 Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~  223 (292)
T 1qqe_A          144 AGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQ  223 (292)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            8864211111    3568889999999999999999999863 2222   1     156778888999999999999999


Q ss_pred             HHhccCCCCchh-----HHHHHHHHH--hCCChHHHHHHHHHHH
Q 048179          471 KVLKLNPDDLGI-----HALVSNFFA--MEQKWEEVAGVRKTMR  507 (589)
Q Consensus       471 ~~~~~~p~~~~~-----~~~l~~~~~--~~g~~~~a~~~~~~m~  507 (589)
                      ++++++|+....     +..++..|.  ..+++++|.+.++++.
T Consensus       224 ~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          224 EGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             GGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence            999999976543     344566665  4678999998887654

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.13  E-value=1e-10  Score=98.11  Aligned_cols=141  Identities=8%  Similarity=-0.005  Sum_probs=105.0

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048179          351 ASYGIHGHGEEALSLFLQMIETMVKPD-HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGE  429 (589)
Q Consensus       351 ~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  429 (589)
                      ..+...|++++|+..+++....  .|+ ...+..+...|.+.|++++|++.|+++.+.  -+-+...|..+..+|.+.|+
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCc
Confidence            3444566777777777765442  333 335566777788888888888888888753  23347778888888888888


Q ss_pred             HHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHH-HHHHhccCCCCchhHHHHHHHHHhCCC
Q 048179          430 VEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKV-AKKVLKLNPDDLGIHALVSNFFAMEQK  495 (589)
Q Consensus       430 ~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~p~~~~~~~~l~~~~~~~g~  495 (589)
                      +++|+..|++.. ..| +..+|..+...+...|++++|.+. ++++++++|+++.+|...+.++...|+
T Consensus        81 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             hHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            888888888763 345 567888888889999998776655 589999999999999999999888875

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.13  E-value=1.5e-09  Score=100.59  Aligned_cols=203  Identities=10%  Similarity=0.015  Sum_probs=148.5

Q ss_pred             CCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCC---hhHHHHHHHHhHhcCCHHHHHHHHHhcCC--CC----hhHH
Q 048179          276 PDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFN---LVLGTSVIDMYSKCGVPSCARALFDQMQS--RD----LISW  346 (589)
Q Consensus       276 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~----~~~~  346 (589)
                      .+...+......+...|+++.|...++.+....|.+   ...+..+..+|.+.|++++|...|+++.+  |+    ..++
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            455677777888899999999999999999666666   77888999999999999999999998864  31    3467


Q ss_pred             HHHHHHHHh--------cCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhH
Q 048179          347 NVIIASYGI--------HGHGEEALSLFLQMIETMVKPDH-STFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHY  417 (589)
Q Consensus       347 ~~li~~~~~--------~g~~~~A~~~~~~m~~~~~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~  417 (589)
                      ..+..++..        .|++++|+..|++.++..  |+. .....              ...+..+...     -...+
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a--------------~~~~~~~~~~-----~~~~~  151 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDA--------------TQKIRELRAK-----LARKQ  151 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHH--------------HHHHHHHHHH-----HHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHH--------------HHHHHHHHHH-----HHHHH
Confidence            777888888        999999999999999863  432 22211              1111111111     01235


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhcCC-CCC----hhHHHHHHHHHHhc----------CCchHHHHHHHHHhccCCCCch-
Q 048179          418 ACMVDLLARAGEVEEALKIVDSMST-EPG----LAVWVALLSGCHNH----------KKFSIGEKVAKKVLKLNPDDLG-  481 (589)
Q Consensus       418 ~~l~~~~~~~g~~~~A~~~~~~~~~-~p~----~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~p~~~~-  481 (589)
                      ..+...|.+.|++++|+..|+++.. .|+    ...+..+..++...          |++++|+..++++++..|+++. 
T Consensus       152 ~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  231 (261)
T 3qky_A          152 YEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLL  231 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHH
Confidence            5678888999999999999888632 343    34677777777765          8899999999999999999864 


Q ss_pred             --hHHHHHHHHHhCCChHHH
Q 048179          482 --IHALVSNFFAMEQKWEEV  499 (589)
Q Consensus       482 --~~~~l~~~~~~~g~~~~a  499 (589)
                        +...+..++.+.|+++++
T Consensus       232 ~~a~~~l~~~~~~~~~~~~~  251 (261)
T 3qky_A          232 RTAEELYTRARQRLTELEGD  251 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhhhh
Confidence              445556666665555443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.13  E-value=6.2e-09  Score=96.23  Aligned_cols=138  Identities=7%  Similarity=-0.158  Sum_probs=63.7

Q ss_pred             HHHHhcCCHHHHHHHHhhcCCCCee-hHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHH
Q 048179          220 DMYAKTGHLDLASHVFKNMSRINIV-TWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGK  298 (589)
Q Consensus       220 ~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~  298 (589)
                      .-.+-.|.+..++.-..++...+.. .-.-+.++|...|+++..         ..-.|....+..+...+ ..+    +.
T Consensus        21 kn~fy~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~----a~   86 (310)
T 3mv2_B           21 KQNYYTGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK----NI   86 (310)
T ss_dssp             HHHHTTTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT----CC
T ss_pred             HHHHHhhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc----HH
Confidence            3445568888887766555432222 222244677777776642         11233332332222222 111    34


Q ss_pred             HHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCC-----ChhHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048179          299 SIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSR-----DLISWNVIIASYGIHGHGEEALSLFLQMIE  371 (589)
Q Consensus       299 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  371 (589)
                      ..++......+++......+..++...|++++|++++.+....     +...+..++..+.+.|+.+.|.+.+++|.+
T Consensus        87 ~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~  164 (310)
T 3mv2_B           87 EELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN  164 (310)
T ss_dssp             HHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            4444444211233333344555555555555555555544221     223444445555555555555555555544

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.12  E-value=8.3e-10  Score=117.03  Aligned_cols=169  Identities=8%  Similarity=-0.063  Sum_probs=136.3

Q ss_pred             HhcCCHHHHHHHHHhcC--------C---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC
Q 048179          323 SKCGVPSCARALFDQMQ--------S---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHS  391 (589)
Q Consensus       323 ~~~g~~~~A~~~~~~~~--------~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~  391 (589)
                      ...|++++|.+.|++..        +   .+...|..+...+...|++++|+..|++..+.. +-+...+..+..++...
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            66788999999888775        2   456778888888999999999999999988763 33566788888888999


Q ss_pred             CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHH
Q 048179          392 GLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVA  469 (589)
Q Consensus       392 g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~  469 (589)
                      |++++|...|+++.+.  -+.+...+..+..+|.+.|++++ ++.|++.. ..| +...|..+..++...|++++|++.+
T Consensus       481 g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999998863  23347788889999999999999 88888863 244 5678888889999999999999999


Q ss_pred             HHHhccCCCCchhHHHHHHHHHhCCC
Q 048179          470 KKVLKLNPDDLGIHALVSNFFAMEQK  495 (589)
Q Consensus       470 ~~~~~~~p~~~~~~~~l~~~~~~~g~  495 (589)
                      +++++++|+++.++..++.+|...|+
T Consensus       558 ~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HhhcccCcccHHHHHHHHHHHHccCC
Confidence            99999999999999999999877665

>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=99.12  E-value=1.4e-09  Score=88.82  Aligned_cols=126  Identities=12%  Similarity=0.162  Sum_probs=84.0

Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhc
Q 048179          382 ASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNH  459 (589)
Q Consensus       382 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~  459 (589)
                      ..+...+...|++++|..+++.+.+.  .+.+...+..++..+...|++++|.+.++++..  +.+...|..+...+...
T Consensus         5 ~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~   82 (136)
T 2fo7_A            5 YNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQ   82 (136)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHh
Confidence            34444455555555555555555442  122344555556666666666666666665421  23455667777778888


Q ss_pred             CCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          460 KKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       460 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      |++++|...++++++..|+++..+..++.+|...|++++|.+.++++.+.
T Consensus        83 ~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           83 GDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            88888888888888888888888888888888888888888888887653

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.10  E-value=2.5e-08  Score=92.21  Aligned_cols=240  Identities=8%  Similarity=0.014  Sum_probs=153.8

Q ss_pred             HHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHH
Q 048179          251 SGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSC  330 (589)
Q Consensus       251 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  330 (589)
                      .-..-.|++..++.-...+..   ........-+.+++...|.....        ..-.|.......+. .|...+    
T Consensus        21 kn~fy~G~yq~~i~e~~~~~~---~~~~~~~~~~~Rs~iAlg~~~~~--------~~~~~~~~a~~~la-~~~~~~----   84 (310)
T 3mv2_B           21 KQNYYTGNFVQCLQEIEKFSK---VTDNTLLFYKAKTLLALGQYQSQ--------DPTSKLGKVLDLYV-QFLDTK----   84 (310)
T ss_dssp             HHHHTTTCHHHHTHHHHTSSC---CCCHHHHHHHHHHHHHTTCCCCC--------CSSSTTHHHHHHHH-HHHTTT----
T ss_pred             HHHHHhhHHHHHHHHHHhcCc---cchHHHHHHHHHHHHHcCCCccC--------CCCCHHHHHHHHHH-HHhccc----
Confidence            334557888877763333221   12223333445666666655431        11222222333333 333322    


Q ss_pred             HHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Q 048179          331 ARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKP-DHSTFASLLSALSHSGLVEEGRYWFDLMVS  406 (589)
Q Consensus       331 A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  406 (589)
                      |...|++...   ++..++..+..++...|++++|++++.+.+..+..+ +...+..++..+.+.|+.+.|.+.++.|.+
T Consensus        85 a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~  164 (310)
T 3mv2_B           85 NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN  164 (310)
T ss_dssp             CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            6777776653   445556677778888899999999888876655322 345677778888888999999999988875


Q ss_pred             hcCCCC-----ChhhHHHHHHH--HHHcC--CHHHHHHHHHhcCCC-CChhHHHHHHHHHHhcCCchHHHHHHHHHhcc-
Q 048179          407 KYKIQP-----TEKHYACMVDL--LARAG--EVEEALKIVDSMSTE-PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKL-  475 (589)
Q Consensus       407 ~~~~~p-----~~~~~~~l~~~--~~~~g--~~~~A~~~~~~~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  475 (589)
                      .   .|     +..+...|..+  ....|  +..+|..+|+++..+ |+..+-..+++++...|++++|++.++.+.+. 
T Consensus       165 ~---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          165 A---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             H---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             c---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            3   45     23444445544  33334  888999999888544 55334445555788889999999998887776 


Q ss_pred             ---------CCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048179          476 ---------NPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       476 ---------~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  511 (589)
                               +|+++.++..++.+....|+  +|.++++++.+..+
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P  284 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDH  284 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTC
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCC
Confidence                     48888888888888888887  88888888887543

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.10  E-value=2.8e-10  Score=95.41  Aligned_cols=122  Identities=12%  Similarity=-0.024  Sum_probs=102.4

Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcC
Q 048179          384 LLSALSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHK  460 (589)
Q Consensus       384 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~  460 (589)
                      |...+...|++++|+..++....   ..|+ ...+..+..+|.+.|++++|++.|++.. ..| +..+|..+..++...|
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~---~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~   79 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTP---SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEE   79 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSC---SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHcChHHHHHHHHHHhcc---cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            44556777899999999998764   3444 5566789999999999999999999973 344 6778999999999999


Q ss_pred             CchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHH-HHHHHh
Q 048179          461 KFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGV-RKTMRK  508 (589)
Q Consensus       461 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~-~~~m~~  508 (589)
                      ++++|+..++++++++|+++.++..++.+|.+.|++++|.+. ++++.+
T Consensus        80 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~  128 (150)
T 4ga2_A           80 NTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAK  128 (150)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999887765 577765

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.06  E-value=4.2e-09  Score=98.97  Aligned_cols=174  Identities=11%  Similarity=0.016  Sum_probs=136.4

Q ss_pred             HHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcC
Q 048179          330 CARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYK  409 (589)
Q Consensus       330 ~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  409 (589)
                      .....+......+...+..+...+...|++++|+..|++..+.. +-+...+..+...+...|++++|...++.+...  
T Consensus       104 ~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--  180 (287)
T 3qou_A          104 AIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--  180 (287)
T ss_dssp             HHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--
T ss_pred             HHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--
Confidence            34444444444445566777788889999999999999988864 335667888888999999999999999988743  


Q ss_pred             CCCChhhHH-HHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCC--chhHH
Q 048179          410 IQPTEKHYA-CMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD--LGIHA  484 (589)
Q Consensus       410 ~~p~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~--~~~~~  484 (589)
                       .|+..... .....+.+.++.++|.+.+++.. ..| +...+..+...+...|++++|+..++++++.+|++  ..++.
T Consensus       181 -~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~  259 (287)
T 3qou_A          181 -DQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRX  259 (287)
T ss_dssp             -GCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHH
T ss_pred             -hcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHH
Confidence             45543332 23334667788888888888763 244 57788999999999999999999999999999988  88999


Q ss_pred             HHHHHHHhCCChHHHHHHHHHHH
Q 048179          485 LVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       485 ~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      .++.+|...|+.++|...+++..
T Consensus       260 ~l~~~~~~~g~~~~a~~~~r~al  282 (287)
T 3qou_A          260 TFQEILAALGTGDALASXYRRQL  282 (287)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHH
Confidence            99999999999999998887754

>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=5.4e-09  Score=85.30  Aligned_cols=131  Identities=15%  Similarity=0.246  Sum_probs=104.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 048179          345 SWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLL  424 (589)
Q Consensus       345 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  424 (589)
                      .|..+...+...|++++|+.+++++.+.. +.+...+..+...+...|++++|..+++.+...  .+.+...+..+...+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCchHHHHHHHHHH
Confidence            56677778888888888888888887764 345667777788888888999999988888764  234566778888888


Q ss_pred             HHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCC
Q 048179          425 ARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPD  478 (589)
Q Consensus       425 ~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  478 (589)
                      ...|++++|.+.++++..  +.+..++..+...+...|++++|...++++++.+|+
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR  135 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCC
Confidence            999999999988888632  235677888888899999999999999999988885

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.05  E-value=1.1e-08  Score=91.20  Aligned_cols=172  Identities=10%  Similarity=0.019  Sum_probs=139.1

Q ss_pred             HHHHHHhcCC-CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC----cHHHHHHHHHHHH
Q 048179          331 ARALFDQMQS-RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSG----LVEEGRYWFDLMV  405 (589)
Q Consensus       331 A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g----~~~~a~~~~~~~~  405 (589)
                      |.+.|++..+ .++.++..+...|...+++++|+..|++..+.|   +...+..|...|.. +    ++++|..+|+...
T Consensus         5 A~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            4444544432 566778888888888899999999999988865   45666777777777 6    8999999999987


Q ss_pred             HhcCCCCChhhHHHHHHHHHH----cCCHHHHHHHHHhcCCCCC----hhHHHHHHHHHHh----cCCchHHHHHHHHHh
Q 048179          406 SKYKIQPTEKHYACMVDLLAR----AGEVEEALKIVDSMSTEPG----LAVWVALLSGCHN----HKKFSIGEKVAKKVL  473 (589)
Q Consensus       406 ~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~----~~~~~~l~~~~~~----~~~~~~a~~~~~~~~  473 (589)
                      +.    .+...+..|..+|..    .+++++|+++|++.....+    ..++..|...|..    .+|+++|+..++++.
T Consensus        81 ~~----g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~  156 (212)
T 3rjv_A           81 EA----GSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSS  156 (212)
T ss_dssp             HT----TCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHH
T ss_pred             HC----CCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            63    356778888888887    8899999999999865433    7888899998888    889999999999999


Q ss_pred             ccCCCCchhHHHHHHHHHhC-C-----ChHHHHHHHHHHHhCCC
Q 048179          474 KLNPDDLGIHALVSNFFAME-Q-----KWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       474 ~~~p~~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~m~~~g~  511 (589)
                      +. |.++.++..|+.+|... |     ++++|...+++..+.|.
T Consensus       157 ~~-~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          157 SL-SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HT-SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             Hc-CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            88 66788999999999864 3     89999999999988664

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.04  E-value=1.6e-09  Score=90.31  Aligned_cols=102  Identities=9%  Similarity=-0.011  Sum_probs=90.1

Q ss_pred             CCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHH
Q 048179          409 KIQPT-EKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHAL  485 (589)
Q Consensus       409 ~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  485 (589)
                      .+.|+ ...+..+...+.+.|++++|++.|++.. ..| +...|..+..++...|++++|+..++++++++|+++.+|..
T Consensus        30 ~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~  109 (151)
T 3gyz_A           30 AIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFH  109 (151)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHH
Confidence            34454 5677788899999999999999999873 244 67789999999999999999999999999999999999999


Q ss_pred             HHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          486 VSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       486 l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      ++.+|...|++++|.+.+++..+..
T Consensus       110 lg~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          110 TGQCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999999998744

>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=99.02  E-value=6.8e-09  Score=97.07  Aligned_cols=165  Identities=12%  Similarity=0.081  Sum_probs=104.2

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHHhcCC-------C----ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHc------CC
Q 048179          312 LVLGTSVIDMYSKCGVPSCARALFDQMQS-------R----DLISWNVIIASYGIHGHGEEALSLFLQMIET------MV  374 (589)
Q Consensus       312 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------~~  374 (589)
                      ..++..+...|...|++++|...|++..+       +    ...++..+...|...|++++|+..|++..+.      +-
T Consensus        85 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  164 (283)
T 3edt_B           85 AATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPD  164 (283)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTT
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCC
Confidence            34455666666667777777666665532       1    2346777788888888888888888888764      11


Q ss_pred             CCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc------CCCCC-hhhHHHHHHHHHHcC------CHHHHHHHHHhc
Q 048179          375 KPD-HSTFASLLSALSHSGLVEEGRYWFDLMVSKY------KIQPT-EKHYACMVDLLARAG------EVEEALKIVDSM  440 (589)
Q Consensus       375 ~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~------~~~p~-~~~~~~l~~~~~~~g------~~~~A~~~~~~~  440 (589)
                      .|+ ..++..+..++...|++++|..+++++.+..      ...+. ...+..+...+...+      .+.++...++..
T Consensus       165 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (283)
T 3edt_B          165 DPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKAC  244 (283)
T ss_dssp             CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CC
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhc
Confidence            232 4577788888999999999999998887531      11222 333444444443333      344455555554


Q ss_pred             CCC-C-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccC
Q 048179          441 STE-P-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLN  476 (589)
Q Consensus       441 ~~~-p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  476 (589)
                      ... | ...++..+...+...|++++|...++++++..
T Consensus       245 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  282 (283)
T 3edt_B          245 KVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRNR  282 (283)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            432 3 34578888899999999999999999998753

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.02  E-value=3.3e-09  Score=85.68  Aligned_cols=95  Identities=6%  Similarity=0.089  Sum_probs=64.4

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA  491 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  491 (589)
                      ...+......|.+.|++++|++.|++.. ..| +..+|..+..++...|++++|+..++++++++|+++.+|..+|.+|.
T Consensus        13 a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           13 AQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            3445556666667777777777666642 223 45566667777777777777777777777777777777777777777


Q ss_pred             hCCChHHHHHHHHHHHh
Q 048179          492 MEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       492 ~~g~~~~a~~~~~~m~~  508 (589)
                      ..|++++|.+.+++..+
T Consensus        93 ~~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQ  109 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            77777777777776665

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.00  E-value=2.7e-09  Score=92.20  Aligned_cols=156  Identities=10%  Similarity=0.077  Sum_probs=94.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHH-HHHc
Q 048179          349 IIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDL-LARA  427 (589)
Q Consensus       349 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~  427 (589)
                      ....+...|++++|+..|++..+.. +.+...+..+..++...|++++|...|+.+.+.   .|+...+..+... +...
T Consensus        12 ~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~~~~~~~~~   87 (176)
T 2r5s_A           12 QVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLE---YQDNSYKSLIAKLELHQQ   87 (176)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG---GCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc---cCChHHHHHHHHHHHHhh
Confidence            3344455555555555555544431 223344555555555555556555555555432   2222222211111 1111


Q ss_pred             CCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCC--chhHHHHHHHHHhCCChHHHHHHH
Q 048179          428 GEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD--LGIHALVSNFFAMEQKWEEVAGVR  503 (589)
Q Consensus       428 g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~a~~~~  503 (589)
                      +...+|...+++.. ..| +...+..+..++...|++++|+..++++++.+|+.  +..+..++.+|...|+.++|...+
T Consensus        88 ~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y  167 (176)
T 2r5s_A           88 AAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKY  167 (176)
T ss_dssp             HTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHH
T ss_pred             cccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHH
Confidence            22233555565542 234 46778888888999999999999999999998865  558889999999999999999888


Q ss_pred             HHHHh
Q 048179          504 KTMRK  508 (589)
Q Consensus       504 ~~m~~  508 (589)
                      ++...
T Consensus       168 ~~al~  172 (176)
T 2r5s_A          168 RRQLY  172 (176)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87653

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.00  E-value=5.1e-09  Score=108.98  Aligned_cols=160  Identities=10%  Similarity=0.011  Sum_probs=124.4

Q ss_pred             cCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHH
Q 048179          325 CGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWF  401 (589)
Q Consensus       325 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~  401 (589)
                      .|++++|.+.|++..+   .+...|..+...+...|++++|++.|++..+.. +.+...+..+..++...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4788999999998875   356789999999999999999999999998863 335678889999999999999999999


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhc---CCchHHHHHHHHHhccC
Q 048179          402 DLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNH---KKFSIGEKVAKKVLKLN  476 (589)
Q Consensus       402 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~  476 (589)
                      +++.+.  .+.+...+..+..+|.+.|++++|.+.+++.. ..| +...+..+..++...   |++++|.+.++++++.+
T Consensus        81 ~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            999874  23447788999999999999999999999873 234 567888899999999   99999999999999999


Q ss_pred             CCCchhHHHHH
Q 048179          477 PDDLGIHALVS  487 (589)
Q Consensus       477 p~~~~~~~~l~  487 (589)
                      |++...+..++
T Consensus       159 p~~~~~~~~l~  169 (568)
T 2vsy_A          159 VGAVEPFAFLS  169 (568)
T ss_dssp             CCCSCHHHHTT
T ss_pred             CcccChHHHhC
Confidence            99998888776

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.99  E-value=1.6e-09  Score=90.50  Aligned_cols=97  Identities=5%  Similarity=-0.011  Sum_probs=86.3

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA  491 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  491 (589)
                      ...+..+...+.+.|++++|...|++.. ..| +...|..+..+|...|++++|+..++++++++|+++..+..++.+|.
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~  100 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECLL  100 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence            5667778889999999999999998863 234 67789999999999999999999999999999999999999999999


Q ss_pred             hCCChHHHHHHHHHHHhCC
Q 048179          492 MEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       492 ~~g~~~~a~~~~~~m~~~g  510 (589)
                      ..|++++|.+.+++..+..
T Consensus       101 ~~g~~~~A~~~~~~al~~~  119 (148)
T 2vgx_A          101 QXGELAEAESGLFLAQELI  119 (148)
T ss_dssp             HTTCHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHC
Confidence            9999999999999987643

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.98  E-value=1.1e-08  Score=90.94  Aligned_cols=158  Identities=8%  Similarity=0.023  Sum_probs=114.3

Q ss_pred             HHHhHhcCCHHHHHHHHHhcCCC---ChhHHHH----------------HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH
Q 048179          319 IDMYSKCGVPSCARALFDQMQSR---DLISWNV----------------IIASYGIHGHGEEALSLFLQMIETMVKPDHS  379 (589)
Q Consensus       319 ~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~----------------li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  379 (589)
                      ...+...|++++|...|++..+.   +...|..                +..+|...|++++|+..|++.++.. +-+..
T Consensus        11 g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~   89 (208)
T 3urz_A           11 VSAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-PNNVD   89 (208)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHH
Confidence            34455566666666666665431   2234444                8888999999999999999998864 34567


Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC--HHHHHHHHHhcCC-CCChhHHHHHHHHH
Q 048179          380 TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGE--VEEALKIVDSMST-EPGLAVWVALLSGC  456 (589)
Q Consensus       380 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~-~p~~~~~~~l~~~~  456 (589)
                      .+..+..++...|++++|...|+++.+.  -+.+...+..+..+|...|+  .+.+...++.... .|....+..+..++
T Consensus        90 ~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~g~~~  167 (208)
T 3urz_A           90 CLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTKMQYARYRDGLSK  167 (208)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCchhHHHHHHHHHH
Confidence            8888999999999999999999999864  23347788888888876654  4455666666543 23334555666777


Q ss_pred             HhcCCchHHHHHHHHHhccCCCC
Q 048179          457 HNHKKFSIGEKVAKKVLKLNPDD  479 (589)
Q Consensus       457 ~~~~~~~~a~~~~~~~~~~~p~~  479 (589)
                      ...|++++|+..+++++++.|++
T Consensus       168 ~~~~~~~~A~~~~~~al~l~P~~  190 (208)
T 3urz_A          168 LFTTRYEKARNSLQKVILRFPST  190 (208)
T ss_dssp             HHHHTHHHHHHHHHHHTTTSCCH
T ss_pred             HHccCHHHHHHHHHHHHHhCCCH
Confidence            88899999999999999999963

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.96  E-value=5.9e-07  Score=90.77  Aligned_cols=99  Identities=7%  Similarity=0.000  Sum_probs=61.5

Q ss_pred             CC-CchhHHHHHHHHHHCCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCC-hHHHH
Q 048179           54 KE-SPFEVLGLYNQMIKEDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGK-MNEAM  131 (589)
Q Consensus        54 ~g-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~-~~~A~  131 (589)
                      .| +.+.|..+|+.+...  -|.              ++++.+..+|+..+..  .|++..|...+....+.+. .+...
T Consensus         7 ~~~~i~~aR~vyer~l~~--~P~--------------~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~   68 (493)
T 2uy1_A            7 MGVELSSPSAIMEHARRL--YMS--------------KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLY   68 (493)
T ss_dssp             -----CCHHHHHHHHHHH--HHT--------------TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTH
T ss_pred             cCcchHHHHHHHHHHHHH--CCC--------------CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHH
Confidence            45 377778888777654  233              7888888888888774  4688888888777766653 34455


Q ss_pred             HHHHhcCC------CCcchHHHHHHHHH----hCCCccHHHHHHHHHHH
Q 048179          132 VAFEKMQR------KDLVCWSSMINGLV----FNGQPREAVDAYKRMKK  170 (589)
Q Consensus       132 ~~~~~~~~------~~~~~~~~li~~~~----~~g~~~~A~~~~~~m~~  170 (589)
                      .+|+....      .+...|...+..+.    .+++.+.+.++|++.+.
T Consensus        69 ~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~  117 (493)
T 2uy1_A           69 EVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQ  117 (493)
T ss_dssp             HHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHh
Confidence            56655431      24456666666543    23556677778887776

>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=98.91  E-value=3.5e-08  Score=104.57  Aligned_cols=191  Identities=11%  Similarity=0.041  Sum_probs=149.2

Q ss_pred             hccCchhhHHHHHHHHh--------hcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcC
Q 048179          289 AQIGFLKLGKSIHGYTV--------RRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHG  357 (589)
Q Consensus       289 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g  357 (589)
                      ...|+.+.|...++.+.        ...+.+...+..+...|...|++++|...|+++.+   .+...|..+..++...|
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            66778888888888777        55677788889999999999999999999998874   46788999999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHH
Q 048179          358 HGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIV  437 (589)
Q Consensus       358 ~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  437 (589)
                      ++++|+..|++..+.. +-+...+..+..++...|++++ ...|+++.+.  -+.+...|..+..+|.+.|++++|++.|
T Consensus       482 ~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          482 DYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWST--NDGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHh--CCchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999999864 3356788889999999999999 9999999864  2334778999999999999999999999


Q ss_pred             HhcC-CCCC-hhHHHHHHHHHHhcCC-----chHHHHHHHHHhccCCCCchhH
Q 048179          438 DSMS-TEPG-LAVWVALLSGCHNHKK-----FSIGEKVAKKVLKLNPDDLGIH  483 (589)
Q Consensus       438 ~~~~-~~p~-~~~~~~l~~~~~~~~~-----~~~a~~~~~~~~~~~p~~~~~~  483 (589)
                      ++.. ..|+ ...|..+..++...++     .+...++.+.+.++.++++...
T Consensus       558 ~~al~l~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~~~~~~~~~~  610 (681)
T 2pzi_A          558 DEVPPTSRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEALPPTEPRVL  610 (681)
T ss_dssp             HTSCTTSTTHHHHHHHHHHHTC-------CCHHHHHHHHHHHHTSCTTSTTHH
T ss_pred             HhhcccCcccHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhhCCCCcHHHH
Confidence            9985 3565 5677788888766555     2344444455555555555443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.91  E-value=1.6e-08  Score=81.52  Aligned_cols=114  Identities=12%  Similarity=0.122  Sum_probs=95.0

Q ss_pred             CCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CC-CChhHHH
Q 048179          374 VKPDH-STFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TE-PGLAVWV  450 (589)
Q Consensus       374 ~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-p~~~~~~  450 (589)
                      +.|+. ..+......+.+.|++++|++.|+++.+.  -+.+...|..+..+|.+.|++++|++.+++.. .. .+...|.
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~   85 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYI   85 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHH
Confidence            44543 46677788888999999999999998863  23457888889999999999999999998863 23 4577899


Q ss_pred             HHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHH
Q 048179          451 ALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNF  489 (589)
Q Consensus       451 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  489 (589)
                      .+..++...|++++|++.++++++++|+++.++..|+.+
T Consensus        86 ~lg~~~~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~  124 (126)
T 4gco_A           86 RKAACLVAMREWSKAQRAYEDALQVDPSNEEAREGVRNC  124 (126)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHh
Confidence            999999999999999999999999999999998888765

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.90  E-value=3.2e-08  Score=88.27  Aligned_cols=124  Identities=9%  Similarity=-0.015  Sum_probs=83.3

Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-C-CCChhHHHHHHHHHHhc
Q 048179          382 ASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-T-EPGLAVWVALLSGCHNH  459 (589)
Q Consensus       382 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~p~~~~~~~l~~~~~~~  459 (589)
                      ..+...+...|++++|...|+.+.     .|+...+..+..+|.+.|++++|++.+++.. . +.+...|..+..++...
T Consensus        10 ~~~g~~~~~~~~~~~A~~~~~~a~-----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~~   84 (213)
T 1hh8_A           10 WNEGVLAADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQT   84 (213)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHc-----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHc
Confidence            344445556666666666665542     3455566666666666666666666666642 1 23455667777777777


Q ss_pred             CCchHHHHHHHHHhccCCCCc----------------hhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          460 KKFSIGEKVAKKVLKLNPDDL----------------GIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       460 ~~~~~a~~~~~~~~~~~p~~~----------------~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      |++++|++.+++++++.|++.                .++..++.+|...|++++|.+.++++.+..
T Consensus        85 ~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           85 EKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             TCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             ccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            777777777777777776665                778888888888888888888888777644

>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=98.90  E-value=2.2e-08  Score=104.21  Aligned_cols=146  Identities=12%  Similarity=-0.058  Sum_probs=67.2

Q ss_pred             CchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHH
Q 048179          292 GFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQ  368 (589)
Q Consensus       292 ~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~  368 (589)
                      |+.+.|...++.+....+.+...+..+...|...|++++|.+.|++..+   .+...|..+...|...|++++|++.|++
T Consensus         3 g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~   82 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLLQQ   82 (568)
T ss_dssp             ------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            4445555555555544444455555555555555555555555555433   2334555555555555555555555555


Q ss_pred             HHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHc---CCHHHHHHHHHhc
Q 048179          369 MIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARA---GEVEEALKIVDSM  440 (589)
Q Consensus       369 m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---g~~~~A~~~~~~~  440 (589)
                      ..+.. +.+...+..+..++...|++++|.+.|+++.+.  .+.+...+..+..++...   |+.++|.+.+++.
T Consensus        83 al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           83 ASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQL--LPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            55542 223445555555555555555555555555542  122244455555555555   5555555555554

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.90  E-value=2e-08  Score=89.29  Aligned_cols=160  Identities=13%  Similarity=0.043  Sum_probs=122.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHH----------------HHHHHhcCCcHHHHHHHHHHHHHhc
Q 048179          346 WNVIIASYGIHGHGEEALSLFLQMIETMVKPD-HSTFAS----------------LLSALSHSGLVEEGRYWFDLMVSKY  408 (589)
Q Consensus       346 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~t~~~----------------ll~a~~~~g~~~~a~~~~~~~~~~~  408 (589)
                      +-.....+...|++++|+..|++..+.  .|+ ...+..                +..++...|++++|...|+.+.+. 
T Consensus         7 ~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-   83 (208)
T 3urz_A            7 MLQKVSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK-   83 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-
Confidence            344456678899999999999999886  344 445666                888999999999999999999874 


Q ss_pred             CCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCC--chHHHHHHHHHhccCCCCchhHH
Q 048179          409 KIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKK--FSIGEKVAKKVLKLNPDDLGIHA  484 (589)
Q Consensus       409 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~p~~~~~~~  484 (589)
                       -+.+...+..+..+|...|++++|++.|++.. ..| +..+|..+..++...|+  .+.+...++++....|. ...+.
T Consensus        84 -~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~a~~  161 (208)
T 3urz_A           84 -APNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTKM-QYARY  161 (208)
T ss_dssp             -CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCHH-HHHHH
T ss_pred             -CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCch-hHHHH
Confidence             23457889999999999999999999999973 345 57788888888766654  45556667666544332 23566


Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          485 LVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       485 ~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      .++.++...|++++|...+++..+..
T Consensus       162 ~~g~~~~~~~~~~~A~~~~~~al~l~  187 (208)
T 3urz_A          162 RDGLSKLFTTRYEKARNSLQKVILRF  187 (208)
T ss_dssp             HHHHHHHHHHTHHHHHHHHHHHTTTS
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            67888999999999999999988643

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.88  E-value=6.4e-08  Score=90.83  Aligned_cols=134  Identities=7%  Similarity=-0.017  Sum_probs=113.5

Q ss_pred             CCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CCChhHHHHHH
Q 048179          375 KPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-EPGLAVWVALL  453 (589)
Q Consensus       375 ~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~  453 (589)
                      +.+...+..+...+...|++++|...|+.+.+.  -+.+...+..+..++.+.|++++|...++++.. .|+........
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~  191 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQL--SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVA  191 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHH
Confidence            344556777888899999999999999999864  234578889999999999999999999999854 57665444433


Q ss_pred             H-HHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          454 S-GCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       454 ~-~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      . .+...++.+.|+..++++++.+|+++..+..++.+|...|++++|...++++.+..
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~  249 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXD  249 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc
Confidence            3 37788899999999999999999999999999999999999999999999998744

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.87  E-value=5.6e-07  Score=84.11  Aligned_cols=191  Identities=10%  Similarity=0.097  Sum_probs=119.7

Q ss_pred             HHHHHHHhHhcC--CHHHHHHHHHhcCC---CChhHHHHHHHHH----Hhc---CCHHHHHHHHHHHHHcCCCCCHHHHH
Q 048179          315 GTSVIDMYSKCG--VPSCARALFDQMQS---RDLISWNVIIASY----GIH---GHGEEALSLFLQMIETMVKPDHSTFA  382 (589)
Q Consensus       315 ~~~l~~~~~~~g--~~~~A~~~~~~~~~---~~~~~~~~li~~~----~~~---g~~~~A~~~~~~m~~~~~~p~~~t~~  382 (589)
                      ++.-...+...|  +++++++.++.+..   .+..+|+.-...+    ...   +++++++.+++++.+.. +-|..++.
T Consensus        70 Wn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~-pkny~aW~  148 (306)
T 3dra_A           70 WIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSD-PKNHHVWS  148 (306)
T ss_dssp             HHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence            333334444444  56666666665543   2344555443333    333   56777777777777654 33555665


Q ss_pred             HHHHHHhcCCcHH--HHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC------HHHHHHHHHhcC-CC-CChhHHHHH
Q 048179          383 SLLSALSHSGLVE--EGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGE------VEEALKIVDSMS-TE-PGLAVWVAL  452 (589)
Q Consensus       383 ~ll~a~~~~g~~~--~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~------~~~A~~~~~~~~-~~-p~~~~~~~l  452 (589)
                      .-...+.+.|.++  +++++++.+.+.  -+-|...|+.-..++.+.|+      ++++++.++++. .. -|...|+.+
T Consensus       149 ~R~~vl~~l~~~~~~~EL~~~~~~i~~--d~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~n~SaW~y~  226 (306)
T 3dra_A          149 YRKWLVDTFDLHNDAKELSFVDKVIDT--DLKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQNPSTWNYL  226 (306)
T ss_dssp             HHHHHHHHTTCTTCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCSSCHHHHHHH
T ss_pred             HHHHHHHHhcccChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhCCCCccHHHHH
Confidence            5555556666666  777777777763  23345556655556666665      777777777652 23 366777777


Q ss_pred             HHHHHhcCCchH-HHHHHHHHhccC---CCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          453 LSGCHNHKKFSI-GEKVAKKVLKLN---PDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       453 ~~~~~~~~~~~~-a~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ...+...|+... .....+++++++   |.++.++..++.+|.+.|+.++|.++++.+.+
T Consensus       227 ~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          227 LGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             HHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            777777776433 555677777665   77778888888888888888888888888764

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.87  E-value=1.8e-08  Score=83.35  Aligned_cols=96  Identities=7%  Similarity=-0.022  Sum_probs=84.1

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA  491 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  491 (589)
                      ...+..+...+.+.|++++|...|++.. ..| +...|..+..++...|++++|+..++++++++|+++..+..++.+|.
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Confidence            4556677888889999999999998863 234 67788899999999999999999999999999999999999999999


Q ss_pred             hCCChHHHHHHHHHHHhC
Q 048179          492 MEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       492 ~~g~~~~a~~~~~~m~~~  509 (589)
                      ..|++++|.+.+++..+.
T Consensus        98 ~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            999999999999988763

>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=98.86  E-value=2.9e-07  Score=86.66  Aligned_cols=160  Identities=6%  Similarity=-0.051  Sum_probs=122.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCC-CCCHH----HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hhhHHH
Q 048179          349 IIASYGIHGHGEEALSLFLQMIETMV-KPDHS----TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT----EKHYAC  419 (589)
Q Consensus       349 li~~~~~~g~~~~A~~~~~~m~~~~~-~p~~~----t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~  419 (589)
                      .+..+...|++++|..++++..+... .|+..    .+..+...+...|++++|...|+.+.....-.++    ...++.
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            46677888999999999998876421 22221    2334666777888999999999998873222233    236888


Q ss_pred             HHHHHHHcCCHHHHHHHHHhcC-------CC-CC-hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCC------chhHH
Q 048179          420 MVDLLARAGEVEEALKIVDSMS-------TE-PG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD------LGIHA  484 (589)
Q Consensus       420 l~~~~~~~g~~~~A~~~~~~~~-------~~-p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~  484 (589)
                      +...|...|++++|...++++.       .. +. ..++..+...|...|++++|...+++++++.+..      +.+|.
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            9999999999999999988863       11 22 3478889999999999999999999999875432      67899


Q ss_pred             HHHHHHHhCCC-hHHHHHHHHHHHh
Q 048179          485 LVSNFFAMEQK-WEEVAGVRKTMRK  508 (589)
Q Consensus       485 ~l~~~~~~~g~-~~~a~~~~~~m~~  508 (589)
                      .+|.+|.+.|+ +++|.+.++++..
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            99999999995 6999999988764

>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=98.85  E-value=7.4e-08  Score=91.43  Aligned_cols=219  Identities=10%  Similarity=0.008  Sum_probs=155.7

Q ss_pred             CCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHH
Q 048179          256 NGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALF  335 (589)
Q Consensus       256 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  335 (589)
                      .|++++|.+++++..+.. +..   +      +...++++.|...+..              ....|...|++++|...|
T Consensus         4 ~~~~~eA~~~~~~a~k~~-~~~---~------~~~~~~~~~A~~~~~~--------------a~~~~~~~g~~~~A~~~~   59 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYL-KTS---F------MKWKPDYDSAASEYAK--------------AAVAFKNAKQLEQAKDAY   59 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHH-CCC---S------SSCSCCHHHHHHHHHH--------------HHHHHHHTTCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHc-ccc---c------cCCCCCHHHHHHHHHH--------------HHHHHHHcCCHHHHHHHH
Confidence            567888999988876542 111   0      1114666776666543              356778889999998888


Q ss_pred             HhcCC-----CC----hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC---CCC--HHHHHHHHHHHhcCCcHHHHHHHH
Q 048179          336 DQMQS-----RD----LISWNVIIASYGIHGHGEEALSLFLQMIETMV---KPD--HSTFASLLSALSHSGLVEEGRYWF  401 (589)
Q Consensus       336 ~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~---~p~--~~t~~~ll~a~~~~g~~~~a~~~~  401 (589)
                      .+..+     .+    ..+|+.+...|...|++++|+..|++..+.-.   .|.  ..++..+...|.. |++++|+..|
T Consensus        60 ~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~  138 (307)
T 2ifu_A           60 LQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLY  138 (307)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHH
Confidence            77653     12    34788888899999999999999998765311   122  3567788888888 9999999999


Q ss_pred             HHHHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHhcCC----CCC----hhHHHHHHHHHHhcCCchHHHHHH
Q 048179          402 DLMVSKYKIQPT----EKHYACMVDLLARAGEVEEALKIVDSMST----EPG----LAVWVALLSGCHNHKKFSIGEKVA  469 (589)
Q Consensus       402 ~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p~----~~~~~~l~~~~~~~~~~~~a~~~~  469 (589)
                      ++....+.-..+    ...+..+..+|.+.|++++|++.|++...    .++    ...+..++.++...|++++|...+
T Consensus       139 ~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~  218 (307)
T 2ifu_A          139 QQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCV  218 (307)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            998764211111    45788889999999999999999988632    122    225666777788889999999999


Q ss_pred             HHHhccCCCCchh-----HHHHHHHHHhCCChHHHHH
Q 048179          470 KKVLKLNPDDLGI-----HALVSNFFAMEQKWEEVAG  501 (589)
Q Consensus       470 ~~~~~~~p~~~~~-----~~~l~~~~~~~g~~~~a~~  501 (589)
                      ++++ ++|+....     ...++..+ ..|+.+.+.+
T Consensus       219 ~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          219 RESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            9999 99875432     34455555 5677766655

>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=98.85  E-value=4.8e-08  Score=84.19  Aligned_cols=156  Identities=10%  Similarity=-0.056  Sum_probs=117.9

Q ss_pred             HHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-Hhc
Q 048179          315 GTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSA-LSH  390 (589)
Q Consensus       315 ~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a-~~~  390 (589)
                      ...+...+...|++++|...|++..+   .+...|..+...+...|++++|+..|++.....  |+......+... +..
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHh
Confidence            45566778889999999999999875   466788889999999999999999999887653  344333222111 122


Q ss_pred             CCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCCC---hhHHHHHHHHHHhcCCchHHH
Q 048179          391 SGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM-STEPG---LAVWVALLSGCHNHKKFSIGE  466 (589)
Q Consensus       391 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~---~~~~~~l~~~~~~~~~~~~a~  466 (589)
                      .+...+|...++.+.+.  .+.+...+..+..++...|++++|...|+++ ...|+   ...+..+...+...|+.++|.
T Consensus        87 ~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~  164 (176)
T 2r5s_A           87 QAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIA  164 (176)
T ss_dssp             HHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHH
T ss_pred             hcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHH
Confidence            22233468888888763  2334788889999999999999999999986 34454   558899999999999999999


Q ss_pred             HHHHHHhc
Q 048179          467 KVAKKVLK  474 (589)
Q Consensus       467 ~~~~~~~~  474 (589)
                      ..+++++.
T Consensus       165 ~~y~~al~  172 (176)
T 2r5s_A          165 SKYRRQLY  172 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998764

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.84  E-value=1.4e-06  Score=81.44  Aligned_cols=224  Identities=10%  Similarity=-0.006  Sum_probs=156.9

Q ss_pred             hHHHHHHHHHHhcCCCCCHH-HHHHHHHHHhccC--chhhHHHHHHHHhhcCCCChhHHHHHHHHh----Hhc---CCHH
Q 048179          260 GSTLELLMEMQSCGFEPDSV-SLVSALLACAQIG--FLKLGKSIHGYTVRRFDFNLVLGTSVIDMY----SKC---GVPS  329 (589)
Q Consensus       260 ~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---g~~~  329 (589)
                      ++|+.++.+++..  .|+.. .++.--.++...+  .++.+...++.+....|.+..+|+.-...+    .+.   ++++
T Consensus        50 ~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~~  127 (306)
T 3dra_A           50 ERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDPY  127 (306)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCTH
T ss_pred             HHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCHH
Confidence            4555555555543  33332 2333333344444  555555555555554555555555444444    444   6788


Q ss_pred             HHHHHHHhcCC---CChhHHHHHHHHHHhcCCHH--HHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCc------HHHHH
Q 048179          330 CARALFDQMQS---RDLISWNVIIASYGIHGHGE--EALSLFLQMIETMVKPDHSTFASLLSALSHSGL------VEEGR  398 (589)
Q Consensus       330 ~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~--~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~------~~~a~  398 (589)
                      +++.+++.+.+   ++..+|+--.-.+...|+++  ++++.++++++..+ -|...+..-.....+.+.      +++++
T Consensus       128 ~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~-~N~sAW~~R~~ll~~l~~~~~~~~~~eEl  206 (306)
T 3dra_A          128 REFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDL-KNNSAWSHRFFLLFSKKHLATDNTIDEEL  206 (306)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHSSGGGCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccchhhhHHHHH
Confidence            89998888864   56678888777778888888  99999999998763 456666666666666666      89999


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHH-HHHHHHhcCC-----CCChhHHHHHHHHHHhcCCchHHHHHHHHH
Q 048179          399 YWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEE-ALKIVDSMST-----EPGLAVWVALLSGCHNHKKFSIGEKVAKKV  472 (589)
Q Consensus       399 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~-----~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  472 (589)
                      ++++.+...  .+-|...|+.+..++.+.|+..+ +.++.++...     ..+...+..+...+.+.|+.++|.++++++
T Consensus       207 ~~~~~aI~~--~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l  284 (306)
T 3dra_A          207 NYVKDKIVK--CPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLL  284 (306)
T ss_dssp             HHHHHHHHH--CSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHh--CCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            999998864  34568888888889999888555 5557766532     246778889999999999999999999999


Q ss_pred             hc-cCCCCchhHHHHHH
Q 048179          473 LK-LNPDDLGIHALVSN  488 (589)
Q Consensus       473 ~~-~~p~~~~~~~~l~~  488 (589)
                      .+ .+|-....|...+.
T Consensus       285 ~~~~Dpir~~yW~~~~~  301 (306)
T 3dra_A          285 KSKYNPIRSNFWDYQIS  301 (306)
T ss_dssp             HHTTCGGGHHHHHHHHH
T ss_pred             HhccChHHHHHHHHHHh
Confidence            96 89998888876654

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.84  E-value=1e-07  Score=85.79  Aligned_cols=184  Identities=15%  Similarity=0.081  Sum_probs=131.8

Q ss_pred             HHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCC---hhHHHHHHHHhHhcCCHHHHHHHHHhcCC--CCh----hHHHH
Q 048179          278 SVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFN---LVLGTSVIDMYSKCGVPSCARALFDQMQS--RDL----ISWNV  348 (589)
Q Consensus       278 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~----~~~~~  348 (589)
                      ...+......+...|+++.|...++.+....|.+   ...+..+..+|.+.|++++|...|+++.+  |+.    .++..
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~   83 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHH
Confidence            3455566777889999999999999999544433   45778889999999999999999999864  332    24555


Q ss_pred             HHHHHHh------------------cCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcC
Q 048179          349 IIASYGI------------------HGHGEEALSLFLQMIETMVKPDHS-TFASLLSALSHSGLVEEGRYWFDLMVSKYK  409 (589)
Q Consensus       349 li~~~~~------------------~g~~~~A~~~~~~m~~~~~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  409 (589)
                      +..++..                  .|++++|+..|+++++.  .|+.. .......          ...+...+.    
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~----------l~~~~~~~~----  147 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKR----------LVFLKDRLA----  147 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHH----------HHHHHHHHH----
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHH----------HHHHHHHHH----
Confidence            5555543                  57899999999999875  34432 2211110          001111111    


Q ss_pred             CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CCCh----hHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchh
Q 048179          410 IQPTEKHYACMVDLLARAGEVEEALKIVDSMST-EPGL----AVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGI  482 (589)
Q Consensus       410 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  482 (589)
                           .....+...|.+.|++++|+..|+++.. .|+.    ..+..+..++...|++++|++.++++....|++...
T Consensus       148 -----~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~~~  220 (225)
T 2yhc_A          148 -----KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTLEH  220 (225)
T ss_dssp             -----HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCCCC
T ss_pred             -----HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCchhh
Confidence                 1223567889999999999999998732 3442    468888899999999999999999999988877543

>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=98.83  E-value=3.2e-08  Score=79.91  Aligned_cols=96  Identities=8%  Similarity=0.011  Sum_probs=82.6

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA  491 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  491 (589)
                      ...+..+...+.+.|++++|++.|++.. ..| +...|..+..++...|++++|+..++++++++|+++..+..++.+|.
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            3456677788888899999998888763 233 57788889999999999999999999999999999999999999999


Q ss_pred             hCCChHHHHHHHHHHHhC
Q 048179          492 MEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       492 ~~g~~~~a~~~~~~m~~~  509 (589)
                      ..|++++|.+.+++..+.
T Consensus        84 ~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           84 AVKEYASALETLDAARTK  101 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHh
Confidence            999999999999988763

>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=98.82  E-value=1.4e-08  Score=95.00  Aligned_cols=192  Identities=9%  Similarity=-0.084  Sum_probs=135.3

Q ss_pred             ChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048179          311 NLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSA  387 (589)
Q Consensus       311 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a  387 (589)
                      +...+..+...+.+.|++++|...|++..+   .+...|..+..+|...|++++|+..+++..+.. +.+...+..+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   81 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            445567778888889999999999987753   367788888899999999999999999888753 3346678888889


Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHHHHHHHhcCCchHHH
Q 048179          388 LSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGE  466 (589)
Q Consensus       388 ~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  466 (589)
                      +...|++++|...|+.+.+..   |+ ...+...+....+..+...... .......++......+ ..+ ..|++++|.
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~---p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~l-~~l-~~~~~~~A~  155 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLA---KEQRLNFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSYL-TRL-IAAEREREL  155 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH---HHTTCCCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHHH-HHH-HHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC---ccchhhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHH-HHH-HHHHHHHHH
Confidence            999999999999999887542   22 1122222222222221111111 2222333344443333 333 368999999


Q ss_pred             HHHHHHhccCCCCchhHHHHHHHHHhC-CChHHHHHHHHHHHhC
Q 048179          467 KVAKKVLKLNPDDLGIHALVSNFFAME-QKWEEVAGVRKTMRKS  509 (589)
Q Consensus       467 ~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~~  509 (589)
                      +.++++++++|++......+..++.+. +++++|.++|.++.+.
T Consensus       156 ~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          156 EECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             TTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            999999999999888888888888876 7899999999988653

>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=98.82  E-value=5.2e-08  Score=84.02  Aligned_cols=120  Identities=8%  Similarity=0.083  Sum_probs=94.4

Q ss_pred             hcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-C-CChhHHHHHHHH-HHhcCCc--h
Q 048179          389 SHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-E-PGLAVWVALLSG-CHNHKKF--S  463 (589)
Q Consensus       389 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-p~~~~~~~l~~~-~~~~~~~--~  463 (589)
                      ...|++++|...++...+.  .+.+...+..+..+|...|++++|...+++... . .+...|..+..+ +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchH
Confidence            4567788888888887763  234567788888888888888888888887632 2 356677788888 7788998  9


Q ss_pred             HHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          464 IGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       464 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      +|+..++++++.+|+++..+..++.+|...|++++|...++++.+..
T Consensus        99 ~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           99 QTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            99999999999999999999999999999999999999999988744

>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=98.81  E-value=6.8e-08  Score=82.08  Aligned_cols=127  Identities=10%  Similarity=0.037  Sum_probs=99.4

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CC-CChhHHHHHHHHHH
Q 048179          380 TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TE-PGLAVWVALLSGCH  457 (589)
Q Consensus       380 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-p~~~~~~~l~~~~~  457 (589)
                      .+..+...+...|++++|...|+...+.  .+.+...+..+..++...|++++|.+.+++.. .. .+...|..+..++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            4555666677778888888888877753  23346677778888888888888888887752 23 35678888889999


Q ss_pred             hcCCchHHHHHHHHHhccCCCCchhHHHHHHH--HHhCCChHHHHHHHHHHHh
Q 048179          458 NHKKFSIGEKVAKKVLKLNPDDLGIHALVSNF--FAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       458 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~a~~~~~~m~~  508 (589)
                      ..|++++|...+++++++.|++...+..++.+  +...|++++|.+.++....
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            99999999999999999999998888555444  8889999999999887653

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.81  E-value=3.1e-06  Score=85.51  Aligned_cols=350  Identities=12%  Similarity=0.046  Sum_probs=186.6

Q ss_pred             chHhHHHHhhhcCCChHHHHHHhccCC--CCCcccHHHHHHHHHcCCC-chhHHHHHHHHHHC-CCCC-CcccHHHHHHH
Q 048179           11 NSVGRIIALYGGKNDIVSARKLFEELP--LRGVDTYNSIIIAYSRKES-PFEVLGLYNQMIKE-DVRP-DSSTFTVALKA   85 (589)
Q Consensus        11 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~-~~~p-~~~~~~~ll~~   85 (589)
                      .+|...+..|.. |+++.+..+|+...  .|++..|...+.-..+.++ .+....+|+..... |..| +...|...+..
T Consensus        16 ~vyer~l~~~P~-~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f   94 (493)
T 2uy1_A           16 AIMEHARRLYMS-KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEE   94 (493)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCC-CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHH
Confidence            356666666665 78888888888754  4677788887776666553 45667777776653 4323 44566666655


Q ss_pred             Hh----ccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHh-------------CCChHHHHHHHHhcCC----CCcch
Q 048179           86 CV----SLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVK-------------CGKMNEAMVAFEKMQR----KDLVC  144 (589)
Q Consensus        86 ~~----~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~-------------~g~~~~A~~~~~~~~~----~~~~~  144 (589)
                      +.    ..++.+.++++|+.+++.....-...|......-..             .+.+..|..+++.+..    .+...
T Consensus        95 ~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~~  174 (493)
T 2uy1_A           95 EGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVKN  174 (493)
T ss_dssp             TSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHHH
T ss_pred             HHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHHH
Confidence            43    235677888888888874211111122221111000             0122223333332221    13335


Q ss_pred             HHHHHHHHHhCCC-------ccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHH
Q 048179          145 WSSMINGLVFNGQ-------PREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTS  217 (589)
Q Consensus       145 ~~~li~~~~~~g~-------~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  217 (589)
                      |...+.--..++.       .+.+..+|+++... .+-+...|...+.-+...|+.+.|..+++..+..  +.+...+..
T Consensus       175 W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~-~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~  251 (493)
T 2uy1_A          175 AARLIDLEMENGMKLGGRPHESRMHFIHNYILDS-FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY  251 (493)
T ss_dssp             HHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH
T ss_pred             HHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH
Confidence            5554443222211       23456677777664 2334566666666677778888888888888877  333333332


Q ss_pred             HHHHHHhcCCHHHH-HHHHhhcC--C----------CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHH
Q 048179          218 LVDMYAKTGHLDLA-SHVFKNMS--R----------INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSA  284 (589)
Q Consensus       218 l~~~~~~~g~~~~A-~~~~~~~~--~----------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  284 (589)
                          |....+.++. ..+.+...  .          .....|...+....+.+..+.|..+|.+. .. ...+...|...
T Consensus       252 ----y~~~~e~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~  325 (493)
T 2uy1_A          252 ----YGLVMDEEAVYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYC  325 (493)
T ss_dssp             ----HHHHTTCTHHHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHH
T ss_pred             ----HHhhcchhHHHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHH
Confidence                2221111111 11111110  0          01134555555555566677777777777 22 11233333222


Q ss_pred             HHHHh-ccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHH
Q 048179          285 LLACA-QIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEAL  363 (589)
Q Consensus       285 l~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  363 (589)
                      ...-. ..++.+.|+.+++......+.++..+...++...+.|+.+.|+.+|+++. .....|...+..-...|+.+.+.
T Consensus       326 A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-k~~~lw~~~~~fE~~~G~~~~~r  404 (493)
T 2uy1_A          326 AFIEYYATGSRATPYNIFSSGLLKHPDSTLLKEEFFLFLLRIGDEENARALFKRLE-KTSRMWDSMIEYEFMVGSMELFR  404 (493)
T ss_dssp             HHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-CBHHHHHHHHHHHHHHSCHHHHH
T ss_pred             HHHHHHHCCChHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-HHHHHHHHHHHHHHHCCCHHHHH
Confidence            21111 12357777777777775455555556666776677777777777777764 24556666666656667776666


Q ss_pred             HHHHHHHH
Q 048179          364 SLFLQMIE  371 (589)
Q Consensus       364 ~~~~~m~~  371 (589)
                      .+++++.+
T Consensus       405 ~v~~~~~~  412 (493)
T 2uy1_A          405 ELVDQKMD  412 (493)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66666553

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.79  E-value=1.7e-07  Score=88.30  Aligned_cols=164  Identities=5%  Similarity=-0.082  Sum_probs=122.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hh
Q 048179          345 SWNVIIASYGIHGHGEEALSLFLQMIETMVKPDH-----STFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT----EK  415 (589)
Q Consensus       345 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~  415 (589)
                      .+...+..+...|++++|++.+.+..+.....+.     ..+..+...+...|++++|...++.+.+...-..+    ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            3445566778888999999988887765322111     22344556677888999999999988753211112    34


Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhcC----CCCC-----hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCC------Cc
Q 048179          416 HYACMVDLLARAGEVEEALKIVDSMS----TEPG-----LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPD------DL  480 (589)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~------~~  480 (589)
                      .++.+...|...|++++|...++++.    ..|+     ..++..+...|...|++++|...+++++++.++      -+
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            78888999999999999999998763    1222     257888999999999999999999999976532      25


Q ss_pred             hhHHHHHHHHHhCCChHHH-HHHHHHHHh
Q 048179          481 GIHALVSNFFAMEQKWEEV-AGVRKTMRK  508 (589)
Q Consensus       481 ~~~~~l~~~~~~~g~~~~a-~~~~~~m~~  508 (589)
                      .+|..++.+|.+.|++++| ...+++...
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            7889999999999999999 777877654

>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=3.8e-07  Score=81.20  Aligned_cols=144  Identities=10%  Similarity=-0.052  Sum_probs=79.7

Q ss_pred             HHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHH
Q 048179          316 TSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVE  395 (589)
Q Consensus       316 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~  395 (589)
                      ..+...+...|++++|...|++...++...|..+...+...|++++|+..|++..+.. +.+...+..+..++...|+++
T Consensus        10 ~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~   88 (213)
T 1hh8_A           10 WNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYD   88 (213)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccHH
Confidence            3444555555555555555555555555555555555555555555555555555442 223444555555555555555


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhc
Q 048179          396 EGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLK  474 (589)
Q Consensus       396 ~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  474 (589)
                      +|...|+.+.+...-.+... +       ...|           +...| ...+|..+..++...|++++|...++++++
T Consensus        89 ~A~~~~~~al~~~~~~~~~~-~-------~~~~-----------~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  149 (213)
T 1hh8_A           89 LAIKDLKEALIQLRGNQLID-Y-------KILG-----------LQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  149 (213)
T ss_dssp             HHHHHHHHHHHTTTTCSEEE-C-------GGGT-----------BCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCCCccHHH-H-------HHhc-----------cccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            55555555543211000000 0       0000           01112 235778888889999999999999999999


Q ss_pred             cCCCC
Q 048179          475 LNPDD  479 (589)
Q Consensus       475 ~~p~~  479 (589)
                      +.|++
T Consensus       150 ~~p~~  154 (213)
T 1hh8_A          150 MKSEP  154 (213)
T ss_dssp             TCCSG
T ss_pred             cCccc
Confidence            99976

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.78  E-value=1.1e-07  Score=76.23  Aligned_cols=115  Identities=12%  Similarity=0.176  Sum_probs=87.4

Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHH
Q 048179          378 HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSG  455 (589)
Q Consensus       378 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~  455 (589)
                      ...+..+...+...|++++|...++.+.+.  .+.+...+..+...+.+.|++++|...++++..  +.+..+|..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            345666667777777777777777777653  233466677777888888888888888777632  2356678888888


Q ss_pred             HHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCC
Q 048179          456 CHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQ  494 (589)
Q Consensus       456 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  494 (589)
                      +...|++++|...++++++..|+++..+..++.++...|
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            999999999999999999999999988888888877654

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.77  E-value=7.9e-08  Score=77.75  Aligned_cols=117  Identities=9%  Similarity=0.021  Sum_probs=93.2

Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHH
Q 048179          378 HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSG  455 (589)
Q Consensus       378 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~  455 (589)
                      ...+..+...+...|++++|...|+.+...  .+.+...+..+...+...|++++|.+.+++.. ..| +...|..+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHH
Confidence            445666677777788888888888887763  23356677778888888888888888887763 233 46678888888


Q ss_pred             HHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCCh
Q 048179          456 CHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKW  496 (589)
Q Consensus       456 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  496 (589)
                      +...|++++|...++++++..|+++..+..++.++...|++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999988875

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.77  E-value=7.3e-08  Score=78.34  Aligned_cols=116  Identities=11%  Similarity=0.034  Sum_probs=79.4

Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-C-CChhHHHHHHHH
Q 048179          378 HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-E-PGLAVWVALLSG  455 (589)
Q Consensus       378 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-p~~~~~~~l~~~  455 (589)
                      ...+..+...+...|++++|...|+.+.+.  .+.+...+..+..++...|++++|.+.+++... . .+...|..+..+
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~   93 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKR--NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            345555666666666666666666666542  222455666666666667777777766666421 2 345677777778


Q ss_pred             HHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCC
Q 048179          456 CHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQK  495 (589)
Q Consensus       456 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  495 (589)
                      +...|++++|++.++++++.+|++...+..++.++...|+
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            8888888888888888888888888888888888877654

>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=98.75  E-value=6e-08  Score=92.10  Aligned_cols=196  Identities=9%  Similarity=-0.029  Sum_probs=148.7

Q ss_pred             cCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048179          291 IGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMI  370 (589)
Q Consensus       291 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  370 (589)
                      .|+++.|..+++......+..         .+...++++.|...|.+.           ...|...|++++|...|.+..
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~~---------~~~~~~~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~al   63 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKTS---------FMKWKPDYDSAASEYAKA-----------AVAFKNAKQLEQAKDAYLQEA   63 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCC---------SSSCSCCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcccc---------ccCCCCCHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHHH
Confidence            467778888888776332221         111157888888887654           567888999999999999887


Q ss_pred             HcC----CCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHhcC
Q 048179          371 ETM----VKPD-HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT----EKHYACMVDLLARAGEVEEALKIVDSMS  441 (589)
Q Consensus       371 ~~~----~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~  441 (589)
                      +..    -.+. ..+|..+...|...|++++|...|++..+.+.-..+    ..++..+..+|.+ |++++|++.+++..
T Consensus        64 ~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al  142 (307)
T 2ifu_A           64 EAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAA  142 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHH
Confidence            532    1111 347888889999999999999999988764311111    4567788899988 99999999998863


Q ss_pred             C----CCC----hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCc------hhHHHHHHHHHhCCChHHHHHHHHHHH
Q 048179          442 T----EPG----LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDL------GIHALVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       442 ~----~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      .    ..+    ..++..+...+...|++++|+..+++++++.|++.      ..+..++.++...|++++|...+++..
T Consensus       143 ~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          143 AVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            1    111    45788889999999999999999999998876543      367778889999999999999999887

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.74  E-value=5.9e-08  Score=93.28  Aligned_cols=94  Identities=9%  Similarity=-0.021  Sum_probs=82.1

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CC-CChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSMS-TE-PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA  491 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  491 (589)
                      ...|..+..+|.+.|++++|+..+++.. .. .+...|..+..++...|++++|+..++++++++|+++.++..++.++.
T Consensus       196 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  275 (336)
T 1p5q_A          196 LASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQ  275 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            3578888899999999999999998863 23 367789999999999999999999999999999999999999999999


Q ss_pred             hCCChHHH-HHHHHHHH
Q 048179          492 MEQKWEEV-AGVRKTMR  507 (589)
Q Consensus       492 ~~g~~~~a-~~~~~~m~  507 (589)
                      ..|++++| ...++.|.
T Consensus       276 ~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          276 RIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            99999999 45666664

>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=98.72  E-value=8.2e-07  Score=78.98  Aligned_cols=160  Identities=9%  Similarity=-0.133  Sum_probs=127.7

Q ss_pred             ChhHHHHHHHHhHhcCCHHHHHHHHHhcCC-CChhHHHHHHHHHHhcC----CHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048179          311 NLVLGTSVIDMYSKCGVPSCARALFDQMQS-RDLISWNVIIASYGIHG----HGEEALSLFLQMIETMVKPDHSTFASLL  385 (589)
Q Consensus       311 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g----~~~~A~~~~~~m~~~~~~p~~~t~~~ll  385 (589)
                      ++..+..|..+|...+++++|...|++..+ .+..++..+...|.. +    ++++|+..|++..+.|   +...+..|.
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            455667778888888899999999888765 466777778777777 6    8999999999998765   566777777


Q ss_pred             HHHhc----CCcHHHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHHH----cCCHHHHHHHHHhcCCC-CChhHHHHHH
Q 048179          386 SALSH----SGLVEEGRYWFDLMVSKYKIQPT---EKHYACMVDLLAR----AGEVEEALKIVDSMSTE-PGLAVWVALL  453 (589)
Q Consensus       386 ~a~~~----~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~-p~~~~~~~l~  453 (589)
                      ..+..    .+++++|..+|+...+.   .|+   ...+..|..+|..    .+++++|..+|++.... ++...+..|.
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            78877    88999999999998753   342   6788889999998    88999999999997443 5667788888


Q ss_pred             HHHHhc-C-----CchHHHHHHHHHhccCC
Q 048179          454 SGCHNH-K-----KFSIGEKVAKKVLKLNP  477 (589)
Q Consensus       454 ~~~~~~-~-----~~~~a~~~~~~~~~~~p  477 (589)
                      ..|..- |     |+++|...++++.+..+
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            887643 3     89999999999988764

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.70  E-value=6.5e-08  Score=77.34  Aligned_cols=95  Identities=15%  Similarity=0.127  Sum_probs=83.9

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhC
Q 048179          416 HYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAME  493 (589)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  493 (589)
                      .+..+...+.+.|++++|+..+++.. ..| +...|..+..++...|++++|+..++++++++|+++.++..++.+|...
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            45667788999999999999999873 244 6778999999999999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHhCC
Q 048179          494 QKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       494 g~~~~a~~~~~~m~~~g  510 (589)
                      |++++|...+++..+..
T Consensus        99 g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           99 HNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHC--
T ss_pred             CCHHHHHHHHHHHHHhC
Confidence            99999999999987643

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.68  E-value=1.3e-07  Score=74.04  Aligned_cols=99  Identities=12%  Similarity=0.085  Sum_probs=82.7

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHhcC-C-CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCC--CchhHHHHHH
Q 048179          413 TEKHYACMVDLLARAGEVEEALKIVDSMS-T-EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPD--DLGIHALVSN  488 (589)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~--~~~~~~~l~~  488 (589)
                      +...+..+...+.+.|++++|...+++.. . +.+...|..+...+...|++++|...++++++..|+  ++..+..++.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            35667778888888888888888888763 2 235677888888899999999999999999999999  8999999999


Q ss_pred             HHHhC-CChHHHHHHHHHHHhCCC
Q 048179          489 FFAME-QKWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       489 ~~~~~-g~~~~a~~~~~~m~~~g~  511 (589)
                      +|... |++++|.+.+++..+...
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHhCCHHHHHHHHHHHhhccc
Confidence            99999 999999999998876544

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.67  E-value=1.3e-07  Score=86.34  Aligned_cols=180  Identities=8%  Similarity=-0.037  Sum_probs=126.2

Q ss_pred             hcCCHHHHHHHHHhcCC--C-ChhHHHHH-------HHHHHhcCCHHHHHHHHHHHHHcCCCCCH---------------
Q 048179          324 KCGVPSCARALFDQMQS--R-DLISWNVI-------IASYGIHGHGEEALSLFLQMIETMVKPDH---------------  378 (589)
Q Consensus       324 ~~g~~~~A~~~~~~~~~--~-~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m~~~~~~p~~---------------  378 (589)
                      ..++.+.|.+.|.++..  | ....|..+       ...+...++..+++..+++-.+  +.|+.               
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCcccccc
Confidence            46777888888877764  3 34567766       3455555555555555554433  22221               


Q ss_pred             -------HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCCh----h
Q 048179          379 -------STFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGL----A  447 (589)
Q Consensus       379 -------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~----~  447 (589)
                             .....+...+...|++++|.+.|+.+...   .|+......+...+.+.|++++|+..|+.....|+.    .
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~---~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~  172 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVA---GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGA  172 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCT---TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHH
Confidence                   12233456677889999999999887642   344335566677888999999999999876544433    3


Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHhccC--CC-CchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          448 VWVALLSGCHNHKKFSIGEKVAKKVLKLN--PD-DLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       448 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      .+..+..++...|++++|+..++++..-.  |. .+.....++.++.+.|+.++|...++++..
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a  236 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQT  236 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            67778888999999999999999997533  54 456788899999999999999999998886

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.65  E-value=2.6e-07  Score=84.28  Aligned_cols=136  Identities=9%  Similarity=-0.087  Sum_probs=97.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC--hhhHHHHHHHH
Q 048179          347 NVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT--EKHYACMVDLL  424 (589)
Q Consensus       347 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~  424 (589)
                      -.....+...|++++|.++|+.+...  .|+......+...+.+.+++++|+..|+...+. . .|.  ...+..+..++
T Consensus       106 LayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~-~-d~~~~~~a~~~LG~al  181 (282)
T 4f3v_A          106 MGFAACEAAQGNYADAMEALEAAPVA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW-P-DKFLAGAAGVAHGVAA  181 (282)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTSSCCT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC-S-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc-C-CcccHHHHHHHHHHHH
Confidence            34556677788888888888777654  344434455555777888888888888755431 1 111  23566778888


Q ss_pred             HHcCCHHHHHHHHHhcCCC---CC--hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHH
Q 048179          425 ARAGEVEEALKIVDSMSTE---PG--LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVS  487 (589)
Q Consensus       425 ~~~g~~~~A~~~~~~~~~~---p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  487 (589)
                      .+.|++++|++.|++....   |.  ...+..+..++...|+.++|...|+++++.+|+ +.++..|.
T Consensus       182 ~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL~  248 (282)
T 4f3v_A          182 ANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAALK  248 (282)
T ss_dssp             HHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHHh
Confidence            8999999999998887322   32  346777788889999999999999999999998 76666654

>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=98.65  E-value=2.9e-07  Score=75.33  Aligned_cols=99  Identities=9%  Similarity=0.042  Sum_probs=84.9

Q ss_pred             CChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHH
Q 048179          412 PTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNF  489 (589)
Q Consensus       412 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  489 (589)
                      .+...+..+...+...|++++|...|++.. ..| +...|..+..++...|++++|+..++++++++|+++..+..++.+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   86 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   86 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHH
Confidence            346777888888888888888888888752 233 567888889999999999999999999999999999999999999


Q ss_pred             HHhCCChHHHHHHHHHHHhCC
Q 048179          490 FAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       490 ~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      |...|++++|...++++.+..
T Consensus        87 ~~~~~~~~~A~~~~~~a~~~~  107 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAYSLA  107 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHC
Confidence            999999999999999887643

>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=98.63  E-value=1.2e-07  Score=78.88  Aligned_cols=106  Identities=10%  Similarity=-0.004  Sum_probs=85.3

Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHH
Q 048179          378 HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSG  455 (589)
Q Consensus       378 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~  455 (589)
                      ...+..+...+...|++++|...|+.+...  -+.+...|..+..+|.+.|++++|++.|++.. ..| +...|..+..+
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~   98 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHH
Confidence            345666777888889999999999888763  23457778888889999999999999998863 234 56788888999


Q ss_pred             HHhcCCchHHHHHHHHHhccCCCCchhHHH
Q 048179          456 CHNHKKFSIGEKVAKKVLKLNPDDLGIHAL  485 (589)
Q Consensus       456 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  485 (589)
                      +...|++++|+..+++++++.|+++.....
T Consensus        99 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~  128 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQELIANXPEFXEL  128 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHTTCGGGHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCcCCCcchHH
Confidence            999999999999999999999988766443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.63  E-value=1.9e-07  Score=79.36  Aligned_cols=95  Identities=5%  Similarity=-0.055  Sum_probs=66.3

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA  491 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  491 (589)
                      ...+..+...+.+.|++++|++.|++.. ..| +...|..+..++...|++++|+..++++++++|+++..|..++.+|.
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   90 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLARF   90 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            4455566666667777777777666652 223 55667777777777777777777777777777777777777777777


Q ss_pred             hCCChHHHHHHHHHHHh
Q 048179          492 MEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       492 ~~g~~~~a~~~~~~m~~  508 (589)
                      ..|++++|.+.+++..+
T Consensus        91 ~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           91 DMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HccCHHHHHHHHHHHHH
Confidence            77777777777777665

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.62  E-value=2.8e-07  Score=78.05  Aligned_cols=84  Identities=12%  Similarity=0.045  Sum_probs=71.7

Q ss_pred             hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCceeEEEECCE
Q 048179          446 LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGE  525 (589)
Q Consensus       446 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~  525 (589)
                      ...|..+..++...|++++|+..++++++++|+++.+|..++.+|...|++++|...+++..+.                
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l----------------  126 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN----------------  126 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----------------
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc----------------
Confidence            4578888889999999999999999999999999999999999999999999999999998863                


Q ss_pred             EEEEEecCCCCCChH-HHHHHHHHHHHHHHh
Q 048179          526 LHAFIMEDKSHNQYE-DIVYVLKKLYLEMRA  555 (589)
Q Consensus       526 ~~~f~~~~~~~~~~~-~~~~~~~~l~~~~~~  555 (589)
                                .|... .+...+..+...+++
T Consensus       127 ----------~p~~~~~~~~~l~~~~~~~~~  147 (162)
T 3rkv_A          127 ----------HPAAASVVAREMKIVTERRAE  147 (162)
T ss_dssp             ----------CGGGHHHHHHHHHHHHHHHHH
T ss_pred             ----------CCCCHHHHHHHHHHHHHHHHH
Confidence                      33444 666777777777764

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.62  E-value=3e-07  Score=76.44  Aligned_cols=105  Identities=10%  Similarity=0.018  Sum_probs=88.7

Q ss_pred             CCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHH
Q 048179          374 VKPD-HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWV  450 (589)
Q Consensus       374 ~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~  450 (589)
                      +.|+ ...+..+...+.+.|++++|...|+.+...  -+.+...|..+..+|.+.|++++|++.|++.. ..| +...|.
T Consensus        31 l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~  108 (151)
T 3gyz_A           31 IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY--DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVF  108 (151)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHH
Confidence            3454 346777888899999999999999999864  23458889999999999999999999999873 344 577899


Q ss_pred             HHHHHHHhcCCchHHHHHHHHHhccCCCCc
Q 048179          451 ALLSGCHNHKKFSIGEKVAKKVLKLNPDDL  480 (589)
Q Consensus       451 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  480 (589)
                      .+..++...|++++|+..|++++++.|+++
T Consensus       109 ~lg~~~~~lg~~~eA~~~~~~al~l~~~~~  138 (151)
T 3gyz_A          109 HTGQCQLRLKAPLKAKECFELVIQHSNDEK  138 (151)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCCHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCHH
Confidence            999999999999999999999999999764

>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=98.62  E-value=2e-07  Score=80.35  Aligned_cols=129  Identities=12%  Similarity=0.146  Sum_probs=101.6

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHH-HHHcCCH--
Q 048179          354 GIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDL-LARAGEV--  430 (589)
Q Consensus       354 ~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~g~~--  430 (589)
                      ...|++++|+..+++..+.. +.+...+..+..++...|++++|...|+.+.+..  +.+...+..+..+ +...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcch
Confidence            45678888999998888764 4466788888899999999999999999988642  3456778888888 7789998  


Q ss_pred             HHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHH
Q 048179          431 EEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHAL  485 (589)
Q Consensus       431 ~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  485 (589)
                      ++|...++++. ..| +...|..+...+...|++++|...+++++++.|+++.....
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~  154 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINRTQL  154 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCHHHH
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccHHHH
Confidence            99999998873 234 56788889999999999999999999999999988765443

>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=98.62  E-value=4.2e-08  Score=80.65  Aligned_cols=63  Identities=14%  Similarity=0.013  Sum_probs=58.7

Q ss_pred             hHHHHHHHHHHhcCCchHHHHHHHHHhcc-------CCCCchhH----HHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          447 AVWVALLSGCHNHKKFSIGEKVAKKVLKL-------NPDDLGIH----ALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       447 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~p~~~~~~----~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      ..|..+..++...|++++|+..+++++++       +|+++.+|    ...+.++...|++++|+..+++..+.
T Consensus        58 ~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           58 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            48899999999999999999999999999       99999999    99999999999999999999998763

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.61  E-value=5.2e-07  Score=73.14  Aligned_cols=97  Identities=9%  Similarity=0.073  Sum_probs=88.2

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHH
Q 048179          413 TEKHYACMVDLLARAGEVEEALKIVDSM-STEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFF  490 (589)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  490 (589)
                      +...+..+...+.+.|++++|.+.+++. ...| +..+|..+...+...|++++|+..++++++.+|+++..+..++.+|
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   94 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            3667888999999999999999999986 3344 6778999999999999999999999999999999999999999999


Q ss_pred             HhCCChHHHHHHHHHHHhC
Q 048179          491 AMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       491 ~~~g~~~~a~~~~~~m~~~  509 (589)
                      ...|++++|.+.+++..+.
T Consensus        95 ~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHh
Confidence            9999999999999998763

>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=98.60  E-value=1.8e-07  Score=75.51  Aligned_cols=94  Identities=11%  Similarity=0.062  Sum_probs=74.1

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCc-------hhHHH
Q 048179          415 KHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDL-------GIHAL  485 (589)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-------~~~~~  485 (589)
                      ..+..++..+.+.|++++|++.|++.. ..| +..+|..+..+|...|++++|++.++++++++|++.       .+|..
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            355667788888888888888887752 234 566788888888899999999999999988887654       36777


Q ss_pred             HHHHHHhCCChHHHHHHHHHHHh
Q 048179          486 VSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       486 l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      +|.+|...|++++|++.+++..+
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh
Confidence            88888889999999999888765

>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=98.60  E-value=7.2e-07  Score=70.41  Aligned_cols=108  Identities=9%  Similarity=0.059  Sum_probs=60.8

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHH
Q 048179          380 TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCH  457 (589)
Q Consensus       380 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~  457 (589)
                      .+..+...+...|++++|...|+.+...  .+.+...+..+..++.+.|++++|...+++.. ..| +...|..+..++.
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            3444455555556666666666555542  12234455555555566666666666555542 122 3455566666666


Q ss_pred             hcCCchHHHHHHHHHhccCCCCchhHHHHHHH
Q 048179          458 NHKKFSIGEKVAKKVLKLNPDDLGIHALVSNF  489 (589)
Q Consensus       458 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  489 (589)
                      ..|++++|...++++++.+|+++..+..++.+
T Consensus        84 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  115 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKHEANNPQLKEGLQNM  115 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHh
Confidence            66666666666666666666666666555544

>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=98.60  E-value=3.3e-07  Score=80.59  Aligned_cols=95  Identities=9%  Similarity=0.007  Sum_probs=73.6

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHhcCC-C-CChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHh
Q 048179          415 KHYACMVDLLARAGEVEEALKIVDSMST-E-PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAM  492 (589)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  492 (589)
                      ..+..+..+|.+.|++++|+..+++... . .+..++..+..++...|++++|+..++++++++|+++.++..++.++..
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  168 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNK  168 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHH
Confidence            5677788888899999999988888632 3 3577888899999999999999999999999999999999999999999


Q ss_pred             CCChHHHH-HHHHHHHhC
Q 048179          493 EQKWEEVA-GVRKTMRKS  509 (589)
Q Consensus       493 ~g~~~~a~-~~~~~m~~~  509 (589)
                      .|+.+++. ..++.|...
T Consensus       169 ~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          169 LKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             HHHHHC------------
T ss_pred             HHHHHHHHHHHHHHHhcc
Confidence            98888877 556555443

>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=98.59  E-value=4.3e-07  Score=71.73  Aligned_cols=98  Identities=11%  Similarity=0.088  Sum_probs=87.6

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHH
Q 048179          413 TEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFF  490 (589)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  490 (589)
                      ....+..++..+...|++++|.+.+++.. ..| +...|..+...+...|++++|...++++++..|+++..+..++.+|
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   82 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            34567788899999999999999999873 234 6778889999999999999999999999999999999999999999


Q ss_pred             HhCCChHHHHHHHHHHHhCC
Q 048179          491 AMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       491 ~~~g~~~~a~~~~~~m~~~g  510 (589)
                      ...|++++|.+.+++..+..
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHhhHHHHHHHHHHHHHcC
Confidence            99999999999999988643

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.59  E-value=4.8e-07  Score=79.69  Aligned_cols=153  Identities=11%  Similarity=-0.029  Sum_probs=89.5

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc---CCCC-ChhhHHHHHHHHHHcCCH
Q 048179          355 IHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKY---KIQP-TEKHYACMVDLLARAGEV  430 (589)
Q Consensus       355 ~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~~p-~~~~~~~l~~~~~~~g~~  430 (589)
                      ..|++++|.+.++.+.. .......++..+...+...|++++|...+++.....   +..| ....+..+...+...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            34566666664333322 111233455556666666666666666666655421   1111 134556666677777777


Q ss_pred             HHHHHHHHhcCC----CC-C----hhHHHHHHHHHHhcCCchHHHHHHHHHhccCC--CC----chhHHHHHHHHHhCCC
Q 048179          431 EEALKIVDSMST----EP-G----LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNP--DD----LGIHALVSNFFAMEQK  495 (589)
Q Consensus       431 ~~A~~~~~~~~~----~p-~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p--~~----~~~~~~l~~~~~~~g~  495 (589)
                      ++|.+.+++...    .+ +    ..++..+...+...|++++|+..+++++++.+  .+    ...+..++.+|...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            777766665411    12 1    23466667777788888888888888775432  12    2345778888888888


Q ss_pred             hHHHHHHHHHHHh
Q 048179          496 WEEVAGVRKTMRK  508 (589)
Q Consensus       496 ~~~a~~~~~~m~~  508 (589)
                      +++|.+.+++..+
T Consensus       163 ~~~A~~~~~~al~  175 (203)
T 3gw4_A          163 LLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            8888888877754

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.58  E-value=1.6e-06  Score=81.63  Aligned_cols=162  Identities=10%  Similarity=-0.082  Sum_probs=120.8

Q ss_pred             HHHHHHHHhHhcCCHHHHHHHHHhcCC--C-Ch------hHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC---CCC--HH
Q 048179          314 LGTSVIDMYSKCGVPSCARALFDQMQS--R-DL------ISWNVIIASYGIHGHGEEALSLFLQMIETMV---KPD--HS  379 (589)
Q Consensus       314 ~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~---~p~--~~  379 (589)
                      .+...+..+...|++++|.+.+.+..+  + ..      ..+..+...+...|++++|+..+++..+...   .+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            344567788889999999998876542  1 11      2234455667788999999999999876421   122  34


Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-----hhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CC-------Ch
Q 048179          380 TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-----EKHYACMVDLLARAGEVEEALKIVDSMST-EP-------GL  446 (589)
Q Consensus       380 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-------~~  446 (589)
                      ++..+...|...|++++|..+|+++.+.....|+     ...+..+..+|.+.|++++|++.+++... .+       -.
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            7888999999999999999999998743222222     25788899999999999999999987621 11       15


Q ss_pred             hHHHHHHHHHHhcCCchHH-HHHHHHHhcc
Q 048179          447 AVWVALLSGCHNHKKFSIG-EKVAKKVLKL  475 (589)
Q Consensus       447 ~~~~~l~~~~~~~~~~~~a-~~~~~~~~~~  475 (589)
                      .++..+..++...|++++| ...+++++++
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            6788889999999999999 8889988764

>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=98.57  E-value=4.4e-06  Score=78.50  Aligned_cols=159  Identities=11%  Similarity=-0.060  Sum_probs=120.3

Q ss_pred             HHHHHhHhcCCHHHHHHHHHhcCCC---Ch------hHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----HHHHH
Q 048179          317 SVIDMYSKCGVPSCARALFDQMQSR---DL------ISWNVIIASYGIHGHGEEALSLFLQMIETMVK-PD----HSTFA  382 (589)
Q Consensus       317 ~l~~~~~~~g~~~~A~~~~~~~~~~---~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~----~~t~~  382 (589)
                      ..+..+...|++++|...+++..+.   +.      ..+..+...+...+++++|+..|++..+.... ++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            3467788899999999999887541   11      12334666677788999999999999884322 22    23688


Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcC----CCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhcCC-------CCC-hhHH
Q 048179          383 SLLSALSHSGLVEEGRYWFDLMVSKYK----IQPT-EKHYACMVDLLARAGEVEEALKIVDSMST-------EPG-LAVW  449 (589)
Q Consensus       383 ~ll~a~~~~g~~~~a~~~~~~~~~~~~----~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~p~-~~~~  449 (589)
                      .+..+|...|++++|..+|+.+.+...    ..+. ..++..+...|.+.|++++|.+.+++...       .+. ..+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            899999999999999999999875321    1111 34778899999999999999999987621       122 5678


Q ss_pred             HHHHHHHHhcCC-chHHHHHHHHHhcc
Q 048179          450 VALLSGCHNHKK-FSIGEKVAKKVLKL  475 (589)
Q Consensus       450 ~~l~~~~~~~~~-~~~a~~~~~~~~~~  475 (589)
                      ..+..++...|+ +++|.+.+++++++
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            889999999995 59999999999864

>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=98.57  E-value=5.4e-07  Score=72.51  Aligned_cols=112  Identities=9%  Similarity=0.014  Sum_probs=85.8

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHH
Q 048179          379 STFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGC  456 (589)
Q Consensus       379 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~  456 (589)
                      ..+..+...+...|++++|...|+...+.  .+.+...|..+..+|.+.|++++|++.+++.. ..| +...|..+..++
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            45566667777788888888888887753  23346777888888888888888888887763 234 566888888899


Q ss_pred             HhcCCchHHHHHHHHHhccC------CCCchhHHHHHHHHHh
Q 048179          457 HNHKKFSIGEKVAKKVLKLN------PDDLGIHALVSNFFAM  492 (589)
Q Consensus       457 ~~~~~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~~~~  492 (589)
                      ...|++++|+..++++++++      |++...+..+..+..+
T Consensus        83 ~~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~~~  124 (126)
T 3upv_A           83 IAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKASQQ  124 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHHHh
Confidence            99999999999999999998      8888877777766543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.56  E-value=1.2e-06  Score=72.59  Aligned_cols=95  Identities=9%  Similarity=0.008  Sum_probs=56.7

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCCC----hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSM-STEPG----LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSN  488 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  488 (589)
                      ...+..+...+...|++++|.+.|++. ...|+    ...|..+..++...|++++|+..++++++..|+++..+..++.
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~  107 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRSQ  107 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHHH
Confidence            344555555555566666666655554 22344    3455555666666666666666666666666666666666666


Q ss_pred             HHHhCCChHHHHHHHHHHHh
Q 048179          489 FFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       489 ~~~~~g~~~~a~~~~~~m~~  508 (589)
                      +|...|++++|.+.+++..+
T Consensus       108 ~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          108 ALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666666554

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.56  E-value=7.4e-07  Score=71.86  Aligned_cols=97  Identities=6%  Similarity=0.009  Sum_probs=87.4

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CC-CChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHH
Q 048179          413 TEKHYACMVDLLARAGEVEEALKIVDSMS-TE-PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFF  490 (589)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  490 (589)
                      +...+..+...+...|++++|.+.+++.. .. .+...|..+...+...|++++|+..++++++..|+++..+..++.+|
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            35677888999999999999999999863 23 46778889999999999999999999999999999999999999999


Q ss_pred             HhCCChHHHHHHHHHHHhC
Q 048179          491 AMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       491 ~~~g~~~~a~~~~~~m~~~  509 (589)
                      ...|++++|.+.+++..+.
T Consensus        91 ~~~~~~~~A~~~~~~~~~~  109 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALEL  109 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHhc
Confidence            9999999999999998864

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.55  E-value=6.7e-07  Score=71.40  Aligned_cols=96  Identities=11%  Similarity=0.200  Sum_probs=87.0

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA  491 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  491 (589)
                      ...+..+...+.+.|++++|.+.++++..  +.+..+|..+...+...|++++|...++++++..|+++..+..++.+|.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~   88 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHH
Confidence            56788889999999999999999998732  3467788999999999999999999999999999999999999999999


Q ss_pred             hCCChHHHHHHHHHHHhC
Q 048179          492 MEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       492 ~~g~~~~a~~~~~~m~~~  509 (589)
                      ..|++++|.+.++++.+.
T Consensus        89 ~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHh
Confidence            999999999999998864

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.54  E-value=4.8e-07  Score=74.67  Aligned_cols=109  Identities=10%  Similarity=-0.036  Sum_probs=83.7

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHH
Q 048179          379 STFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGC  456 (589)
Q Consensus       379 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~  456 (589)
                      ..+..+...+...|++++|...|+.+...  -+.+...|..+..+|.+.|++++|+..|++.. ..| +...|..+..++
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Confidence            34556667777888888888888888763  23356777888888888888888888888863 233 566788888889


Q ss_pred             HhcCCchHHHHHHHHHhccCCCCchhHHHHHHH
Q 048179          457 HNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNF  489 (589)
Q Consensus       457 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  489 (589)
                      ...|++++|+..+++++++.|+++........+
T Consensus        97 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~  129 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARALAAAQPAHEALAARA  129 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHTCGGGHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCcchHHHHHHH
Confidence            999999999999999999999888766554433

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.54  E-value=7.5e-07  Score=75.55  Aligned_cols=110  Identities=9%  Similarity=-0.007  Sum_probs=88.7

Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHH
Q 048179          378 HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSG  455 (589)
Q Consensus       378 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~  455 (589)
                      ...+..+...+...|++++|+..|+.+.+.  .+.+...|..+..+|.+.|++++|+..+++.. ..| +...|..+..+
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~   88 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            456677777888888888888888888764  23357778888888889999999998888863 234 57788999999


Q ss_pred             HHhcCCchHHHHHHHHHhccCCCCchhHHHHHHH
Q 048179          456 CHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNF  489 (589)
Q Consensus       456 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  489 (589)
                      +...|++++|+..++++++++|+++..+...+..
T Consensus        89 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  122 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEAEGNGGSDAMKRGLE  122 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            9999999999999999999999999877665544

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.53  E-value=1.5e-06  Score=72.01  Aligned_cols=113  Identities=6%  Similarity=-0.014  Sum_probs=84.3

Q ss_pred             CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHH
Q 048179          377 DHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT----EKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWV  450 (589)
Q Consensus       377 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~  450 (589)
                      +...+..+...+...|++++|...|+...+   ..|+    ...+..+..+|...|++++|++.+++.. ..| +...|.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHH
Confidence            345566666667777777777777777663   3344    5667777778888888888888877752 233 566788


Q ss_pred             HHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHh
Q 048179          451 ALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAM  492 (589)
Q Consensus       451 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  492 (589)
                      .+..++...|++++|...++++++++|++...+..+..+..+
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  145 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNISGP  145 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHCS
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHhh
Confidence            888889999999999999999999999998888877776543

>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=98.52  E-value=2.1e-07  Score=81.90  Aligned_cols=95  Identities=13%  Similarity=0.007  Sum_probs=78.1

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-C----------------hhHHHHHHHHHHhcCCchHHHHHHHHHhcc
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSMS-TEP-G----------------LAVWVALLSGCHNHKKFSIGEKVAKKVLKL  475 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  475 (589)
                      ...+..+...+.+.|++++|.+.|++.. ..| +                ..+|..+..++...|++++|+..+++++++
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~  117 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI  117 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            3345556666777777777777776642 111 1                267888899999999999999999999999


Q ss_pred             CCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          476 NPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       476 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      +|+++.++..++.+|...|++++|.+.+++..+
T Consensus       118 ~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  150 (198)
T 2fbn_A          118 DKNNVKALYKLGVANMYFGFLEEAKENLYKAAS  150 (198)
T ss_dssp             STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CcccHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            999999999999999999999999999999876

>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=98.50  E-value=7.1e-05  Score=70.64  Aligned_cols=172  Identities=8%  Similarity=0.000  Sum_probs=96.9

Q ss_pred             HHhCCChhHHHHHHHHHHhcCCCCCHH-HHHHHHHHHhccC-chhhHHHHHHHHhhcCCCChhHHHHHHHHhHhc-C-CH
Q 048179          253 FAQNGLAGSTLELLMEMQSCGFEPDSV-SLVSALLACAQIG-FLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKC-G-VP  328 (589)
Q Consensus       253 ~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g-~~  328 (589)
                      ..+.+..++|++++.+++..  .|+.. .++.--..+...+ .++.+..+.+.+....+.+..+|+.-...+.+. + ++
T Consensus        64 ~~~~e~se~AL~lt~~~L~~--nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~  141 (349)
T 3q7a_A           64 AAKEEKSERALELTEIIVRM--NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDP  141 (349)
T ss_dssp             HHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCC
T ss_pred             HHhCCCCHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCCh
Confidence            33445556777777777765  44433 3343334444445 366666666666666666666666666666555 5 67


Q ss_pred             HHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHH--------HHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCc----
Q 048179          329 SCARALFDQMQS---RDLISWNVIIASYGIHGHGE--------EALSLFLQMIETMVKPDHSTFASLLSALSHSGL----  393 (589)
Q Consensus       329 ~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~--------~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~----  393 (589)
                      ++++++++++.+   +|..+|+--.-.+.+.|.++        ++++.++++++.. +-|...++.....+.+.+.    
T Consensus       142 ~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~  220 (349)
T 3q7a_A          142 VSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETS  220 (349)
T ss_dssp             HHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCC
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccc
Confidence            777777777765   34456655444444444444        6777777776654 2345555555555555554    


Q ss_pred             ---HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048179          394 ---VEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGE  429 (589)
Q Consensus       394 ---~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  429 (589)
                         +++++++++.+...  .+-|...|+-+-..+.+.|+
T Consensus       221 ~~~~~eELe~~~~aI~~--~P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          221 SRSLQDELIYILKSIHL--IPHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             HHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCC
Confidence               45666666665542  22335555555555555444

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.48  E-value=7.7e-07  Score=71.82  Aligned_cols=91  Identities=13%  Similarity=0.037  Sum_probs=67.9

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhcCC-CCCh----hHHHHHHHHHHhcCCchHHHHHHHHHhccCCCC---chhHHHHHHH
Q 048179          418 ACMVDLLARAGEVEEALKIVDSMST-EPGL----AVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD---LGIHALVSNF  489 (589)
Q Consensus       418 ~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~  489 (589)
                      ..+...+.+.|++++|.+.|++... .|+.    ..+..+..++...|++++|+..++++++..|++   +.++..++.+
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHH
Confidence            3456667777777777777777532 3432    366777777888888888888888888888877   6678888888


Q ss_pred             HHhCCChHHHHHHHHHHHh
Q 048179          490 FAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       490 ~~~~g~~~~a~~~~~~m~~  508 (589)
                      |...|++++|...++++.+
T Consensus        86 ~~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            8888888888888887775

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.48  E-value=1.4e-06  Score=76.66  Aligned_cols=154  Identities=9%  Similarity=-0.015  Sum_probs=109.9

Q ss_pred             HhcCCHHHHHH---HHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHhcCCcH
Q 048179          323 SKCGVPSCARA---LFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIET----MVKP-DHSTFASLLSALSHSGLV  394 (589)
Q Consensus       323 ~~~g~~~~A~~---~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p-~~~t~~~ll~a~~~~g~~  394 (589)
                      ...|++++|.+   .+..-+.....++..+...+...|++++|...+++..+.    +..| ...++..+...+...|++
T Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ----CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             cccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            35678888888   554433334567888888888899999999988887762    2222 234677788888899999


Q ss_pred             HHHHHHHHHHHHhcCCCC-C----hhhHHHHHHHHHHcCCHHHHHHHHHhcCC----CCC----hhHHHHHHHHHHhcCC
Q 048179          395 EEGRYWFDLMVSKYKIQP-T----EKHYACMVDLLARAGEVEEALKIVDSMST----EPG----LAVWVALLSGCHNHKK  461 (589)
Q Consensus       395 ~~a~~~~~~~~~~~~~~p-~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p~----~~~~~~l~~~~~~~~~  461 (589)
                      ++|...+++..+...-.+ +    ...+..+...+...|++++|.+.+++...    .++    ..++..+...+...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            999999988776422222 2    34577788899999999999998887521    122    2345777888999999


Q ss_pred             chHHHHHHHHHhccC
Q 048179          462 FSIGEKVAKKVLKLN  476 (589)
Q Consensus       462 ~~~a~~~~~~~~~~~  476 (589)
                      +++|.+.+++++++.
T Consensus       163 ~~~A~~~~~~al~~~  177 (203)
T 3gw4_A          163 LLEAQQHWLRARDIF  177 (203)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999998754

>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=98.45  E-value=1.2e-06  Score=71.46  Aligned_cols=114  Identities=9%  Similarity=-0.014  Sum_probs=84.4

Q ss_pred             CCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHH
Q 048179          376 PDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALL  453 (589)
Q Consensus       376 p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~  453 (589)
                      .+...+..+...+...|++++|...|+.+.+.  .+.+...+..+..++...|++++|...+++.. ..| +...|..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            34567777777788888888888888887763  23346777788888888888888888887763 233 566788888


Q ss_pred             HHHHhcCCchHHHHHHHHHhccCCC-----CchhHHHHHHHHH
Q 048179          454 SGCHNHKKFSIGEKVAKKVLKLNPD-----DLGIHALVSNFFA  491 (589)
Q Consensus       454 ~~~~~~~~~~~a~~~~~~~~~~~p~-----~~~~~~~l~~~~~  491 (589)
                      .++...|++++|+..+++++++.|+     +......+..+..
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~~  127 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKK  127 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHHH
Confidence            8899999999999999999988887     5555555554433

>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=98.44  E-value=1.9e-06  Score=69.40  Aligned_cols=95  Identities=9%  Similarity=0.108  Sum_probs=79.7

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCC-------chhHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD-------LGIHA  484 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-------~~~~~  484 (589)
                      ...+..+...+...|++++|...+++...  +.+...+..+...+...|++++|...++++++..|++       +.++.
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            34566777888888888888888887622  2356778888888999999999999999999988766       78899


Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHh
Q 048179          485 LVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       485 ~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      .++.+|...|++++|.+.++++.+
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHH
Confidence            999999999999999999999886

>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=98.44  E-value=3.8e-06  Score=71.00  Aligned_cols=128  Identities=12%  Similarity=-0.009  Sum_probs=90.1

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 048179          344 ISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDL  423 (589)
Q Consensus       344 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  423 (589)
                      ..|..+...+...|++++|...|++..+.. +.+..++..+..++...|++++|...++...+.  .+.+...+..+..+
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~   90 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHH
Confidence            356666777778888888888888877753 335667777777888888888888888887764  23446677778888


Q ss_pred             HHHcCCHHHHHHHHHhcCC-CC-ChhHHHHH--HHHHHhcCCchHHHHHHHHHhc
Q 048179          424 LARAGEVEEALKIVDSMST-EP-GLAVWVAL--LSGCHNHKKFSIGEKVAKKVLK  474 (589)
Q Consensus       424 ~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l--~~~~~~~~~~~~a~~~~~~~~~  474 (589)
                      +.+.|++++|.+.+++... .| +...+..+  +..+...|++++|...+++..+
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            8888888888888877632 23 34444333  3336677888888888777654

>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=98.44  E-value=5.1e-05  Score=71.27  Aligned_cols=190  Identities=10%  Similarity=-0.029  Sum_probs=94.9

Q ss_pred             hhHHHHHHHHhhcCCCChhHHHHHHHHhHhcC--CHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCC-HHHHHHHHHH
Q 048179          295 KLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCG--VPSCARALFDQMQS---RDLISWNVIIASYGIHGH-GEEALSLFLQ  368 (589)
Q Consensus       295 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~-~~~A~~~~~~  368 (589)
                      +.+..+++.+....|.+..+|+.-...+.+.|  .++++..+++++.+   +|..+|+--.-.+...|. ++++++.+++
T Consensus        91 ~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~  170 (331)
T 3dss_A           91 KAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDS  170 (331)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHH
Confidence            34444444444455555555555555555555  35666666666653   345566655555555565 4666666666


Q ss_pred             HHHcCCCCCHHHHHHHHHHHhcC--------------CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHc-------
Q 048179          369 MIETMVKPDHSTFASLLSALSHS--------------GLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARA-------  427 (589)
Q Consensus       369 m~~~~~~p~~~t~~~ll~a~~~~--------------g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-------  427 (589)
                      +++.. +-|...|+.....+.+.              +.+++++++++.+...  .+-|...|+-+-..+.+.       
T Consensus       171 ~I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~--~P~d~SaW~Y~r~ll~~~~~~~~~~  247 (331)
T 3dss_A          171 LITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFT--DPNDQSAWFYHRWLLGAGSGRCELS  247 (331)
T ss_dssp             HHHHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHSSSCGGGCC
T ss_pred             HHHHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccCccccc
Confidence            66654 22344443333332222              3455666666665542  223344454443444333       


Q ss_pred             ----CCHHHHHHHHHhcC-CCCChhHHHHHHHHH-----HhcCCchHHHHHHHHHhccCCCCchhHHHHHH
Q 048179          428 ----GEVEEALKIVDSMS-TEPGLAVWVALLSGC-----HNHKKFSIGEKVAKKVLKLNPDDLGIHALVSN  488 (589)
Q Consensus       428 ----g~~~~A~~~~~~~~-~~p~~~~~~~l~~~~-----~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  488 (589)
                          +.++++++.++++. ..||. .|..+..+.     ...+..++....+.++.++||...+.|..+..
T Consensus       248 ~~~~~~l~~el~~~~elle~~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~~~  317 (331)
T 3dss_A          248 VEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRS  317 (331)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHhhCccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHHHH
Confidence                34555555555542 23443 333222211     12344555566666666666655555554433

>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=98.42  E-value=6.8e-07  Score=90.19  Aligned_cols=119  Identities=10%  Similarity=0.026  Sum_probs=94.6

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCc
Q 048179          385 LSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKF  462 (589)
Q Consensus       385 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~  462 (589)
                      ...+...|++++|.+.|+++.+.  .+.+...|..+..+|.+.|++++|++.+++.. ..| +..+|..+..++...|++
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            34456778888888888888764  23347788888889999999999999888862 334 567888999999999999


Q ss_pred             hHHHHHHHHHhccCCCCchhHHHHHHH--HHhCCChHHHHHHHHH
Q 048179          463 SIGEKVAKKVLKLNPDDLGIHALVSNF--FAMEQKWEEVAGVRKT  505 (589)
Q Consensus       463 ~~a~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~a~~~~~~  505 (589)
                      ++|++.++++++++|+++..+..++.+  +.+.|++++|.+.+++
T Consensus        91 ~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           91 RAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             HHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            999999999999999999999999888  8889999999999873

>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=98.42  E-value=1.9e-06  Score=82.70  Aligned_cols=97  Identities=12%  Similarity=0.003  Sum_probs=78.4

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCCC----------------hhHHHHHHHHHHhcCCchHHHHHHHHHhccC
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSMS-TEPG----------------LAVWVALLSGCHNHKKFSIGEKVAKKVLKLN  476 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  476 (589)
                      ...+..+...|.+.|++++|+..|++.. ..|+                ..+|..+..++...|++++|+..++++++++
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  226 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD  226 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            3445555566666666666666665542 1222                4788999999999999999999999999999


Q ss_pred             CCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          477 PDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       477 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      |+++.+|..++.+|...|++++|...++++.+..
T Consensus       227 p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~  260 (336)
T 1p5q_A          227 SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY  260 (336)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            9999999999999999999999999999998743

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.41  E-value=3.1e-05  Score=73.13  Aligned_cols=213  Identities=9%  Similarity=0.017  Sum_probs=156.5

Q ss_pred             chhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcC-CHHHHHHHHHhcCC---CChhHHHHHHHHHHhc-C-CHHHHHHHH
Q 048179          293 FLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCG-VPSCARALFDQMQS---RDLISWNVIIASYGIH-G-HGEEALSLF  366 (589)
Q Consensus       293 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~-g-~~~~A~~~~  366 (589)
                      ..+.|..+.+.+....+.+..+++.-...+...| .+++++..++.+..   .+..+|+.-...+... + +++++++++
T Consensus        69 ~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~~~  148 (349)
T 3q7a_A           69 KSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEYI  148 (349)
T ss_dssp             CSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHHHH
Confidence            3456777888888778888888888888888888 59999999998875   4567888877777666 6 889999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHhcCCcHH--------HHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC-------HH
Q 048179          367 LQMIETMVKPDHSTFASLLSALSHSGLVE--------EGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGE-------VE  431 (589)
Q Consensus       367 ~~m~~~~~~p~~~t~~~ll~a~~~~g~~~--------~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~-------~~  431 (589)
                      +++.+.. +-|...+..-...+.+.|.++        +++++++++.+.  -+-|...|+....++.+.++       ++
T Consensus       149 ~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~--dp~N~SAW~~R~~lL~~l~~~~~~~~~~~  225 (349)
T 3q7a_A          149 HGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRV--DGRNNSAWGWRWYLRVSRPGAETSSRSLQ  225 (349)
T ss_dssp             HHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHTTSTTCCCCHHHHH
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccccchHHHH
Confidence            9998764 335666665555555555555        899999999874  24467788888888888876       78


Q ss_pred             HHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCc--------------------hHHHHHHHHHhccC------CCCchhH
Q 048179          432 EALKIVDSMS-TEP-GLAVWVALLSGCHNHKKF--------------------SIGEKVAKKVLKLN------PDDLGIH  483 (589)
Q Consensus       432 ~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~--------------------~~a~~~~~~~~~~~------p~~~~~~  483 (589)
                      ++++.++++. ..| |...|+.+-..+...|+.                    .........+....      +.++.++
T Consensus       226 eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al  305 (349)
T 3q7a_A          226 DELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLAL  305 (349)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHH
Confidence            8999888763 344 677888877777776654                    22333333333322      4677788


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          484 ALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       484 ~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ..|+++|...|+.++|.++++.+.+
T Consensus       306 ~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          306 EYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            8999999999999999999999864

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.40  E-value=2.7e-07  Score=73.24  Aligned_cols=82  Identities=11%  Similarity=0.094  Sum_probs=59.4

Q ss_pred             cCCHHHHHHHHHhcCCC----C-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHH
Q 048179          427 AGEVEEALKIVDSMSTE----P-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAG  501 (589)
Q Consensus       427 ~g~~~~A~~~~~~~~~~----p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  501 (589)
                      .|++++|+..|++....    | +..+|..+..++...|++++|+..++++++++|+++.++..++.+|...|++++|.+
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHH
Confidence            46667777777665322    3 345677777778888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHh
Q 048179          502 VRKTMRK  508 (589)
Q Consensus       502 ~~~~m~~  508 (589)
                      .+++..+
T Consensus        83 ~~~~al~   89 (117)
T 3k9i_A           83 LLLKIIA   89 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8887765

>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=98.40  E-value=2.6e-06  Score=85.57  Aligned_cols=95  Identities=14%  Similarity=0.068  Sum_probs=77.3

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CC-CChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSMS-TE-PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA  491 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  491 (589)
                      ...|..+..+|.+.|++++|+..++++. .. .+...|..+..+|...|++++|+..|+++++++|++..++..++.++.
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  396 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQK  396 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            4577888899999999999999998863 23 467789999999999999999999999999999999999999999999


Q ss_pred             hCCChHHHHH-HHHHHHh
Q 048179          492 MEQKWEEVAG-VRKTMRK  508 (589)
Q Consensus       492 ~~g~~~~a~~-~~~~m~~  508 (589)
                      +.|+++++.+ .++.|..
T Consensus       397 ~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          397 KAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             HHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHHHHHh
Confidence            9999998864 4565543

>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=98.39  E-value=5.8e-05  Score=70.90  Aligned_cols=178  Identities=10%  Similarity=0.075  Sum_probs=132.5

Q ss_pred             HHHHHHHHHhcCC---CChhHHHHHHHHHHhcC--CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCc-HHHHHHHH
Q 048179          328 PSCARALFDQMQS---RDLISWNVIIASYGIHG--HGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGL-VEEGRYWF  401 (589)
Q Consensus       328 ~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~-~~~a~~~~  401 (589)
                      +++++.+++.+..   .+..+|+.-.-.+...+  .+++++.+++++.+.. +-|...|..-...+...|. ++++++++
T Consensus        90 l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           90 VKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            5677777777654   56778888777777777  4899999999999976 4466677766666777787 68999999


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHHc--------------CCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhc------
Q 048179          402 DLMVSKYKIQPTEKHYACMVDLLARA--------------GEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNH------  459 (589)
Q Consensus       402 ~~~~~~~~~~p~~~~~~~l~~~~~~~--------------g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~------  459 (589)
                      +.+.+.  -+-|...|+....++.+.              +.++++++.+++.. ..| |..+|+-+-..+...      
T Consensus       169 ~~~I~~--~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~  246 (331)
T 3dss_A          169 DSLITR--NFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCEL  246 (331)
T ss_dssp             HHHHHH--CSCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGC
T ss_pred             HHHHHH--CCCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCcccc
Confidence            999974  345577777776666665              55888999888863 344 677887666655544      


Q ss_pred             -----CCchHHHHHHHHHhccCCCCchhHHHHHHHHH---hCCChHHHHHHHHHHHh
Q 048179          460 -----KKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA---MEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       460 -----~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~---~~g~~~~a~~~~~~m~~  508 (589)
                           +.++++++.++++++++|++.-++..++.+..   ..|..++....+.++++
T Consensus       247 ~~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~  303 (331)
T 3dss_A          247 SVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKA  303 (331)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHH
Confidence                 45789999999999999998655554443322   36788889999998886

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.36  E-value=4e-06  Score=65.31  Aligned_cols=101  Identities=13%  Similarity=-0.002  Sum_probs=77.0

Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC---ChhHHHHHH
Q 048179          378 HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP---GLAVWVALL  453 (589)
Q Consensus       378 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p---~~~~~~~l~  453 (589)
                      ...+..+...+...|++++|...|+.+.+.  .+.+...+..+..++...|++++|.+.+++.. ..|   +...|..+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~   83 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKA   83 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHH
Confidence            345556667777788888888888887763  23346677778888888888888888888762 233   467888888


Q ss_pred             HHHHhc-CCchHHHHHHHHHhccCCCCc
Q 048179          454 SGCHNH-KKFSIGEKVAKKVLKLNPDDL  480 (589)
Q Consensus       454 ~~~~~~-~~~~~a~~~~~~~~~~~p~~~  480 (589)
                      .++... |++++|++.++++++..|+++
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            889999 999999999999999988764

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.36  E-value=3.2e-06  Score=78.87  Aligned_cols=105  Identities=8%  Similarity=-0.040  Sum_probs=78.6

Q ss_pred             CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHH
Q 048179          377 DHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLS  454 (589)
Q Consensus       377 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~  454 (589)
                      +...+..+...+...|++++|...|+.+.+.  .+.+...|..+..+|.+.|++++|++.+++.. ..| +...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            4556777777888888888888888888763  22356777788888888888888888888763 334 4567777888


Q ss_pred             HHHhcCCchHHHHHHHHHhccCCCCchhH
Q 048179          455 GCHNHKKFSIGEKVAKKVLKLNPDDLGIH  483 (589)
Q Consensus       455 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  483 (589)
                      ++...|++++|+..++++++++|+++..+
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~p~~~~~~  109 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLAKEQRLNF  109 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCCC
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCccchhhH
Confidence            88888888888888888888887664433

>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=98.35  E-value=2.5e-06  Score=68.62  Aligned_cols=97  Identities=9%  Similarity=0.046  Sum_probs=56.4

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CC----C----hhHHH
Q 048179          380 TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-EP----G----LAVWV  450 (589)
Q Consensus       380 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p----~----~~~~~  450 (589)
                      ++..+...+.+.|++++|+..|+++.+.  .+.+...|..+..+|.+.|++++|++.+++... .|    +    ..+|.
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            3444555555555555555555555542  122244555555555555555555555554311 11    1    23566


Q ss_pred             HHHHHHHhcCCchHHHHHHHHHhccCCC
Q 048179          451 ALLSGCHNHKKFSIGEKVAKKVLKLNPD  478 (589)
Q Consensus       451 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~  478 (589)
                      .+..++...|++++|++.++++++..|+
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~~~~~  115 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLSEFRD  115 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCcC
Confidence            6777788888888888888888887773

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.33  E-value=4e-06  Score=70.38  Aligned_cols=128  Identities=10%  Similarity=-0.016  Sum_probs=78.0

Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHhcCC----CCC----hhH
Q 048179          381 FASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT----EKHYACMVDLLARAGEVEEALKIVDSMST----EPG----LAV  448 (589)
Q Consensus       381 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p~----~~~  448 (589)
                      +..+...+...|++++|...+++..+...-.++    ...+..+...+...|++++|.+.+++...    .++    ..+
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            344444444555555555555544432111111    12455556666666666666666655411    111    345


Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHhccCC------CCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          449 WVALLSGCHNHKKFSIGEKVAKKVLKLNP------DDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       449 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p------~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      +..+...+...|++++|.+.+++++++.+      ..+..+..++.+|...|++++|.+.+++..+
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            66677778888888888888888876532      2245678889999999999999999888764

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.33  E-value=1e-06  Score=84.61  Aligned_cols=148  Identities=13%  Similarity=0.026  Sum_probs=79.4

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048179          343 LISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVD  422 (589)
Q Consensus       343 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  422 (589)
                      ...|..+...+.+.|++++|+..|++.+..  .|+...       +...|+.+++...+.           ...|..+..
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~-----------~~~~~nla~  238 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK-----------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH-----------THHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH-----------HHHHHHHHH
Confidence            345666677777888888888888887764  344331       233344444432221           126777888


Q ss_pred             HHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHH-HhCCChHHH
Q 048179          423 LLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFF-AMEQKWEEV  499 (589)
Q Consensus       423 ~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~~a  499 (589)
                      +|.+.|++++|+..+++.. ..| +...|..+..++...|++++|+..++++++++|+++.++..++.+. ...+..+++
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999888863 234 5678888889999999999999999999999999998888888884 455677788


Q ss_pred             HHHHHHHHhCC
Q 048179          500 AGVRKTMRKSG  510 (589)
Q Consensus       500 ~~~~~~m~~~g  510 (589)
                      .+.++.|....
T Consensus       319 ~~~~~~~l~~~  329 (338)
T 2if4_A          319 KEMYKGIFKGK  329 (338)
T ss_dssp             -----------
T ss_pred             HHHHHHhhCCC
Confidence            88888876543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.32  E-value=7.9e-06  Score=81.57  Aligned_cols=189  Identities=6%  Similarity=-0.025  Sum_probs=133.6

Q ss_pred             HHhHhcCCHHHHHHHHHhcCC--C---C---------------hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCCH
Q 048179          320 DMYSKCGVPSCARALFDQMQS--R---D---------------LISWNVIIASYGIHGHGEEALSLFLQMIETM-VKPDH  378 (589)
Q Consensus       320 ~~~~~~g~~~~A~~~~~~~~~--~---~---------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~p~~  378 (589)
                      ..+.+.|++++|.+.|..+.+  +   +               ..++..+...|...|++++|.+.+.++...- ..++.
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            345666777777777766542  1   0               0246678888999999999999988876531 11222


Q ss_pred             H----HHHHHHHHHhcCCcHHHHHHHHHHHHHhc---CCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHhcC----C---C
Q 048179          379 S----TFASLLSALSHSGLVEEGRYWFDLMVSKY---KIQPT-EKHYACMVDLLARAGEVEEALKIVDSMS----T---E  443 (589)
Q Consensus       379 ~----t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~---~  443 (589)
                      .    +...+...+...|+++++..+++......   +..+. ...+..++..|...|++++|..++++..    .   +
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            1    23334444556789999999988875431   22222 4567789999999999999999988752    1   1


Q ss_pred             C-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccC---CCC----chhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          444 P-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLN---PDD----LGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       444 p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---p~~----~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      | ...++..++..|...|++++|...+++++...   ++.    ...+..++.++...|++++|...+.+..+
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            2 24477888889999999999999999998653   222    35667788889999999999988877753

>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=98.30  E-value=2.2e-06  Score=69.03  Aligned_cols=110  Identities=5%  Similarity=-0.016  Sum_probs=72.8

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-----CCC----hhHHH
Q 048179          380 TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-----EPG----LAVWV  450 (589)
Q Consensus       380 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~p~----~~~~~  450 (589)
                      .+..+...+...|++++|..+|+.+...  .+.+...+..+..++...|++++|...++++..     .++    ..+|.
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            4445555566666666666666666543  123455566666666677777777766666421     112    55677


Q ss_pred             HHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHh
Q 048179          451 ALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAM  492 (589)
Q Consensus       451 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  492 (589)
                      .+..++...|++++|...++++++..| ++.....++.++..
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~  124 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAEKI  124 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHHHH
Confidence            788888889999999999999998888 56666666665544

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.29  E-value=3.3e-06  Score=67.21  Aligned_cols=98  Identities=14%  Similarity=0.068  Sum_probs=70.8

Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHh
Q 048179          381 FASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHN  458 (589)
Q Consensus       381 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~  458 (589)
                      +..+...+.+.|++++|...|+.+.+.  -+.+...|..+..++.+.|++++|+..+++.. ..| +...|..+..++..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            444556677788888888888888763  23357777788888888888888888888763 234 56678888888888


Q ss_pred             cCCchHHHHHHHHHhccCCCCc
Q 048179          459 HKKFSIGEKVAKKVLKLNPDDL  480 (589)
Q Consensus       459 ~~~~~~a~~~~~~~~~~~p~~~  480 (589)
                      .|++++|+..++++++++|+++
T Consensus        98 ~g~~~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHHHC------
T ss_pred             cCCHHHHHHHHHHHHHhCcCCC
Confidence            8999999999999998888754

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.29  E-value=9.4e-06  Score=65.25  Aligned_cols=107  Identities=8%  Similarity=0.010  Sum_probs=75.5

Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCh---hhHHHHHHHHHHcCCHHHHHHHHHhcC-CCCC----hhHHHHHHH
Q 048179          383 SLLSALSHSGLVEEGRYWFDLMVSKYKIQPTE---KHYACMVDLLARAGEVEEALKIVDSMS-TEPG----LAVWVALLS  454 (589)
Q Consensus       383 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~----~~~~~~l~~  454 (589)
                      .+...+...|++++|...|+.+.+..  +.+.   ..+..+..++.+.|++++|...+++.. ..|+    ..++..+..
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~   84 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHH
Confidence            34455666777777777777776542  1122   466667777888888888888877752 2233    456777888


Q ss_pred             HHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHH
Q 048179          455 GCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA  491 (589)
Q Consensus       455 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  491 (589)
                      ++...|++++|...++++++..|+++........+-.
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~l~~  121 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQYPGSDAARVAQERLQS  121 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHH
Confidence            8889999999999999999999988766665554433

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.28  E-value=2.3e-06  Score=72.30  Aligned_cols=79  Identities=15%  Similarity=0.063  Sum_probs=65.1

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCc-hhHHHHHHHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDL-GIHALVSNFF  490 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-~~~~~l~~~~  490 (589)
                      ...|..+..+|.+.|++++|+..+++.. ..| +...|..+..++...|++++|+..++++++++|+++ .+...+..+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~~  142 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIVT  142 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            4678888899999999999999998863 234 577899999999999999999999999999999988 5566665554


Q ss_pred             Hh
Q 048179          491 AM  492 (589)
Q Consensus       491 ~~  492 (589)
                      ..
T Consensus       143 ~~  144 (162)
T 3rkv_A          143 ER  144 (162)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=98.27  E-value=4.4e-06  Score=84.25  Aligned_cols=115  Identities=13%  Similarity=0.008  Sum_probs=60.9

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHH
Q 048179          353 YGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEE  432 (589)
Q Consensus       353 ~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  432 (589)
                      +.+.|++++|++.|++..+.. +.+...+..+..++.+.|++++|...++++.+.  .+.+...+..+..+|.+.|++++
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~~g~~~e   92 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGKFRA   92 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHH
Confidence            445566666666666665542 223455666666666666666666666666542  22235556666666666666666


Q ss_pred             HHHHHHhcC-CCC-ChhHHHHHHHH--HHhcCCchHHHHHHH
Q 048179          433 ALKIVDSMS-TEP-GLAVWVALLSG--CHNHKKFSIGEKVAK  470 (589)
Q Consensus       433 A~~~~~~~~-~~p-~~~~~~~l~~~--~~~~~~~~~a~~~~~  470 (589)
                      |.+.+++.. ..| +...+..+..+  +...|++++|++.++
T Consensus        93 A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           93 ALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            666666542 122 23344444444  555666666666666

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.26  E-value=4.6e-06  Score=80.94  Aligned_cols=89  Identities=11%  Similarity=0.066  Sum_probs=78.8

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSM-STEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA  491 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  491 (589)
                      ...|..+..+|.+.|++++|++.+++. ...| +...|..+..++...|++++|+..++++++++|++..++..++.++.
T Consensus       273 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~  352 (370)
T 1ihg_A          273 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQ  352 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            567888999999999999999999987 3345 57788999999999999999999999999999999999999999999


Q ss_pred             hCCChHHHHHH
Q 048179          492 MEQKWEEVAGV  502 (589)
Q Consensus       492 ~~g~~~~a~~~  502 (589)
                      ..++.+++.+.
T Consensus       353 ~~~~~~~a~k~  363 (370)
T 1ihg_A          353 KIKAQKDKEKA  363 (370)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHHH
Confidence            99988887653

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.22  E-value=5e-06  Score=63.54  Aligned_cols=66  Identities=11%  Similarity=0.092  Sum_probs=61.3

Q ss_pred             CChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          444 PGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       444 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      .+...|..+..++...|++++|+..++++++++|+++.+|..++.+|...|++++|.+.+++..+.
T Consensus         5 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            5 EDPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            356788999999999999999999999999999999999999999999999999999999988753

>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=6.8e-06  Score=82.48  Aligned_cols=65  Identities=12%  Similarity=0.113  Sum_probs=61.4

Q ss_pred             hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          446 LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       446 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      ..+|..+..++.+.|++++|+..++++++++|+++.+|..++.+|...|++++|...++++.+..
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~  381 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  381 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            46888999999999999999999999999999999999999999999999999999999998743

>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=98.21  E-value=8.8e-06  Score=78.98  Aligned_cols=112  Identities=8%  Similarity=0.039  Sum_probs=81.4

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCC-ChhHHHHHHHHHH
Q 048179          379 STFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEP-GLAVWVALLSGCH  457 (589)
Q Consensus       379 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~  457 (589)
                      ..+..+...+.+.|++++|...|+++.+..   +..          ......+++.      ...| +..+|..+..++.
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~---~~~----------~~~~~~~~~~------~~~~~~~~~~~nla~~~~  284 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYV---EGS----------RAAAEDADGA------KLQPVALSCVLNIGACKL  284 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---HHH----------HHHSCHHHHG------GGHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHh---hcC----------ccccChHHHH------HHHHHHHHHHHHHHHHHH
Confidence            345556666666777777777776665421   000          0000111111      0122 4568888999999


Q ss_pred             hcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          458 NHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       458 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      ..|++++|+..++++++++|+++.++..++.+|...|++++|.+.++++.+.
T Consensus       285 ~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l  336 (370)
T 1ihg_A          285 KMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  336 (370)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999998863

>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=98.20  E-value=2.4e-06  Score=70.23  Aligned_cols=74  Identities=16%  Similarity=0.109  Sum_probs=57.1

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhc-CC-------CCC-hhHH----HHHHHHHHhcCCchHHHHHHHHHhccCCCCchh
Q 048179          416 HYACMVDLLARAGEVEEALKIVDSM-ST-------EPG-LAVW----VALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGI  482 (589)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~-------~p~-~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  482 (589)
                      .|..+..++.+.|++++|+..+++. ..       .|+ ...|    .....++...|++++|+..|+++++++|++...
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~  138 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGE  138 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHH
Confidence            6666677777777777777666654 22       565 5578    899999999999999999999999999998876


Q ss_pred             HHHHHHH
Q 048179          483 HALVSNF  489 (589)
Q Consensus       483 ~~~l~~~  489 (589)
                      +..+..+
T Consensus       139 ~~~~~~~  145 (159)
T 2hr2_A          139 TPGKERM  145 (159)
T ss_dssp             CTTHHHH
T ss_pred             HHHHHHH
Confidence            6555433

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.18  E-value=1.7e-06  Score=68.51  Aligned_cols=94  Identities=16%  Similarity=0.179  Sum_probs=67.7

Q ss_pred             CCcHHHHHHHHHHHHHhcC--CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHH
Q 048179          391 SGLVEEGRYWFDLMVSKYK--IQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGE  466 (589)
Q Consensus       391 ~g~~~~a~~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~  466 (589)
                      .|++++|+..|+++.+. +  -+.+...+..+..+|.+.|++++|++.+++.. ..| +..++..+..++...|++++|+
T Consensus         3 ~g~~~~A~~~~~~al~~-~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIAS-GLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSS-CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHc-CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            46777888888877742 1  12235677788888888888888888888763 234 4667788888889999999999


Q ss_pred             HHHHHHhccCCCCchhHHH
Q 048179          467 KVAKKVLKLNPDDLGIHAL  485 (589)
Q Consensus       467 ~~~~~~~~~~p~~~~~~~~  485 (589)
                      ..++++++..|+++.....
T Consensus        82 ~~~~~al~~~p~~~~~~~~  100 (117)
T 3k9i_A           82 ELLLKIIAETSDDETIQSY  100 (117)
T ss_dssp             HHHHHHHHHHCCCHHHHHT
T ss_pred             HHHHHHHHhCCCcHHHHHH
Confidence            9999999998888765443

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.16  E-value=5.5e-05  Score=77.70  Aligned_cols=170  Identities=11%  Similarity=0.012  Sum_probs=136.0

Q ss_pred             CCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCC----------HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC
Q 048179          326 GVPSCARALFDQMQS---RDLISWNVIIASYGIHGH----------GEEALSLFLQMIETMVKPDHSTFASLLSALSHSG  392 (589)
Q Consensus       326 g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g  392 (589)
                      ...++|.+.++++..   .+..+|+.--..+...|+          ++++++.++++.+.. +-+..+|..-..++.+.|
T Consensus        43 ~~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           43 ELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCS
T ss_pred             CCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcc
Confidence            345677888887764   345678777666666666          899999999999875 335667877777888888


Q ss_pred             --cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcC-CHHHHHHHHHhcCC-CC-ChhHHHHHHHHHHhc--------
Q 048179          393 --LVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAG-EVEEALKIVDSMST-EP-GLAVWVALLSGCHNH--------  459 (589)
Q Consensus       393 --~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~--------  459 (589)
                        +++++.++++.+.+.  -+-+...|+.-..++.+.| .++++++.++++.. .| |..+|+.....+...        
T Consensus       122 ~~~~~~el~~~~k~l~~--d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~  199 (567)
T 1dce_A          122 EPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGP  199 (567)
T ss_dssp             SCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             cccHHHHHHHHHHHHhh--ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccc
Confidence              679999999999974  2345778888888888889 89999999998743 44 678898888876653        


Q ss_pred             ------CCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHH
Q 048179          460 ------KKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEE  498 (589)
Q Consensus       460 ------~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  498 (589)
                            +.++++.+.+.++++++|++..+|..+..++.+.|+.++
T Consensus       200 ~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          200 QGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                  557999999999999999999999999999999998665

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.12  E-value=2.1e-06  Score=70.40  Aligned_cols=86  Identities=7%  Similarity=-0.028  Sum_probs=64.8

Q ss_pred             HcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCC----------chHHHHHHHHHhccCCCCchhHHHHHHHHHhC
Q 048179          426 RAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKK----------FSIGEKVAKKVLKLNPDDLGIHALVSNFFAME  493 (589)
Q Consensus       426 ~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  493 (589)
                      |.+++++|.+.+++.. ..| +...|..+..++...++          +++|+..|+++++++|++..+|..++.+|...
T Consensus        14 r~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~l   93 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSF   93 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh
Confidence            4455666666666542 223 45566666666665554          56999999999999999999999999999987


Q ss_pred             C-----------ChHHHHHHHHHHHhCCC
Q 048179          494 Q-----------KWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       494 g-----------~~~~a~~~~~~m~~~g~  511 (589)
                      |           ++++|.+.|+++.+..+
T Consensus        94 g~l~P~~~~a~g~~~eA~~~~~kAl~l~P  122 (158)
T 1zu2_A           94 AFLTPDETEAKHNFDLATQFFQQAVDEQP  122 (158)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             cccCcchhhhhccHHHHHHHHHHHHHhCC
Confidence            5           89999999999987443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.12  E-value=4.1e-06  Score=65.27  Aligned_cols=93  Identities=8%  Similarity=-0.015  Sum_probs=75.3

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCC------chhHH
Q 048179          413 TEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD------LGIHA  484 (589)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~  484 (589)
                      +...+..+...+.+.|++++|++.+++.. ..| +...|..+..++...|++++|+..++++++++|++      ...+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~   82 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQY   82 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHH
Confidence            45567778888888888888888888762 233 57788888999999999999999999999999988      77888


Q ss_pred             HHHHHHHhCCChHHHHHHHHH
Q 048179          485 LVSNFFAMEQKWEEVAGVRKT  505 (589)
Q Consensus       485 ~l~~~~~~~g~~~~a~~~~~~  505 (589)
                      .++.++...|++++|.+.+++
T Consensus        83 ~~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHHCCCCCSSSSSS
T ss_pred             HHHHHHHHHHhHhhhHhHHHH
Confidence            888888888887777665543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.10  E-value=0.00035  Score=69.49  Aligned_cols=162  Identities=7%  Similarity=-0.143  Sum_probs=99.3

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHhcC-CCCCHH----HHHHHHHHHhccCchhhHHHHHHHHh---h--c-CCCChhH
Q 048179          246 WGALISGFAQNGLAGSTLELLMEMQSCG-FEPDSV----SLVSALLACAQIGFLKLGKSIHGYTV---R--R-FDFNLVL  314 (589)
Q Consensus       246 ~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~---~--~-~~~~~~~  314 (589)
                      +..++..|...|++++|.+.+.++...- ..++..    ....+-..+...|..+.+..++....   .  + ......+
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            4455666666666666666666554321 011111    11222223344566677766666554   1  1 1122456


Q ss_pred             HHHHHHHhHhcCCHHHHHHHHHhcCC--------C-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CC-CC-C--HH
Q 048179          315 GTSVIDMYSKCGVPSCARALFDQMQS--------R-DLISWNVIIASYGIHGHGEEALSLFLQMIET--MV-KP-D--HS  379 (589)
Q Consensus       315 ~~~l~~~~~~~g~~~~A~~~~~~~~~--------~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~-~p-~--~~  379 (589)
                      +..+...|...|++++|..+++.+..        + .+..+..++..|...|++++|..++++....  .+ .| .  ..
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            67788888888888888888876532        1 1346778888888999999999888876642  11 12 1  23


Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHh
Q 048179          380 TFASLLSALSHSGLVEEGRYWFDLMVSK  407 (589)
Q Consensus       380 t~~~ll~a~~~~g~~~~a~~~~~~~~~~  407 (589)
                      .+..+...+...|++++|...|....+.
T Consensus       218 ~~~~~g~~~~~~~~y~~A~~~~~~a~~~  245 (434)
T 4b4t_Q          218 LDLMSGILHCEDKDYKTAFSYFFESFES  245 (434)
T ss_dssp             HHHHHHHHTTSSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            5566667778889999998888777653

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.09  E-value=1.8e-05  Score=66.29  Aligned_cols=133  Identities=11%  Similarity=0.028  Sum_probs=82.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hh
Q 048179          345 SWNVIIASYGIHGHGEEALSLFLQMIETMVK-PD----HSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT----EK  415 (589)
Q Consensus       345 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~  415 (589)
                      ++..+...+...|++++|+..+++..+.... ++    ..++..+...+...|++++|..+++...+...-.++    ..
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            4455555666666666666666665542110 11    135566666677777777777777776543211111    34


Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhcCC----CCC----hhHHHHHHHHHHhcCCchHHHHHHHHHhccCC
Q 048179          416 HYACMVDLLARAGEVEEALKIVDSMST----EPG----LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNP  477 (589)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  477 (589)
                      .+..+...+...|++++|.+.+++...    .++    ..++..+...+...|++++|.+.+++++++..
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  160 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISR  160 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHH
Confidence            566677777788888888877776521    111    34566777778888999999999888876543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.07  E-value=2.9e-05  Score=77.75  Aligned_cols=125  Identities=13%  Similarity=0.045  Sum_probs=96.9

Q ss_pred             HHhcCCcHHHHHHHHHHHHHhc--CCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHhcC---------CCCC-hhHHH
Q 048179          387 ALSHSGLVEEGRYWFDLMVSKY--KIQPT----EKHYACMVDLLARAGEVEEALKIVDSMS---------TEPG-LAVWV  450 (589)
Q Consensus       387 a~~~~g~~~~a~~~~~~~~~~~--~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~p~-~~~~~  450 (589)
                      .+...|++++|..++++..+..  -+.|+    ..+++.|..+|...|++++|+.++++..         ..|+ ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            3557788999988888766532  12222    4578888999999999999998887752         2344 34688


Q ss_pred             HHHHHHHhcCCchHHHHHHHHHhc-----cCCCCch---hHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048179          451 ALLSGCHNHKKFSIGEKVAKKVLK-----LNPDDLG---IHALVSNFFAMEQKWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       451 ~l~~~~~~~~~~~~a~~~~~~~~~-----~~p~~~~---~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  511 (589)
                      .|...|..+|++++|+.+++++++     ++|+++.   ....+..++..+|++++|..+++.+++.-.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~~  466 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAAL  466 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            899999999999999999999985     4677764   456788889999999999999999987543

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.07  E-value=2e-05  Score=58.61  Aligned_cols=81  Identities=14%  Similarity=0.250  Sum_probs=64.2

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA  491 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  491 (589)
                      ...+..+...+.+.|++++|...+++.. ..| +..+|..+..++...|++++|+..++++++++|+++..+..++.++.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~   88 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQ   88 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            4566677777888888888888887752 223 56678888888889999999999999999999999988888888887


Q ss_pred             hCC
Q 048179          492 MEQ  494 (589)
Q Consensus       492 ~~g  494 (589)
                      ..|
T Consensus        89 ~~g   91 (91)
T 1na3_A           89 KQG   91 (91)
T ss_dssp             HHC
T ss_pred             hcC
Confidence            654

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.03  E-value=2.3e-05  Score=61.53  Aligned_cols=78  Identities=8%  Similarity=0.078  Sum_probs=65.7

Q ss_pred             HHHHHHHhc-CCCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          432 EALKIVDSM-STEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       432 ~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      +|++.|++. ...| +...|..+...+...|++++|+..++++++++|+++..|..++.+|...|++++|...+++..+.
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~   82 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAA   82 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            355566654 3334 56788888889999999999999999999999999999999999999999999999999988763

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.03  E-value=2e-05  Score=75.56  Aligned_cols=152  Identities=9%  Similarity=-0.013  Sum_probs=83.7

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC
Q 048179          312 LVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHS  391 (589)
Q Consensus       312 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~  391 (589)
                      ...+..+...+.+.|++++|...|++....+....     .+...++.+++...+.          ...+..+..++.+.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~-----~~~~~~~~~~~~~~l~----------~~~~~nla~~~~~~  243 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDF-----MFQLYGKYQDMALAVK----------NPCHLNIAACLIKL  243 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHH-----HHTCCHHHHHHHHHHH----------THHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccch-----hhhhcccHHHHHHHHH----------HHHHHHHHHHHHHc
Confidence            45567888899999999999999998764221111     1223344444443321          13677888899999


Q ss_pred             CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCCC-hhHHHHHHHH-HHhcCCchHHHHH
Q 048179          392 GLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEPG-LAVWVALLSG-CHNHKKFSIGEKV  468 (589)
Q Consensus       392 g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~-~~~~~~l~~~-~~~~~~~~~a~~~  468 (589)
                      |++++|+..++.+.+.  .+.+...|..+..+|...|++++|...|++.. ..|+ ...+..+... ....+..+.+...
T Consensus       244 g~~~~A~~~~~~al~~--~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~~~  321 (338)
T 2if4_A          244 KRYDEAIGHCNIVLTE--EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQKEM  321 (338)
T ss_dssp             TCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------------------
T ss_pred             CCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999864  23457888999999999999999999999974 3454 4455555555 3455778889999


Q ss_pred             HHHHhccCCCCc
Q 048179          469 AKKVLKLNPDDL  480 (589)
Q Consensus       469 ~~~~~~~~p~~~  480 (589)
                      ++++++..|+++
T Consensus       322 ~~~~l~~~p~~~  333 (338)
T 2if4_A          322 YKGIFKGKDEGG  333 (338)
T ss_dssp             ------------
T ss_pred             HHHhhCCCCCCC
Confidence            999999998765

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=98.01  E-value=3.7e-05  Score=57.37  Aligned_cols=69  Identities=13%  Similarity=0.049  Sum_probs=60.8

Q ss_pred             CChhHHHHHHHHHHhcCC---chHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCc
Q 048179          444 PGLAVWVALLSGCHNHKK---FSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMK  512 (589)
Q Consensus       444 p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~  512 (589)
                      +|+..+..+..++...++   .++|...++++++++|+++.+...++..+.+.|++++|+..|+++.+....
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            467788888888765544   799999999999999999999999999999999999999999999986543

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.96  E-value=2.6e-05  Score=60.58  Aligned_cols=66  Identities=2%  Similarity=-0.097  Sum_probs=61.6

Q ss_pred             ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          445 GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       445 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      +...|..+...+...|++++|+..++++++++|+++..+..++.+|...|++++|.+.+++..+..
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   68 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT   68 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            456788899999999999999999999999999999999999999999999999999999998643

>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=97.90  E-value=0.00012  Score=59.50  Aligned_cols=111  Identities=6%  Similarity=-0.076  Sum_probs=63.8

Q ss_pred             cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHHHHHHHh----cCCchHHHHH
Q 048179          393 LVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHN----HKKFSIGEKV  468 (589)
Q Consensus       393 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~  468 (589)
                      ++++|.+.|++..+. + .|+  ..  |...|...+..++|.++|++.....+...+..|...|..    .+|+++|.+.
T Consensus        10 d~~~A~~~~~~aa~~-g-~~~--a~--lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~   83 (138)
T 1klx_A           10 DLKKAIQYYVKACEL-N-EMF--GC--LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQY   83 (138)
T ss_dssp             HHHHHHHHHHHHHHT-T-CTT--HH--HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHcC-C-CHh--hh--HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHH
Confidence            344555555555443 2 111  11  444454555555555555554333455555555555555    5666777777


Q ss_pred             HHHHhccCCCCchhHHHHHHHHHh----CCChHHHHHHHHHHHhCCC
Q 048179          469 AKKVLKLNPDDLGIHALVSNFFAM----EQKWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       469 ~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~g~  511 (589)
                      ++++.+.  .++.++..|+.+|..    .+++++|.+.+++..+.|.
T Consensus        84 ~~~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           84 YSKACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcC--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            7776655  456667777777777    6777777777777766553

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.88  E-value=6.6e-06  Score=78.68  Aligned_cols=238  Identities=13%  Similarity=0.039  Sum_probs=166.8

Q ss_pred             CCcchHhHHHHhhhcCCChHHHHHHhccCCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHCCCCCCcccHHHHHHHHh
Q 048179            8 AYGNSVGRIIALYGGKNDIVSARKLFEELPLRGVDTYNSIIIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTVALKACV   87 (589)
Q Consensus         8 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~   87 (589)
                      -.+.+|+.|..++.+.+++.+|...|=+  ..|...|..+|.+..+.|.+++-++.+...++..-  ++..=+.++-+|+
T Consensus        52 n~p~VWs~LgkAqL~~~~v~eAIdsyIk--A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~ayA  127 (624)
T 3lvg_A           52 NEPAVWSQLAKAQLQKGMVKEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFALA  127 (624)
T ss_dssp             CCCCCSSSHHHHTTTSSSCTTTTTSSCC--CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHHHH
T ss_pred             CCccHHHHHHHHHHccCchHHHHHHHHh--CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHHHH
Confidence            3577899999999999999888876644  45677889999999999999999998877665532  4444467888899


Q ss_pred             ccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCC------------------------CCcc
Q 048179           88 SLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR------------------------KDLV  143 (589)
Q Consensus        88 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~------------------------~~~~  143 (589)
                      +.+++.+-.+++.       .||..-.....+-|...|.++.|.-+|..+..                        .++.
T Consensus       128 k~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~k  200 (624)
T 3lvg_A          128 KTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTR  200 (624)
T ss_dssp             TSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSC
T ss_pred             hhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChh
Confidence            8887665444332       36666666777777788888888877776651                        3677


Q ss_pred             hHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcC-CCchHHHHHHHHHH
Q 048179          144 CWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHL-NLDVKVQTSLVDMY  222 (589)
Q Consensus       144 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~  222 (589)
                      +|-.+-.+|...+.+.-|.-+--.++-   .||  -+..++.-|-..|.+++-..+++..+  |+ ......|+-|.-.|
T Consensus       201 tWKeV~~ACvd~~EfrLAqicGLniIv---had--eL~elv~~YE~~G~f~ELIsLlEagl--glErAHmGmFTELaILY  273 (624)
T 3lvg_A          201 TWKEVCFACVDGKEFRLAQMCGLHIVV---HAD--ELEELINYYQDRGYFEELITMLEAAL--GLERAHMGMFTELAILY  273 (624)
T ss_dssp             SHHHHTHHHHHSCTTTTTTHHHHHHHC---CSS--CCSGGGSSSSTTCCCTTSTTTHHHHT--TSTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCchHHHHHHHhcchhcc---cHH--HHHHHHHHHHhCCCHHHHHHHHHHHh--CCCchhHHHHHHHHHHH
Confidence            899988899988888776655444332   122  22334555677788888777777655  32 34567888888888


Q ss_pred             HhcCCHHHHHHHHhhcCC-----------CCeehHHHHHHHHHhCCChhHHHH
Q 048179          223 AKTGHLDLASHVFKNMSR-----------INIVTWGALISGFAQNGLAGSTLE  264 (589)
Q Consensus       223 ~~~g~~~~A~~~~~~~~~-----------~~~~~~~~li~~~~~~g~~~~a~~  264 (589)
                      ++- ++++-.+.++....           .....|.-++-.|.+..++|.|..
T Consensus       274 sKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          274 SKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             HSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             Hhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence            875 55666655554322           234578888888888888887753

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.87  E-value=2.2e-05  Score=78.63  Aligned_cols=115  Identities=13%  Similarity=0.020  Sum_probs=88.2

Q ss_pred             HHHHHcCCHHHHHHHHHhcC---------CCCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhcc-----CCCCc---hhH
Q 048179          422 DLLARAGEVEEALKIVDSMS---------TEPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKL-----NPDDL---GIH  483 (589)
Q Consensus       422 ~~~~~~g~~~~A~~~~~~~~---------~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~p~~~---~~~  483 (589)
                      ..+...|++++|+.++++..         ..|+ ..+++.|..+|..+|++++|+.++++++++     .|+++   ..+
T Consensus       317 ~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l  396 (490)
T 3n71_A          317 DKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAV  396 (490)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHH
Confidence            34668899999999987751         1233 447899999999999999999999999853     45554   578


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHhCCCccCCceeEEEECCEEEEEEecCCCCCChHHHHHHHHHHHHHHH
Q 048179          484 ALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMR  554 (589)
Q Consensus       484 ~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~l~~~~~  554 (589)
                      ..|+.+|..+|++++|..+++++.+.-. +.-|                 ..||...++...+.....++.
T Consensus       397 ~nLa~~~~~~G~~~eA~~~~~~Al~i~~-~~lG-----------------~~Hp~~~~~~~~l~~~~~e~~  449 (490)
T 3n71_A          397 MRAGLTNWHAGHIEVGHGMICKAYAILL-VTHG-----------------PSHPITKDLEAMRMQTEMELR  449 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHH-HHTC-----------------TTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHH-HHhC-----------------CCChHHHHHHHHHHHHHHHHH
Confidence            8899999999999999999999875211 1111                 369998888877777665554

>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=97.85  E-value=0.00025  Score=72.76  Aligned_cols=152  Identities=11%  Similarity=0.046  Sum_probs=122.8

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCc----------HHHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 048179          356 HGHGEEALSLFLQMIETMVKPDH-STFASLLSALSHSGL----------VEEGRYWFDLMVSKYKIQPTEKHYACMVDLL  424 (589)
Q Consensus       356 ~g~~~~A~~~~~~m~~~~~~p~~-~t~~~ll~a~~~~g~----------~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  424 (589)
                      ....++|++.++++.+.  .|+. ..|+.--.++...|+          +++++++++.+.+.  -+-+...|..-..++
T Consensus        42 ~~~~eeal~~~~~~l~~--nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l  117 (567)
T 1dce_A           42 GELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLL  117 (567)
T ss_dssp             TCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            34467889999999986  4554 455555555555555          89999999999974  344577888888889


Q ss_pred             HHcC--CHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcC-CchHHHHHHHHHhccCCCCchhHHHHHHHHHhC------
Q 048179          425 ARAG--EVEEALKIVDSMST--EPGLAVWVALLSGCHNHK-KFSIGEKVAKKVLKLNPDDLGIHALVSNFFAME------  493 (589)
Q Consensus       425 ~~~g--~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~------  493 (589)
                      .+.|  +++++++.++++..  ..+..+|+.-..+....| .++++.+.++++++.+|.|..+|...+.++.+.      
T Consensus       118 ~~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~  197 (567)
T 1dce_A          118 SRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDS  197 (567)
T ss_dssp             HTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCS
T ss_pred             HHcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccc
Confidence            9999  77999999999832  347889999998988889 899999999999999999999999999998874      


Q ss_pred             --------CChHHHHHHHHHHHhCCC
Q 048179          494 --------QKWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       494 --------g~~~~a~~~~~~m~~~g~  511 (589)
                              ++++++.+.++++....+
T Consensus       198 ~~~~~~~~~~~~eel~~~~~ai~~~P  223 (567)
T 1dce_A          198 GPQGRLPENVLLKELELVQNAFFTDP  223 (567)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHHHCS
T ss_pred             cccccccHHHHHHHHHHHHHHHhhCC
Confidence                    567999999988876443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.81  E-value=0.00014  Score=53.85  Aligned_cols=65  Identities=12%  Similarity=0.207  Sum_probs=60.3

Q ss_pred             ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          445 GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       445 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      +...|..+...+...|++++|+..++++++.+|+++..+..++.+|...|++++|.+.+++..+.
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            35678888889999999999999999999999999999999999999999999999999998864

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.80  E-value=3.5e-05  Score=76.03  Aligned_cols=116  Identities=12%  Similarity=0.115  Sum_probs=87.3

Q ss_pred             HHHHHHcCCHHHHHHHHHhcCC------CCC----hhHHHHHHHHHHhcCCchHHHHHHHHHhcc-----CCCCc---hh
Q 048179          421 VDLLARAGEVEEALKIVDSMST------EPG----LAVWVALLSGCHNHKKFSIGEKVAKKVLKL-----NPDDL---GI  482 (589)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~~------~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~p~~~---~~  482 (589)
                      +..+.+.|++++|++++++...      .|+    ..+++.|..+|...|++++|+..+++++++     .|+++   ..
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            3445577788888888776511      122    346788888899999999999999988853     45544   57


Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCceeEEEECCEEEEEEecCCCCCChHHHHHHHHHHHHHHH
Q 048179          483 HALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMR  554 (589)
Q Consensus       483 ~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~l~~~~~  554 (589)
                      +..|+.+|..+|++++|..+++++.+.- .+.-|                 ..||...+++..+.+...+|+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i~-~~~lG-----------------~~Hp~~~~~~~~l~~~~~e~~  427 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDIM-RVTHG-----------------REHSLIEDLILLLEECDANIR  427 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHH-HHHTC-----------------TTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHH-HHhcC-----------------CCChHHHHHHHHHHHHHHHHh
Confidence            8889999999999999999999987521 11111                 379999999999999888887

>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=97.75  E-value=3.3e-05  Score=63.32  Aligned_cols=92  Identities=11%  Similarity=0.111  Sum_probs=53.8

Q ss_pred             cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC----------HHHHHHHHHhc-CCCC-ChhHHHHHHHHHHhc-
Q 048179          393 LVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGE----------VEEALKIVDSM-STEP-GLAVWVALLSGCHNH-  459 (589)
Q Consensus       393 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~-  459 (589)
                      .+++|.+.++...+.  -+.+...|..+..++...++          +++|+..|++. ...| +..+|..+..+|... 
T Consensus        17 ~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg   94 (158)
T 1zu2_A           17 LFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFA   94 (158)
T ss_dssp             HHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhc
Confidence            344444444444432  12224444444444444443          34666666654 2233 345666666666655 


Q ss_pred             ----------CCchHHHHHHHHHhccCCCCchhHHHH
Q 048179          460 ----------KKFSIGEKVAKKVLKLNPDDLGIHALV  486 (589)
Q Consensus       460 ----------~~~~~a~~~~~~~~~~~p~~~~~~~~l  486 (589)
                                |++++|++.|+++++++|++......+
T Consensus        95 ~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y~~al  131 (158)
T 1zu2_A           95 FLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSL  131 (158)
T ss_dssp             HHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             ccCcchhhhhccHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence                      589999999999999999886444433

>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=97.74  E-value=0.00038  Score=56.53  Aligned_cols=113  Identities=9%  Similarity=-0.040  Sum_probs=94.3

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH----cCCHH
Q 048179          356 HGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLAR----AGEVE  431 (589)
Q Consensus       356 ~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~  431 (589)
                      .+++++|++.|++..+.| .|+..    +...|...+.+++|.+.|++..+.    .+...+..|..+|..    .++++
T Consensus         8 ~~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~   78 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLR   78 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHH
T ss_pred             ccCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHcCCCCCccHH
Confidence            346789999999999887 44444    667778888899999999998874    467788888999988    89999


Q ss_pred             HHHHHHHhcCCCCChhHHHHHHHHHHh----cCCchHHHHHHHHHhccCC
Q 048179          432 EALKIVDSMSTEPGLAVWVALLSGCHN----HKKFSIGEKVAKKVLKLNP  477 (589)
Q Consensus       432 ~A~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p  477 (589)
                      +|.++|++.....+...+..|...|..    .+|+++|...++++.+.+.
T Consensus        79 ~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           79 KAAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            999999998666778888889988888    8999999999999988753

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.68  E-value=9.9e-05  Score=57.82  Aligned_cols=81  Identities=10%  Similarity=-0.002  Sum_probs=58.6

Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHh
Q 048179          396 EGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVL  473 (589)
Q Consensus       396 ~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  473 (589)
                      ++...|+.+.+  ..+.+...+..+...|.+.|++++|+..+++.. ..| +...|..+..++...|++++|+..+++++
T Consensus         3 ~a~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLA--QGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHT--TTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH--hCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45666666664  223346677777888888888888888887752 233 46678888888888888888888888888


Q ss_pred             ccCCC
Q 048179          474 KLNPD  478 (589)
Q Consensus       474 ~~~p~  478 (589)
                      ++.|+
T Consensus        81 ~~~~~   85 (115)
T 2kat_A           81 AAAQS   85 (115)
T ss_dssp             HHHHH
T ss_pred             Hhccc
Confidence            88764

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.60  E-value=4.4e-05  Score=75.11  Aligned_cols=82  Identities=12%  Similarity=0.071  Sum_probs=60.4

Q ss_pred             cCCHHHHHHHHHhcC---------CCCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhcc-----CCCCc---hhHHHHHH
Q 048179          427 AGEVEEALKIVDSMS---------TEPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKL-----NPDDL---GIHALVSN  488 (589)
Q Consensus       427 ~g~~~~A~~~~~~~~---------~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~p~~~---~~~~~l~~  488 (589)
                      .|++++|+.++++..         ..|+ ..+++.|..+|..+|++++|+.++++++++     .|+++   ..++.|+.
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            356666666665531         1233 346778888888888888888888888753     45544   56888999


Q ss_pred             HHHhCCChHHHHHHHHHHHh
Q 048179          489 FFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       489 ~~~~~g~~~~a~~~~~~m~~  508 (589)
                      +|..+|++++|..+++++.+
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHH
Confidence            99999999999999998865

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.54  E-value=0.00057  Score=55.28  Aligned_cols=91  Identities=7%  Similarity=-0.060  Sum_probs=66.2

Q ss_pred             CCChhHHHHHHHHHHhcC---CchHHHHHHHHHhccC-C-CCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCce
Q 048179          443 EPGLAVWVALLSGCHNHK---KFSIGEKVAKKVLKLN-P-DDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGY  517 (589)
Q Consensus       443 ~p~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~  517 (589)
                      .++..+...+..++.+.+   ++++|+.+++.+++.+ | ++..+++.|+-.|.+.|++++|+++++.+.+         
T Consensus        29 ~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~---------   99 (152)
T 1pc2_A           29 SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ---------   99 (152)
T ss_dssp             CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHH---------
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHh---------
Confidence            356677777777777766   6668888888888777 6 5577788888888888888888888888876         


Q ss_pred             eEEEECCEEEEEEecCCCCCChHHHHHHHHHHHHHHHhcCCc
Q 048179          518 SVVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMRAISSW  559 (589)
Q Consensus       518 s~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  559 (589)
                                       ..|...+.......+..++++.|..
T Consensus       100 -----------------ieP~n~QA~~Lk~~ie~~~~kdgl~  124 (152)
T 1pc2_A          100 -----------------TEPQNNQAKELERLIDKAMKKDGLV  124 (152)
T ss_dssp             -----------------HCTTCHHHHHHHHHHHHHHHHTTCC
T ss_pred             -----------------cCCCCHHHHHHHHHHHHHHHHhhHH
Confidence                             2445566666666666777776643

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.47  E-value=0.00023  Score=53.82  Aligned_cols=63  Identities=21%  Similarity=0.396  Sum_probs=35.5

Q ss_pred             HHHHHHcCCHHHHHHHHHhcC-CCC-Chh-HHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhH
Q 048179          421 VDLLARAGEVEEALKIVDSMS-TEP-GLA-VWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIH  483 (589)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~-~~p-~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  483 (589)
                      ...+.+.|++++|.+.+++.. ..| +.. .|..+..++...|++++|++.++++++++|+++..+
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~   72 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQ   72 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHH
Confidence            445555666666666665542 123 334 555555556666666666666666666666655544

>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=97.36  E-value=0.005  Score=58.01  Aligned_cols=64  Identities=11%  Similarity=-0.036  Sum_probs=35.9

Q ss_pred             ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          445 GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       445 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      +..++..+...+...|+++.|...++++++++| +...|..++.++.-.|++++|.+.++++...
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~-s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL  339 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDLEM-SWLNYVLLGKVYEMKGMNREAADAYLTAFNL  339 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            444555554444555666666666666666654 3445555566666666666666666555543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.30  E-value=0.001  Score=50.02  Aligned_cols=53  Identities=17%  Similarity=0.190  Sum_probs=27.2

Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhcCCCCChh-hHHHHHHHHHHcCCHHHHHHHHHhc
Q 048179          386 SALSHSGLVEEGRYWFDLMVSKYKIQPTEK-HYACMVDLLARAGEVEEALKIVDSM  440 (589)
Q Consensus       386 ~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~  440 (589)
                      ..+...|++++|...|+.+.+.  .+.+.. .+..+..+|.+.|++++|.+.|++.
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a   61 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSA   61 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444555555555555555542  122234 4555555555555555555555554

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.26  E-value=0.0015  Score=49.44  Aligned_cols=63  Identities=14%  Similarity=0.109  Sum_probs=33.5

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Q 048179          343 LISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVS  406 (589)
Q Consensus       343 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  406 (589)
                      ...|..+...|...|++++|+..|++.++.. +.+...+..+..++...|++++|...|++..+
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3445555555555555555555555555542 22334455555555555555555555555543

>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=0.0023  Score=60.34  Aligned_cols=152  Identities=11%  Similarity=0.014  Sum_probs=103.0

Q ss_pred             HHHHHHHHhcCCCChhHHHHHHHHHH--hcCC---HHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhc----CC----cH
Q 048179          329 SCARALFDQMQSRDLISWNVIIASYG--IHGH---GEEALSLFLQMIETMVKPD-HSTFASLLSALSH----SG----LV  394 (589)
Q Consensus       329 ~~A~~~~~~~~~~~~~~~~~li~~~~--~~g~---~~~A~~~~~~m~~~~~~p~-~~t~~~ll~a~~~----~g----~~  394 (589)
                      .++...... ...+..+|...+.+..  ..++   ..+|+.+|++.++.  .|+ ...+..+..++..    .+    ..
T Consensus       181 ~e~~r~~~~-~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~  257 (372)
T 3ly7_A          181 RMQETLQKI-LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQL  257 (372)
T ss_dssp             HHHHHHHHH-SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHhcc-CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhH
Confidence            333444433 3357788888887654  3333   57899999999986  455 4566665555531    11    11


Q ss_pred             HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCCChhHHHHHHHHHHhcCCchHHHHHHHHHh
Q 048179          395 EEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEPGLAVWVALLSGCHNHKKFSIGEKVAKKVL  473 (589)
Q Consensus       395 ~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  473 (589)
                      ......++........+.+...|..+...+...|++++|...++++. ..|+...|..+...+...|++++|.+.+++++
T Consensus       258 ~~l~~a~~a~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~Al  337 (372)
T 3ly7_A          258 AALNTEIDNIVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAF  337 (372)
T ss_dssp             HHHHHHHHHHHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            11112222221111335567888888888888899999999999973 35888888888888999999999999999999


Q ss_pred             ccCCCCchhHH
Q 048179          474 KLNPDDLGIHA  484 (589)
Q Consensus       474 ~~~p~~~~~~~  484 (589)
                      .++|..+ .|.
T Consensus       338 rL~P~~~-t~~  347 (372)
T 3ly7_A          338 NLRPGAN-TLY  347 (372)
T ss_dssp             HHSCSHH-HHH
T ss_pred             hcCCCcC-hHH
Confidence            9999664 444

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.19  E-value=0.0023  Score=62.87  Aligned_cols=95  Identities=18%  Similarity=0.087  Sum_probs=70.0

Q ss_pred             cCCcHHHHHHHHHHHHHhc--CCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHhcC---------CCCC-hhHHHHHH
Q 048179          390 HSGLVEEGRYWFDLMVSKY--KIQPT----EKHYACMVDLLARAGEVEEALKIVDSMS---------TEPG-LAVWVALL  453 (589)
Q Consensus       390 ~~g~~~~a~~~~~~~~~~~--~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~p~-~~~~~~l~  453 (589)
                      +.|++++|..++++..+..  -+.|+    ..+++.|..+|...|++++|+.++++..         ..|+ ..+++.|.
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            4577888888887765531  22233    4567888888999999999888887752         2344 34688899


Q ss_pred             HHHHhcCCchHHHHHHHHHhc-----cCCCCchhHH
Q 048179          454 SGCHNHKKFSIGEKVAKKVLK-----LNPDDLGIHA  484 (589)
Q Consensus       454 ~~~~~~~~~~~a~~~~~~~~~-----~~p~~~~~~~  484 (589)
                      ..|..+|++++|+.+++++++     ++|+++.+-.
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~  425 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIMEVAHGKDHPYISE  425 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHHH
Confidence            999999999999999999986     4688775543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.06  E-value=2.6e-05  Score=74.66  Aligned_cols=238  Identities=15%  Similarity=0.112  Sum_probs=154.8

Q ss_pred             ChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 048179          110 DVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACAD  189 (589)
Q Consensus       110 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~  189 (589)
                      .+.+|+.|..+....|++.+|++-|  ++..|...|..+|....+.|.+++-++.+...++..-  ++..=+.|+-+|++
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsy--IkA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~ayAk  128 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSY--IKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFALAK  128 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSS--CCCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHHHHT
T ss_pred             CccHHHHHHHHHHccCchHHHHHHH--HhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHHHHh
Confidence            4556777777777777777766544  2335666777777777777888777777666555422  33334567777777


Q ss_pred             cCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC------------------------CCeeh
Q 048179          190 LGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR------------------------INIVT  245 (589)
Q Consensus       190 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------------------------~~~~~  245 (589)
                      .+++.+-++.+.       .|+..-...+.+-|...|.++.|.-+|..+..                        .++.+
T Consensus       129 ~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~kt  201 (624)
T 3lvg_A          129 TNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRT  201 (624)
T ss_dssp             SCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCS
T ss_pred             hCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhH
Confidence            777654433321       34554555667777777777777777766532                        46778


Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhc
Q 048179          246 WGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKC  325 (589)
Q Consensus       246 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  325 (589)
                      |-.+-.+|...+.+.-|--.--.++-   .||  -+..++..|...|.+++-..+++.....-.....+++-|.-.|+|-
T Consensus       202 WKeV~~ACvd~~EfrLAqicGLniIv---had--eL~elv~~YE~~G~f~ELIsLlEaglglErAHmGmFTELaILYsKY  276 (624)
T 3lvg_A          202 WKEVCFACVDGKEFRLAQMCGLHIVV---HAD--ELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKF  276 (624)
T ss_dssp             HHHHTHHHHHSCTTTTTTHHHHHHHC---CSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTSTTCCHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHhCchHHHHHHHhcchhcc---cHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCCchhHHHHHHHHHHHHhc
Confidence            99988899998887766444333331   222  1233455677888888888888777754556778888888888875


Q ss_pred             CCHHHHHHHHHhcCC-----------CChhHHHHHHHHHHhcCCHHHHHH
Q 048179          326 GVPSCARALFDQMQS-----------RDLISWNVIIASYGIHGHGEEALS  364 (589)
Q Consensus       326 g~~~~A~~~~~~~~~-----------~~~~~~~~li~~~~~~g~~~~A~~  364 (589)
                       ++++..+-++....           .....|.-++-.|.+..+++.|..
T Consensus       277 -~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          277 -KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             -CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             -CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence             44554444443332           244568888888888888887754

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=97.03  E-value=0.002  Score=58.09  Aligned_cols=87  Identities=11%  Similarity=0.101  Sum_probs=69.6

Q ss_pred             HHHHHHHHHhc-CCCCC---hhHHHHHHHHHHhc-----CCchHHHHHHHHHhccCCCC-chhHHHHHHHHHh-CCChHH
Q 048179          430 VEEALKIVDSM-STEPG---LAVWVALLSGCHNH-----KKFSIGEKVAKKVLKLNPDD-LGIHALVSNFFAM-EQKWEE  498 (589)
Q Consensus       430 ~~~A~~~~~~~-~~~p~---~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~p~~-~~~~~~l~~~~~~-~g~~~~  498 (589)
                      ..+|...+++. ...|+   ...|..|...|...     |+.++|++.|+++++++|+. ..+++.++..+.. .|+.++
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            44555556554 33455   55788888888874     99999999999999999975 9999999999988 499999


Q ss_pred             HHHHHHHHHhCCCccCCc
Q 048179          499 VAGVRKTMRKSGMKKVPG  516 (589)
Q Consensus       499 a~~~~~~m~~~g~~~~~~  516 (589)
                      |.+.+++.....+...|+
T Consensus       259 a~~~L~kAL~a~p~~~P~  276 (301)
T 3u64_A          259 FDEALDRALAIDPESVPH  276 (301)
T ss_dssp             HHHHHHHHHHCCGGGCSS
T ss_pred             HHHHHHHHHcCCCCCCCC
Confidence            999999999877765565

>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=96.98  E-value=0.0065  Score=59.78  Aligned_cols=101  Identities=16%  Similarity=0.071  Sum_probs=73.4

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhc--CCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHhcC---------CCCC-hhH
Q 048179          385 LSALSHSGLVEEGRYWFDLMVSKY--KIQPT----EKHYACMVDLLARAGEVEEALKIVDSMS---------TEPG-LAV  448 (589)
Q Consensus       385 l~a~~~~g~~~~a~~~~~~~~~~~--~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~p~-~~~  448 (589)
                      +..+...|++++|..++++..+..  -+.|+    ..+++.++.+|...|++++|+.++++..         ..|+ ..+
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            344556678888888888776431  12233    4567788888888999999988887752         1244 346


Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHhc-----cCCCCchhHHH
Q 048179          449 WVALLSGCHNHKKFSIGEKVAKKVLK-----LNPDDLGIHAL  485 (589)
Q Consensus       449 ~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~p~~~~~~~~  485 (589)
                      ++.|...|..+|++++|+..++++++     ++|+++.+-..
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~  415 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIEDL  415 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHHH
Confidence            88899999999999999999999985     46888755544

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.92  E-value=0.0059  Score=46.46  Aligned_cols=75  Identities=11%  Similarity=0.061  Sum_probs=58.3

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHhcCC---------CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhH
Q 048179          413 TEKHYACMVDLLARAGEVEEALKIVDSMST---------EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIH  483 (589)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  483 (589)
                      +..-+..|+..+.+.|+++.|..+++....         .+...++..|..++.+.|+++.|...++++++++|+++.+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~   83 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRAN   83 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHH
Confidence            344455677777788888888877776421         13456788999999999999999999999999999998876


Q ss_pred             HHHH
Q 048179          484 ALVS  487 (589)
Q Consensus       484 ~~l~  487 (589)
                      ..+.
T Consensus        84 ~n~~   87 (104)
T 2v5f_A           84 GNLK   87 (104)
T ss_dssp             HHHH
T ss_pred             hhHH
Confidence            6664

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.81  E-value=0.0092  Score=46.33  Aligned_cols=65  Identities=5%  Similarity=-0.094  Sum_probs=36.6

Q ss_pred             CChhHHHHHHHHHHhcCCch---HHHHHHHHHhccC-C-CCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          444 PGLAVWVALLSGCHNHKKFS---IGEKVAKKVLKLN-P-DDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       444 p~~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      |+..+--.+..++.+.++..   +++.+++.+++.+ | ........|+-.+.+.|++++|+++++.+.+
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~  102 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ  102 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            44445455555555444333   3666666666554 3 3445555666666666666666666666654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.59  E-value=0.0096  Score=48.15  Aligned_cols=75  Identities=12%  Similarity=0.134  Sum_probs=51.4

Q ss_pred             CChhhHHHHHHHHHHcC---CHHHHHHHHHhcCC-C-C--ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHH
Q 048179          412 PTEKHYACMVDLLARAG---EVEEALKIVDSMST-E-P--GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHA  484 (589)
Q Consensus       412 p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~-~-p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  484 (589)
                      ++..+.-.+..++.+.+   +.++++.+++.... . |  +...+..|.-+|.+.|++++|.+.++++++++|++..+..
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~ieP~n~QA~~  109 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQAKE  109 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHH
Confidence            45555555555666655   44456665555421 2 3  3456677788899999999999999999999998875554


Q ss_pred             HH
Q 048179          485 LV  486 (589)
Q Consensus       485 ~l  486 (589)
                      ..
T Consensus       110 Lk  111 (152)
T 1pc2_A          110 LE  111 (152)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.38  E-value=0.13  Score=55.48  Aligned_cols=102  Identities=15%  Similarity=0.073  Sum_probs=62.0

Q ss_pred             HhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHH
Q 048179          321 MYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYW  400 (589)
Q Consensus       321 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~  400 (589)
                      .....|+++.|.++.+.+.  +...|..+...+.+.++++.|.+.|.++..         |..+...+...|+.+...++
T Consensus       661 ~~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~  729 (814)
T 3mkq_A          661 LALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTL  729 (814)
T ss_dssp             HHHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHH
T ss_pred             hhhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHH
Confidence            4456788888888776653  457788888888888888888888877532         22333334445565555544


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc
Q 048179          401 FDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM  440 (589)
Q Consensus       401 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  440 (589)
                      -+.+... +      .++....+|.+.|++++|++++.++
T Consensus       730 ~~~a~~~-~------~~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          730 AKDAETT-G------KFNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHc-C------chHHHHHHHHHcCCHHHHHHHHHHc
Confidence            4444332 1      2233344555566666666665544

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.38  E-value=0.026  Score=41.70  Aligned_cols=69  Identities=14%  Similarity=0.082  Sum_probs=51.4

Q ss_pred             CCChhhHHHHHHHHHHcCC---HHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCC
Q 048179          411 QPTEKHYACMVDLLARAGE---VEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD  479 (589)
Q Consensus       411 ~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  479 (589)
                      +++...+..+..++...++   .++|..++++.. ..| +...+..+...+...|++++|+..++++++.+|++
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~~   76 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDPN   76 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCTT
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence            3556777777777765554   688888888763 344 45677777778888899999999999998888873

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.34  E-value=0.26  Score=38.36  Aligned_cols=141  Identities=13%  Similarity=0.051  Sum_probs=91.3

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHH
Q 048179          354 GIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEA  433 (589)
Q Consensus       354 ~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  433 (589)
                      .-.|..++..++..+.....   +..-++.++--....-+-+-..+.++.+-+-|.+.+              +|++...
T Consensus        18 ildG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis~--------------C~NlKrV   80 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDK--------------CQNLKSV   80 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGG--------------CSCTHHH
T ss_pred             HHhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhhcCcHh--------------hhcHHHH
Confidence            34567777777777766532   334455555444444455555666666655443322              3333333


Q ss_pred             HHHHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCcc
Q 048179          434 LKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKK  513 (589)
Q Consensus       434 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~  513 (589)
                      ..-+-.+.  .+.......+.....+|.-++-.+++..++.-.|.+++.+..++.+|.+.|+..+|.++++++=++|++.
T Consensus        81 i~C~~~~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~kE  158 (172)
T 1wy6_A           81 VECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEKE  158 (172)
T ss_dssp             HHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhHH
Confidence            33333332  2344455667778888888888888888777777789999999999999999999999999998888753

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=96.27  E-value=0.11  Score=41.06  Aligned_cols=90  Identities=6%  Similarity=-0.046  Sum_probs=56.9

Q ss_pred             CCChhHHHHHHHHHHhcC---CchHHHHHHHHHhccCCC-CchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCcee
Q 048179          443 EPGLAVWVALLSGCHNHK---KFSIGEKVAKKVLKLNPD-DLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYS  518 (589)
Q Consensus       443 ~p~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s  518 (589)
                      .|+..+--.+..++.+..   +..+++.+++.+++..|. ....+..|+-.+.+.|++++|+++.+.+.+          
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~----------  105 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE----------  105 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH----------
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh----------
Confidence            355555555555555444   345677777777776663 455666677777777777777777777765          


Q ss_pred             EEEECCEEEEEEecCCCCCChHHHHHHHHHHHHHHHhcCC
Q 048179          519 VVEVNGELHAFIMEDKSHNQYEDIVYVLKKLYLEMRAISS  558 (589)
Q Consensus       519 ~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  558 (589)
                                      ..|.+.+..+....+..+|.+.|.
T Consensus       106 ----------------~eP~n~QA~~Lk~~Ie~~i~kdGl  129 (144)
T 1y8m_A          106 ----------------HERNNKQVGALKSMVEDKIQKETL  129 (144)
T ss_dssp             ----------------TCCCCHHHHHHHHHHHHHHHHTTT
T ss_pred             ----------------cCCCcHHHHHHHHHHHHHHHHhch
Confidence                            234555555555556666666664

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=96.23  E-value=1.1  Score=45.91  Aligned_cols=114  Identities=9%  Similarity=0.106  Sum_probs=66.3

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHH----HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHH
Q 048179          357 GHGEEALSLFLQMIETMVKPDHST----FASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEE  432 (589)
Q Consensus       357 g~~~~A~~~~~~m~~~~~~p~~~t----~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  432 (589)
                      .+.+.|...|....+.. ..+...    ...+.......+...++...+......   .++.....-.+....+.|+++.
T Consensus       228 ~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~e~~~r~Alr~~d~~~  303 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRG  303 (618)
T ss_dssp             HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHH
T ss_pred             cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc---CCChHHHHHHHHHHHHCCCHHH
Confidence            37788888888876543 223222    222333344445345555566654432   2333333344455567789999


Q ss_pred             HHHHHHhcCCCC-ChhHHHH-HHHHHHhcCCchHHHHHHHHHhc
Q 048179          433 ALKIVDSMSTEP-GLAVWVA-LLSGCHNHKKFSIGEKVAKKVLK  474 (589)
Q Consensus       433 A~~~~~~~~~~p-~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~  474 (589)
                      |...|+.|...+ +..-|.- +..+....|+.++|..+++++.+
T Consensus       304 a~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          304 LNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            999998887543 2222222 33456678888888888888875

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=95.98  E-value=0.045  Score=59.12  Aligned_cols=154  Identities=14%  Similarity=0.054  Sum_probs=85.3

Q ss_pred             hHhcCCHHHHHH-HHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHH
Q 048179          322 YSKCGVPSCARA-LFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYW  400 (589)
Q Consensus       322 ~~~~g~~~~A~~-~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~  400 (589)
                      ....+++++|.+ ++..+..  ......++..+.+.|..++|+++.+.       |+ .-    .......|++++|.++
T Consensus       609 ~~~~~~~~~a~~~~l~~i~~--~~~~~~~~~~l~~~~~~~~a~~~~~~-------~~-~~----f~~~l~~~~~~~A~~~  674 (814)
T 3mkq_A          609 LTLRGEIEEAIENVLPNVEG--KDSLTKIARFLEGQEYYEEALNISPD-------QD-QK----FELALKVGQLTLARDL  674 (814)
T ss_dssp             HHHTTCHHHHHHHTGGGCCC--HHHHHHHHHHHHHTTCHHHHHHHCCC-------HH-HH----HHHHHHHTCHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHhcCCc--hHHHHHHHHHHHhCCChHHheecCCC-------cc-hh----eehhhhcCCHHHHHHH
Confidence            345677787777 5544331  12226666677778888887765531       11 11    1223456888888777


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC----------CCChhHHHHHHHHHHhcCCchHHHHHHH
Q 048179          401 FDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST----------EPGLAVWVALLSGCHNHKKFSIGEKVAK  470 (589)
Q Consensus       401 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----------~p~~~~~~~l~~~~~~~~~~~~a~~~~~  470 (589)
                      .+.+       .+...|..+.+.+.+.|+++.|.+.|.++..          ..+...+..+...+...|+++.|..++.
T Consensus       675 ~~~~-------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d~~~l~~l~~~~~~~~~~~~~~~~a~~~~~~~~A~~~~~  747 (814)
T 3mkq_A          675 LTDE-------SAEMKWRALGDASLQRFNFKLAIEAFTNAHDLESLFLLHSSFNNKEGLVTLAKDAETTGKFNLAFNAYW  747 (814)
T ss_dssp             HTTC-------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHhh-------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccChhhhHHHHHHcCCHHHHHHHHHHHHHcCchHHHHHHHH
Confidence            5433       3567888888888888888888888887752          0112222233333344444444444433


Q ss_pred             HHhccCCCCchhHHHHHHHHHhCCChHHHHHHHH
Q 048179          471 KVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRK  504 (589)
Q Consensus       471 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  504 (589)
                      +.        .-+.....+|.+.++|++|..+-+
T Consensus       748 ~~--------g~~~~a~~~~~~~~~~~~A~~lA~  773 (814)
T 3mkq_A          748 IA--------GDIQGAKDLLIKSQRFSEAAFLGS  773 (814)
T ss_dssp             HH--------TCHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             Hc--------CCHHHHHHHHHHcCChHHHHHHHH
Confidence            32        112334455566666666666554

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.93  E-value=0.27  Score=40.76  Aligned_cols=129  Identities=13%  Similarity=0.114  Sum_probs=73.0

Q ss_pred             HHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHH
Q 048179          320 DMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRY  399 (589)
Q Consensus       320 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~  399 (589)
                      +....+|+++.|.++.+.+  .+...|..+......+|+++-|.+.|.+...         |..+.--|.-.|+.+.-.+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~k   81 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSK   81 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHH
Confidence            3445677777777776665  3566777777777777777777777776432         2233333444566655554


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHHH
Q 048179          400 WFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKV  472 (589)
Q Consensus       400 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  472 (589)
                      +-+..... +      -++.....+.-.|+++++.+++.+...-|...      .....+|-.+.|.++.+.+
T Consensus        82 la~iA~~~-g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~eA~------~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           82 MQNIAQTR-E------DFGSMLLNTFYNNSTKERSSIFAEGGSLPLAY------AVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHH------HHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHC-c------cHHHHHHHHHHcCCHHHHHHHHHHCCChHHHH------HHHHHcCcHHHHHHHHHHh
Confidence            44444332 1      23444455556677777777776654322111      1123355556666665544

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.86  E-value=0.029  Score=42.47  Aligned_cols=65  Identities=9%  Similarity=-0.003  Sum_probs=55.3

Q ss_pred             ChhHHHHHHHHHHhcCCchHHHHHHHHHhccC-------CCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          445 GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLN-------PDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       445 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      +..-...++..+...|+++.|..-++++++..       +..+.++..|+.+|.+.|++++|...++++.+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            34456678888999999999999999999752       345678999999999999999999999998863

>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=95.61  E-value=0.15  Score=40.63  Aligned_cols=53  Identities=6%  Similarity=-0.081  Sum_probs=35.2

Q ss_pred             CCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCc
Q 048179          460 KKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMK  512 (589)
Q Consensus       460 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~  512 (589)
                      +|.++|.++|+.++++...-+..|...+..-.++|+...|.+++.+....+.+
T Consensus        74 ~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             cCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            56677777777776654444566666666677777777777777777665543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.59  E-value=0.051  Score=56.74  Aligned_cols=54  Identities=11%  Similarity=0.097  Sum_probs=50.6

Q ss_pred             HHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHH
Q 048179          454 SGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMR  507 (589)
Q Consensus       454 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  507 (589)
                      .-|...|+++.|.++.+++...-|.+-.+|..|+.+|...|+|+.|+-.++.+.
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            347788999999999999999999999999999999999999999999999874

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=95.44  E-value=0.099  Score=40.71  Aligned_cols=65  Identities=8%  Similarity=-0.036  Sum_probs=42.3

Q ss_pred             CChhHHHHHHHHHHhcC---CchHHHHHHHHHhccCCC-CchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          444 PGLAVWVALLSGCHNHK---KFSIGEKVAKKVLKLNPD-DLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       444 p~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      |+..+--.+..++.+..   +..+|+.+++.+++.+|. ....+..|+-.+.+.|++++|+++.+.+.+
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            45555445555554443   345677777777776663 456667777777777777777777777765

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.37  E-value=0.79  Score=38.00  Aligned_cols=129  Identities=16%  Similarity=0.150  Sum_probs=76.4

Q ss_pred             HHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHH
Q 048179          119 NLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLS  198 (589)
Q Consensus       119 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~  198 (589)
                      .....+|+++.|.++.+.+  .+...|..|.......|+++-|.++|.+..+         +..+.-.|...|+.+.-..
T Consensus        13 ~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~k   81 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSK   81 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHH
Confidence            3445667777777776665  3456777777777777777777777777543         3444444555666665555


Q ss_pred             HHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHHHH
Q 048179          199 VHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEM  269 (589)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  269 (589)
                      +-+.....|-      ++.....+.-.|+++++.++|.+..+.+     --.......|..+.|.++..++
T Consensus        82 la~iA~~~g~------~n~af~~~l~lGdv~~~i~lL~~~~r~~-----eA~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           82 MQNIAQTRED------FGSMLLNTFYNNSTKERSSIFAEGGSLP-----LAYAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHTTCHH-----HHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHCcc------HHHHHHHHHHcCCHHHHHHHHHHCCChH-----HHHHHHHHcCcHHHHHHHHHHh
Confidence            5554444441      3344445566788888888877655411     1111112355566666666554

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.24  E-value=0.24  Score=38.36  Aligned_cols=75  Identities=12%  Similarity=0.111  Sum_probs=51.2

Q ss_pred             CChhhHHHHHHHHHHcCCHHH---HHHHHHhcCCC--C--ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHH
Q 048179          412 PTEKHYACMVDLLARAGEVEE---ALKIVDSMSTE--P--GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHA  484 (589)
Q Consensus       412 p~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~--p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  484 (589)
                      |+..+--.+..++.+.....+   ++.+++.....  |  .....-.|.-++.+.|++++|.+.++.+++.+|+|..+..
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~eP~n~QA~~  112 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQAKE  112 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHH
Confidence            555555555666666665554   66666665322  3  2334556677899999999999999999999998876655


Q ss_pred             HH
Q 048179          485 LV  486 (589)
Q Consensus       485 ~l  486 (589)
                      ..
T Consensus       113 Lk  114 (126)
T 1nzn_A          113 LE  114 (126)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.49  E-value=6.2  Score=42.25  Aligned_cols=90  Identities=13%  Similarity=0.080  Sum_probs=50.2

Q ss_pred             hHhHHHHhhhcCCChHHHHHHhccCCCCC--------------ccc----HHHHHHHHHcCCCch----hHHHHHHHHHH
Q 048179           12 SVGRIIALYGGKNDIVSARKLFEELPLRG--------------VDT----YNSIIIAYSRKESPF----EVLGLYNQMIK   69 (589)
Q Consensus        12 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--------------~~~----~~~li~~~~~~g~~~----~a~~~~~~m~~   69 (589)
                      +...++..+.+.|...+|..+.-+..+-|              ...    ++-++.+....-.++    +.+++.-.+..
T Consensus       147 Lv~~iv~~cl~hnae~~AvdLalE~erLD~Le~~vd~~~~~~~~~n~~rvclYlls~v~~lv~p~~fr~~vLr~l~~Iy~  226 (963)
T 4ady_A          147 IFERMIEKCLKASELKLALGIALEGYRLDIIESALKSKLDQDSTSENVKIINYLLTLAITTVTNSKFRSSILRKSFDFLM  226 (963)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHhhHHHHHHHHHhhccccccccHHHHHHHHHHHhhccCCChHHHHHHHHHHHHHHH
Confidence            45667777777788888877776654322              012    222333322222222    23332222221


Q ss_pred             CCCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHH
Q 048179           70 EDVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVE  104 (589)
Q Consensus        70 ~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  104 (589)
                      . .  +..-|..++++..+.++.+.+.++|..+..
T Consensus       227 k-~--~~~dy~~a~~~ai~LnD~~li~~if~~l~~  258 (963)
T 4ady_A          227 N-M--PNCDYLTLNKVVVNLNDAGLALQLFKKLKE  258 (963)
T ss_dssp             H-S--SSCCHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             h-C--CchhHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            1 1  123467777888888999999999998764

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=94.36  E-value=0.062  Score=48.52  Aligned_cols=104  Identities=9%  Similarity=0.106  Sum_probs=68.2

Q ss_pred             HHHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHHHc-----CCHHHHHHHHHhc-CCCCC--hhHHHHHHHHHHh-cCC
Q 048179          394 VEEGRYWFDLMVSKYKIQPT---EKHYACMVDLLARA-----GEVEEALKIVDSM-STEPG--LAVWVALLSGCHN-HKK  461 (589)
Q Consensus       394 ~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~-----g~~~~A~~~~~~~-~~~p~--~~~~~~l~~~~~~-~~~  461 (589)
                      ...|...++++.+   +.|+   ...|..|...|.+.     |+.++|.+.|++. ...|+  ..++......++. .|+
T Consensus       179 l~~A~a~lerAle---LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd  255 (301)
T 3u64_A          179 VHAAVMMLERACD---LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNN  255 (301)
T ss_dssp             HHHHHHHHHHHHH---HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTC
T ss_pred             HHHHHHHHHHHHH---hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCC
Confidence            4455566666653   4566   44677888888884     8888888888886 33553  6667777777666 488


Q ss_pred             chHHHHHHHHHhccCCCC-chhHHHHHHHHHhCCChHHHHHHHHHH
Q 048179          462 FSIGEKVAKKVLKLNPDD-LGIHALVSNFFAMEQKWEEVAGVRKTM  506 (589)
Q Consensus       462 ~~~a~~~~~~~~~~~p~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m  506 (589)
                      .+++.+.+++++..+|.. +.  ..+++.    +.-.+|..++.++
T Consensus       256 ~~~a~~~L~kAL~a~p~~~P~--~~lan~----~~q~eA~~LL~~~  295 (301)
T 3u64_A          256 RAGFDEALDRALAIDPESVPH--NKLLVI----LSQKRARWLKAHV  295 (301)
T ss_dssp             HHHHHHHHHHHHHCCGGGCSS--CHHHHH----HHHHHHHHHHHTH
T ss_pred             HHHHHHHHHHHHcCCCCCCCC--hhHHHH----HHHHHHHHHHHHh
Confidence            999999999999887753 32  233333    3334566555544

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=91.88  E-value=7.6  Score=35.67  Aligned_cols=113  Identities=13%  Similarity=0.059  Sum_probs=73.1

Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHH----HHHHHHCCCCCChhhHHHHHHHHH
Q 048179          113 VGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDA----YKRMKKEGIDADEVVMMGLIQACA  188 (589)
Q Consensus       113 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~m~~~~~~p~~~t~~~ll~~~~  188 (589)
                      .|.++..=|.+.+++++|.+++..-           ...+.+.|+...|-++    ++...+.+++++......++..+.
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~g-----------a~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~  103 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQG-----------ALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIA  103 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            3444556677888888888764432           3445667777665554    455556688888888877777766


Q ss_pred             ccCCcH-HHHHHHHHHHH----hc--CCCchHHHHHHHHHHHhcCCHHHHHHHHh
Q 048179          189 DLGDSR-FGLSVHGYSIR----RH--LNLDVKVQTSLVDMYAKTGHLDLASHVFK  236 (589)
Q Consensus       189 ~~~~~~-~a~~~~~~~~~----~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  236 (589)
                      ....-+ .-..+...+++    .|  ...++.....+...|.+.|++.+|+..|-
T Consensus       104 ~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i  158 (312)
T 2wpv_A          104 ELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFM  158 (312)
T ss_dssp             TCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHH
Confidence            533211 22334444443    32  23477888889999999999999888775

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=91.82  E-value=3.7  Score=32.02  Aligned_cols=139  Identities=10%  Similarity=0.010  Sum_probs=83.4

Q ss_pred             HhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHH
Q 048179          254 AQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARA  333 (589)
Q Consensus       254 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  333 (589)
                      .-.|..++..++..+....   .+..-++.++--....-+-+...++++.+-+.++            ...||++.....
T Consensus        18 ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFD------------is~C~NlKrVi~   82 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFD------------LDKCQNLKSVVE   82 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSC------------GGGCSCTHHHHH
T ss_pred             HHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhhcC------------cHhhhcHHHHHH
Confidence            3456666666666666553   2233333333333333333333333333222222            134566666666


Q ss_pred             HHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCC
Q 048179          334 LFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKI  410 (589)
Q Consensus       334 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  410 (589)
                      .+-.+-. +....+..+..+...|+-++-.+++.++.. +.+|++.....+..||.+.|+..++.+++.++.+. |+
T Consensus        83 C~~~~n~-~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~k-G~  156 (172)
T 1wy6_A           83 CGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKK-GE  156 (172)
T ss_dssp             HHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TC
T ss_pred             HHHHhcc-hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHh-hh
Confidence            6655543 344556667777888888888888888544 34777888888888888889888888888888776 55

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.29  E-value=10  Score=37.20  Aligned_cols=50  Identities=10%  Similarity=-0.036  Sum_probs=33.5

Q ss_pred             CCchhHHHHHHHHHHC-----CCCCCcccHHHHHHHHhccCCHHHHHHHHHHHHH
Q 048179           55 ESPFEVLGLYNQMIKE-----DVRPDSSTFTVALKACVSLMDLKMGEEIWRKAVE  104 (589)
Q Consensus        55 g~~~~a~~~~~~m~~~-----~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  104 (589)
                      |++.+|++.+..+.+.     +..........++..|...++++...+.+..+.+
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lsk   84 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSK   84 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            6788888877666542     2233444567778888888888887776665543

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=90.50  E-value=1.3  Score=36.04  Aligned_cols=113  Identities=10%  Similarity=0.123  Sum_probs=62.7

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCh-------hhHHHHHHHHHHcCCHHHHHHHHHhcC-------CCCC
Q 048179          380 TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTE-------KHYACMVDLLARAGEVEEALKIVDSMS-------TEPG  445 (589)
Q Consensus       380 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~p~  445 (589)
                      ++..-+..+...|.++.|+-+.+.+....+..|+.       .++..+.+++...|++..|...|++..       ..|+
T Consensus        22 ~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s  101 (167)
T 3ffl_A           22 NVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSK  101 (167)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC-----
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            34444566667777777777777655432333432       244556677777777777777776631       1111


Q ss_pred             hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHH
Q 048179          446 LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTM  506 (589)
Q Consensus       446 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  506 (589)
                      .  ..++. .   ...       ...-..+ +.+...-..++.+|.+.|++++|+.+++.+
T Consensus       102 ~--~~~~~-~---~ss-------~p~s~~~-~~e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A          102 V--RPSTG-N---SAS-------TPQSQCL-PSEIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             ----------------------------CC-CCHHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             c--ccccc-c---cCC-------Ccccccc-cchHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence            1  00110 0   000       0000111 234467778999999999999999998865

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=90.35  E-value=3.5  Score=29.98  Aligned_cols=87  Identities=14%  Similarity=0.120  Sum_probs=62.4

Q ss_pred             CcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHh
Q 048179          192 DSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQS  271 (589)
Q Consensus       192 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  271 (589)
                      ..++|.-+-+.+...+.  ...+--.-+..+...|++++|..+.+...-||...|-+|..  .+.|..+++...+.++..
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~   97 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLAR   97 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            45566666665555443  33333334456678999999999999999999999988765  578888888888888887


Q ss_pred             cCCCCCHHHHHH
Q 048179          272 CGFEPDSVSLVS  283 (589)
Q Consensus       272 ~g~~p~~~~~~~  283 (589)
                      +| .|....|..
T Consensus        98 sg-~p~~q~Fa~  108 (116)
T 2p58_C           98 SQ-DPRIQTFVN  108 (116)
T ss_dssp             CC-CHHHHHHHH
T ss_pred             CC-CHHHHHHHH
Confidence            76 566555543

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=89.91  E-value=3.2  Score=30.10  Aligned_cols=87  Identities=15%  Similarity=0.125  Sum_probs=62.9

Q ss_pred             CcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHh
Q 048179          192 DSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQS  271 (589)
Q Consensus       192 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  271 (589)
                      ..++|.-+-+.+...+.  ...+--.-+..+...|++++|..+.+...-||...|-+|..  .+.|..+++...+.++..
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~   96 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLGG   96 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            45566666655555442  33333334456678999999999999999999999988765  588998999888888888


Q ss_pred             cCCCCCHHHHHH
Q 048179          272 CGFEPDSVSLVS  283 (589)
Q Consensus       272 ~g~~p~~~~~~~  283 (589)
                      +| .|....|..
T Consensus        97 sg-~p~~q~Fa~  107 (115)
T 2uwj_G           97 SS-DPALADFAA  107 (115)
T ss_dssp             CS-SHHHHHHHH
T ss_pred             CC-CHHHHHHHH
Confidence            77 566555543

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=89.84  E-value=12  Score=34.56  Aligned_cols=111  Identities=14%  Similarity=0.118  Sum_probs=70.5

Q ss_pred             HHHHHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHH----HHHHHCCCCCChhhHHHHHHHHHcc
Q 048179          115 SSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAY----KRMKKEGIDADEVVMMGLIQACADL  190 (589)
Q Consensus       115 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~----~~m~~~~~~p~~~t~~~ll~~~~~~  190 (589)
                      .++..=|.+.+++++|.+++-.-           ...+.+.|+...|-++-    +...+.++++|..+...++..+...
T Consensus        39 RTi~~Ry~~~k~y~eAidLL~~G-----------A~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~  107 (336)
T 3lpz_A           39 RLVAARYSKQGNWAAAVDILASV-----------SQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLF  107 (336)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHhhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhC
Confidence            34555577788888888764332           34456677776555544    5555678888888877777777665


Q ss_pred             CCcH-HHHHHHHHHHH----hc--CCCchHHHHHHHHHHHhcCCHHHHHHHHh
Q 048179          191 GDSR-FGLSVHGYSIR----RH--LNLDVKVQTSLVDMYAKTGHLDLASHVFK  236 (589)
Q Consensus       191 ~~~~-~a~~~~~~~~~----~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  236 (589)
                      ..-+ .-..+.+.+++    .|  ..-|+.....+...|.+.+++.+|+..|=
T Consensus       108 ~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i  160 (336)
T 3lpz_A          108 QPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV  160 (336)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT
T ss_pred             CCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Confidence            5322 12333333333    33  33467777888888888888888888774

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=89.83  E-value=24  Score=37.89  Aligned_cols=254  Identities=12%  Similarity=0.011  Sum_probs=121.5

Q ss_pred             HHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHH--HHHhccCchhhHHHHHHHHh-hcC-------CCChhHHH--HHH
Q 048179          252 GFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSAL--LACAQIGFLKLGKSIHGYTV-RRF-------DFNLVLGT--SVI  319 (589)
Q Consensus       252 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll--~~~~~~~~~~~a~~~~~~~~-~~~-------~~~~~~~~--~l~  319 (589)
                      +....|+.++++.++......+-..+..+-...+  -+....|....+...+.... ...       .+......  .|.
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            4566778888877776655421112333222222  22344444445555555444 221       01122222  333


Q ss_pred             HHhHhcCCHHHHHHHHHhcCCCChhH--HH--HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHH
Q 048179          320 DMYSKCGVPSCARALFDQMQSRDLIS--WN--VIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVE  395 (589)
Q Consensus       320 ~~~~~~g~~~~A~~~~~~~~~~~~~~--~~--~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~  395 (589)
                      -+|.-.++-+-...+...+...+..+  ..  +|...+.-.|+.+....++..+.+.. .-+..-+..+.-++...|+.+
T Consensus       463 la~~GS~~eev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~e  541 (963)
T 4ady_A          463 LAAMGSANIEVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQE  541 (963)
T ss_dssp             HHSTTCCCHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCGG
T ss_pred             HHhcCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCChH
Confidence            33444444433333333333343322  11  12223445566666666666665531 111222333334455678888


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHH--HHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHHHH--HHHhcCCchHHHHHHHH
Q 048179          396 EGRYWFDLMVSKYKIQPTEKHYA--CMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLS--GCHNHKKFSIGEKVAKK  471 (589)
Q Consensus       396 ~a~~~~~~~~~~~~~~p~~~~~~--~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~--~~~~~~~~~~a~~~~~~  471 (589)
                      .+..+.+.+...  ..|....-.  ++.-+|+..|+.....+++..+...++..+-...+-  +....|+.+.+.++++.
T Consensus       542 ~~~~li~~L~~~--~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~~d~VRraAViaLGlI~~g~~e~v~rlv~~  619 (963)
T 4ady_A          542 LADDLITKMLAS--DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDSNDDVRRAAVIALGFVLLRDYTTVPRIVQL  619 (963)
T ss_dssp             GGHHHHHHHHHC--SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTSSSCSSHHHHTTT
T ss_pred             HHHHHHHHHHhC--CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCCcHHHHHHHHHHHHhhccCCHHHHHHHHHH
Confidence            888888887753  223222222  234456677887776678887755444433333333  34456776666666655


Q ss_pred             HhccCCCCchhHHHHHHHHHhCCC-hHHHHHHHHHHHh
Q 048179          472 VLKLNPDDLGIHALVSNFFAMEQK-WEEVAGVRKTMRK  508 (589)
Q Consensus       472 ~~~~~p~~~~~~~~l~~~~~~~g~-~~~a~~~~~~m~~  508 (589)
                      +.+-...+...-..++......|. ..+|..++..+..
T Consensus       620 L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          620 LSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            544221122222222222223333 2677888888764

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=89.79  E-value=14  Score=35.23  Aligned_cols=57  Identities=19%  Similarity=0.049  Sum_probs=26.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 048179          349 IIASYGIHGHGEEALSLFLQMIETMVKPDH-----STFASLLSALSHSGLVEEGRYWFDLMV  405 (589)
Q Consensus       349 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-----~t~~~ll~a~~~~g~~~~a~~~~~~~~  405 (589)
                      ++..|...|++.+|.+++.++.+.--+.|.     ..+..-+..|...+++.++...+....
T Consensus       105 L~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~  166 (394)
T 3txn_A          105 LIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSAR  166 (394)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            444555555555555555555443111111     122333344455555555555555543

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=89.71  E-value=2.5  Score=34.45  Aligned_cols=55  Identities=9%  Similarity=0.057  Sum_probs=27.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc-CCCCCH-------HHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 048179          351 ASYGIHGHGEEALSLFLQMIET-MVKPDH-------STFASLLSALSHSGLVEEGRYWFDLMV  405 (589)
Q Consensus       351 ~~~~~~g~~~~A~~~~~~m~~~-~~~p~~-------~t~~~ll~a~~~~g~~~~a~~~~~~~~  405 (589)
                      ..+...|.++.|+-+.+.+... +..|+.       .++..+..++...|.+..|...|+.+.
T Consensus        28 k~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qAL   90 (167)
T 3ffl_A           28 RDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMAL   90 (167)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            3444555555555554443321 012221       244555566666666666666666643

>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=89.47  E-value=7  Score=31.23  Aligned_cols=56  Identities=13%  Similarity=0.093  Sum_probs=33.6

Q ss_pred             CCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCch
Q 048179          156 GQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDV  212 (589)
Q Consensus       156 g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  212 (589)
                      +++++|.++|+.++..+-+- ...|..-...=.+.|++..|.+++...+..+..|..
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~  129 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLE  129 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHH
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHH
Confidence            56677777777775542111 334444444445677777777777777776655543

>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=89.17  E-value=0.93  Score=43.69  Aligned_cols=67  Identities=9%  Similarity=0.056  Sum_probs=54.9

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh-----CCCccCC
Q 048179          449 WVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK-----SGMKKVP  515 (589)
Q Consensus       449 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~g~~~~~  515 (589)
                      ...++.++...|+++++...+++++..+|-+...|..+..+|.+.|+..+|++.|+..++     .|+.|.|
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~  245 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGP  245 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCH
Confidence            445667778889999999999999999999888999999999999999999998888754     4665543

>2qx5_A Nucleoporin NIC96; mRNA transport, nuclear pore complex, nucleus, protein transport, translocation, transport, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2rfo_A

Probab=88.81  E-value=23  Score=36.39  Aligned_cols=82  Identities=16%  Similarity=0.163  Sum_probs=43.9

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHh---
Q 048179          248 ALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSK---  324 (589)
Q Consensus       248 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~---  324 (589)
                      .....+.-.|+++.|++.+...    ...+.+.+...+..+.-.+-   ...++..- .+ .| ..-+..||..|.+   
T Consensus       299 lYf~vLlLtgqFE~AI~~L~~~----~~vdAVH~AIaL~~~gLL~~---~~~lls~~-~~-~~-~lN~arLI~~Yt~~F~  368 (661)
T 2qx5_A          299 YYLQTLLLSGLYGLAIDYTYTF----SEMDAVHLAIGLASLKLFKI---DSSTRLTK-KP-KR-DIRFANILANYTKSFR  368 (661)
T ss_dssp             CHHHHHHHTTCHHHHHHHHHTT----CHHHHHHHHHHHHHTTC-----------------------CHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHhhHHHHHHHHHhc----CchhHHHHHHHHHHcCCccC---CCcccccC-CC-cc-cccHHHHHHHHHHHhh
Confidence            3456677899999999988755    25566666655555433332   11111110 01 11 1224567777765   


Q ss_pred             cCCHHHHHHHHHhcC
Q 048179          325 CGVPSCARALFDQMQ  339 (589)
Q Consensus       325 ~g~~~~A~~~~~~~~  339 (589)
                      ..++..|.+.|--+.
T Consensus       369 ~td~~~Al~Y~~li~  383 (661)
T 2qx5_A          369 YSDPRVAVEYLVLIT  383 (661)
T ss_dssp             TTCHHHHHHHHHGGG
T ss_pred             cCCHHHHHHHHHHHh
Confidence            577888888776663

>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=87.53  E-value=3.1  Score=30.43  Aligned_cols=63  Identities=11%  Similarity=0.123  Sum_probs=49.1

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048179          358 HGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVD  422 (589)
Q Consensus       358 ~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  422 (589)
                      +.-+..+-++.+....+.|++......+.||-+.+++..|.++|+.++.+.+  +....|..++.
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~--~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CchhhHHHHHH
Confidence            3445666667777778899999999999999999999999999999987543  34556776654

>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=87.40  E-value=6.8  Score=30.48  Aligned_cols=74  Identities=15%  Similarity=0.194  Sum_probs=44.0

Q ss_pred             CChhhHHHHHHHHHHcCCHH---HHHHHHHhcC-CCC--ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHH
Q 048179          412 PTEKHYACMVDLLARAGEVE---EALKIVDSMS-TEP--GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHAL  485 (589)
Q Consensus       412 p~~~~~~~l~~~~~~~g~~~---~A~~~~~~~~-~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  485 (589)
                      |+..+--.+..++.+....+   +++.+++... ..|  ....+-.|.-++.+.|+++.|.+..+.+++.+|+|..+...
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~QA~~L  117 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGAL  117 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHHHHHH
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHHHHHH
Confidence            34444334444555544332   3444444431 123  23455666777888888888999888888888887655443

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=86.49  E-value=20  Score=33.13  Aligned_cols=167  Identities=14%  Similarity=0.083  Sum_probs=104.9

Q ss_pred             HHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHH----HHHHHcCCCCCHHHHHHHHHHHhc
Q 048179          315 GTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLF----LQMIETMVKPDHSTFASLLSALSH  390 (589)
Q Consensus       315 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~----~~m~~~~~~p~~~t~~~ll~a~~~  390 (589)
                      +.++..-|.+.+++++|.+++..-           ...+.++|+...|.++.    +-..+.++++|......++..+..
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            466777788899999999876432           23455677766665554    555567888888887777777665


Q ss_pred             CCcHH-HHHHHHHHHHH---hcC--CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHHHHHHHhcCCchH
Q 048179          391 SGLVE-EGRYWFDLMVS---KYK--IQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNHKKFSI  464 (589)
Q Consensus       391 ~g~~~-~a~~~~~~~~~---~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  464 (589)
                      ...-+ .=..+.+.+.+   +++  -.-++.....+...|.+.+++.+|..-|- ...++++..+..++.-+...+.   
T Consensus       107 ~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i-lg~~~s~~~~a~mL~ew~~~~~---  182 (336)
T 3lpz_A          107 FQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV-LGTKESPEVLARMEYEWYKQDE---  182 (336)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT-TSCTTHHHHHHHHHHHHHHTSC---
T ss_pred             CCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH-hcCCchHHHHHHHHHHHHHhcC---
Confidence            54311 11223333221   112  23446677788899999999999998873 2333444666666655544432   


Q ss_pred             HHHHHHHHhccCCCCchhHHHH-HHHHHhCCChHHHHHHHHHHHh
Q 048179          465 GEKVAKKVLKLNPDDLGIHALV-SNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       465 a~~~~~~~~~~~p~~~~~~~~l-~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                                  |.....+..- +--|.-.|+...|..+++...+
T Consensus       183 ------------~~e~dlfiaRaVL~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          183 ------------SHTAPLYCARAVLPYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             ------------GGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ------------CccHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence                        3344444443 3347788999999888777654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=86.05  E-value=7.4  Score=40.73  Aligned_cols=53  Identities=17%  Similarity=0.045  Sum_probs=44.1

Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC
Q 048179          387 ALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS  441 (589)
Q Consensus       387 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  441 (589)
                      .|...|+++.|+++-+++..  -.+.+..+|..|..+|...|+++.|+-.++.++
T Consensus       346 FLl~K~~~elAL~~Ak~AV~--~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          346 FLLNRGDYELALGVSNTSTE--LALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHhccCcHHHHHHHHHHHHh--cCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            35678999999999998885  334448899999999999999999999999886

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=85.59  E-value=22  Score=32.64  Aligned_cols=168  Identities=10%  Similarity=0.005  Sum_probs=100.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHH----HHHHHhcCCCCCHHHHHHHHHHHh
Q 048179          214 VQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLEL----LMEMQSCGFEPDSVSLVSALLACA  289 (589)
Q Consensus       214 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~----~~~m~~~g~~p~~~~~~~ll~~~~  289 (589)
                      .+.++..-|.+.+++++|.+++..           -...+.+.|+...|.++    ++-..+.+++++..+...++..+.
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~  103 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIA  103 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            445677778888999999988654           23445677877666554    444455678888888887777765


Q ss_pred             ccCchh-hHHHHHHHHh---h--c--CCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhc---CC
Q 048179          290 QIGFLK-LGKSIHGYTV---R--R--FDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIH---GH  358 (589)
Q Consensus       290 ~~~~~~-~a~~~~~~~~---~--~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~---g~  358 (589)
                      .....+ .-..+...++   .  +  ...++.+...+...|.+.|++.+|+.-|-.-...+...+..++--+...   |.
T Consensus       104 ~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~~  183 (312)
T 2wpv_A          104 ELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDIE  183 (312)
T ss_dssp             TCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCCC
T ss_pred             HCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCCC
Confidence            533221 1122333333   1  1  2347888899999999999999999877533222344444444333332   32


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHh
Q 048179          359 GEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSK  407 (589)
Q Consensus       359 ~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  407 (589)
                      ..++              |...-..++ .|.-.|+...|..+|+...+.
T Consensus       184 ~~e~--------------dlf~~RaVL-~yL~l~n~~~A~~~~~~f~~~  217 (312)
T 2wpv_A          184 DSTV--------------AEFFSRLVF-NYLFISNISFAHESKDIFLER  217 (312)
T ss_dssp             HHHH--------------HHHHHHHHH-HHHHTTBHHHHHHHHHHHHHH
T ss_pred             cchH--------------HHHHHHHHH-HHHHhcCHHHHHHHHHHHHHH
Confidence            2221              111111222 344568899999888877654

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=85.54  E-value=12  Score=29.56  Aligned_cols=74  Identities=15%  Similarity=0.194  Sum_probs=47.4

Q ss_pred             CChhhHHHHHHHHHHcCCHH---HHHHHHHhcC-CCC--ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHH
Q 048179          412 PTEKHYACMVDLLARAGEVE---EALKIVDSMS-TEP--GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHAL  485 (589)
Q Consensus       412 p~~~~~~~l~~~~~~~g~~~---~A~~~~~~~~-~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  485 (589)
                      |+..+--.+..++.+....+   +++.+++... ..|  .....-.|.-++.+.|++++|.+..+.+++.+|+|..+...
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~QA~~L  116 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGAL  116 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHH
Confidence            44444444555555555433   3444554431 123  23345566678999999999999999999999988655443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=85.53  E-value=36  Score=38.03  Aligned_cols=142  Identities=10%  Similarity=-0.007  Sum_probs=76.8

Q ss_pred             HHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCC----C----------------
Q 048179          283 SALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSR----D----------------  342 (589)
Q Consensus       283 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~----------------  342 (589)
                      .++..+...+..+.+..+.    .-.+.++...-.+..+|..+|++++|..+|.+....    +                
T Consensus       817 ~l~~~l~~~~~~~~~~~l~----~~~~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~  892 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLI----GWLNSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKY  892 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHH----HHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTT
T ss_pred             HHHHHHHHhhhHHHHHHHh----hhccCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccc
Confidence            3444455555555554432    223444544456667788888888888888776420    0                


Q ss_pred             ------hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH--H--HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC
Q 048179          343 ------LISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDH--S--TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQP  412 (589)
Q Consensus       343 ------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~--~--t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p  412 (589)
                            ..-|.-++..+.+++.++.++++-+..++...+-+.  .  .|..+..++...|++++|...+-.+...   .-
T Consensus       893 ~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~---~~  969 (1139)
T 4fhn_B          893 HHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTT---PL  969 (1139)
T ss_dssp             TSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHS---SS
T ss_pred             cccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCH---HH
Confidence                  012444555666666666666666555543211111  1  3455666666677777776666554421   12


Q ss_pred             ChhhHHHHHHHHHHcCCHH
Q 048179          413 TEKHYACMVDLLARAGEVE  431 (589)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~  431 (589)
                      -......|+..++..|..+
T Consensus       970 r~~cLr~LV~~lce~~~~~  988 (1139)
T 4fhn_B          970 KKSCLLDFVNQLTKQGKIN  988 (1139)
T ss_dssp             CHHHHHHHHHHHHHHCCHH
T ss_pred             HHHHHHHHHHHHHhCCChh
Confidence            2344555555555555443

>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=85.47  E-value=6.1  Score=37.90  Aligned_cols=71  Identities=8%  Similarity=0.018  Sum_probs=50.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH----hcCCCCChhhH
Q 048179          346 WNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVS----KYKIQPTEKHY  417 (589)
Q Consensus       346 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~----~~~~~p~~~~~  417 (589)
                      ...++..+...|++++|+..+..+.... +-+...+..++.++...|+..+|.+.|+.+.+    ..|+.|+..+-
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            3445666777888888888887777653 45677788888888888888888888877544    34777775543

>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=84.32  E-value=5.9  Score=28.98  Aligned_cols=61  Identities=15%  Similarity=0.080  Sum_probs=44.4

Q ss_pred             hhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHH
Q 048179          259 AGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVI  319 (589)
Q Consensus       259 ~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  319 (589)
                      .-+..+-++.+....+.|++......+.+|.+.+++..|..+++-+.........+|..++
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~~~iY~~~l   86 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVI   86 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCchhhHHHHH
Confidence            3456666677777778888888888888888888888888888888733333345555554

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=83.53  E-value=35  Score=33.31  Aligned_cols=159  Identities=13%  Similarity=0.110  Sum_probs=93.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHhcCCcHHHHHHHHHHHHHh-cCCCCC----hh
Q 048179          346 WNVIIASYGIHGHGEEALSLFLQMIETMVKPDH-----STFASLLSALSHSGLVEEGRYWFDLMVSK-YKIQPT----EK  415 (589)
Q Consensus       346 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~-~~~~p~----~~  415 (589)
                      ...+...+...|++.+|..++.++...-...+.     ..+...+..|...+++..|..++.++... +...++    ..
T Consensus       140 ~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~  219 (445)
T 4b4t_P          140 TKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLE  219 (445)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHH
Confidence            355677888899999999999988653222221     35566677889999999999999887532 122222    34


Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhcCCC----CChhHHHHHHH----HHHhcCCchHHHHHHHHHhccC-CCCchhHHHH
Q 048179          416 HYACMVDLLARAGEVEEALKIVDSMSTE----PGLAVWVALLS----GCHNHKKFSIGEKVAKKVLKLN-PDDLGIHALV  486 (589)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~----p~~~~~~~l~~----~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l  486 (589)
                      .+.+++..+...+++.+|-+.|.++...    .|...|..++.    +..-.+....-..+..+..... -.+...+..+
T Consensus       220 ~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L  299 (445)
T 4b4t_P          220 YYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYFLVLSPYGNLQNDLIHKIQNDNNLKKLESQESL  299 (445)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHhhcccccccHHHHHH
Confidence            5778889999999999998887776321    23333322221    1111111111122222222111 1234566777


Q ss_pred             HHHHHhC--CChHHHHHHHH
Q 048179          487 SNFFAME--QKWEEVAGVRK  504 (589)
Q Consensus       487 ~~~~~~~--g~~~~a~~~~~  504 (589)
                      ..+|...  .+|+.+.+.++
T Consensus       300 ~k~f~~~~L~~~~~~~~~~~  319 (445)
T 4b4t_P          300 VKLFTTNELMRWPIVQKTYE  319 (445)
T ss_dssp             HHHHHHCCSSSHHHHHHHTC
T ss_pred             HHHHHhchHhhhHHHHHHHH
Confidence            7777654  46666666554

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=82.39  E-value=8.2  Score=34.31  Aligned_cols=50  Identities=22%  Similarity=0.246  Sum_probs=22.0

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 048179          355 IHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMV  405 (589)
Q Consensus       355 ~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  405 (589)
                      +.|+.++|++....-++.. +-|...-..++.-+|-.|+++.|.+-++...
T Consensus         9 ~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a   58 (273)
T 1zbp_A            9 SEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSI   58 (273)
T ss_dssp             TTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            4444445544444444432 2233333334444444455555544444443

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=82.05  E-value=6.6  Score=30.50  Aligned_cols=62  Identities=11%  Similarity=0.123  Sum_probs=48.6

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048179          359 GEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVD  422 (589)
Q Consensus       359 ~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  422 (589)
                      .-+..+-++.+....+.|++......+.+|-+.+++..|.++|+..+.+.  .+....|..+++
T Consensus        69 ~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~--~~~~~iY~y~lq  130 (152)
T 2y69_E           69 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA--GPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc--CCchhhHHHHHH
Confidence            33455566666677789999999999999999999999999999998754  344556777664

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=81.01  E-value=14  Score=41.40  Aligned_cols=60  Identities=8%  Similarity=0.000  Sum_probs=30.7

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHhccCC-CCc----hhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          449 WVALLSGCHNHKKFSIGEKVAKKVLKLNP-DDL----GIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       449 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~----~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      |.-++..+.+++.++.+.+..+.+++..+ ++.    ..|..+-..+...|++++|...+-.+..
T Consensus       902 Y~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd  966 (1139)
T 4fhn_B          902 YLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLST  966 (1139)
T ss_dssp             HHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCC
Confidence            33444455555666666666655554332 221    1344455555556666666555554443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	589
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	2e-06

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.7 bits (112), Expect = 2e-06
 Identities = 43/375 (11%), Positives = 107/375 (28%), Gaps = 15/375 (4%)

Query: 119 NLYVKCGKMNEAMVAFEKMQRKD---LVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDA 175
           +   + G    A     ++ R++         + +      +   +        K+    
Sbjct: 7   HREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL- 65

Query: 176 DEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVF 235
                  L     + G  +  +  + +++R   +           + A            
Sbjct: 66  LAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYV 125

Query: 236 KNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSAL-LACAQIGFL 294
             +     +       G     L          +++   +P+     S L       G +
Sbjct: 126 SALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEI 185

Query: 295 KLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLI---SWNVIIA 351
            L        V      L    ++ ++  +  +   A A + +  S           +  
Sbjct: 186 WLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLAC 245

Query: 352 SYGIHGHGEEALSLFLQMIETMVKPDHS-TFASLLSALSHSGLVEEGRYWFDLMVSKYKI 410
            Y   G  + A+  + + IE  ++P     + +L +AL   G V E    ++  +     
Sbjct: 246 VYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPT 303

Query: 411 QPTEKHYACMVDLLARAGEVEEALKIVD-SMSTEPGLA-VWVALLSGCHNHKKFSIGEKV 468
                    + ++    G +EEA+++   ++   P  A     L S      K       
Sbjct: 304 HA--DSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMH 361

Query: 469 AKKVLKLNPDDLGIH 483
            K+ ++++P     +
Sbjct: 362 YKEAIRISPTFADAY 376

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	589
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.92
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.92
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.64
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.62
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.23
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.14
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.13
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.11
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.11
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.08
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.08
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.08
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.07
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.01
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.87
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.83
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.78
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.73
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.72
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.71
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.68
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.66
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.65
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.6
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.57
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.55
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.54
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.53
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.5
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.46
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.46
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.45
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.45
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.41
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.35
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.31
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.25
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.24
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.07
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.0
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.98
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.97
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.92
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.92
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.9
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.88
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.85
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.85
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.81
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.67
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.51
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.42
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.35
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.28
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.4
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.17
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.76
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.53
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.44
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.02
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.67
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	91.54
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	87.4
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	82.58

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=3.3e-22  Score=195.83  Aligned_cols=375  Identities=13%  Similarity=0.054  Sum_probs=256.3

Q ss_pred             HHHHhccCCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhCCChHHHHHHHHhcCC--C-CcchHHHHHHHHHhCCCcc
Q 048179           83 LKACVSLMDLKMGEEIWRKAVELGYGNDVFVGSSMLNLYVKCGKMNEAMVAFEKMQR--K-DLVCWSSMINGLVFNGQPR  159 (589)
Q Consensus        83 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~  159 (589)
                      ...+.+.|++++|.+.++++++.. +-+...+..+..+|.+.|++++|...|++..+  | +..+|..+...|.+.|+++
T Consensus         6 a~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~   84 (388)
T d1w3ba_           6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhcccc
Confidence            344556777777777777777664 23556667777777777777777777776643  2 4456666777777777777


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcC
Q 048179          160 EAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMS  239 (589)
Q Consensus       160 ~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  239 (589)
                      +|++.+....+.... +..............+................ .                              
T Consensus        85 ~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~------------------------------  132 (388)
T d1w3ba_          85 EAIEHYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQYN-P------------------------------  132 (388)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-T------------------------------
T ss_pred             ccccccccccccccc-cccccccccccccccccccccccccccccccc-c------------------------------
Confidence            777777776654221 22222222223333333333333333222222 1                              


Q ss_pred             CCCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHH
Q 048179          240 RINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVI  319 (589)
Q Consensus       240 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  319 (589)
                       ................+....+...+.+..... +.+...+..+...+...|..+.|...+.......+.+...+..+.
T Consensus       133 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~  210 (388)
T d1w3ba_         133 -DLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLG  210 (388)
T ss_dssp             -TCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             -ccccccccccccccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHh
Confidence             122222333333444444445554444444331 222334444445555555555555555555544455666677788


Q ss_pred             HHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHH
Q 048179          320 DMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEE  396 (589)
Q Consensus       320 ~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~  396 (589)
                      ..+...|++++|...|++...   .+...+..+...+...|++++|+..|++..+.. +-+..++..+..++...|++++
T Consensus       211 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~  289 (388)
T d1w3ba_         211 NVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAE  289 (388)
T ss_dssp             HHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHH
T ss_pred             hhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            888888888888888877653   456678888889999999999999999988753 3346788888999999999999


Q ss_pred             HHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhc
Q 048179          397 GRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM-STEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLK  474 (589)
Q Consensus       397 a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  474 (589)
                      |.+.++....  ..+.+...+..+..++.+.|++++|++.+++. ...| +..+|..+..++...|++++|+..++++++
T Consensus       290 A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  367 (388)
T d1w3ba_         290 AEDCYNTALR--LCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHHHHHhhhc--cCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999886  34556788889999999999999999999986 3455 466788999999999999999999999999


Q ss_pred             cCCCCchhHHHHHHHHHhCCC
Q 048179          475 LNPDDLGIHALVSNFFAMEQK  495 (589)
Q Consensus       475 ~~p~~~~~~~~l~~~~~~~g~  495 (589)
                      ++|+++.+|..++.+|.+.|+
T Consensus       368 l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         368 ISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             TCTTCHHHHHHHHHHHHHTCC
T ss_pred             hCCCCHHHHHHHHHHHHHcCC
Confidence            999999999999999999885

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=6.1e-22  Score=193.92  Aligned_cols=354  Identities=12%  Similarity=0.057  Sum_probs=283.2

Q ss_pred             HHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCH
Q 048179          149 INGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHL  228 (589)
Q Consensus       149 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  228 (589)
                      ...+.+.|++++|++.|+++.+.. +-+...+..+...+...|++++|...++.+++.. +.+..++..+..+|.+.|++
T Consensus         6 a~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccc
Confidence            345567788888888888877652 2245566777777778888888888888877765 33567788888889999999


Q ss_pred             HHHHHHHhhcCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHh
Q 048179          229 DLASHVFKNMSR---INIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTV  305 (589)
Q Consensus       229 ~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  305 (589)
                      ++|...+....+   .+...+..........+....+........... .................+....+........
T Consensus        84 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (388)
T d1w3ba_          84 QEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHHHHHhh
Confidence            999988887754   233444445555566666667766666655543 3344444455556667777777877777777


Q ss_pred             hcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 048179          306 RRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFA  382 (589)
Q Consensus       306 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~  382 (589)
                      ...+.+...+..+...+...|+++.|...+++..+   .+..+|..+...+...|++++|+..+++..... +.+...+.
T Consensus       163 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  241 (388)
T d1w3ba_         163 ETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHG  241 (388)
T ss_dssp             HHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             ccCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHH
Confidence            67777888899999999999999999999987653   456788999999999999999999999998875 45567788


Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcC
Q 048179          383 SLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHK  460 (589)
Q Consensus       383 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~  460 (589)
                      .+...+...|++++|...|+++.+.  .+.+...+..+..++...|++++|.+.++....  +.+...+..+...+...|
T Consensus       242 ~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  319 (388)
T d1w3ba_         242 NLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCC
Confidence            8889999999999999999999863  334478899999999999999999999988632  356778889999999999


Q ss_pred             CchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          461 KFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       461 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ++++|+..++++++++|+++.++..++.+|.+.|++++|.+.++++.+
T Consensus       320 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  367 (388)
T d1w3ba_         320 NIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             CHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999886

>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=99.64  E-value=8.8e-15  Score=138.71  Aligned_cols=231  Identities=12%  Similarity=-0.024  Sum_probs=160.1

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHhcCCCCC-HHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHh
Q 048179          246 WGALISGFAQNGLAGSTLELLMEMQSCGFEPD-SVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSK  324 (589)
Q Consensus       246 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  324 (589)
                      +-.....+.+.|++++|+..|++.++.  .|+ ..++..+..++...|+++.|...+..+....|.+...+..+...|..
T Consensus        22 ~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~   99 (323)
T d1fcha_          22 PFEEGLRRLQEGDLPNAVLLFEAAVQQ--DPKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTN   99 (323)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccccccccccccccccc
Confidence            334566678888888888888888775  343 44555555555555555555555555554344444455555555555


Q ss_pred             cCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--------------CCHHHHHHHHHHHhc
Q 048179          325 CGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVK--------------PDHSTFASLLSALSH  390 (589)
Q Consensus       325 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~--------------p~~~t~~~ll~a~~~  390 (589)
                      .|++++|.+.++                               +.......              .+.......+..+..
T Consensus       100 ~~~~~~A~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  148 (323)
T d1fcha_         100 ESLQRQACEILR-------------------------------DWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLS  148 (323)
T ss_dssp             TTCHHHHHHHHH-------------------------------HHHHTSTTTGGGCC---------------CTTHHHHH
T ss_pred             cccccccccchh-------------------------------hHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHH
Confidence            555555555544                               44332100              000001111222334


Q ss_pred             CCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHH
Q 048179          391 SGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKV  468 (589)
Q Consensus       391 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~  468 (589)
                      .+.+.++...|..+.+...-.++...+..+...+...|++++|+..+++.. ..| +..+|..+...+...|++++|++.
T Consensus       149 ~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~  228 (323)
T d1fcha_         149 DSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAA  228 (323)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHH
Confidence            466788888888877653444557788889999999999999999999863 234 577899999999999999999999


Q ss_pred             HHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          469 AKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       469 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      ++++++++|+++.+|..+|.+|.+.|++++|++.+++..+.
T Consensus       229 ~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         229 YRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999998763

>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=99.62  E-value=3.9e-14  Score=134.19  Aligned_cols=266  Identities=15%  Similarity=0.051  Sum_probs=196.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCC--C-CeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCc
Q 048179          217 SLVDMYAKTGHLDLASHVFKNMSR--I-NIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGF  293 (589)
Q Consensus       217 ~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~  293 (589)
                      .....+.+.|++++|...|+++.+  | ++.+|..+..++...|++++|+..|.+..+.. +-+...+..+...+...|+
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccc
Confidence            466778999999999999999865  3 45689999999999999999999999998863 3356677888889999999


Q ss_pred             hhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 048179          294 LKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETM  373 (589)
Q Consensus       294 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  373 (589)
                      .+.|...+.......+..............                ..+.......+..+...+.+.+|...|.+..+..
T Consensus       103 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~  166 (323)
T d1fcha_         103 QRQACEILRDWLRYTPAYAHLVTPAEEGAG----------------GAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLD  166 (323)
T ss_dssp             HHHHHHHHHHHHHTSTTTGGGCC-------------------------------CTTHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             ccccccchhhHHHhccchHHHHHhhhhhhh----------------hcccccchhhHHHHHHhhHHHHHHHHHHHHHHHh
Confidence            999999998877433332221111100000                0011111112233445566788888888887653


Q ss_pred             C-CCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHH
Q 048179          374 V-KPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWV  450 (589)
Q Consensus       374 ~-~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~  450 (589)
                      . .++...+..+...+...|++++|...|+.+...  .+-+...|..+..+|.+.|++++|.+.+++.. ..| +..+|.
T Consensus       167 p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~  244 (323)
T d1fcha_         167 PTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRY  244 (323)
T ss_dssp             TTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             hcccccccchhhHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHH
Confidence            2 345667888888999999999999999998864  23347788999999999999999999999863 345 567899


Q ss_pred             HHHHHHHhcCCchHHHHHHHHHhccCCCCch-----------hHHHHHHHHHhCCChHHHHH
Q 048179          451 ALLSGCHNHKKFSIGEKVAKKVLKLNPDDLG-----------IHALVSNFFAMEQKWEEVAG  501 (589)
Q Consensus       451 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~-----------~~~~l~~~~~~~g~~~~a~~  501 (589)
                      .++.+|...|++++|+..++++++++|++..           .|..+..++...|+++.+..
T Consensus       245 ~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~  306 (323)
T d1fcha_         245 NLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGA  306 (323)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999999999999999999987764           34556777777777765543

>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=99.23  E-value=1.8e-09  Score=102.63  Aligned_cols=261  Identities=13%  Similarity=0.015  Sum_probs=170.8

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCC--CC------eehHHHHHHHHHhCCChhHHHHHHHHHHhcCC-CCCHHHHHHHHHHH
Q 048179          218 LVDMYAKTGHLDLASHVFKNMSR--IN------IVTWGALISGFAQNGLAGSTLELLMEMQSCGF-EPDSVSLVSALLAC  288 (589)
Q Consensus       218 l~~~~~~~g~~~~A~~~~~~~~~--~~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~~~~~~~ll~~~  288 (589)
                      ....+...|++++|...+++..+  |+      ...++.+...|...|++++|+..|.+..+... .++...        
T Consensus        18 rA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~--------   89 (366)
T d1hz4a_          18 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHY--------   89 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHH--------
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHH--------
Confidence            34455566666666666665432  11      12344555566666666666666665544210 011110        


Q ss_pred             hccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC-------CC----hhHHHHHHHHHHhcC
Q 048179          289 AQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS-------RD----LISWNVIIASYGIHG  357 (589)
Q Consensus       289 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~~----~~~~~~li~~~~~~g  357 (589)
                                            ....+..+...+...|++..|...+.....       +.    ...+..+...+...|
T Consensus        90 ----------------------~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~  147 (366)
T d1hz4a_          90 ----------------------ALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWA  147 (366)
T ss_dssp             ----------------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTT
T ss_pred             ----------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhc
Confidence                                  112234455566667777777666655421       11    124555667788899


Q ss_pred             CHHHHHHHHHHHHHcCCC----CCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-----hhhHHHHHHHHHHcC
Q 048179          358 HGEEALSLFLQMIETMVK----PDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-----EKHYACMVDLLARAG  428 (589)
Q Consensus       358 ~~~~A~~~~~~m~~~~~~----p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g  428 (589)
                      +++.+...+.+.......    ....++......+...+.+..+...+...........+     ...+..+...+...|
T Consensus       148 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  227 (366)
T d1hz4a_         148 RLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTG  227 (366)
T ss_dssp             CHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTT
T ss_pred             chhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcc
Confidence            999999998888764322    22345555666777888999988888876654322222     234566777888999


Q ss_pred             CHHHHHHHHHhcCC-CC-----ChhHHHHHHHHHHhcCCchHHHHHHHHHhc------cCCCCchhHHHHHHHHHhCCCh
Q 048179          429 EVEEALKIVDSMST-EP-----GLAVWVALLSGCHNHKKFSIGEKVAKKVLK------LNPDDLGIHALVSNFFAMEQKW  496 (589)
Q Consensus       429 ~~~~A~~~~~~~~~-~p-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~------~~p~~~~~~~~l~~~~~~~g~~  496 (589)
                      ++++|...+++... .|     ....+..+..++...|++++|...+++++.      ..|....++..++.+|.+.|++
T Consensus       228 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  307 (366)
T d1hz4a_         228 DKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRK  307 (366)
T ss_dssp             CHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             cHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCH
Confidence            99999999998642 11     234566778889999999999999999874      3466677899999999999999


Q ss_pred             HHHHHHHHHHHh
Q 048179          497 EEVAGVRKTMRK  508 (589)
Q Consensus       497 ~~a~~~~~~m~~  508 (589)
                      ++|.+.+++..+
T Consensus       308 ~~A~~~l~~Al~  319 (366)
T d1hz4a_         308 SDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999998765

>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=99.14  E-value=6.5e-10  Score=103.58  Aligned_cols=192  Identities=8%  Similarity=0.029  Sum_probs=131.5

Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048179          313 VLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHG-HGEEALSLFLQMIETMVKPDHSTFASLLSAL  388 (589)
Q Consensus       313 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~  388 (589)
                      .+++-+...+.+.+..++|+.+++++.+   .+..+|+....++...| ++++|+..+++.++.. +-+..+|..+...+
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHH
Confidence            3445556666777777777777777654   34456777777776665 4778888887777653 23456777777777


Q ss_pred             hcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCC-----
Q 048179          389 SHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKK-----  461 (589)
Q Consensus       389 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~-----  461 (589)
                      ...|++++|+..++.+.+.  -+.+...|..+..++.+.|++++|++.++++. ..| +...|+.+...+...+.     
T Consensus       123 ~~l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~~~  200 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRA  200 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HhhccHHHHHHHHhhhhhh--hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccchhh
Confidence            7778888888888877753  23346777777777888888888888777763 234 55667766666555444     


Q ss_pred             -chHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          462 -FSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       462 -~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                       +++|++.+.++++++|++..+|..++.++...| .+++.+.++...+
T Consensus       201 ~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~  247 (315)
T d2h6fa1         201 VLEREVQYTLEMIKLVPHNESAWNYLKGILQDRG-LSKYPNLLNQLLD  247 (315)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHH
T ss_pred             hhHHhHHHHHHHHHhCCCchHHHHHHHHHHHhcC-hHHHHHHHHHHHH
Confidence             467777888888888888888887777765544 4667777766655

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.13  E-value=4.8e-10  Score=101.60  Aligned_cols=191  Identities=10%  Similarity=-0.024  Sum_probs=92.7

Q ss_pred             HHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 048179          314 LGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSH  390 (589)
Q Consensus       314 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~  390 (589)
                      ++..+..+|.+.|++++|...|++..+   .++.+|+.+..+|...|++++|+..|+++.+.. +-+..++..+..++..
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  117 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYY  117 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHHHH
Confidence            334455556666666666666665542   344556666666666666666666666666543 2234455555666666


Q ss_pred             CCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CCChhHHHHHHHHHH----hcCCchHH
Q 048179          391 SGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-EPGLAVWVALLSGCH----NHKKFSIG  465 (589)
Q Consensus       391 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~----~~~~~~~a  465 (589)
                      .|++++|...|+...+.  .+.+......+...+.+.+..+.+..+...... .++...+. ++..+.    ..+..+.+
T Consensus       118 ~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  194 (259)
T d1xnfa_         118 GGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWN-IVEFYLGNISEQTLMERL  194 (259)
T ss_dssp             TTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHH-HHHHHTTSSCHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhh-HHHHHHHHHHHHHHHHHH
Confidence            66666666666666543  122233333333334444443333333332211 11111111 111111    11122233


Q ss_pred             HHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          466 EKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       466 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ...+.......|+...+|..+|.+|...|++++|.+.+++...
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  237 (259)
T d1xnfa_         195 KADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA  237 (259)
T ss_dssp             HHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3333333334455555666666666666666666666666654

>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=5.3e-09  Score=97.18  Aligned_cols=179  Identities=11%  Similarity=0.038  Sum_probs=92.5

Q ss_pred             HHHHHHHHHhcCC----CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHH
Q 048179          328 PSCARALFDQMQS----RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDL  403 (589)
Q Consensus       328 ~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~  403 (589)
                      .++|..+|++..+    .+...|...+..+...|+.+.|..+|+++++.........|...+..+.+.|+++.|.++|+.
T Consensus        80 ~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~  159 (308)
T d2onda1          80 SDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKK  159 (308)
T ss_dssp             HHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            3455555554322    233445555555556666666666666655432222223455555555556666666666666


Q ss_pred             HHHhcCCCCChhhHHHHHHHH-HHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCc
Q 048179          404 MVSKYKIQPTEKHYACMVDLL-ARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDL  480 (589)
Q Consensus       404 ~~~~~~~~p~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  480 (589)
                      +.+.  .+.+...|...+... ...|+.+.|..+|+.+..  +.+...|...+..+...|+++.|+.+|+++++..|.++
T Consensus       160 al~~--~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~  237 (308)
T d2onda1         160 ARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPP  237 (308)
T ss_dssp             HHTS--TTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCG
T ss_pred             HHHh--CCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCh
Confidence            5532  122233333333322 224556666666665522  12344566666666666666666666666665544332


Q ss_pred             ----hhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          481 ----GIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       481 ----~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                          ..|......-...|+.+.+.++.+++.+
T Consensus       238 ~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         238 EKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             GGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                2455555555556666666666665544

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.11  E-value=2.3e-10  Score=108.20  Aligned_cols=229  Identities=7%  Similarity=-0.044  Sum_probs=159.8

Q ss_pred             CCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccC--chhhHHHHHHHHhhcCCCChhHHH-HHHHHhHhcCCHHHHH
Q 048179          256 NGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIG--FLKLGKSIHGYTVRRFDFNLVLGT-SVIDMYSKCGVPSCAR  332 (589)
Q Consensus       256 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A~  332 (589)
                      .|++++|+..++...+.. +-+...+.....++...+  +.+.+...+..+....+.+...+. .....+...+..+.|.
T Consensus        86 ~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al  164 (334)
T d1dcea1          86 AALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEEL  164 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHH
Confidence            334566666666666542 223334444444443333  356666666666644445555543 4446677788999999


Q ss_pred             HHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcC
Q 048179          333 ALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYK  409 (589)
Q Consensus       333 ~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  409 (589)
                      ..++.+.+   .+..+|+.+...+...|++++|...+++..+.  .|+.   ..+...+...+..+++...+.....  .
T Consensus       165 ~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~--~  237 (334)
T d1dcea1         165 AFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKE---LELVQNAFFTDPNDQSAWFYHRWLL--G  237 (334)
T ss_dssp             HHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHH---HHHHHHHHHHCSSCSHHHHHHHHHH--S
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHH---HHHHHHHHHhcchhHHHHHHHHHHH--h
Confidence            99998876   35678888888899999888877666554442  2222   1223334455667778888887765  3


Q ss_pred             CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHH
Q 048179          410 IQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVS  487 (589)
Q Consensus       410 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  487 (589)
                      .+++...+..++..+...|+.++|...+.+.. ..| +..+|..++.++...|++++|.+.++++++++|++...|..|+
T Consensus       238 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L~  317 (334)
T d1dcea1         238 RAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLR  317 (334)
T ss_dssp             CCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             CcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHHH
Confidence            44556677778888999999999999998864 345 4567888999999999999999999999999999999999998


Q ss_pred             HHHHh
Q 048179          488 NFFAM  492 (589)
Q Consensus       488 ~~~~~  492 (589)
                      ..+.-
T Consensus       318 ~~~~~  322 (334)
T d1dcea1         318 SKFLL  322 (334)
T ss_dssp             HHHHH
T ss_pred             HHHhH
Confidence            87764

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.08  E-value=6.2e-09  Score=94.02  Aligned_cols=200  Identities=9%  Similarity=-0.067  Sum_probs=132.6

Q ss_pred             HHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhc
Q 048179          280 SLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS---RDLISWNVIIASYGIH  356 (589)
Q Consensus       280 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~  356 (589)
                      ++..+..++.+.|+++.|...+.......|.++.+++.+..+|.+.|++++|...|+++.+   .+..+|..+..++...
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  118 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYG  118 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHHHHHHHH
Confidence            4445555666666777777776666655566777888899999999999999999988764   3466888888999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHH
Q 048179          357 GHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKI  436 (589)
Q Consensus       357 g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  436 (589)
                      |++++|+..|++..+.. +.+......+..++.+.+..+....+.......   .+....+. ++..+............
T Consensus       119 g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~-~~~~~~~~~~~~~~~~~  193 (259)
T d1xnfa_         119 GRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS---DKEQWGWN-IVEFYLGNISEQTLMER  193 (259)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS---CCCSTHHH-HHHHHTTSSCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc---chhhhhhh-HHHHHHHHHHHHHHHHH
Confidence            99999999999998864 334444444444555556555555555555432   22222222 23333222222222222


Q ss_pred             HHhc-CC----CCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHH
Q 048179          437 VDSM-ST----EPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHA  484 (589)
Q Consensus       437 ~~~~-~~----~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  484 (589)
                      .... ..    .|+ ..+|..+...+...|++++|...++++++.+|++...|.
T Consensus       194 ~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  247 (259)
T d1xnfa_         194 LKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEHR  247 (259)
T ss_dssp             HHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHHH
T ss_pred             HHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHH
Confidence            2221 11    132 346777888999999999999999999999998765543

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.08  E-value=1.4e-08  Score=96.12  Aligned_cols=284  Identities=11%  Similarity=-0.001  Sum_probs=161.8

Q ss_pred             HHccCCcHHHHHHHHHHHHhcCCCc----hHHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CC----eehHHHHHHHH
Q 048179          187 CADLGDSRFGLSVHGYSIRRHLNLD----VKVQTSLVDMYAKTGHLDLASHVFKNMSR-----IN----IVTWGALISGF  253 (589)
Q Consensus       187 ~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~  253 (589)
                      +...|+++.|..+++..++.....+    ..++..+...|...|++++|...|++..+     ++    ..++..+...+
T Consensus        22 ~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  101 (366)
T d1hz4a_          22 AINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEIL  101 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHH
Confidence            3344555555555554444321111    23455566667777777777777766542     11    12445566677


Q ss_pred             HhCCChhHHHHHHHHHHhc----CCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHH
Q 048179          254 AQNGLAGSTLELLMEMQSC----GFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPS  329 (589)
Q Consensus       254 ~~~g~~~~a~~~~~~m~~~----g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  329 (589)
                      ...|++..+...+.+....    +..+...                               ....+..+...+...|+++
T Consensus       102 ~~~~~~~~a~~~~~~al~~~~~~~~~~~~~-------------------------------~~~~~~~la~~~~~~~~~~  150 (366)
T d1hz4a_         102 FAQGFLQTAWETQEKAFQLINEQHLEQLPM-------------------------------HEFLVRIRAQLLWAWARLD  150 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCTTSTH-------------------------------HHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhHhcccchhhH-------------------------------HHHHHHHHHHHHHHhcchh
Confidence            7888888888877765432    1111100                               0112233444555566666


Q ss_pred             HHHHHHHhcCC--------CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCCC----HHHHHHHHHHHhcCCcHH
Q 048179          330 CARALFDQMQS--------RDLISWNVIIASYGIHGHGEEALSLFLQMIETM--VKPD----HSTFASLLSALSHSGLVE  395 (589)
Q Consensus       330 ~A~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~--~~p~----~~t~~~ll~a~~~~g~~~  395 (589)
                      .+...+.....        ....++..+...+...++...+...+.+.....  ....    ...+..+...+...|+++
T Consensus       151 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  230 (366)
T d1hz4a_         151 EAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKA  230 (366)
T ss_dssp             HHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             hhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHH
Confidence            66655554431        112344445556666777777777766654321  1111    123445556677788888


Q ss_pred             HHHHHHHHHHHhcCCCCC--hhhHHHHHHHHHHcCCHHHHHHHHHhcC-------CCCC-hhHHHHHHHHHHhcCCchHH
Q 048179          396 EGRYWFDLMVSKYKIQPT--EKHYACMVDLLARAGEVEEALKIVDSMS-------TEPG-LAVWVALLSGCHNHKKFSIG  465 (589)
Q Consensus       396 ~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~p~-~~~~~~l~~~~~~~~~~~~a  465 (589)
                      +|...++.......-.+.  ...+..+..++...|++++|...+++..       ..|+ ..++..+..++...|++++|
T Consensus       231 ~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  310 (366)
T d1hz4a_         231 AAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDA  310 (366)
T ss_dssp             HHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHH
Confidence            888888876543111111  2345567788888888888888887752       2232 34677778888999999999


Q ss_pred             HHHHHHHhccCCCC---------chhHHHHHHHHHhCCChHHHHH
Q 048179          466 EKVAKKVLKLNPDD---------LGIHALVSNFFAMEQKWEEVAG  501 (589)
Q Consensus       466 ~~~~~~~~~~~p~~---------~~~~~~l~~~~~~~g~~~~a~~  501 (589)
                      .+.+++++++.+..         ...+..+...+...++.+++.+
T Consensus       311 ~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e~  355 (366)
T d1hz4a_         311 QRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPELEQ  355 (366)
T ss_dssp             HHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHHHH
Confidence            99999988764321         1233344455666677777654

>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=99.08  E-value=1.2e-08  Score=94.65  Aligned_cols=185  Identities=12%  Similarity=0.092  Sum_probs=147.4

Q ss_pred             chhhHHHHHHHHh-hcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCC--C-C-hhHHHHHHHHHHhcCCHHHHHHHHH
Q 048179          293 FLKLGKSIHGYTV-RRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQS--R-D-LISWNVIIASYGIHGHGEEALSLFL  367 (589)
Q Consensus       293 ~~~~a~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~-~~~~~~li~~~~~~g~~~~A~~~~~  367 (589)
                      ..+.+..+++... ...+.+..++..++..+.+.|+++.|..+|+++.+  | + ...|...+..+.+.|+.+.|.++|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            4567778888888 34566677888899999999999999999998754  2 3 3478999999999999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHH-HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC----C
Q 048179          368 QMIETMVKPDHSTFASLLS-ALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS----T  442 (589)
Q Consensus       368 ~m~~~~~~p~~~t~~~ll~-a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~  442 (589)
                      ++++.+. .+...|..... -+...|+.+.|..+|+.+...  .+.+...|..+++.+.+.|+.++|..+|++..    .
T Consensus       159 ~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         159 KAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            9988653 23333433332 234568999999999999974  34557889999999999999999999999862    2


Q ss_pred             CCC--hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCc
Q 048179          443 EPG--LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDL  480 (589)
Q Consensus       443 ~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  480 (589)
                      .|+  ...|...+.--..+|+.+.+..+.+++.+..|+..
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~  275 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEY  275 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTT
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcccc
Confidence            232  45799999888999999999999999999888664

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.07  E-value=7.8e-09  Score=96.08  Aligned_cols=124  Identities=6%  Similarity=-0.025  Sum_probs=53.1

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHH-HHHHHHHHHhccC-chhhHHHHHHHHhhcCCCChhHHHHHHHHhH
Q 048179          246 WGALISGFAQNGLAGSTLELLMEMQSCGFEPDSV-SLVSALLACAQIG-FLKLGKSIHGYTVRRFDFNLVLGTSVIDMYS  323 (589)
Q Consensus       246 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  323 (589)
                      ++.+...+.+.+.+++|+.+++++++.  .|+.. .|.....++...+ +++.|...++.+....+.+..++..+...+.
T Consensus        46 ~~~~~~~~~~~e~~~~Al~~~~~ai~l--nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~  123 (315)
T d2h6fa1          46 YDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVE  123 (315)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCchHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHH
Confidence            444555556666666666666666664  34332 2222222322222 2333333333333333333333444444444


Q ss_pred             hcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048179          324 KCGVPSCARALFDQMQS---RDLISWNVIIASYGIHGHGEEALSLFLQMIE  371 (589)
Q Consensus       324 ~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  371 (589)
                      +.|++++|+..|+++.+   .+...|..+...+...|++++|++.++++++
T Consensus       124 ~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~  174 (315)
T d2h6fa1         124 WLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLK  174 (315)
T ss_dssp             HHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHH
T ss_pred             hhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            44444444444443332   2233444444444444444444444444443

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.01  E-value=3.8e-10  Score=106.62  Aligned_cols=246  Identities=12%  Similarity=-0.048  Sum_probs=178.7

Q ss_pred             hCCChhHHHHHHHHHHhcCCCCCHHHH-H---HHHHHHh-------ccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhH
Q 048179          255 QNGLAGSTLELLMEMQSCGFEPDSVSL-V---SALLACA-------QIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYS  323 (589)
Q Consensus       255 ~~g~~~~a~~~~~~m~~~g~~p~~~~~-~---~ll~~~~-------~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  323 (589)
                      ..+..++|++++.+..+.  .|+..+. +   .++....       ..|.++.+..+++.+....|.+...+..+...+.
T Consensus        41 ~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~~  118 (334)
T d1dcea1          41 AGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS  118 (334)
T ss_dssp             TTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHHH
Confidence            344457888888888765  5665432 1   1222222       3345677888888888777888888888877777


Q ss_pred             hcCC--HHHHHHHHHhcCC---CChhHHHHH-HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHH
Q 048179          324 KCGV--PSCARALFDQMQS---RDLISWNVI-IASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEG  397 (589)
Q Consensus       324 ~~g~--~~~A~~~~~~~~~---~~~~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a  397 (589)
                      ..++  +++|...++++..   ++...|... ...+...+.+++|+..++++++.. +-+...+..+...+...|++++|
T Consensus       119 ~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A  197 (334)
T d1dcea1         119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDS  197 (334)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCS
T ss_pred             HhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHH
Confidence            7654  7899998888753   345565543 456777899999999999888764 33567788888888888888887


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc--CCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhcc
Q 048179          398 RYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSM--STEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKL  475 (589)
Q Consensus       398 ~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  475 (589)
                      ...++.....   .|+   ...+...+...+..+++...+...  ...++...+..++..+...++.++|...+.++++.
T Consensus       198 ~~~~~~~~~~---~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  271 (334)
T d1dcea1         198 GPQGRLPENV---LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCKELQELEPE  271 (334)
T ss_dssp             SSCCSSCHHH---HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHhHHh---HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            6666554432   121   122334456667777777777665  22345556677778888889999999999999999


Q ss_pred             CCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          476 NPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       476 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      +|+++.++..++.+|...|++++|.+.++++.+.
T Consensus       272 ~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         272 NKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             CHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999873

>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=98.87  E-value=1.4e-08  Score=78.69  Aligned_cols=89  Identities=12%  Similarity=0.115  Sum_probs=66.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChH
Q 048179          420 MVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWE  497 (589)
Q Consensus       420 l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  497 (589)
                      -...+.+.|++++|+..|++.. ..| +...|..+..++...|++++|+..++++++++|+++.+|..++.+|...|+++
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHH
Confidence            3556677777777777777752 233 55667777777778888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHHh
Q 048179          498 EVAGVRKTMRK  508 (589)
Q Consensus       498 ~a~~~~~~m~~  508 (589)
                      +|...+++..+
T Consensus        89 ~A~~~~~~a~~   99 (117)
T d1elwa_          89 EAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHH
Confidence            88888877775

>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=98.83  E-value=1.3e-08  Score=87.73  Aligned_cols=97  Identities=9%  Similarity=0.060  Sum_probs=63.8

Q ss_pred             CChhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHH
Q 048179          412 PTEKHYACMVDLLARAGEVEEALKIVDSM-STEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNF  489 (589)
Q Consensus       412 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  489 (589)
                      |+...+...+..|.+.|++++|+..|++. ...| +...|..++.+|...|+++.|+..++++++++|+++.+|..+|.+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~   81 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   81 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHHH
Confidence            45555555666666666666666666654 2223 455666666667777777777777777777777777777777777


Q ss_pred             HHhCCChHHHHHHHHHHHh
Q 048179          490 FAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       490 ~~~~g~~~~a~~~~~~m~~  508 (589)
                      |...|++++|...++++.+
T Consensus        82 ~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          82 QLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            7777777777777766654

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.78  E-value=5e-08  Score=75.44  Aligned_cols=106  Identities=9%  Similarity=0.022  Sum_probs=90.6

Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCC
Q 048179          384 LLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNHKK  461 (589)
Q Consensus       384 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~~~  461 (589)
                      -...+...|++++|+..|+.+.+.  -+.+...|..+..+|...|++++|+..+++...  +.+...|..+..++...|+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccC
Confidence            456678889999999999998864  344577899999999999999999999988732  3467889999999999999


Q ss_pred             chHHHHHHHHHhccCCCCchhHHHHHHHHH
Q 048179          462 FSIGEKVAKKVLKLNPDDLGIHALVSNFFA  491 (589)
Q Consensus       462 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  491 (589)
                      +++|+..++++++++|+++.++..+.++-.
T Consensus        87 ~~~A~~~~~~a~~~~p~~~~~~~~l~~l~~  116 (117)
T d1elwa_          87 FEEAKRTYEEGLKHEANNPQLKEGLQNMEA  116 (117)
T ss_dssp             HHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHhC
Confidence            999999999999999999999998887654

>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=98.73  E-value=1e-07  Score=78.35  Aligned_cols=89  Identities=11%  Similarity=0.014  Sum_probs=59.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChH
Q 048179          420 MVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWE  497 (589)
Q Consensus       420 l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  497 (589)
                      ....|.+.|++++|+..|++.. ..| +...|..+..+|...|++++|+..++++++++|+++.+|..++.+|...|+++
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~   95 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFR   95 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCHH
Confidence            3455666677777776666652 223 45566666666777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHHh
Q 048179          498 EVAGVRKTMRK  508 (589)
Q Consensus       498 ~a~~~~~~m~~  508 (589)
                      +|.+.+++...
T Consensus        96 eA~~~~~~a~~  106 (159)
T d1a17a_          96 AALRDYETVVK  106 (159)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77777766665

>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=98.72  E-value=5.7e-07  Score=76.25  Aligned_cols=140  Identities=11%  Similarity=-0.011  Sum_probs=92.0

Q ss_pred             HHHhHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHH
Q 048179          319 IDMYSKCGVPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGR  398 (589)
Q Consensus       319 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~  398 (589)
                      ...+...|+++.|.+.|.++..++...|..+..+|...|++++|++.|++.++.. +-+...|..+..++.+.|++++|.
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            4456667778888888877777777777777777777888888888887777754 334567777777777777888777


Q ss_pred             HHHHHHHHhcCCCCChh-hHHHHHHHHHHcCCHHHHHHHHHhcCCCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccC
Q 048179          399 YWFDLMVSKYKIQPTEK-HYACMVDLLARAGEVEEALKIVDSMSTEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLN  476 (589)
Q Consensus       399 ~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  476 (589)
                      ..|++....  .+++.. .|..+       |           +..++ ...++..+..++...|++++|.+.+++++++.
T Consensus        91 ~~~~kAl~~--~~~n~~~~~~~~-------~-----------~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          91 KDLKEALIQ--LRGNQLIDYKIL-------G-----------LQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHHHT--TTTCSEEECGGG-------T-----------BCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHh--CccCchHHHHHh-------h-----------hhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            777776642  122210 00000       0           00011 12345567777888888888888888888887


Q ss_pred             CCC
Q 048179          477 PDD  479 (589)
Q Consensus       477 p~~  479 (589)
                      |+.
T Consensus       151 ~~~  153 (192)
T d1hh8a_         151 SEP  153 (192)
T ss_dssp             CSG
T ss_pred             CCc
Confidence            764

>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=98.71  E-value=2.7e-08  Score=76.28  Aligned_cols=90  Identities=14%  Similarity=0.145  Sum_probs=81.2

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCC
Q 048179          418 ACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQK  495 (589)
Q Consensus       418 ~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  495 (589)
                      -.+...+.+.|++++|+..|++.. ..| +..+|..+..++...|++++|+..++++++++|+++.++..++.+|...|+
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCC
Confidence            346778899999999999999973 345 577899999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHH
Q 048179          496 WEEVAGVRKTMR  507 (589)
Q Consensus       496 ~~~a~~~~~~m~  507 (589)
                      +++|.+.+++..
T Consensus       100 ~~~A~~~l~~~l  111 (112)
T d1hxia_         100 ANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998753

>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=98.68  E-value=1.6e-07  Score=79.73  Aligned_cols=119  Identities=9%  Similarity=0.019  Sum_probs=81.9

Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchH
Q 048179          387 ALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSI  464 (589)
Q Consensus       387 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~  464 (589)
                      .+...|+++.|++.|+.+     .+|+...|..+..+|...|++++|++.|++.. ..| +...|..+..++...|++++
T Consensus        14 ~~~~~~d~~~Al~~~~~i-----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHH
Confidence            345566666666666543     23455566666677777777777777766652 223 45567777777777777777


Q ss_pred             HHHHHHHHhccCCCC----------------chhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          465 GEKVAKKVLKLNPDD----------------LGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       465 a~~~~~~~~~~~p~~----------------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      |...++++++..|.+                ..++..++.+|.+.|++++|.+.++.+.+..
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            777777777654433                2457789999999999999999999887643

>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=98.66  E-value=3.9e-07  Score=83.29  Aligned_cols=192  Identities=11%  Similarity=0.035  Sum_probs=131.9

Q ss_pred             HHHHHHhHhcCCHHHHHHHHHhcCC-----CC----hhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC---CCC--HHHH
Q 048179          316 TSVIDMYSKCGVPSCARALFDQMQS-----RD----LISWNVIIASYGIHGHGEEALSLFLQMIETMV---KPD--HSTF  381 (589)
Q Consensus       316 ~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~---~p~--~~t~  381 (589)
                      .-....|...|++++|.+.|.+..+     .+    ..+|+.+..+|.+.|++++|++.+++..+...   .+.  ..++
T Consensus        41 ~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~  120 (290)
T d1qqea_          41 VQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFK  120 (290)
T ss_dssp             HHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHH
Confidence            4456778888899998888887653     22    25788888999999999999999987765311   111  3456


Q ss_pred             HHHHHHHh-cCCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CCC-------h-h
Q 048179          382 ASLLSALS-HSGLVEEGRYWFDLMVSKYKIQPT----EKHYACMVDLLARAGEVEEALKIVDSMST-EPG-------L-A  447 (589)
Q Consensus       382 ~~ll~a~~-~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~-------~-~  447 (589)
                      ..+...|. ..|++++|.+.++.+.+.+....+    ..++..++..+...|++++|.+.++++.. .|+       . .
T Consensus       121 ~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~  200 (290)
T d1qqea_         121 FELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKD  200 (290)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHH
T ss_pred             HHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHH
Confidence            66666664 469999999999987653221112    34577889999999999999999988621 111       1 1


Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHhccCCCCch-----hHHHHHHHHHh--CCChHHHHHHHHHHH
Q 048179          448 VWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLG-----IHALVSNFFAM--EQKWEEVAGVRKTMR  507 (589)
Q Consensus       448 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~-----~~~~l~~~~~~--~g~~~~a~~~~~~m~  507 (589)
                      .+...+..+...|+++.|...++++.+++|..+.     ....++.+|..  .+++++|+..++++.
T Consensus       201 ~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         201 YFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            2344555677889999999999999999885432     33445556554  356888888886543

>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=98.65  E-value=2e-07  Score=76.55  Aligned_cols=117  Identities=10%  Similarity=0.009  Sum_probs=96.3

Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCC
Q 048179          384 LLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKK  461 (589)
Q Consensus       384 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~  461 (589)
                      ....|.+.|++++|...|+++.+.  -+.+...|..+..+|...|++++|++.|+++. ..| +..+|..++.++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCC
Confidence            455678899999999999998864  23457888899999999999999999999873 344 56789999999999999


Q ss_pred             chHHHHHHHHHhccCCCCchhHHHHHHHH--HhCCChHHHHHH
Q 048179          462 FSIGEKVAKKVLKLNPDDLGIHALVSNFF--AMEQKWEEVAGV  502 (589)
Q Consensus       462 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~--~~~g~~~~a~~~  502 (589)
                      +++|...++++++++|+++.++..+..+.  ...+.+++|...
T Consensus        94 ~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          94 FRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            99999999999999999999888877664  344556666654

>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=98.60  E-value=4.8e-07  Score=75.05  Aligned_cols=110  Identities=11%  Similarity=0.037  Sum_probs=72.2

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCChhHHHHHHHHHHhc
Q 048179          380 TFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGLAVWVALLSGCHNH  459 (589)
Q Consensus       380 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~  459 (589)
                      .+......+.+.|++++|+..|..+.......+....-               -......    ....+|..+..+|.+.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~---------------~~~~~~~----~~~~~~~nla~~y~k~   75 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNE---------------EAQKAQA----LRLASHLNLAMCHLKL   75 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSH---------------HHHHHHH----HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchH---------------HHhhhch----hHHHHHHHHHHHHHhh
Confidence            34444556667777777777777766543222211100               0000000    0123566677778888


Q ss_pred             CCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          460 KKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       460 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      |++++|+..++++++++|+++.++..+|.+|...|++++|...++++.+
T Consensus        76 ~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          76 QAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            8888888888888888888888888888888888888888888888776

>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=98.57  E-value=1.2e-07  Score=73.48  Aligned_cols=107  Identities=11%  Similarity=0.019  Sum_probs=71.4

Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCH---HHHHHHHHhcCC-CCCh---hHHHHHHH
Q 048179          382 ASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEV---EEALKIVDSMST-EPGL---AVWVALLS  454 (589)
Q Consensus       382 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~~-~p~~---~~~~~l~~  454 (589)
                      ..+++.+...+++++|.+.|+.....  -+.+..++..+..++.+.++.   ++|+.+++++.. .|+.   .+|..|..
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            34666777777788888888877753  234466777777777664443   457777777643 3322   25667777


Q ss_pred             HHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHH
Q 048179          455 GCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFF  490 (589)
Q Consensus       455 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  490 (589)
                      +|...|++++|++.++++++++|++..+...+..+.
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I~  116 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLID  116 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHHHH
Confidence            777778888888888888888887776666665543

>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=98.55  E-value=1.2e-07  Score=81.51  Aligned_cols=113  Identities=8%  Similarity=-0.057  Sum_probs=75.4

Q ss_pred             CCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHH
Q 048179          376 PDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALL  453 (589)
Q Consensus       376 p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~  453 (589)
                      |+...+......+.+.|++++|+..|+.+...  -+.+...|..+..+|.+.|++++|+..|++.. ..| +..+|..++
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHH
Confidence            55556666667777777777777777776653  23346667777777777777777777777753 345 355677777


Q ss_pred             HHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHH
Q 048179          454 SGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFF  490 (589)
Q Consensus       454 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  490 (589)
                      .++...|++++|+..++++++++|++...+...+..+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~  116 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSA  116 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            7777777777777777777777765554443333333

>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=98.54  E-value=1.6e-07  Score=72.65  Aligned_cols=93  Identities=6%  Similarity=-0.020  Sum_probs=64.6

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhcCC--CCChhHHHHHHHHHHhc---CCchHHHHHHHHHhccCCCC--chhHHHHHHHH
Q 048179          418 ACMVDLLARAGEVEEALKIVDSMST--EPGLAVWVALLSGCHNH---KKFSIGEKVAKKVLKLNPDD--LGIHALVSNFF  490 (589)
Q Consensus       418 ~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~  490 (589)
                      ..++..+...+++++|.+.|++...  +.+..++..+..++.+.   +++++|+.+++++++.+|.+  +.++..+|.+|
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            4566777777788888888877632  34556777777776653   34556777888887777644  34677788888


Q ss_pred             HhCCChHHHHHHHHHHHhCC
Q 048179          491 AMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       491 ~~~g~~~~a~~~~~~m~~~g  510 (589)
                      .+.|++++|.+.++++.+..
T Consensus        83 ~~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhhhHHHHHHHHHHHHhC
Confidence            88888888888888777643

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.53  E-value=1e-06  Score=71.58  Aligned_cols=83  Identities=13%  Similarity=0.037  Sum_probs=71.8

Q ss_pred             hHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCceeEEEECCEE
Q 048179          447 AVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNGEL  526 (589)
Q Consensus       447 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~~  526 (589)
                      .++..+..+|.+.|++++|++.++++++++|+++.+|..+|.+|...|++++|...+++..+.                 
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l-----------------  130 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL-----------------  130 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-----------------
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh-----------------
Confidence            467778889999999999999999999999999999999999999999999999999998863                 


Q ss_pred             EEEEecCCCCCChHHHHHHHHHHHHHHHh
Q 048179          527 HAFIMEDKSHNQYEDIVYVLKKLYLEMRA  555 (589)
Q Consensus       527 ~~f~~~~~~~~~~~~~~~~~~~l~~~~~~  555 (589)
                               .|...++...+..+..++++
T Consensus       131 ---------~P~n~~~~~~l~~~~~kl~~  150 (153)
T d2fbna1         131 ---------NPNNLDIRNSYELCVNKLKE  150 (153)
T ss_dssp             ---------STTCHHHHHHHHHHHHHHHH
T ss_pred             ---------CCCCHHHHHHHHHHHHHHHH
Confidence                     35566677777777777764

>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=98.50  E-value=1.2e-06  Score=72.63  Aligned_cols=134  Identities=9%  Similarity=-0.011  Sum_probs=100.1

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 048179          344 ISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDL  423 (589)
Q Consensus       344 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  423 (589)
                      ..+......+.+.|++++|+..|.+.++......              +..+.-......+.        ...|..+..+
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~--------------~~~~~~~~~~~~~~--------~~~~~nla~~   71 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYES--------------SFSNEEAQKAQALR--------LASHLNLAMC   71 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCC--------------CCCSHHHHHHHHHH--------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhcc--------------ccchHHHhhhchhH--------HHHHHHHHHH
Confidence            3455667788999999999999999886421100              00011111111111        2256778899


Q ss_pred             HHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHH
Q 048179          424 LARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEV  499 (589)
Q Consensus       424 ~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  499 (589)
                      |.+.|++++|+..+++.. ..| ++.+|..++.++...|++++|+..++++++++|+++.+...++.+..+.+...+.
T Consensus        72 y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~~~  149 (170)
T d1p5qa1          72 HLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAR  149 (170)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999998863 345 6778999999999999999999999999999999999999999998776665554

>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=98.46  E-value=1.9e-05  Score=70.53  Aligned_cols=230  Identities=9%  Similarity=-0.063  Sum_probs=142.7

Q ss_pred             eehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHh
Q 048179          243 IVTWGALISGFAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMY  322 (589)
Q Consensus       243 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  322 (589)
                      +..+..|...+.+.+++++|++.|++..+.|   +...+..+...+....              +               
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~--------------~---------------   49 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQ--------------G---------------   49 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTS--------------S---------------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCC--------------C---------------
Confidence            3456666667777888888888888887765   2222222222221100              0               


Q ss_pred             HhcCCHHHHHHHHHhcCC-CChhHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH--HhcCCcHH
Q 048179          323 SKCGVPSCARALFDQMQS-RDLISWNVIIASYGI----HGHGEEALSLFLQMIETMVKPDHSTFASLLSA--LSHSGLVE  395 (589)
Q Consensus       323 ~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a--~~~~g~~~  395 (589)
                       ...++..|...+....+ .+...+..+...+..    .++.+.|...+++..+.|..+ ..........  ........
T Consensus        50 -~~~d~~~a~~~~~~a~~~~~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~-a~~~l~~~~~~~~~~~~~~~  127 (265)
T d1ouva_          50 -VEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAE-GCASLGGIYHDGKVVTRDFK  127 (265)
T ss_dssp             -SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHH-HHHHHHHHHHHCSSSCCCHH
T ss_pred             -cchhHHHHHHhhcccccccccchhhccccccccccccchhhHHHHHHHhhhhhhhhhh-HHHhhcccccCCCcccchhH
Confidence             03344455555544433 233334444333332    456778888888877766322 2111111211  12344566


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHHHH----cCCHHHHHHHHHhcCCCCChhHHHHHHHHHHh----cCCchHHHH
Q 048179          396 EGRYWFDLMVSKYKIQPTEKHYACMVDLLAR----AGEVEEALKIVDSMSTEPGLAVWVALLSGCHN----HKKFSIGEK  467 (589)
Q Consensus       396 ~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~  467 (589)
                      .+...+......    .+...+..|...|..    ..+...+..+++......+..++..|...+..    ..|++.|+.
T Consensus       128 ~a~~~~~~~~~~----~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~  203 (265)
T d1ouva_         128 KAVEYFTKACDL----NDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALA  203 (265)
T ss_dssp             HHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHH
T ss_pred             HHHHHhhhhhcc----cccchhhhhhhhhccCCCcccccccchhhhhccccccccccccchhhhcccCcccccchhhhhh
Confidence            677777665542    456667777777775    45677788888776555677777777776665    568999999


Q ss_pred             HHHHHhccCCCCchhHHHHHHHHHh----CCChHHHHHHHHHHHhCCCc
Q 048179          468 VAKKVLKLNPDDLGIHALVSNFFAM----EQKWEEVAGVRKTMRKSGMK  512 (589)
Q Consensus       468 ~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~g~~  512 (589)
                      .|+++.+.+  ++.++..|+.+|.+    ..+.++|.+.+++..+.|..
T Consensus       204 ~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         204 RYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             HHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             hHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCH
Confidence            999998875  67788999999986    44899999999999887753

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.46  E-value=6.8e-07  Score=74.15  Aligned_cols=84  Identities=8%  Similarity=0.051  Sum_probs=70.5

Q ss_pred             ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCceeEEEECC
Q 048179          445 GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMKKVPGYSVVEVNG  524 (589)
Q Consensus       445 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~  524 (589)
                      +...|..+..++.+.|++++|+..++++++++|+++.+|..+|.+|...|++++|.+.++++.+.               
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l---------------  140 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI---------------  140 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh---------------
Confidence            34567788888999999999999999999999999999999999999999999999999998873               


Q ss_pred             EEEEEEecCCCCCChHHHHHHHHHHHHHHH
Q 048179          525 ELHAFIMEDKSHNQYEDIVYVLKKLYLEMR  554 (589)
Q Consensus       525 ~~~~f~~~~~~~~~~~~~~~~~~~l~~~~~  554 (589)
                                 .|...+++..+..+..+++
T Consensus       141 -----------~p~n~~~~~~l~~~~~~l~  159 (169)
T d1ihga1         141 -----------APEDKAIQAELLKVKQKIK  159 (169)
T ss_dssp             -----------CTTCHHHHHHHHHHHHHHH
T ss_pred             -----------CCCCHHHHHHHHHHHHHHH
Confidence                       2345666766666666654

>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=98.45  E-value=1.6e-06  Score=79.17  Aligned_cols=172  Identities=8%  Similarity=-0.003  Sum_probs=130.8

Q ss_pred             CHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHhcCCcHHHHHHHH
Q 048179          327 VPSCARALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIET----MVKPD-HSTFASLLSALSHSGLVEEGRYWF  401 (589)
Q Consensus       327 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~-~~t~~~ll~a~~~~g~~~~a~~~~  401 (589)
                      ++++|.++|.           .....|...|++++|.+.|.+..+.    +-+++ ..+|..+..+|.+.|++++|...+
T Consensus        32 ~~~~Aa~~y~-----------~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~  100 (290)
T d1qqea_          32 KFEEAADLCV-----------QAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (290)
T ss_dssp             HHHHHHHHHH-----------HHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHH-----------HHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHH
Confidence            4566666654           4467888999999999999988763    22222 357888999999999999999999


Q ss_pred             HHHHHhcCCCCC----hhhHHHHHHHHHH-cCCHHHHHHHHHhcCC----CCC----hhHHHHHHHHHHhcCCchHHHHH
Q 048179          402 DLMVSKYKIQPT----EKHYACMVDLLAR-AGEVEEALKIVDSMST----EPG----LAVWVALLSGCHNHKKFSIGEKV  468 (589)
Q Consensus       402 ~~~~~~~~~~p~----~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~----~p~----~~~~~~l~~~~~~~~~~~~a~~~  468 (589)
                      +...+.+.-..+    ...+..+...|.. .|++++|++.+++...    ..+    ..++..+...+...|++++|...
T Consensus       101 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~  180 (290)
T d1qqea_         101 ENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDI  180 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHH
Confidence            987654322222    3456667777755 6999999999987621    111    34577888899999999999999


Q ss_pred             HHHHhccCCCCc-------hhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          469 AKKVLKLNPDDL-------GIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       469 ~~~~~~~~p~~~-------~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      ++++....|.+.       ..+...+.++...|+++.|.+.+++..+.
T Consensus       181 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~  228 (290)
T d1qqea_         181 YSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE  228 (290)
T ss_dssp             HHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC
T ss_pred             HHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            999999887654       34567778888999999999999988764

>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=98.45  E-value=9.8e-07  Score=69.14  Aligned_cols=92  Identities=11%  Similarity=0.148  Sum_probs=76.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCch-------hHHHHH
Q 048179          417 YACMVDLLARAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLG-------IHALVS  487 (589)
Q Consensus       417 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~-------~~~~l~  487 (589)
                      +..+...+.+.|++++|++.|++.. ..| +..+|..+..+|...|+++.|++.++++++++|+++.       +|..++
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            4457788889999999999988863 234 5778889999999999999999999999999987765       556677


Q ss_pred             HHHHhCCChHHHHHHHHHHHh
Q 048179          488 NFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       488 ~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      .++...+++++|.+.+++...
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHh
Confidence            788889999999999988764

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.41  E-value=3.9e-06  Score=69.24  Aligned_cols=61  Identities=10%  Similarity=0.088  Sum_probs=50.2

Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          448 VWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       448 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ++..+..+|...|++++|+..++++++++|+++.+|..++.+|...|++++|.+.++++.+
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~  126 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLE  126 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4556677778888888888888888888888888888888888888888888888888775

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.35  E-value=5e-06  Score=68.56  Aligned_cols=92  Identities=12%  Similarity=0.027  Sum_probs=76.8

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhcC-C-CCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhC
Q 048179          416 HYACMVDLLARAGEVEEALKIVDSMS-T-EPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAME  493 (589)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  493 (589)
                      .|..+..+|.+.|++++|+..+++.. . +.+..+|..+..++...|++++|+..++++++++|+++.+...+..+....
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~  145 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKA  145 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            46668888999999999999999863 2 346788999999999999999999999999999999999999999988777


Q ss_pred             CChHH-HHHHHHHHH
Q 048179          494 QKWEE-VAGVRKTMR  507 (589)
Q Consensus       494 g~~~~-a~~~~~~m~  507 (589)
                      +...+ ..+.+..|-
T Consensus       146 ~~~~e~~kk~~~~~f  160 (168)
T d1kt1a1         146 KEHNERDRRTYANMF  160 (168)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHH
Confidence            65544 455555554

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.31  E-value=1.6e-07  Score=93.03  Aligned_cols=147  Identities=10%  Similarity=-0.026  Sum_probs=76.2

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHH--hcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHH
Q 048179          359 GEEALSLFLQMIETMVKPDHSTFASLLSAL--SHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEEALK  435 (589)
Q Consensus       359 ~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~--~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~  435 (589)
                      +..+++.+++..+....++..-....+..+  ...+.++.++..+....   ++.|+ ...+..+...+.+.|+.++|..
T Consensus        65 y~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~---~l~~~~~~~~~~lg~~~~~~~~~~~A~~  141 (497)
T d1ya0a1          65 FKNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVF---NVDLPCRVKSSQLGIISNKQTHTSAIVK  141 (497)
T ss_dssp             THHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC---------------------------------
T ss_pred             HHHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---CCChhhHHHHHHhHHHHHhCCCHHHHHH
Confidence            345666666666544344433222222111  12334444444443332   33333 5567777888888888888887


Q ss_pred             HHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          436 IVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       436 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      .+++........++..++..+...|++++|+..++++++++|++...|..||.+|...|+..+|...+.+...
T Consensus       142 ~~~~al~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~  214 (497)
T d1ya0a1         142 PQSSSCSYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIA  214 (497)
T ss_dssp             -CCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHS
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            6655421111346777888888889999999999999999999999999999999999999999988888775

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.25  E-value=4.3e-06  Score=69.06  Aligned_cols=86  Identities=12%  Similarity=0.072  Sum_probs=73.4

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhc-CCCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVDSM-STEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFA  491 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  491 (589)
                      ...|..+..++.+.|++++|+..++++ ...| +..+|..++.++...|++++|++.++++++++|++..++..+..++.
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~  156 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQ  156 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            556777889999999999999999987 3344 67789999999999999999999999999999999999999988876


Q ss_pred             hCCChHHH
Q 048179          492 MEQKWEEV  499 (589)
Q Consensus       492 ~~g~~~~a  499 (589)
                      +.....++
T Consensus       157 ~l~~~~~~  164 (169)
T d1ihga1         157 KIKAQKDK  164 (169)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            65544443

>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=98.24  E-value=1e-05  Score=65.41  Aligned_cols=128  Identities=8%  Similarity=-0.052  Sum_probs=90.4

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 048179          344 ISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDL  423 (589)
Q Consensus       344 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  423 (589)
                      ..+......+.+.|++.+|+..|.+.+..-  |..           ....-.........        ....+|..+..+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~--~~~-----------~~~~~~~~~~~~~~--------~~~~~~~Nla~~   76 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFF--IHT-----------EEWDDQILLDKKKN--------IEISCNLNLATC   76 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTC-----------TTCCCHHHHHHHHH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cch-----------hhhhhHHHHHhhhh--------HHHHHHhhHHHH
Confidence            345556667777888888888887776531  100           00000000000011        112367778899


Q ss_pred             HHHcCCHHHHHHHHHhc-CCCC-ChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHh
Q 048179          424 LARAGEVEEALKIVDSM-STEP-GLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAM  492 (589)
Q Consensus       424 ~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  492 (589)
                      |.+.|++++|++.++++ ...| +..+|..++.++...|+++.|+..|+++++++|+++.+...+..+..+
T Consensus        77 ~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~k  147 (153)
T d2fbna1          77 YNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNK  147 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            99999999999999986 3344 678999999999999999999999999999999999988888776543

>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=0.0037  Score=56.54  Aligned_cols=43  Identities=12%  Similarity=0.294  Sum_probs=23.7

Q ss_pred             HhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHH
Q 048179          457 HNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAG  501 (589)
Q Consensus       457 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  501 (589)
                      .+.+++......++...+.  ++...+..|..+|...++++.-.+
T Consensus       259 ~k~~~l~li~p~Le~v~~~--n~~~vn~al~~lyie~~d~~~l~~  301 (336)
T d1b89a_         259 SKVKQLPLVKPYLRSVQNH--NNKSVNESLNNLFITEEDYQALRT  301 (336)
T ss_dssp             HHTTCTTTTHHHHHHHHTT--CCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCCcHHHHHHHHHHHHc--ChHHHHHHHHHHHhCcchhHHHHH
Confidence            3344444455555554332  244567777777777777654333

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.00  E-value=2.5e-05  Score=64.60  Aligned_cols=113  Identities=6%  Similarity=-0.005  Sum_probs=81.0

Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHH-HHHHHHHhcCCCCChhHHHHHHHHHHhcCC
Q 048179          383 SLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVE-EALKIVDSMSTEPGLAVWVALLSGCHNHKK  461 (589)
Q Consensus       383 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~-~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~  461 (589)
                      .........|++++|.+.|......+.-.+-...         ..+.+- ....-++.    .....+..+..++...|+
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~---------~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~~g~   82 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALREWRGPVLDDL---------RDFQFVEPFATALVE----DKVLAHTAKAEAEIACGR   82 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGG---------TTSTTHHHHHHHHHH----HHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcccccccC---------cchHHHHHHHHHHHH----HHHHHHHHHHHHHHHCCC
Confidence            3445677889999999988888764321111000         000000 00011111    123567888999999999


Q ss_pred             chHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          462 FSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       462 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      +++|+..++++++++|.+...|..++.+|.+.|++++|++.|++++.
T Consensus        83 ~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~  129 (179)
T d2ff4a2          83 ASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKT  129 (179)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999854

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.98  E-value=0.00082  Score=59.45  Aligned_cols=78  Identities=14%  Similarity=-0.041  Sum_probs=36.5

Q ss_pred             CCHHHHHHHHHhcCC-CChhHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----CCcHHH
Q 048179          326 GVPSCARALFDQMQS-RDLISWNVIIASYGI----HGHGEEALSLFLQMIETMVKPDHSTFASLLSALSH----SGLVEE  396 (589)
Q Consensus       326 g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~----~g~~~~  396 (589)
                      .+...+...++...+ .+..+...+...|..    .+++++|+..|++..+.|   ++..+..|...+.+    ..+.++
T Consensus       160 ~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~  236 (265)
T d1ouva_         160 KDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQ  236 (265)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTT
T ss_pred             cccccchhhhhccccccccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHH
Confidence            334444444444332 234444444444433    345666666666665554   23333344444432    224555


Q ss_pred             HHHHHHHHHH
Q 048179          397 GRYWFDLMVS  406 (589)
Q Consensus       397 a~~~~~~~~~  406 (589)
                      |.++|+....
T Consensus       237 A~~~~~kAa~  246 (265)
T d1ouva_         237 AIENFKKGCK  246 (265)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            6666655544

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.97  E-value=3.1e-05  Score=58.49  Aligned_cols=86  Identities=10%  Similarity=-0.094  Sum_probs=40.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCH
Q 048179          351 ASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEV  430 (589)
Q Consensus       351 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  430 (589)
                      ..+.+.|++++|+..|++.++.. +-+...|..+..++.+.|++++|+..|+.+.+.  .+.+...+..+..+|...|++
T Consensus        24 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          24 LSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhccccccccc--ccccccchHHHHHHHHHCCCH
Confidence            33444555555555555554432 112444445555555555555555555554432  122244444455555555555


Q ss_pred             HHHHHHHHh
Q 048179          431 EEALKIVDS  439 (589)
Q Consensus       431 ~~A~~~~~~  439 (589)
                      ++|.+.+++
T Consensus       101 ~~A~~~l~~  109 (112)
T d1hxia_         101 NAALASLRA  109 (112)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555554443

>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=97.92  E-value=2.2e-05  Score=63.61  Aligned_cols=89  Identities=16%  Similarity=-0.005  Sum_probs=64.6

Q ss_pred             HHHHHHcCCHHHHHHHHHhcC----CCCC----------hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCC--------
Q 048179          421 VDLLARAGEVEEALKIVDSMS----TEPG----------LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPD--------  478 (589)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~----~~p~----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~--------  478 (589)
                      ...+.+.|++++|++.|++..    ..|+          ..+|+.+..++...|++++|...+++++++.|.        
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~   95 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   95 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc
Confidence            334455566666666665541    1121          356788888899999999999999998876432        


Q ss_pred             ---CchhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          479 ---DLGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       479 ---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                         ...++..++.+|...|++++|.+.+++..+.
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence               1236788999999999999999999998763

>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=97.92  E-value=2.3e-05  Score=57.09  Aligned_cols=76  Identities=11%  Similarity=0.059  Sum_probs=59.9

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHhcC----C----CCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHH
Q 048179          415 KHYACMVDLLARAGEVEEALKIVDSMS----T----EPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHAL  485 (589)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~~~----~----~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  485 (589)
                      +.+-.++..+.+.|++++|+..|++..    .    .++ ..++..|..++.+.|++++|+..++++++++|+++.++..
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~N   85 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGN   85 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHH
Confidence            344457777788888888888777651    1    122 4578889999999999999999999999999999999888


Q ss_pred             HHHHH
Q 048179          486 VSNFF  490 (589)
Q Consensus       486 l~~~~  490 (589)
                      ++...
T Consensus        86 l~~~~   90 (95)
T d1tjca_          86 LKYFE   90 (95)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            86543

>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=97.90  E-value=6.6e-06  Score=65.73  Aligned_cols=44  Identities=11%  Similarity=0.221  Sum_probs=33.6

Q ss_pred             CchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048179          461 KFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGM  511 (589)
Q Consensus       461 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  511 (589)
                      +++.|.+.|+++++++|++..++..|+...       .|.+++.+..+.|+
T Consensus       101 ~~~~A~~~~~kal~l~P~~~~~~~~L~~~~-------ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         101 NFDLATQFFQQAVDEQPDNTHYLKSLEMTA-------KAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHHH-------THHHHHHHHHHSSS
T ss_pred             hHHHhhhhhhcccccCCCHHHHHHHHHHHH-------HHHHHHHHHHHHhc
Confidence            468899999999999999998888777664       55566666555554

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.88  E-value=0.0084  Score=54.13  Aligned_cols=276  Identities=13%  Similarity=0.091  Sum_probs=130.2

Q ss_pred             ChhhHHHHHHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 048179          110 DVFVGSSMLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACAD  189 (589)
Q Consensus       110 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~  189 (589)
                      |..-.....+.|.+.|.++.|..+|..+     ..|..++..+.+.++++.|.+++.+.      -+..+|..+..+|.+
T Consensus        13 n~~d~~~i~~~c~~~~lye~A~~lY~~~-----~d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~~   81 (336)
T d1b89a_          13 NNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVD   81 (336)
T ss_dssp             ----------------CTTTHHHHHHHT-----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHH
T ss_pred             CcCCHHHHHHHHHHCCCHHHHHHHHHhC-----CCHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHHh
Confidence            3333344555555666666666666655     34556666666677777666666543      144566666666665


Q ss_pred             cCCcHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCC---CCeehHHHHHHHHHhCCChhHHHHHH
Q 048179          190 LGDSRFGLSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSR---INIVTWGALISGFAQNGLAGSTLELL  266 (589)
Q Consensus       190 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~  266 (589)
                      ......+     .+.......++.....++..|-..|.+++...+++....   .+...++.++..|++.+ .++..+.+
T Consensus        82 ~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~-~~kl~e~l  155 (336)
T d1b89a_          82 GKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK-PQKMREHL  155 (336)
T ss_dssp             TTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTC-HHHHHHHH
T ss_pred             CcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhC-hHHHHHHH
Confidence            5544332     111222233444445677777777777777777776433   34456677777777754 33434433


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHHHHHHhcCCCChhHH
Q 048179          267 MEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCARALFDQMQSRDLISW  346 (589)
Q Consensus       267 ~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  346 (589)
                      +...   -.-|   ...++..|.+.+.++                     .++-.|.+.|+++.|..+.-.-. +++...
T Consensus       156 ~~~s---~~y~---~~k~~~~c~~~~l~~---------------------elv~Ly~~~~~~~~A~~~~i~~~-~~~~~~  207 (336)
T d1b89a_         156 ELFW---SRVN---IPKVLRAAEQAHLWA---------------------ELVFLYDKYEEYDNAIITMMNHP-TDAWKE  207 (336)
T ss_dssp             HHHS---TTSC---HHHHHHHHHTTTCHH---------------------HHHHHHHHTTCHHHHHHHHHHST-TTTCCH
T ss_pred             Hhcc---ccCC---HHHHHHHHHHcCChH---------------------HHHHHHHhcCCHHHHHHHHHHcc-hhhhhH
Confidence            3321   1122   223345555444443                     34455666777776665543322 111122


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-------------hcCCcHHHHHHHHHHHHHhcCCCCC
Q 048179          347 NVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSAL-------------SHSGLVEEGRYWFDLMVSKYKIQPT  413 (589)
Q Consensus       347 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~-------------~~~g~~~~a~~~~~~~~~~~~~~p~  413 (589)
                      ...+..+.+..+++...++.....+.  .|+.  .+.++...             .+.+++.....+++..... +   +
T Consensus       208 ~~f~e~~~k~~N~e~~~~~i~~yL~~--~p~~--i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~-n---~  279 (336)
T d1b89a_         208 GQFKDIITKVANVELYYRAIQFYLEF--KPLL--LNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNH-N---N  279 (336)
T ss_dssp             HHHHHHHHHCSSTHHHHHHHHHHHHH--CGGG--HHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTT-C---C
T ss_pred             HHHHHHHHccCChHHHHHHHHHHHHc--CHHH--HHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHc-C---h
Confidence            33344455555555444444443332  2221  22333333             3334444444444443321 1   2


Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHH
Q 048179          414 EKHYACMVDLLARAGEVEEALKIVD  438 (589)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~  438 (589)
                      ....+++.+.|...++++.-.+.++
T Consensus       280 ~~vn~al~~lyie~~d~~~l~~~i~  304 (336)
T d1b89a_         280 KSVNESLNNLFITEEDYQALRTSID  304 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcchhHHHHHHHH
Confidence            3455566666666666555444443

>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=97.85  E-value=6.6e-06  Score=65.74  Aligned_cols=84  Identities=7%  Similarity=-0.027  Sum_probs=58.2

Q ss_pred             HcCCHHHHHHHHHhcC-CCC-ChhHHHHHHHHHHh----------cCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhC
Q 048179          426 RAGEVEEALKIVDSMS-TEP-GLAVWVALLSGCHN----------HKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAME  493 (589)
Q Consensus       426 ~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~----------~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  493 (589)
                      +.+.+++|++.|+... ..| +..++..+..++..          .+.+++|+..++++++++|+++.+|..+|.+|...
T Consensus         9 r~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~   88 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSF   88 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHHc
Confidence            3444555555555541 122 33444444444432          34567899999999999999999999999999887


Q ss_pred             CC-----------hHHHHHHHHHHHhC
Q 048179          494 QK-----------WEEVAGVRKTMRKS  509 (589)
Q Consensus       494 g~-----------~~~a~~~~~~m~~~  509 (589)
                      |+           +++|.+.++++.+.
T Consensus        89 g~~~~~~~~~~~~~~~A~~~~~kal~l  115 (145)
T d1zu2a1          89 AFLTPDETEAKHNFDLATQFFQQAVDE  115 (145)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccchhhHHHHHHhHHHhhhhhhccccc
Confidence            64           68888888888763

>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=97.85  E-value=9.4e-05  Score=57.31  Aligned_cols=94  Identities=6%  Similarity=0.010  Sum_probs=54.9

Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-C---CC-----hhHHHHHH
Q 048179          383 SLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMST-E---PG-----LAVWVALL  453 (589)
Q Consensus       383 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~---p~-----~~~~~~l~  453 (589)
                      .+...+...|++++|+..|+++.+.  .+.+...+..+..+|.+.|++++|++.++++.. .   +.     ..+|..+.
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            3445555556666666666665542  122355555566666666666666666655421 1   11     12455566


Q ss_pred             HHHHhcCCchHHHHHHHHHhccCCC
Q 048179          454 SGCHNHKKFSIGEKVAKKVLKLNPD  478 (589)
Q Consensus       454 ~~~~~~~~~~~a~~~~~~~~~~~p~  478 (589)
                      ..+...++++.|++.+++.+...|+
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~~~~~  111 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLAEHRT  111 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCC
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCCC
Confidence            6677777888888888888777663

>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=97.81  E-value=4.9e-05  Score=55.33  Aligned_cols=63  Identities=8%  Similarity=-0.005  Sum_probs=54.6

Q ss_pred             hHHHHHHHHHHhcCCchHHHHHHHHHhccCCCC-------chhHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048179          447 AVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD-------LGIHALVSNFFAMEQKWEEVAGVRKTMRKS  509 (589)
Q Consensus       447 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  509 (589)
                      ..+-.++..+.+.|+++.|+..+++++++.|.+       +.++..|+.+|.+.|++++|.+.++++.+.
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            345578888999999999999999999876543       467899999999999999999999999873

>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=97.67  E-value=1.8e-05  Score=77.87  Aligned_cols=107  Identities=8%  Similarity=-0.002  Sum_probs=38.9

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHH
Q 048179          344 ISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVD  422 (589)
Q Consensus       344 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~  422 (589)
                      ..|..+...+.+.|+.++|...+++.....  | ..++..+...+...|++++|...|+++.+.   .|+ ...|+.|..
T Consensus       121 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l---~P~~~~~~~~Lg~  194 (497)
T d1ya0a1         121 VKSSQLGIISNKQTHTSAIVKPQSSSCSYI--C-QHCLVHLGDIARYRNQTSQAESYYRHAAQL---VPSNGQPYNQLAI  194 (497)
T ss_dssp             ----------------------CCHHHHHH--H-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTBSHHHHHHHH
T ss_pred             HHHHHhHHHHHhCCCHHHHHHHHHHHhCCC--H-HHHHHHHHHHHHHcccHHHHHHHHHHHHHH---CCCchHHHHHHHH
Confidence            344444444555555555555444433211  1 124444455555555555555555555532   222 445555555


Q ss_pred             HHHHcCCHHHHHHHHHhc-C-CCCChhHHHHHHHHH
Q 048179          423 LLARAGEVEEALKIVDSM-S-TEPGLAVWVALLSGC  456 (589)
Q Consensus       423 ~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~  456 (589)
                      ++...|+..+|+..|.+. . ..|-..++.+|...+
T Consensus       195 ~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~  230 (497)
T d1ya0a1         195 LASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKAL  230 (497)
T ss_dssp             HHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            555555555555555443 1 123444445544444

>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=97.51  E-value=0.00014  Score=64.21  Aligned_cols=126  Identities=14%  Similarity=0.086  Sum_probs=75.2

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHH
Q 048179          354 GIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPT-EKHYACMVDLLARAGEVEE  432 (589)
Q Consensus       354 ~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~  432 (589)
                      .+.|++++|+..+++.++.. +-|...+..+...++..|++++|...|+...+.   .|+ ...+..+..++...+..++
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l---~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHhccccHH
Confidence            45677788888877777763 345567777777777778888888777777653   344 3444444455544444444


Q ss_pred             HHHHHHhc--CCCCC-hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhH
Q 048179          433 ALKIVDSM--STEPG-LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIH  483 (589)
Q Consensus       433 A~~~~~~~--~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  483 (589)
                      +..-....  ..+|+ ...+......+...|+.++|.+.++++.+..|..+..+
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~  136 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLA  136 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEE
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCccc
Confidence            33322221  11222 22233334456677777778777777777777665543

>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=97.42  E-value=0.00048  Score=55.32  Aligned_cols=92  Identities=14%  Similarity=0.041  Sum_probs=57.7

Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCC----------hhhHHHHHHHHHHcCCHHHHHHHHHhcC--------CCCC----
Q 048179          388 LSHSGLVEEGRYWFDLMVSKYKIQPT----------EKHYACMVDLLARAGEVEEALKIVDSMS--------TEPG----  445 (589)
Q Consensus       388 ~~~~g~~~~a~~~~~~~~~~~~~~p~----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~p~----  445 (589)
                      ....|++++|+..|++..+...-.|+          ...|+.+..+|...|++++|++.+++..        ..++    
T Consensus        19 ~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~   98 (156)
T d2hr2a1          19 QLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKL   98 (156)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccch
Confidence            34445555555555555443221121          2345566677777777777776665541        1121    


Q ss_pred             -hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCC
Q 048179          446 -LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDD  479 (589)
Q Consensus       446 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  479 (589)
                       ..++..+..+|...|++++|+..|++++++.|+.
T Consensus        99 ~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~  133 (156)
T d2hr2a1          99 WISAVYSRALALDGLGRGAEAMPEFKKVVEMIEER  133 (156)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHC
T ss_pred             hHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHh
Confidence             2256778889999999999999999999886543

>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=97.35  E-value=0.0017  Score=53.19  Aligned_cols=72  Identities=8%  Similarity=0.045  Sum_probs=55.3

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH----hcCCCCChhh
Q 048179          344 ISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVS----KYKIQPTEKH  416 (589)
Q Consensus       344 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~----~~~~~p~~~~  416 (589)
                      ..+..+...+...|++++|+..++++++.. +-+...+..++.++...|+.++|++.|+.+.+    ..|+.|...+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            456777788888888888888888888764 44677888888888888888888888887643    2477777654

>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=97.28  E-value=0.00017  Score=63.65  Aligned_cols=121  Identities=12%  Similarity=0.039  Sum_probs=87.3

Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC-CCCC-hhHHHHHHHHHHhcCCchHH
Q 048179          388 LSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMS-TEPG-LAVWVALLSGCHNHKKFSIG  465 (589)
Q Consensus       388 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~-~~~~~~l~~~~~~~~~~~~a  465 (589)
                      ..+.|++++|+..+++..+  .-+.+...+..++.+|+..|++++|.+.++... ..|+ ...+..+...+...+..+++
T Consensus         6 aL~~G~l~eAl~~l~~al~--~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHH--TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHH
Confidence            4567999999999999997  445568999999999999999999999999973 3565 44555555555444433333


Q ss_pred             HHHHHHHhc-cCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048179          466 EKVAKKVLK-LNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSG  510 (589)
Q Consensus       466 ~~~~~~~~~-~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  510 (589)
                      .....+... .+|++...+...+.++...|++++|.+.++++.+..
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            222222111 235555666777888999999999999999987644

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.40  E-value=0.013  Score=43.47  Aligned_cols=63  Identities=8%  Similarity=-0.030  Sum_probs=35.4

Q ss_pred             hhHHHHHHHHHHhc---CCchHHHHHHHHHhccCCCCc-hhHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048179          446 LAVWVALLSGCHNH---KKFSIGEKVAKKVLKLNPDDL-GIHALVSNFFAMEQKWEEVAGVRKTMRK  508 (589)
Q Consensus       446 ~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~a~~~~~~m~~  508 (589)
                      ..+.-....++.+.   .+.++|+.+++++++.+|.+. ..+..|+.+|.+.|++++|.+.++.+.+
T Consensus        35 ~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          35 IQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            33433444444333   344566666666666665443 4556666666666666666666666654

>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=96.17  E-value=0.032  Score=42.59  Aligned_cols=82  Identities=10%  Similarity=-0.061  Sum_probs=51.5

Q ss_pred             CCHHHHHHHHHhcCCCCChhHHHHHHHHHHh----cCCchHHHHHHHHHhccCCCCchhHHHHHHHHHh----CCChHHH
Q 048179          428 GEVEEALKIVDSMSTEPGLAVWVALLSGCHN----HKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAM----EQKWEEV  499 (589)
Q Consensus       428 g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a  499 (589)
                      .+.++|.+++++....-++.....|...|..    ..|.++|.+.++++.+..  ++.+...|+.+|..    ..+.++|
T Consensus        37 ~~~~~a~~~~~~aa~~g~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~~Lg~~y~~G~gv~~d~~~A  114 (133)
T d1klxa_          37 INKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN--DQDGCLILGYKQYAGKGVVKNEKQA  114 (133)
T ss_dssp             SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             cCHHHHHHHHhhhhcccchhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC--cchHHHHHHHHHHcCCccCCCHHHH
Confidence            3445555555554333334444444444332    346778888888877653  56677788888876    4578888


Q ss_pred             HHHHHHHHhCCC
Q 048179          500 AGVRKTMRKSGM  511 (589)
Q Consensus       500 ~~~~~~m~~~g~  511 (589)
                      .+++++..+.|.
T Consensus       115 ~~~~~~Aa~~G~  126 (133)
T d1klxa_         115 VKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHHCCC
Confidence            888888877765

>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=95.76  E-value=0.81  Score=42.84  Aligned_cols=80  Identities=9%  Similarity=0.128  Sum_probs=38.0

Q ss_pred             CCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCCh-hHH-HHHHHHHHhcCCchHHHHH
Q 048179          391 SGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEEALKIVDSMSTEPGL-AVW-VALLSGCHNHKKFSIGEKV  468 (589)
Q Consensus       391 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~-~~~-~~l~~~~~~~~~~~~a~~~  468 (589)
                      .+..+.+...+......   ..+.....-.+....+.+++..+...++.|...|.. .-| -=+..+....|+.+.|...
T Consensus       265 ~~~~~~a~~~~~~~~~~---~~~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~  341 (450)
T d1qsaa1         265 NDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRGLNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEI  341 (450)
T ss_dssp             TTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCchHHHHHHHHhhccc---ccchHHHHHHHHHHHHcCChHHHHHHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHH
Confidence            34455555555544432   122233333344444556666666666666543221 112 1133445566666666666


Q ss_pred             HHHHh
Q 048179          469 AKKVL  473 (589)
Q Consensus       469 ~~~~~  473 (589)
                      +..+-
T Consensus       342 ~~~~a  346 (450)
T d1qsaa1         342 LHQLM  346 (450)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            66554

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=95.53  E-value=0.27  Score=35.78  Aligned_cols=141  Identities=14%  Similarity=0.076  Sum_probs=94.2

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHH
Q 048179          353 YGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAGEVEE  432 (589)
Q Consensus       353 ~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  432 (589)
                      +...|..++..+++.+....   .+..-|+.++--....-+-+...+.++.+-+.|.+.|-.. ...++..+.+.+.   
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~N-lk~vv~C~~~~n~---   84 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQN-LKSVVECGVINNT---   84 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSC-THHHHHHHHHTTC---
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCchhhhc-HHHHHHHHHHhcc---
Confidence            34567777777777776653   2344555555544555555666666666655444433221 1223334433332   


Q ss_pred             HHHHHHhcCCCCChhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHHHHHHhCCCc
Q 048179          433 ALKIVDSMSTEPGLAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVRKTMRKSGMK  512 (589)
Q Consensus       433 A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~  512 (589)
                                  +.......+.....+|+-+.-.++++.+++-+.-+|.....++.+|.+.|...++-+++.++=++|++
T Consensus        85 ------------~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          85 ------------LNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             ------------CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             ------------hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence                        33445556677888899888889999988877778999999999999999999999999999988876

>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=95.44  E-value=1.1  Score=41.99  Aligned_cols=350  Identities=11%  Similarity=-0.024  Sum_probs=171.2

Q ss_pred             HHHHHHhCCChHHHHHHHHhcCCCCcchHHHHHHHHHhCCCccHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCcHHH
Q 048179          117 MLNLYVKCGKMNEAMVAFEKMQRKDLVCWSSMINGLVFNGQPREAVDAYKRMKKEGIDADEVVMMGLIQACADLGDSRFG  196 (589)
Q Consensus       117 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a  196 (589)
                      .+..+.+.++++.....+..-+ .+...-.....+....|+.+.|...+..+-..|.. .                .+.+
T Consensus        78 ~l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~-~----------------p~~c  139 (450)
T d1qsaa1          78 FVNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS-Q----------------PNAC  139 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC-C----------------CTHH
T ss_pred             HHHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-C----------------chHH
Confidence            3455566677766554443211 13333344556666777777777776666444321 1                1122


Q ss_pred             HHHHHHHHHhcCCCchHHHHHHHHHHHhcCCHHHHHHHHhhcCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHhcCCCC
Q 048179          197 LSVHGYSIRRHLNLDVKVQTSLVDMYAKTGHLDLASHVFKNMSRINIVTWGALISGFAQNGLAGSTLELLMEMQSCGFEP  276 (589)
Q Consensus       197 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  276 (589)
                      ..++....+.|. .+...+-.-+......|+...|..+...+..........++....   +...+......   .  .+
T Consensus       140 ~~l~~~~~~~~~-lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~---~p~~~~~~~~~---~--~~  210 (450)
T d1qsaa1         140 DKLFSVWRASGK-QDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLAN---NPNTVLTFART---T--GA  210 (450)
T ss_dssp             HHHHHHHHHTTC-SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHH---CGGGHHHHHHH---S--CC
T ss_pred             HHHHHHHHhcCC-CCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHh---ChHhHHHHHhc---C--CC
Confidence            233333333332 233333334455556677777777777665433333333333322   12222222111   1  12


Q ss_pred             CHHHHHHHHHHHhc--cCchhhHHHHHHHHhhcCCCChhHHH----HHHHHhHhcCCHHHHHHHHHhcCC--CChhHHHH
Q 048179          277 DSVSLVSALLACAQ--IGFLKLGKSIHGYTVRRFDFNLVLGT----SVIDMYSKCGVPSCARALFDQMQS--RDLISWNV  348 (589)
Q Consensus       277 ~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~----~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~  348 (589)
                      +......+..++.+  ..+.+.+...+.........+..-..    .+.......+..+.+...+.....  .+.....-
T Consensus       211 ~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w  290 (450)
T d1qsaa1         211 TDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIER  290 (450)
T ss_dssp             CHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHHH
T ss_pred             ChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHHH
Confidence            22222222222222  13445555555555422222222221    222222334555666665554432  23333233


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcC
Q 048179          349 IIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLARAG  428 (589)
Q Consensus       349 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  428 (589)
                      .+......+++..+...+..|.... .-...-.--+..+....|+.+.|..+|..+...    ++  .|.-|...  +.|
T Consensus       291 ~~~~al~~~~~~~~~~~~~~l~~~~-~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~~----~~--fYG~LAa~--~Lg  361 (450)
T d1qsaa1         291 RVRMALGTGDRRGLNTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQQ----RG--FYPMVAAQ--RIG  361 (450)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS----CS--HHHHHHHH--HTT
T ss_pred             HHHHHHHcCChHHHHHHHHhcCccc-ccHHHHHHHHHHHHHHcCChhhHHHHHHHHhcC----CC--hHHHHHHH--HcC
Confidence            4444556678888888877764321 122333345667788888888888888887531    32  34433221  222


Q ss_pred             CHHHHHHHH-HhcCCCCChh-H---HHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHHHHHHHHhCCChHHHHHHH
Q 048179          429 EVEEALKIV-DSMSTEPGLA-V---WVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHALVSNFFAMEQKWEEVAGVR  503 (589)
Q Consensus       429 ~~~~A~~~~-~~~~~~p~~~-~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  503 (589)
                      ..-.   +- ...+..+... .   -..-+..+...|....|...+..+.+..  ++.-...++.+..+.|.++.|+...
T Consensus       362 ~~~~---~~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~~aI~a~  436 (450)
T d1qsaa1         362 EEYE---LKIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWDLSVQAT  436 (450)
T ss_dssp             CCCC---CCCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCCC---CCcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCChhHHHHHH
Confidence            1100   00 0001111110 0   1122445678899999998888877532  4556777888888999999888777


Q ss_pred             HHHH
Q 048179          504 KTMR  507 (589)
Q Consensus       504 ~~m~  507 (589)
                      .+..
T Consensus       437 ~~~~  440 (450)
T d1qsaa1         437 IAGK  440 (450)
T ss_dssp             HHTT
T ss_pred             HHHH
Confidence            6553

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.02  E-value=0.18  Score=38.09  Aligned_cols=111  Identities=10%  Similarity=-0.026  Sum_probs=72.0

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH----cCCHHHH
Q 048179          358 HGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVDLLAR----AGEVEEA  433 (589)
Q Consensus       358 ~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A  433 (589)
                      ++++|+++|++..+.|. |..  ...|.  .....+.++|.++++...+. +   ++.....|...|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g~-~~a--~~~l~--~~~~~~~~~a~~~~~~aa~~-g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE-MFG--CLSLV--SNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC-TTH--HHHHH--TCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCCC-hhh--hhhhc--cccccCHHHHHHHHhhhhcc-c---chhhhhhHHHhhhhccccchhhHHH
Confidence            56778888887777662 222  22222  23446778888888877664 3   44555566666654    4567888


Q ss_pred             HHHHHhcCCCCChhHHHHHHHHHHh----cCCchHHHHHHHHHhccCC
Q 048179          434 LKIVDSMSTEPGLAVWVALLSGCHN----HKKFSIGEKVAKKVLKLNP  477 (589)
Q Consensus       434 ~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p  477 (589)
                      .++|++....-++.....|...|..    ..|.++|.+.++++.+...
T Consensus        79 ~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          79 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            8888887544556666666666554    4578888888888877654

>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=94.67  E-value=0.23  Score=36.49  Aligned_cols=75  Identities=13%  Similarity=0.158  Sum_probs=51.6

Q ss_pred             CChhhHHHHHHHHHHcC---CHHHHHHHHHhcC-CCC-C-hhHHHHHHHHHHhcCCchHHHHHHHHHhccCCCCchhHHH
Q 048179          412 PTEKHYACMVDLLARAG---EVEEALKIVDSMS-TEP-G-LAVWVALLSGCHNHKKFSIGEKVAKKVLKLNPDDLGIHAL  485 (589)
Q Consensus       412 p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~-~~p-~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  485 (589)
                      |+..+--.+..++.+..   +.++++.++++.. ..| + ...|..|.-+|.+.|++++|.+.++++++++|++..+...
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA~~L  112 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGAL  112 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHHHHH
Confidence            34444444555555543   3456777776653 234 2 2467788888999999999999999999999998766554


Q ss_pred             H
Q 048179          486 V  486 (589)
Q Consensus       486 l  486 (589)
                      .
T Consensus       113 ~  113 (124)
T d2pqrb1         113 K  113 (124)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=91.54  E-value=1.7  Score=31.45  Aligned_cols=140  Identities=11%  Similarity=0.034  Sum_probs=86.7

Q ss_pred             HHhCCChhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHHHHhHhcCCHHHHH
Q 048179          253 FAQNGLAGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVIDMYSKCGVPSCAR  332 (589)
Q Consensus       253 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  332 (589)
                      +.-.|..++..+++.+....   .+..-|+.++--....-+-+...+.++.+-+.+..            .+|+++....
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDl------------s~C~Nlk~vv   76 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL------------DKCQNLKSVV   76 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG------------GGCSCTHHHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCc------------hhhhcHHHHH
Confidence            34567777777777776653   23333444444333333434433333333322221            3455555555


Q ss_pred             HHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCC
Q 048179          333 ALFDQMQSRDLISWNVIIASYGIHGHGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKI  410 (589)
Q Consensus       333 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  410 (589)
                      ..+-.+- .+....+..++.+..+|+-++-.++++.+.+.+ +|++.....+..||-+.|...++.+++.++.+. |+
T Consensus        77 ~C~~~~n-~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~-G~  151 (161)
T d1wy6a1          77 ECGVINN-TLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKK-GE  151 (161)
T ss_dssp             HHHHHTT-CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TC
T ss_pred             HHHHHhc-chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH-hH
Confidence            5554443 233455666777888888888888888876654 777888888889999999999999998888776 55

>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=87.40  E-value=1.5  Score=30.01  Aligned_cols=63  Identities=11%  Similarity=0.123  Sum_probs=49.0

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048179          358 HGEEALSLFLQMIETMVKPDHSTFASLLSALSHSGLVEEGRYWFDLMVSKYKIQPTEKHYACMVD  422 (589)
Q Consensus       358 ~~~~A~~~~~~m~~~~~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  422 (589)
                      +.-++.+-+..+....+.|++....+.+.||-+.+++..|.++|+..+.+.+  ++...|..++.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~--~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CcHHHHHHHHH
Confidence            3445666667777777899999999999999999999999999999887543  44556766553

>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=82.58  E-value=3.8  Score=28.06  Aligned_cols=61  Identities=15%  Similarity=0.080  Sum_probs=43.3

Q ss_pred             hhHHHHHHHHHHhcCCCCCHHHHHHHHHHHhccCchhhHHHHHHHHhhcCCCChhHHHHHH
Q 048179          259 AGSTLELLMEMQSCGFEPDSVSLVSALLACAQIGFLKLGKSIHGYTVRRFDFNLVLGTSVI  319 (589)
Q Consensus       259 ~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  319 (589)
                      .-++.+-++.+....+.|++....+.+.+|.+.+++..|..+++.+.....++..+|..++
T Consensus        22 ~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~~~k~~y~yil   82 (105)
T d1v54e_          22 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVI   82 (105)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            3455666677777778888888888888888888888888888888733333344554443