Citrus Sinensis ID: 043999

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570----
Protein Sequence
MAQSKQGEGQALTLNLISRMAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRAKNNIE
Secondary Structure (PSIPRED)
cccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHHccccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHccccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHccccccHHHcccHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHcccc
Coil and Loop (DISEMBL)
maqskqgegqALTLNLISRMaklpplkafslfnwasrqglqhtpqSISIILRLLLSKMSSHSHAAAQTLILKIISgritsssftprsllchltqlfpsssnpvtksrLYESIIDAHLKSRLSDQALFYFHQMldsgvrprsntfNSLLIFVIKScsfdkgwlffsenrckveldVYSFGILIKGCCEAGDLNKAFEVLNQLeemgfspnVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLfknglqkdgFEFYEKmqlngvspslytYNCLIHeycnegkvsegfKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKmagispnvitYNKLIDGFCDAGETDKAFRLFNQlksngqspsvVTYNVLIRAFSKAGNSKMASDLVREMeergitpsevTYTILIDSFVRSDDMEKAFEMYSLMQksgfspdvyTYGVLIHGLCMKGNMKEASKLFNSMWetklepndvVYNMMIFGYCKEGNSYRALRLLGemnekglvpniasySSTIGvlcqdgkwpEAEVLLNQMLklglkpsvSLYNILYRAKNNIE
Flexible Loop (DISEMBL)
maqskqgegqALTLNLISRMAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTqlfpsssnpvtKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQlksngqspsvVTYNVLIRAFSKAGNSKMASDLVREMeergitpsevtytILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKlglkpsvslyNILYRAKNNIE
Low Complexity Region (SEG)
MAQSKQGEGQALTLNLISRMAKLPPLKAFSLFNWASRQGLQHTPQsisiilrlllskmssHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRAKNNIE
Disordered region (IsUnstruct)
***********LTLNLISRMAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPS****VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSK******************ITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRA*****
Disordered Region (DISOPRED)
*************LNLISRMAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRAKNNIE
Disordered Region (DISEMBL)
*********QALTLNLISRMAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRAKNNIE
Disordered Region (DISPRO)
*****QGEGQALTLNLISRMAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRAKNNIE
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAQSKQGEGQALTLNLISRMAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRAKNNIE
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	574	2.2.26 [Sep-21-2011]
Q9T0D6	566	Pentatricopeptide repeat-	yes	no	0.961	0.975	0.572	0.0
Q9FIX3	747	Pentatricopeptide repeat-	no	no	0.813	0.625	0.337	9e-73
Q9SXD1	630	Pentatricopeptide repeat-	no	no	0.785	0.715	0.307	4e-70
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.662	0.613	0.340	6e-68
P0C7Q7	602	Putative pentatricopeptid	no	no	0.684	0.652	0.344	3e-67
Q9LQ14	629	Pentatricopeptide repeat-	no	no	0.775	0.707	0.310	6e-67
Q9LQ16	632	Pentatricopeptide repeat-	no	no	0.782	0.710	0.330	8e-67
Q3ECK2	548	Pentatricopeptide repeat-	no	no	0.790	0.828	0.313	4e-65
Q9LPX2	644	Pentatricopeptide repeat-	no	no	0.792	0.706	0.305	4e-65
Q0WKV3	637	Pentatricopeptide repeat-	no	no	0.677	0.610	0.338	5e-65

>sp|Q9T0D6|PP306_ARATH Pentatricopeptide repeat-containing protein At4g11690 OS=Arabidopsis thaliana GN=At4g11690 PE=2 SV=1

 Score =  636 bits (1641), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 321/561 (57%), Positives = 425/561 (75%), Gaps = 9/561 (1%)

Query: 13  TLNLISRMAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLL-SKMSSHSHAAAQTLIL 71
           TL L++ + K PPLKAFSL N  +    QHT +SISI+LRLLL   + SH    AQ+L+L
Sbjct: 8   TLVLLANLIKFPPLKAFSLLNSPNFHEFQHTHESISILLRLLLSGNLFSH----AQSLLL 63

Query: 72  KIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQ 131
           ++ISG+I S  FT  SLL +LT+    S    TK RLYE II+++++S+  + ++ YF++
Sbjct: 64  QVISGKIHSQFFTSSSLLHYLTE----SETSKTKFRLYEVIINSYVQSQSLNLSISYFNE 119

Query: 132 MLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDL 191
           M+D+G  P SN FN LL FV+ S SF++ W FF+EN+ KV LDVYSFGILIKGCCEAG++
Sbjct: 120 MVDNGFVPGSNCFNYLLTFVVGSSSFNQWWSFFNENKSKVVLDVYSFGILIKGCCEAGEI 179

Query: 192 NKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVL 251
            K+F++L +L E GFSPNVVIYT+LIDGCCK G+IE+AK LF ++G+LGLVA + TYTVL
Sbjct: 180 EKSFDLLIELTEFGFSPNVVIYTTLIDGCCKKGEIEKAKDLFFEMGKLGLVANERTYTVL 239

Query: 252 ICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREV 311
           I GLFKNG++K GFE YEKMQ +GV P+LYTYNC++++ C +G+  + F++FDEMR R V
Sbjct: 240 INGLFKNGVKKQGFEMYEKMQEDGVFPNLYTYNCVMNQLCKDGRTKDAFQVFDEMRERGV 299

Query: 312 ACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFR 371
           +CN+VTYNTLI GLC+EM++ EA +++DQMK  GI+PN+ITYN LIDGFC  G+  KA  
Sbjct: 300 SCNIVTYNTLIGGLCREMKLNEANKVVDQMKSDGINPNLITYNTLIDGFCGVGKLGKALS 359

Query: 372 LFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFV 431
           L   LKS G SPS+VTYN+L+  F + G++  A+ +V+EMEERGI PS+VTYTILID+F 
Sbjct: 360 LCRDLKSRGLSPSLVTYNILVSGFCRKGDTSGAAKMVKEMEERGIKPSKVTYTILIDTFA 419

Query: 432 RSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDV 491
           RSD+MEKA ++   M++ G  PDV+TY VLIHG C+KG M EAS+LF SM E   EPN+V
Sbjct: 420 RSDNMEKAIQLRLSMEELGLVPDVHTYSVLIHGFCIKGQMNEASRLFKSMVEKNCEPNEV 479

Query: 492 VYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQM 551
           +YN MI GYCKEG+SYRAL+LL EM EK L PN+ASY   I VLC++ K  EAE L+ +M
Sbjct: 480 IYNTMILGYCKEGSSYRALKLLKEMEEKELAPNVASYRYMIEVLCKERKSKEAERLVEKM 539

Query: 552 LKLGLKPSVSLYNILYRAKNN 572
           +  G+ PS S+ +++ RAKN+
Sbjct: 540 IDSGIDPSTSILSLISRAKND 560

Arabidopsis thaliana (taxid: 3702)

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

 Score =  275 bits (702), Expect = 9e-73,   Method: Compositional matrix adjust.
 Identities = 161/477 (33%), Positives = 254/477 (53%), Gaps = 10/477 (2%)

Query: 104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLF 163
           + S +++ ++ ++ +  L D+AL   H     G  P   ++N++L   I+S    K  + 
Sbjct: 132 STSSVFDLVVKSYSRLSLIDKALSIVHLAQAHGFMPGVLSYNAVLDATIRS----KRNIS 187

Query: 164 FSEN------RCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLI 217
           F+EN        +V  +V+++ ILI+G C AG+++ A  + +++E  G  PNVV Y +LI
Sbjct: 188 FAENVFKEMLESQVSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTYNTLI 247

Query: 218 DGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVS 277
           DG CK   I+    L R +   GL     +Y V+I GL + G  K+      +M   G S
Sbjct: 248 DGYCKLRKIDDGFKLLRSMALKGLEPNLISYNVVINGLCREGRMKEVSFVLTEMNRRGYS 307

Query: 278 PSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERL 337
               TYN LI  YC EG   +   +  EM    +  +V+TY +LI  +CK   +  A   
Sbjct: 308 LDEVTYNTLIKGYCKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEF 367

Query: 338 LDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSK 397
           LDQM++ G+ PN  TY  L+DGF   G  ++A+R+  ++  NG SPSVVTYN LI     
Sbjct: 368 LDQMRVRGLCPNERTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCV 427

Query: 398 AGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYT 457
            G  + A  ++ +M+E+G++P  V+Y+ ++  F RS D+++A  +   M + G  PD  T
Sbjct: 428 TGKMEDAIAVLEDMKEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIKPDTIT 487

Query: 458 YGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMN 517
           Y  LI G C +   KEA  L+  M    L P++  Y  +I  YC EG+  +AL+L  EM 
Sbjct: 488 YSSLIQGFCEQRRTKEACDLYEEMLRVGLPPDEFTYTALINAYCMEGDLEKALQLHNEMV 547

Query: 518 EKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRAKNNIE 574
           EKG++P++ +YS  I  L +  +  EA+ LL ++      PS   Y+ L    +NIE
Sbjct: 548 EKGVLPDVVTYSVLINGLNKQSRTREAKRLLLKLFYEESVPSDVTYHTLIENCSNIE 604

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SXD1|PPR91_ARATH Pentatricopeptide repeat-containing protein At1g62670, mitochondrial OS=Arabidopsis thaliana GN=At1g62670 PE=2 SV=2

 Score =  266 bits (680), Expect = 4e-70,   Method: Compositional matrix adjust.
 Identities = 139/452 (30%), Positives = 244/452 (53%), Gaps = 1/452 (0%)

Query: 111 SIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCK 170
           S+++ +  S+   +A+    QM  +G +P + TFN+L+  +       +          K
Sbjct: 156 SLLNGYCHSKRISEAVALVDQMFVTGYQPNTVTFNTLIHGLFLHNKASEAMALIDRMVAK 215

Query: 171 -VELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERA 229
             + D+ ++G+++ G C+ GD + AF +LN++E+    P V+IY ++IDG CK   ++ A
Sbjct: 216 GCQPDLVTYGVVVNGLCKRGDTDLAFNLLNKMEQGKLEPGVLIYNTIIDGLCKYKHMDDA 275

Query: 230 KMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHE 289
             LF+++   G+     TY+ LI  L   G   D       M    ++P ++T++ LI  
Sbjct: 276 LNLFKEMETKGIRPNVVTYSSLISCLCNYGRWSDASRLLSDMIERKINPDVFTFSALIDA 335

Query: 290 YCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPN 349
           +  EGK+ E  KL+DEM  R +  ++VTY++LI G C   R+ EA+++ + M      P+
Sbjct: 336 FVKEGKLVEAEKLYDEMVKRSIDPSIVTYSSLINGFCMHDRLDEAKQMFEFMVSKHCFPD 395

Query: 350 VITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVR 409
           V+TYN LI GFC     ++   +F ++   G   + VTYN+LI+   +AG+  MA ++ +
Sbjct: 396 VVTYNTLIKGFCKYKRVEEGMEVFREMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFK 455

Query: 410 EMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKG 469
           EM   G+ P+ +TY  L+D   ++  +EKA  ++  +Q+S   P +YTY ++I G+C  G
Sbjct: 456 EMVSDGVPPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAG 515

Query: 470 NMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYS 529
            +++   LF ++    ++P+ V YN MI G+C++G+   A  L  EM E G +PN   Y+
Sbjct: 516 KVEDGWDLFCNLSLKGVKPDVVAYNTMISGFCRKGSKEEADALFKEMKEDGTLPNSGCYN 575

Query: 530 STIGVLCQDGKWPEAEVLLNQMLKLGLKPSVS 561
           + I    +DG    +  L+ +M   G     S
Sbjct: 576 TLIRARLRDGDREASAELIKEMRSCGFAGDAS 607

Arabidopsis thaliana (taxid: 3702)

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

 Score =  258 bits (660), Expect = 6e-68,   Method: Compositional matrix adjust.
 Identities = 135/396 (34%), Positives = 225/396 (56%)

Query: 174 DVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLF 233
           D+ +   LI G C  G +++A  +++++ E GF P+ V Y  +++  CK+G+   A  LF
Sbjct: 174 DLVTVSTLINGLCLKGRVSEALVLIDRMVEYGFQPDEVTYGPVLNRLCKSGNSALALDLF 233

Query: 234 RKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNE 293
           RK+ E  + A+   Y+++I  L K+G   D    + +M++ G+   + TY+ LI   CN+
Sbjct: 234 RKMEERNIKASVVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCND 293

Query: 294 GKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITY 353
           GK  +G K+  EM  R +  +VVT++ LI    KE ++ EA+ L ++M   GI+P+ ITY
Sbjct: 294 GKWDDGAKMLREMIGRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITY 353

Query: 354 NKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEE 413
           N LIDGFC      +A ++F+ + S G  P +VTY++LI ++ KA        L RE+  
Sbjct: 354 NSLIDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISS 413

Query: 414 RGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKE 473
           +G+ P+ +TY  L+  F +S  +  A E++  M   G  P V TYG+L+ GLC  G + +
Sbjct: 414 KGLIPNTITYNTLVLGFCQSGKLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNK 473

Query: 474 ASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIG 533
           A ++F  M ++++     +YN++I G C       A  L   +++KG+ P++ +Y+  IG
Sbjct: 474 ALEIFEKMQKSRMTLGIGIYNIIIHGMCNASKVDDAWSLFCSLSDKGVKPDVVTYNVMIG 533

Query: 534 VLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRA 569
            LC+ G   EA++L  +M + G  P    YNIL RA
Sbjct: 534 GLCKKGSLSEADMLFRKMKEDGCTPDDFTYNILIRA 569

Arabidopsis thaliana (taxid: 3702)

>sp|P0C7Q7|PPR38_ARATH Putative pentatricopeptide repeat-containing protein At1g12700, mitochondrial OS=Arabidopsis thaliana GN=At1g12700 PE=3 SV=1

 Score =  256 bits (654), Expect = 3e-67,   Method: Compositional matrix adjust.
 Identities = 137/398 (34%), Positives = 222/398 (55%)

Query: 172 ELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKM 231
           E D  +F  LIKG    G +++A  +++++ E G  P+VV Y S+++G C++GD   A  
Sbjct: 155 EPDTTTFNTLIKGLFLEGKVSEAVVLVDRMVENGCQPDVVTYNSIVNGICRSGDTSLALD 214

Query: 232 LFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYC 291
           L RK+ E  + A   TY+ +I  L ++G        +++M+  G+  S+ TYN L+   C
Sbjct: 215 LLRKMEERNVKADVFTYSTIIDSLCRDGCIDAAISLFKEMETKGIKSSVVTYNSLVRGLC 274

Query: 292 NEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVI 351
             GK ++G  L  +M  RE+  NV+T+N L+    KE ++QEA  L  +M   GISPN+I
Sbjct: 275 KAGKWNDGALLLKDMVSREIVPNVITFNVLLDVFVKEGKLQEANELYKEMITRGISPNII 334

Query: 352 TYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREM 411
           TYN L+DG+C      +A  + + +  N  SP +VT+  LI+ +           + R +
Sbjct: 335 TYNTLMDGYCMQNRLSEANNMLDLMVRNKCSPDIVTFTSLIKGYCMVKRVDDGMKVFRNI 394

Query: 412 EERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNM 471
            +RG+  + VTY+IL+  F +S  ++ A E++  M   G  PDV TYG+L+ GLC  G +
Sbjct: 395 SKRGLVANAVTYSILVQGFCQSGKIKLAEELFQEMVSHGVLPDVMTYGILLDGLCDNGKL 454

Query: 472 KEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSST 531
           ++A ++F  + ++K++   V+Y  +I G CK G    A  L   +  KG+ PN+ +Y+  
Sbjct: 455 EKALEIFEDLQKSKMDLGIVMYTTIIEGMCKGGKVEDAWNLFCSLPCKGVKPNVMTYTVM 514

Query: 532 IGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRA 569
           I  LC+ G   EA +LL +M + G  P+   YN L RA
Sbjct: 515 ISGLCKKGSLSEANILLRKMEEDGNAPNDCTYNTLIRA 552

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LQ14|PPR96_ARATH Pentatricopeptide repeat-containing protein At1g62930, chloroplastic OS=Arabidopsis thaliana GN=At1g62930 PE=2 SV=2

 Score =  255 bits (652), Expect = 6e-67,   Method: Compositional matrix adjust.
 Identities = 139/448 (31%), Positives = 237/448 (52%), Gaps = 3/448 (0%)

Query: 111 SIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLL--IFVIKSCSFDKGWLFFSENR 168
           S+++ +   +   +A+    QM     +P + TFN+L+  +F+    S     +     R
Sbjct: 155 SLLNGYCHGKRISEAVALVDQMFVMEYQPNTVTFNTLIHGLFLHNKASEAVALIDRMVAR 214

Query: 169 CKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIER 228
              + D++++G ++ G C+ GD++ A  +L ++E+     +VVIYT++ID  C   ++  
Sbjct: 215 -GCQPDLFTYGTVVNGLCKRGDIDLALSLLKKMEKGKIEADVVIYTTIIDALCNYKNVND 273

Query: 229 AKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIH 288
           A  LF ++   G+     TY  LI  L   G   D       M    ++P++ T++ LI 
Sbjct: 274 ALNLFTEMDNKGIRPNVVTYNSLIRCLCNYGRWSDASRLLSDMIERKINPNVVTFSALID 333

Query: 289 EYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISP 348
            +  EGK+ E  KL+DEM  R +  ++ TY++LI G C   R+ EA+ + + M      P
Sbjct: 334 AFVKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFP 393

Query: 349 NVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLV 408
           NV+TYN LI GFC A   ++   LF ++   G   + VTYN LI+   +AG+  MA  + 
Sbjct: 394 NVVTYNTLIKGFCKAKRVEEGMELFREMSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIF 453

Query: 409 REMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMK 468
           ++M   G+ P  +TY+IL+D   +   +EKA  ++  +QKS   PD+YTY ++I G+C  
Sbjct: 454 KKMVSDGVPPDIITYSILLDGLCKYGKLEKALVVFEYLQKSKMEPDIYTYNIMIEGMCKA 513

Query: 469 GNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASY 528
           G +++   LF S+    ++PN ++Y  MI G+C++G    A  L  EM E G +PN  +Y
Sbjct: 514 GKVEDGWDLFCSLSLKGVKPNVIIYTTMISGFCRKGLKEEADALFREMKEDGTLPNSGTY 573

Query: 529 SSTIGVLCQDGKWPEAEVLLNQMLKLGL 556
           ++ I    +DG    +  L+ +M   G 
Sbjct: 574 NTLIRARLRDGDKAASAELIKEMRSCGF 601

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LQ16|PPR94_ARATH Pentatricopeptide repeat-containing protein At1g62910 OS=Arabidopsis thaliana GN=At1g62910 PE=2 SV=1

 Score =  255 bits (651), Expect = 8e-67,   Method: Compositional matrix adjust.
 Identities = 151/457 (33%), Positives = 242/457 (52%), Gaps = 8/457 (1%)

Query: 118 KSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVEL---- 173
           +S+LS  AL    +M+  G  P   T +SLL     S           +    VE+    
Sbjct: 131 RSQLS-LALAVLAKMMKLGYEPDIVTLSSLLNGYCHSKRISDAVALVDQ---MVEMGYKP 186

Query: 174 DVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLF 233
           D ++F  LI G       ++A  +++Q+ + G  P++V Y ++++G CK GDI+ A  L 
Sbjct: 187 DTFTFTTLIHGLFLHNKASEAVALVDQMVQRGCQPDLVTYGTVVNGLCKRGDIDLALSLL 246

Query: 234 RKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNE 293
           +K+ +  + A    Y  +I GL K     D    + +M   G+ P ++TY+ LI   CN 
Sbjct: 247 KKMEKGKIEADVVIYNTIIDGLCKYKHMDDALNLFTEMDNKGIRPDVFTYSSLISCLCNY 306

Query: 294 GKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITY 353
           G+ S+  +L  +M  R++  NVVT++ LI    KE ++ EAE+L D+M    I P++ TY
Sbjct: 307 GRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSIDPDIFTY 366

Query: 354 NKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEE 413
           + LI+GFC     D+A  +F  + S    P+VVTY+ LI+ F KA   +   +L REM +
Sbjct: 367 SSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYSTLIKGFCKAKRVEEGMELFREMSQ 426

Query: 414 RGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKE 473
           RG+  + VTYT LI  F ++ D + A  ++  M   G  P++ TY +L+ GLC  G + +
Sbjct: 427 RGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSVGVHPNILTYNILLDGLCKNGKLAK 486

Query: 474 ASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIG 533
           A  +F  +  + +EP+   YN+MI G CK G       L   ++ KG+ PN+ +Y++ I 
Sbjct: 487 AMVVFEYLQRSTMEPDIYTYNIMIEGMCKAGKVEDGWELFCNLSLKGVSPNVIAYNTMIS 546

Query: 534 VLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRAK 570
             C+ G   EA+ LL +M + G  P+   YN L RA+
Sbjct: 547 GFCRKGSKEEADSLLKKMKEDGPLPNSGTYNTLIRAR 583

Arabidopsis thaliana (taxid: 3702)

>sp|Q3ECK2|PPR92_ARATH Pentatricopeptide repeat-containing protein At1g62680, mitochondrial OS=Arabidopsis thaliana GN=At1g62680 PE=2 SV=2

 Score =  249 bits (636), Expect = 4e-65,   Method: Compositional matrix adjust.
 Identities = 145/463 (31%), Positives = 247/463 (53%), Gaps = 9/463 (1%)

Query: 99  SSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFD 158
           +S+ V+   L E +    L+    + A+  F  M+ S   P    FN LL  ++K   +D
Sbjct: 43  ASSSVSGGDLRERLSKTRLRDIKLNDAIDLFSDMVKSRPFPSIVDFNRLLSAIVKLKKYD 102

Query: 159 KGWLFFSENRCKVEL-----DVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIY 213
              +  S  + K+E+     D+Y+F I+I   C    ++ A  +L ++ ++G+ P+ V  
Sbjct: 103 ---VVISLGK-KMEVLGIRNDLYTFNIVINCFCCCFQVSLALSILGKMLKLGYEPDRVTI 158

Query: 214 TSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQL 273
            SL++G C+   +  A  L  K+ E+G       Y  +I  L K     D F+F+++++ 
Sbjct: 159 GSLVNGFCRRNRVSDAVSLVDKMVEIGYKPDIVAYNAIIDSLCKTKRVNDAFDFFKEIER 218

Query: 274 NGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQE 333
            G+ P++ TY  L++  CN  + S+  +L  +M  +++  NV+TY+ L+    K  +V E
Sbjct: 219 KGIRPNVVTYTALVNGLCNSSRWSDAARLLSDMIKKKITPNVITYSALLDAFVKNGKVLE 278

Query: 334 AERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIR 393
           A+ L ++M    I P+++TY+ LI+G C     D+A ++F+ + S G    VV+YN LI 
Sbjct: 279 AKELFEEMVRMSIDPDIVTYSSLINGLCLHDRIDEANQMFDLMVSKGCLADVVSYNTLIN 338

Query: 394 AFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSP 453
            F KA   +    L REM +RG+  + VTY  LI  F ++ D++KA E +S M   G SP
Sbjct: 339 GFCKAKRVEDGMKLFREMSQRGLVSNTVTYNTLIQGFFQAGDVDKAQEFFSQMDFFGISP 398

Query: 454 DVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLL 513
           D++TY +L+ GLC  G +++A  +F  M + +++ + V Y  +I G CK G    A  L 
Sbjct: 399 DIWTYNILLGGLCDNGELEKALVIFEDMQKREMDLDIVTYTTVIRGMCKTGKVEEAWSLF 458

Query: 514 GEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGL 556
             ++ KGL P+I +Y++ +  LC  G   E E L  +M + GL
Sbjct: 459 CSLSLKGLKPDIVTYTTMMSGLCTKGLLHEVEALYTKMKQEGL 501

Arabidopsis thaliana (taxid: 3702)

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

 Score =  249 bits (636), Expect = 4e-65,   Method: Compositional matrix adjust.
 Identities = 141/462 (30%), Positives = 242/462 (52%), Gaps = 7/462 (1%)

Query: 112 IIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKV 171
           +I+   + R    A     +++  G  P +  FN+LL  +   C   +           V
Sbjct: 129 MINCFCRCRKLSYAFSTMGKIMKLGYEPDTVIFNTLLNGLCLECRVSEALELVDR---MV 185

Query: 172 EL----DVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIE 227
           E+     + +   L+ G C  G ++ A  +++++ E GF PN V Y  +++  CK+G   
Sbjct: 186 EMGHKPTLITLNTLVNGLCLNGKVSDAVVLIDRMVETGFQPNEVTYGPVLNVMCKSGQTA 245

Query: 228 RAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLI 287
            A  L RK+ E  +      Y+++I GL K+G   + F  + +M++ G    + TYN LI
Sbjct: 246 LAMELLRKMEERNIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLI 305

Query: 288 HEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGIS 347
             +CN G+  +G KL  +M  R+++ NVVT++ LI    KE +++EA++LL +M   GI+
Sbjct: 306 GGFCNAGRWDDGAKLLRDMIKRKISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQRGIA 365

Query: 348 PNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDL 407
           PN ITYN LIDGFC     ++A ++ + + S G  P ++T+N+LI  + KA       +L
Sbjct: 366 PNTITYNSLIDGFCKENRLEEAIQMVDLMISKGCDPDIMTFNILINGYCKANRIDDGLEL 425

Query: 408 VREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCM 467
            REM  RG+  + VTY  L+  F +S  +E A +++  M      PD+ +Y +L+ GLC 
Sbjct: 426 FREMSLRGVIANTVTYNTLVQGFCQSGKLEVAKKLFQEMVSRRVRPDIVSYKILLDGLCD 485

Query: 468 KGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIAS 527
            G +++A ++F  + ++K+E +  +Y ++I G C       A  L   +  KG+  +  +
Sbjct: 486 NGELEKALEIFGKIEKSKMELDIGIYMIIIHGMCNASKVDDAWDLFCSLPLKGVKLDARA 545

Query: 528 YSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRA 569
           Y+  I  LC+     +A++L  +M + G  P    YNIL RA
Sbjct: 546 YNIMISELCRKDSLSKADILFRKMTEEGHAPDELTYNILIRA 587

Arabidopsis thaliana (taxid: 3702)

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

 Score =  249 bits (635), Expect = 5e-65,   Method: Compositional matrix adjust.
 Identities = 134/396 (33%), Positives = 217/396 (54%)

Query: 174 DVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLF 233
           D+ +   L+ G C +G   +A  +++++ E G  PN V Y  +++  CK+G    A  L 
Sbjct: 192 DLITINTLVNGLCLSGKEAEAMLLIDKMVEYGCQPNAVTYGPVLNVMCKSGQTALAMELL 251

Query: 234 RKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNE 293
           RK+ E  +      Y+++I GL K+G   + F  + +M++ G++ ++ TYN LI  +CN 
Sbjct: 252 RKMEERNIKLDAVKYSIIIDGLCKHGSLDNAFNLFNEMEMKGITTNIITYNILIGGFCNA 311

Query: 294 GKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITY 353
           G+  +G KL  +M  R++  NVVT++ LI    KE +++EAE L  +M   GI+P+ ITY
Sbjct: 312 GRWDDGAKLLRDMIKRKINPNVVTFSVLIDSFVKEGKLREAEELHKEMIHRGIAPDTITY 371

Query: 354 NKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEE 413
             LIDGFC     DKA ++ + + S G  P++ T+N+LI  + KA       +L R+M  
Sbjct: 372 TSLIDGFCKENHLDKANQMVDLMVSKGCDPNIRTFNILINGYCKANRIDDGLELFRKMSL 431

Query: 414 RGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKE 473
           RG+    VTY  LI  F     +  A E++  M      P++ TY +L+ GLC  G  ++
Sbjct: 432 RGVVADTVTYNTLIQGFCELGKLNVAKELFQEMVSRKVPPNIVTYKILLDGLCDNGESEK 491

Query: 474 ASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIG 533
           A ++F  + ++K+E +  +YN++I G C       A  L   +  KG+ P + +Y+  IG
Sbjct: 492 ALEIFEKIEKSKMELDIGIYNIIIHGMCNASKVDDAWDLFCSLPLKGVKPGVKTYNIMIG 551

Query: 534 VLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRA 569
            LC+ G   EAE+L  +M + G  P    YNIL RA
Sbjct: 552 GLCKKGPLSEAELLFRKMEEDGHAPDGWTYNILIRA 587

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	574
224069250	564	predicted protein [Populus trichocarpa]	0.973	0.991	0.630	0.0
297746072	563	unnamed protein product [Vitis vinifera]	0.972	0.991	0.619	0.0
147784915	550	hypothetical protein VITISV_019486 [Viti	0.949	0.990	0.628	0.0
356519743	556	PREDICTED: pentatricopeptide repeat-cont	0.965	0.996	0.563	0.0
356518050	556	PREDICTED: pentatricopeptide repeat-cont	0.968	1.0	0.565	0.0
297809467	584	pentatricopeptide repeat-containing prot	0.963	0.946	0.569	0.0
297838419	568	pentatricopeptide repeat-containing prot	0.963	0.973	0.566	0.0
297809453	575	pentatricopeptide repeat-containing prot	0.963	0.961	0.567	0.0
15234269	566	pentatricopeptide repeat-containing prot	0.961	0.975	0.572	1e-180
356564530	556	PREDICTED: LOW QUALITY PROTEIN: pentatri	0.968	1.0	0.556	1e-179

>gi|224069250|ref|XP_002302937.1| predicted protein [Populus trichocarpa] gi|222844663|gb|EEE82210.1| predicted protein [Populus trichocarpa]

 Score =  731 bits (1887), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 359/569 (63%), Positives = 450/569 (79%), Gaps = 10/569 (1%)

Query: 7   GEGQALTLNLISRMAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAA 66
           G+ QAL L  I +M K+PPL+A SLFN + +QG QHT  SIS +L+ LL     H    A
Sbjct: 2   GKQQALIL--IQKMVKIPPLQALSLFNSSIQQGFQHTHHSISFLLQHLLDH---HKLPHA 56

Query: 67  QTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNP-VTKSRLYESIIDAHLKSRLSDQA 125
           Q+LIL+I+S +I+S  FT  SLL HLTQ    + NP +T + LYESII+AHLKS+L D+A
Sbjct: 57  QSLILQILSNKISSPFFTVPSLLHHLTQ----NQNPSMTTALLYESIINAHLKSQLLDKA 112

Query: 126 LFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGC 185
           L +F++M+D G+  R N FNSLL  +++S  F+K WLFF+E + +V+ DVYSFGI+IKGC
Sbjct: 113 LIFFNEMVDKGLVFRPNIFNSLLGSLVRSNCFEKAWLFFNELKERVKFDVYSFGIMIKGC 172

Query: 186 CEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQ 245
           CE G+L+K+F++L  L++MG SPNVVIYT+LIDGCCKNGDIERA++ F K+GE+GLVA Q
Sbjct: 173 CENGNLDKSFQLLGLLQDMGLSPNVVIYTTLIDGCCKNGDIERARLFFDKMGEMGLVANQ 232

Query: 246 HTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDE 305
           +T+TVLI GLFK GL+KDGF+ +EKM++NG+ P+LYTYNCL++EYC EGK+   F LFDE
Sbjct: 233 YTFTVLINGLFKKGLKKDGFDLFEKMKINGLFPNLYTYNCLMNEYCGEGKICRAFDLFDE 292

Query: 306 MRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGE 365
           MR R V  NVVTYNTLI G+C+E RV EAE+L+DQMK A +SPN+ITYN LI GFCD G 
Sbjct: 293 MRERGVEANVVTYNTLIGGMCREERVWEAEKLVDQMKKAAVSPNLITYNTLIGGFCDVGN 352

Query: 366 TDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTI 425
            DKA  L +QLKSNG SPS+VTYN+LI  +SKAGN K  +DL REME RGI+PS+VT T+
Sbjct: 353 LDKASSLLDQLKSNGLSPSLVTYNILIEGYSKAGNWKGVADLAREMEGRGISPSKVTCTV 412

Query: 426 LIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETK 485
           LID++VR  +MEKAF++YS M+K G  PDVY YGVLIHGLCMKGNMKE+SKLF SM E  
Sbjct: 413 LIDAYVRLQEMEKAFQIYSSMEKFGLVPDVYVYGVLIHGLCMKGNMKESSKLFRSMGEMH 472

Query: 486 LEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAE 545
           +EP+DV+YN MI GYCKE NSYRALRLL EM  KGLVPN+ASYSS IGVLC+DGKW EAE
Sbjct: 473 VEPSDVIYNTMIHGYCKEDNSYRALRLLREMEAKGLVPNVASYSSIIGVLCKDGKWEEAE 532

Query: 546 VLLNQMLKLGLKPSVSLYNILYRAKNNIE 574
           VLL++M++L LKPS S+ N++ +AKN  E
Sbjct: 533 VLLDKMIELQLKPSASILNMISKAKNFTE 561

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297746072|emb|CBI16128.3| unnamed protein product [Vitis vinifera]

 Score =  709 bits (1829), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 354/571 (61%), Positives = 450/571 (78%), Gaps = 13/571 (2%)

Query: 1   MAQSKQGEGQALTLNLISRMAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLS-KMS 59
           MAQ++Q       L L+ +M K PPLKA SLF  ++ QG QHT QSIS IL LL+S  + 
Sbjct: 1   MAQTQQA------LILLPKMVKSPPLKALSLFTSSALQGFQHTHQSISFILHLLISSNLF 54

Query: 60  SHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKS 119
           SHS    Q+L+LK+ISG+I+SSSFTP SL   LTQ  P   +  T   ++E+II+AH++S
Sbjct: 55  SHS----QSLLLKLISGQISSSSFTPSSLFHELTQ--PHLDSFPTHVLIHEAIINAHVRS 108

Query: 120 RLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFG 179
           +L +QALFYF+QM+  G+ P SNTFN+LLI +IKS  F+K W  F+E +  V+LDVYSFG
Sbjct: 109 QLPEQALFYFNQMIGRGLVPGSNTFNNLLILLIKSNFFEKAWRVFNETKGNVKLDVYSFG 168

Query: 180 ILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGEL 239
           I+IKGCCE G L+K FEVL Q+EEMG SPNVV+YT+LIDGCCKNGDIER K LF K+GEL
Sbjct: 169 IMIKGCCEVGYLDKGFEVLGQMEEMGLSPNVVVYTTLIDGCCKNGDIERGKQLFYKMGEL 228

Query: 240 GLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEG 299
            +VA Q+TYTVLI G FK GL+KDG E YEKM+L G+ P++YTYN +I   CN+GK++  
Sbjct: 229 DVVANQYTYTVLINGFFKMGLKKDGIELYEKMKLTGIVPNVYTYNSMICRCCNDGKLNNA 288

Query: 300 FKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDG 359
           F+LFDEMR R VACNVVTYNTLI GLC+E RV EAERL+ +MK  G+SPN+I+YN LIDG
Sbjct: 289 FELFDEMRERGVACNVVTYNTLIGGLCQERRVLEAERLMCRMKRDGLSPNLISYNTLIDG 348

Query: 360 FCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPS 419
           +C  G  DKA  LFNQ+KS+GQSPS+ TYN+LI  FS+A NS   +D+VREME RG++PS
Sbjct: 349 YCSIGNLDKASSLFNQMKSSGQSPSLATYNILIAGFSEAKNSAGVTDMVREMEARGLSPS 408

Query: 420 EVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFN 479
           +VTYTIL+D+ VRSD++EKAF++YS M+K+G   D+Y YGVLIHGLC+ G+MKEASKLF 
Sbjct: 409 KVTYTILMDALVRSDNIEKAFQIYSSMEKAGLVADIYIYGVLIHGLCVVGDMKEASKLFK 468

Query: 480 SMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDG 539
           S+ E  L+PNDV+YN MI+GYCKEG+SYRALRLL EM E G+VPN+ASY+STI +LC+D 
Sbjct: 469 SLDEMHLKPNDVIYNTMIYGYCKEGSSYRALRLLKEMGENGMVPNVASYNSTIQILCKDE 528

Query: 540 KWPEAEVLLNQMLKLGLKPSVSLYNILYRAK 570
           KW EAEVLL  M++LGLKPS+S++N++ +A+
Sbjct: 529 KWTEAEVLLKDMIELGLKPSISIWNMISKAR 559

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147784915|emb|CAN72973.1| hypothetical protein VITISV_019486 [Vitis vinifera]

 Score =  699 bits (1804), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 347/552 (62%), Positives = 439/552 (79%), Gaps = 7/552 (1%)

Query: 20  MAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLS-KMSSHSHAAAQTLILKIISGRI 78
           M K PPLKA SLF  ++ QG QHT QSIS IL LL+S  + SHS    Q+L+LK+ISG+I
Sbjct: 1   MVKSPPLKALSLFTSSALQGXQHTHQSISFILHLLISSNLFSHS----QSLLLKLISGQI 56

Query: 79  TSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVR 138
           +SSSFTP SL   LTQ  P   +  T   ++E+II+AH++S+L +QALFY +QM+  G+ 
Sbjct: 57  SSSSFTPSSLFHELTQ--PHLDSFPTHVLIHEAIINAHVRSQLPEQALFYXNQMIGRGLV 114

Query: 139 PRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVL 198
           P SNTFN+LLI +IKS  F+K W  F+E +  V+LDVYSFGI+IKGCCE G L+K FEVL
Sbjct: 115 PGSNTFNNLLILLIKSNFFEKAWRVFNETKGNVKLDVYSFGIMIKGCCEVGYLDKGFEVL 174

Query: 199 NQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKN 258
            Q+EEMG SPNVV+YT+LIDGCCKNGDIER K LF K+GEL +VA Q+TYTVLI G FK 
Sbjct: 175 GQMEEMGLSPNVVVYTTLIDGCCKNGDIERGKQLFYKMGELDVVANQYTYTVLINGFFKM 234

Query: 259 GLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTY 318
           GL+KDG E YEKM+L G+ P++YTYN +I   CN+GK++  F+LFDEMR R VACNVVTY
Sbjct: 235 GLKKDGIELYEKMKLTGIVPNVYTYNSMICRCCNDGKLNNAFELFDEMRERGVACNVVTY 294

Query: 319 NTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKS 378
           NTLI GLC+E RV EAERL+ +MK  G+SPN+I+YN LIDG+C  G  DKA  LFNQ+KS
Sbjct: 295 NTLIGGLCQERRVLEAERLMCRMKRDGLSPNLISYNTLIDGYCSIGNLDKASSLFNQMKS 354

Query: 379 NGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEK 438
           +GQSPS+ TYN+LI  FS+A NS   +D+VREME RG++PS+VTYTIL+D+ VRSD++EK
Sbjct: 355 SGQSPSLATYNILIAGFSEAKNSAGVTDMVREMEARGLSPSKVTYTILMDALVRSDNIEK 414

Query: 439 AFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIF 498
           AF++YS M+K+G   D+Y YGVLIHGLC+ G+MKEASKLF S+ E  L+PNDV+YN MI+
Sbjct: 415 AFQIYSSMEKAGLVADIYIYGVLIHGLCVVGDMKEASKLFKSLDEMHLKPNDVIYNTMIY 474

Query: 499 GYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKP 558
           GYCKEG+SYRALRLL EM E G+VPN+ASY+STI +LC+D KW EAEVLL  M++LGLKP
Sbjct: 475 GYCKEGSSYRALRLLKEMGENGMVPNVASYNSTIXILCKDEKWTEAEVLLKDMIELGLKP 534

Query: 559 SVSLYNILYRAK 570
           S+S++N++ +A+
Sbjct: 535 SISIWNMISKAR 546

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356519743|ref|XP_003528529.1| PREDICTED: pentatricopeptide repeat-containing protein At4g11690-like [Glycine max]

 Score =  645 bits (1665), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 324/575 (56%), Positives = 412/575 (71%), Gaps = 21/575 (3%)

Query: 1   MAQSKQGEGQALTLNLISRMAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSS 60
           M+QS +       L LI +M K+PP KA  LFN A+ QGLQHT  SIS IL  LLS   S
Sbjct: 1   MSQSHEA------LILIQKMVKVPPTKALLLFNTATYQGLQHTSHSISFILNHLLS---S 51

Query: 61  HSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQ--LFPSSSNPVTKSRLYESIIDAHLK 118
                AQ+LIL++ISGRI      P SL+  LTQ    P S    T + LY+++++A++ 
Sbjct: 52  GMLPQAQSLILRLISGRI------PSSLMLQLTQAHFTPCS----TYTPLYDTVVNAYVH 101

Query: 119 SRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSF 178
           S  +DQAL + H M+  G  P SNTFN+LL  +I+S  FDK W  F+E + KV LD YSF
Sbjct: 102 SHSTDQALTFLHHMIHEGHVPLSNTFNNLLCLLIRSNYFDKAWWIFNELKSKVVLDAYSF 161

Query: 179 GILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGE 238
           GI+IKGCCEAG   K F +L  LEE G SPNVVIYT+LIDGCCK+G++  AK LF K+  
Sbjct: 162 GIMIKGCCEAGYFVKGFRLLAMLEEFGLSPNVVIYTTLIDGCCKDGNVMLAKNLFCKMNR 221

Query: 239 LGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSE 298
           LGLV   HTY+VL+ G FK GLQ++GF+ YE M+ +G+ P+ Y YNCLI EYCN+G V +
Sbjct: 222 LGLVPNPHTYSVLMNGFFKQGLQREGFQMYENMKRSGIVPNAYAYNCLISEYCNDGMVDK 281

Query: 299 GFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLID 358
            FK+F EMR + +AC V+TYN LI GLC+  +  EA +L+ ++   G+SPN++TYN LI+
Sbjct: 282 AFKVFAEMREKGIACGVMTYNILIGGLCRGKKFGEAVKLVHKVNKVGLSPNIVTYNILIN 341

Query: 359 GFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITP 418
           GFCD  + D A RLFNQLKS+G SP++VTYN LI  +SK  N   A DLV+EMEER I P
Sbjct: 342 GFCDVRKMDSAVRLFNQLKSSGLSPTLVTYNTLIAGYSKVENLAGALDLVKEMEERCIAP 401

Query: 419 SEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLF 478
           S+VTYTILID+F R +  EKA EM+SLM+KSG  PDVYTY VL+HGLC+ GNMKEASKLF
Sbjct: 402 SKVTYTILIDAFARLNHTEKACEMHSLMEKSGLVPDVYTYSVLLHGLCVHGNMKEASKLF 461

Query: 479 NSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQD 538
            S+ E  L+PN V+YN MI GYCKEG+SYRALRLL EM + G+VPN+AS+ STIG+LC+D
Sbjct: 462 KSLGEMHLQPNSVIYNTMIHGYCKEGSSYRALRLLNEMVQSGMVPNVASFCSTIGLLCRD 521

Query: 539 GKWPEAEVLLNQMLKLGLKPSVSLYNILYRAKNNI 573
            KW EAE+LL QM+  GLKPSVSLY ++++ K ++
Sbjct: 522 EKWKEAELLLGQMINSGLKPSVSLYKMVHKVKGDV 556

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356518050|ref|XP_003527697.1| PREDICTED: pentatricopeptide repeat-containing protein At4g11690-like [Glycine max]

 Score =  645 bits (1664), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 324/573 (56%), Positives = 410/573 (71%), Gaps = 17/573 (2%)

Query: 1   MAQSKQGEGQALTLNLISRMAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSS 60
           M+QS +       L LI +M K+PP KA  LFN A+ QGLQHT  SIS IL  LLS   S
Sbjct: 1   MSQSHEA------LILIQKMVKVPPTKALLLFNTATYQGLQHTSHSISFILNHLLS---S 51

Query: 61  HSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSR 120
                AQ+LIL++ISGRI      P SL+  LTQ   +    +T + LY++I++A++ S 
Sbjct: 52  GMLPQAQSLILRLISGRI------PSSLMLQLTQAHFTPC--LTYTPLYDTIVNAYVHSH 103

Query: 121 LSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGI 180
            +DQAL + H M+  G  P SNTFN+L+  +I+S  FDK W  F+E + KV LD YSFGI
Sbjct: 104 STDQALTFLHHMIHEGHVPLSNTFNNLMCLLIRSNYFDKAWWIFNELKSKVVLDAYSFGI 163

Query: 181 LIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELG 240
           +IKGCCEAG   K F +L  LEE G SPNVVIYT+LIDGCCK G++  AK LF K+  LG
Sbjct: 164 MIKGCCEAGYFVKGFRLLAMLEEFGLSPNVVIYTTLIDGCCKYGNVMLAKNLFCKMDRLG 223

Query: 241 LVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGF 300
           LV   HTY+VL+ G FK GLQ++GF+ YE M+ +G+ P+ Y YNCLI EYCN G V + F
Sbjct: 224 LVPNPHTYSVLMNGFFKQGLQREGFQMYENMKRSGIVPNAYAYNCLISEYCNGGMVDKAF 283

Query: 301 KLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGF 360
           K+F EMR + +AC V+TYN LI GLC+  +  EA +L+ ++   G+SPN++TYN LI+GF
Sbjct: 284 KVFAEMREKGIACGVMTYNILIGGLCRGKKFGEAVKLVHKVNKVGLSPNIVTYNILINGF 343

Query: 361 CDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSE 420
           CD G+ D A RLFNQLKS+G SP++VTYN LI  +SK  N   A DLV+EMEER I PS+
Sbjct: 344 CDVGKMDTAVRLFNQLKSSGLSPTLVTYNTLIAGYSKVENLAGALDLVKEMEERCIAPSK 403

Query: 421 VTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNS 480
           VTYTILID+F R +  EKA EM+SLM+KSG  PDVYTY VLIHGLC+ GNMKEASKLF S
Sbjct: 404 VTYTILIDAFARLNYTEKACEMHSLMEKSGLVPDVYTYSVLIHGLCVHGNMKEASKLFKS 463

Query: 481 MWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGK 540
           + E  L+PN V+YN MI GYCKEG+SYRALRLL EM   G+VPN+AS+ STIG+LC+D K
Sbjct: 464 LGEMHLQPNSVIYNTMIHGYCKEGSSYRALRLLNEMVHSGMVPNVASFCSTIGLLCRDEK 523

Query: 541 WPEAEVLLNQMLKLGLKPSVSLYNILYRAKNNI 573
           W EAE+LL QM+  GLKPSVSLY ++++ K ++
Sbjct: 524 WKEAELLLGQMINSGLKPSVSLYKMVHKVKGDV 556

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297809467|ref|XP_002872617.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297318454|gb|EFH48876.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  645 bits (1663), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 319/560 (56%), Positives = 423/560 (75%), Gaps = 7/560 (1%)

Query: 13  TLNLISRMAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILK 72
           TL L++ + K+PPLKAFSL N  +  G QHT +SIS    LL   +S + ++ AQ+L+L+
Sbjct: 8   TLILLANLIKVPPLKAFSLLNSPNFHGFQHTHESIS---ILLRLLLSGNLYSHAQSLLLQ 64

Query: 73  IISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQM 132
           +ISG+I S  FT  SLL +LT+    S    TKSRLYE II+A+++S+  D +++YF++M
Sbjct: 65  VISGKIQSQFFTSSSLLHYLTE----SETSKTKSRLYEVIINAYVQSQSLDSSIYYFNEM 120

Query: 133 LDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLN 192
           +D G  P SN FN+LL FV+ S SF++ W FF+E++ KV LDVYSFGI+IKGCCEAG++ 
Sbjct: 121 VDKGFVPGSNCFNNLLTFVVGSSSFNQWWCFFNESKIKVVLDVYSFGIVIKGCCEAGEIE 180

Query: 193 KAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLI 252
           K+F++L +L E GFSPNVVIYT+LIDGCCK G+IE+AK LF ++G+ GLVA + TYTVLI
Sbjct: 181 KSFDLLVELREFGFSPNVVIYTTLIDGCCKKGEIEKAKDLFFEMGKFGLVANEWTYTVLI 240

Query: 253 CGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVA 312
            GLFKNG++K GFE YEKMQ +GV P+L+TYNC++++ C +G+  + FK+FDEMR R V+
Sbjct: 241 HGLFKNGIKKQGFEMYEKMQEHGVFPNLHTYNCVMNQLCKDGRTKDAFKVFDEMRERGVS 300

Query: 313 CNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRL 372
           CN+VTYNTLI GLC+EM+  EA  ++DQMK  GI+PN+ITYN LIDGFC   +  KA  L
Sbjct: 301 CNIVTYNTLIGGLCREMKANEANEVMDQMKSDGINPNLITYNTLIDGFCGVRKLGKALSL 360

Query: 373 FNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVR 432
              LKS G SPS+VTYN+L+  F K G++  A  +V+EMEERGI PS+VTYTILID+F R
Sbjct: 361 CRDLKSRGLSPSLVTYNILVSGFCKKGDTSGAGKVVKEMEERGIKPSKVTYTILIDTFAR 420

Query: 433 SDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVV 492
           SD+MEKA ++ S M++ G +PDV+TY VLIHG C+KG M EAS+LF SM E K EPN+V+
Sbjct: 421 SDNMEKAIQLRSSMEELGLTPDVHTYSVLIHGFCIKGRMNEASRLFKSMVEKKFEPNEVI 480

Query: 493 YNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQML 552
           YN M+ GYCKEG+SYRALRL  EM EK L PN+ASY   I VLC++ K  EAE L+ +M+
Sbjct: 481 YNTMVLGYCKEGSSYRALRLFREMEEKELPPNVASYRYMIEVLCKERKSKEAEGLVEKMI 540

Query: 553 KLGLKPSVSLYNILYRAKNN 572
             G+ PS S+ N++ RAKN+
Sbjct: 541 DSGIGPSDSILNLISRAKND 560

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297838419|ref|XP_002887091.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297332932|gb|EFH63350.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  644 bits (1661), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 317/560 (56%), Positives = 423/560 (75%), Gaps = 7/560 (1%)

Query: 13  TLNLISRMAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILK 72
           TL L++ + K+PPLKAFSL N  +  G QHT +SIS    LL   +S + ++ AQ+L+L+
Sbjct: 8   TLILLATLIKVPPLKAFSLLNSPNFHGFQHTHESIS---ILLRLLLSGNLYSHAQSLLLQ 64

Query: 73  IISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQM 132
           +ISG+I S  FT  SLL ++T+    S    TKSRLYE +I+A+++S+  D ++ YF++M
Sbjct: 65  VISGKIQSQFFTSSSLLHYVTE----SETSETKSRLYEVMINAYVQSQSLDSSISYFNEM 120

Query: 133 LDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLN 192
           +D G  P SN FN+LL FV+ S SF++ W FF+E++ KV+LDVYSFGI+IKGCCEAG++ 
Sbjct: 121 VDKGFVPGSNCFNNLLTFVVGSSSFNQWWRFFNESKIKVDLDVYSFGIVIKGCCEAGEIE 180

Query: 193 KAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLI 252
           K+F++L +L E GFSPNVVIYT+LIDGCCK G+IE+AK LF ++G+ GLVA + TYTVLI
Sbjct: 181 KSFDLLVELREFGFSPNVVIYTTLIDGCCKRGEIEKAKDLFFEMGKFGLVANEWTYTVLI 240

Query: 253 CGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVA 312
            GLFKNG++K GFE YEKMQ +GV P+LYTYNC+++++C +G+  + FKLFDEMR R V+
Sbjct: 241 HGLFKNGIKKQGFEMYEKMQEDGVFPNLYTYNCVMNQHCKDGRTKDAFKLFDEMRERGVS 300

Query: 313 CNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRL 372
           CN+VTYNTLI GLC+EM+  EA +++DQMK  GI+PN+ITYN LIDGFC  G+  KA  L
Sbjct: 301 CNIVTYNTLIGGLCREMKANEANKVMDQMKSDGINPNLITYNTLIDGFCGVGKLGKALSL 360

Query: 373 FNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVR 432
              LKS G SPS+VTYN+L+  F K G++  A  +V+EMEERGI PS++TYTILID+F R
Sbjct: 361 CRDLKSRGLSPSLVTYNILVSGFCKKGDTSGAGKVVKEMEERGIKPSKITYTILIDTFAR 420

Query: 433 SDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVV 492
            D+MEKA ++ S M++ G +PDV+TY VLIHG C+KG M EAS+LF  M   KLEPN V+
Sbjct: 421 MDNMEKAIQLRSPMEELGLTPDVHTYSVLIHGFCIKGQMNEASRLFKLMVAKKLEPNKVI 480

Query: 493 YNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQML 552
           YN M+ GYCKEG+SYRALRL  EM EK L PN+ASY   I VLC++ K  EAE L+ +M+
Sbjct: 481 YNTMVLGYCKEGSSYRALRLFREMEEKELPPNVASYRYMIEVLCKERKSKEAEGLVEKMI 540

Query: 553 KLGLKPSVSLYNILYRAKNN 572
             G+ PS S+ N++ RAKN+
Sbjct: 541 DTGIDPSDSILNLISRAKND 560

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297809453|ref|XP_002872610.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297318447|gb|EFH48869.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  642 bits (1657), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 318/560 (56%), Positives = 423/560 (75%), Gaps = 7/560 (1%)

Query: 13  TLNLISRMAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILK 72
           TL L++ + K+PPLKAFSL N  +  G QHT +SIS    LL   +S + ++ AQ+L+L+
Sbjct: 8   TLILLANLIKVPPLKAFSLLNSPNFHGFQHTHESIS---ILLRLLLSGNLYSHAQSLLLQ 64

Query: 73  IISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQM 132
           +ISG+I S  FT  SLL +LT+    S    TKSRLYE II+A+++S+  D +++YF++M
Sbjct: 65  VISGKIQSQFFTSSSLLHYLTE----SETSKTKSRLYEVIINAYVQSQSLDSSIYYFNEM 120

Query: 133 LDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLN 192
           +D G  P SN FN+LL FV+ S SF++ W FF+E++ KV LDVYSFGI+IKGCCEAG++ 
Sbjct: 121 VDKGFVPGSNCFNNLLTFVVGSSSFNQWWCFFNESKIKVVLDVYSFGIVIKGCCEAGEIE 180

Query: 193 KAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLI 252
           K+F++L +L E GFSPNVVIYT+LIDGCCK G+IE+AK LF ++G+ GLVA + TYTVLI
Sbjct: 181 KSFDLLVELREFGFSPNVVIYTTLIDGCCKKGEIEKAKDLFFEMGKFGLVANEWTYTVLI 240

Query: 253 CGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVA 312
            GLFKNG++K GFE YEKMQ +GV P+LYTYNC++++ C +G+  + FK+FDEMR R V+
Sbjct: 241 HGLFKNGIKKQGFEMYEKMQEHGVFPNLYTYNCVMNQLCKDGRTKDAFKVFDEMRERGVS 300

Query: 313 CNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRL 372
           CN+VTYNTLI GLC+EM+  EA +++DQMK   I+PN+ITYN LIDGFC  G+  KA  L
Sbjct: 301 CNIVTYNTLIGGLCREMKANEANKVMDQMKSYVINPNLITYNTLIDGFCSVGKLGKALSL 360

Query: 373 FNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVR 432
              LKS G SPS+VTYNVL+  F + G++  A+ +V+EMEERGI PS+VTYTILID+F R
Sbjct: 361 CRDLKSRGLSPSLVTYNVLVSGFCRKGDTSGAAKMVKEMEERGIKPSKVTYTILIDTFAR 420

Query: 433 SDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVV 492
           SD+ME A ++ S M++ G  PDV+TY VLIHG C+KG M EAS+LF SM E  LEPN+V+
Sbjct: 421 SDNMETAIQLRSSMEELGLVPDVHTYSVLIHGFCIKGQMNEASRLFKSMVEKMLEPNEVI 480

Query: 493 YNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQML 552
           YN MI GYCKEG+SYRALRL  +M EK L PN+ASYS  I VLC++ K  EAE L+ +M+
Sbjct: 481 YNTMILGYCKEGSSYRALRLFRDMEEKELAPNVASYSYLIRVLCKERKLKEAEDLVEKMI 540

Query: 553 KLGLKPSVSLYNILYRAKNN 572
             G+ PS ++ N++ RAK +
Sbjct: 541 DSGIDPSDTICNLISRAKTD 560

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15234269|ref|NP_192906.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75213756|sp|Q9T0D6.1|PP306_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At4g11690 gi|4539460|emb|CAB39940.1| putative protein [Arabidopsis thaliana] gi|7267869|emb|CAB78212.1| putative protein [Arabidopsis thaliana] gi|91806660|gb|ABE66057.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|332657639|gb|AEE83039.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  636 bits (1641), Expect = e-180,   Method: Compositional matrix adjust.
 Identities = 321/561 (57%), Positives = 425/561 (75%), Gaps = 9/561 (1%)

Query: 13  TLNLISRMAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLL-SKMSSHSHAAAQTLIL 71
           TL L++ + K PPLKAFSL N  +    QHT +SISI+LRLLL   + SH    AQ+L+L
Sbjct: 8   TLVLLANLIKFPPLKAFSLLNSPNFHEFQHTHESISILLRLLLSGNLFSH----AQSLLL 63

Query: 72  KIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQ 131
           ++ISG+I S  FT  SLL +LT+    S    TK RLYE II+++++S+  + ++ YF++
Sbjct: 64  QVISGKIHSQFFTSSSLLHYLTE----SETSKTKFRLYEVIINSYVQSQSLNLSISYFNE 119

Query: 132 MLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDL 191
           M+D+G  P SN FN LL FV+ S SF++ W FF+EN+ KV LDVYSFGILIKGCCEAG++
Sbjct: 120 MVDNGFVPGSNCFNYLLTFVVGSSSFNQWWSFFNENKSKVVLDVYSFGILIKGCCEAGEI 179

Query: 192 NKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVL 251
            K+F++L +L E GFSPNVVIYT+LIDGCCK G+IE+AK LF ++G+LGLVA + TYTVL
Sbjct: 180 EKSFDLLIELTEFGFSPNVVIYTTLIDGCCKKGEIEKAKDLFFEMGKLGLVANERTYTVL 239

Query: 252 ICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREV 311
           I GLFKNG++K GFE YEKMQ +GV P+LYTYNC++++ C +G+  + F++FDEMR R V
Sbjct: 240 INGLFKNGVKKQGFEMYEKMQEDGVFPNLYTYNCVMNQLCKDGRTKDAFQVFDEMRERGV 299

Query: 312 ACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFR 371
           +CN+VTYNTLI GLC+EM++ EA +++DQMK  GI+PN+ITYN LIDGFC  G+  KA  
Sbjct: 300 SCNIVTYNTLIGGLCREMKLNEANKVVDQMKSDGINPNLITYNTLIDGFCGVGKLGKALS 359

Query: 372 LFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFV 431
           L   LKS G SPS+VTYN+L+  F + G++  A+ +V+EMEERGI PS+VTYTILID+F 
Sbjct: 360 LCRDLKSRGLSPSLVTYNILVSGFCRKGDTSGAAKMVKEMEERGIKPSKVTYTILIDTFA 419

Query: 432 RSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDV 491
           RSD+MEKA ++   M++ G  PDV+TY VLIHG C+KG M EAS+LF SM E   EPN+V
Sbjct: 420 RSDNMEKAIQLRLSMEELGLVPDVHTYSVLIHGFCIKGQMNEASRLFKSMVEKNCEPNEV 479

Query: 492 VYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQM 551
           +YN MI GYCKEG+SYRAL+LL EM EK L PN+ASY   I VLC++ K  EAE L+ +M
Sbjct: 480 IYNTMILGYCKEGSSYRALKLLKEMEEKELAPNVASYRYMIEVLCKERKSKEAERLVEKM 539

Query: 552 LKLGLKPSVSLYNILYRAKNN 572
           +  G+ PS S+ +++ RAKN+
Sbjct: 540 IDSGIDPSTSILSLISRAKND 560

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356564530|ref|XP_003550506.1| PREDICTED: LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At4g11690-like [Glycine max]

 Score =  635 bits (1637), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 319/573 (55%), Positives = 407/573 (71%), Gaps = 17/573 (2%)

Query: 1   MAQSKQGEGQALTLNLISRMAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSS 60
           M+QS +       L LI +M K+PP+K   LFN AS QGL HT  SIS IL  LLS   S
Sbjct: 1   MSQSHKA------LILIQKMVKVPPIKTLLLFNTASYQGLHHTSHSISFILNHLLS---S 51

Query: 61  HSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSR 120
                AQ+LIL++ISGRI      P SL+  LTQ   +S +  T + LY++I++A++ S 
Sbjct: 52  GMLPQAQSLILRLISGRI------PSSLMLQLTQAHFTSCS--TYTPLYDAIVNAYVHSH 103

Query: 121 LSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGI 180
            +DQAL + H M+  G  P SNTFN+LL  +I+S  FDK W  F+  + KV L+ YSFGI
Sbjct: 104 STDQALTFLHHMIHEGHAPLSNTFNNLLCLLIRSNYFDKAWWIFNVLKSKVVLNAYSFGI 163

Query: 181 LIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELG 240
           +I GCCEAG   + F +L  LEE G SPNVVIYT+LIDGCCKNGD+  AK LF K+  LG
Sbjct: 164 MITGCCEAGYFVRVFRLLAVLEEFGLSPNVVIYTTLIDGCCKNGDVMLAKNLFCKMDRLG 223

Query: 241 LVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGF 300
           LV  QHTY+VL+ G FK GLQ++GF+ YE M  +G+ P+ Y YNCLI EYCN+G V + F
Sbjct: 224 LVPNQHTYSVLMNGFFKQGLQREGFQMYENMNRSGIVPNAYAYNCLISEYCNDGMVDKAF 283

Query: 301 KLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGF 360
           K+F EMR + +AC V+TYN LI GLC+  +  EA +L+ ++   G+SPN++TYN LI+GF
Sbjct: 284 KVFAEMREKGIACGVMTYNILIGGLCRGKKFGEAVKLVHKVNKVGLSPNIVTYNILINGF 343

Query: 361 CDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSE 420
           CD G+ D A RLFNQLKS+G SP++VTYN LI  +SK  N   A DLV+EMEER I  S+
Sbjct: 344 CDVGKMDTAVRLFNQLKSSGLSPTLVTYNTLIAGYSKVENLAGALDLVKEMEERCIARSK 403

Query: 421 VTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNS 480
           VTYTILID+F R +  +KA EM+SLM+KSG  PDVYTY VLIHG C+ GNMKEASK F S
Sbjct: 404 VTYTILIDAFARLNYTDKACEMHSLMEKSGLVPDVYTYSVLIHGXCVNGNMKEASKPFKS 463

Query: 481 MWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGK 540
           + E  L+PN V+YN MI GYCKEG+SYRALRLL EM   G+VPN+AS+ ST+G+LC+D K
Sbjct: 464 LGEMHLQPNSVIYNTMIHGYCKEGSSYRALRLLNEMVHSGMVPNVASFCSTMGLLCRDEK 523

Query: 541 WPEAEVLLNQMLKLGLKPSVSLYNILYRAKNNI 573
           W EAE+LL QM+  GLKPSVSLY ++++ K ++
Sbjct: 524 WKEAELLLGQMINSGLKPSVSLYKMVHKVKGDV 556

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	574
TAIR|locus:2139732	566	AT4G11690 [Arabidopsis thalian	0.963	0.977	0.557	3.8e-165
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.815	0.626	0.338	8e-69
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.790	0.720	0.307	5.1e-67
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.756	0.701	0.328	1.4e-64
TAIR|locus:2015494	629	RPF3 "RNA processing factor 3"	0.790	0.721	0.307	3.7e-64
TAIR|locus:2026207	548	AT1G62680 [Arabidopsis thalian	0.820	0.859	0.314	1.6e-63
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.796	0.709	0.304	1.8e-62
TAIR|locus:2163041	527	AT5G41170 [Arabidopsis thalian	0.670	0.730	0.329	3.8e-62
TAIR|locus:2015208	630	AT1G63130 [Arabidopsis thalian	0.794	0.723	0.331	6.2e-62
TAIR|locus:2034760	637	AT1G12300 [Arabidopsis thalian	0.818	0.737	0.300	7.9e-62

TAIR|locus:2139732 AT4G11690 [Arabidopsis thaliana (taxid:3702)]

 Score = 1607 (570.8 bits), Expect = 3.8e-165, P = 3.8e-165
 Identities = 312/560 (55%), Positives = 414/560 (73%)

Query:    13 TLNLISRMAKLPPLKAFSLFNWASRQGLQHTPQXXXXXXXXXXXXXXXHSHAAAQTLILK 72
             TL L++ + K PPLKAFSL N  +    QHT +                SHA  Q+L+L+
Sbjct:     8 TLVLLANLIKFPPLKAFSLLNSPNFHEFQHTHESISILLRLLLSGNLF-SHA--QSLLLQ 64

Query:    73 IISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQM 132
             +ISG+I S  FT  SLL +LT+    S    TK RLYE II+++++S+  + ++ YF++M
Sbjct:    65 VISGKIHSQFFTSSSLLHYLTE----SETSKTKFRLYEVIINSYVQSQSLNLSISYFNEM 120

Query:   133 LDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLN 192
             +D+G  P SN FN LL FV+ S SF++ W FF+EN+ KV LDVYSFGILIKGCCEAG++ 
Sbjct:   121 VDNGFVPGSNCFNYLLTFVVGSSSFNQWWSFFNENKSKVVLDVYSFGILIKGCCEAGEIE 180

Query:   193 KAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLI 252
             K+F++L +L E GFSPNVVIYT+LIDGCCK G+IE+AK LF ++G+LGLVA + TYTVLI
Sbjct:   181 KSFDLLIELTEFGFSPNVVIYTTLIDGCCKKGEIEKAKDLFFEMGKLGLVANERTYTVLI 240

Query:   253 CGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVA 312
              GLFKNG++K GFE YEKMQ +GV P+LYTYNC++++ C +G+  + F++FDEMR R V+
Sbjct:   241 NGLFKNGVKKQGFEMYEKMQEDGVFPNLYTYNCVMNQLCKDGRTKDAFQVFDEMRERGVS 300

Query:   313 CNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRL 372
             CN+VTYNTLI GLC+EM++ EA +++DQMK  GI+PN+ITYN LIDGFC  G+  KA  L
Sbjct:   301 CNIVTYNTLIGGLCREMKLNEANKVVDQMKSDGINPNLITYNTLIDGFCGVGKLGKALSL 360

Query:   373 FNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVR 432
                LKS G SPS+VTYN+L+  F + G++  A+ +V+EMEERGI PS+VTYTILID+F R
Sbjct:   361 CRDLKSRGLSPSLVTYNILVSGFCRKGDTSGAAKMVKEMEERGIKPSKVTYTILIDTFAR 420

Query:   433 SDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVV 492
             SD+MEKA ++   M++ G  PDV+TY VLIHG C+KG M EAS+LF SM E   EPN+V+
Sbjct:   421 SDNMEKAIQLRLSMEELGLVPDVHTYSVLIHGFCIKGQMNEASRLFKSMVEKNCEPNEVI 480

Query:   493 YNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQML 552
             YN MI GYCKEG+SYRAL+LL EM EK L PN+ASY   I VLC++ K  EAE L+ +M+
Sbjct:   481 YNTMILGYCKEGSSYRALKLLKEMEEKELAPNVASYRYMIEVLCKERKSKEAERLVEKMI 540

Query:   553 KLGLKPSVSLYNILYRAKNN 572
               G+ PS S+ +++ RAKN+
Sbjct:   541 DSGIDPSTSILSLISRAKND 560

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 698 (250.8 bits), Expect = 8.0e-69, P = 8.0e-69
 Identities = 160/472 (33%), Positives = 252/472 (53%)

Query:   106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKS---CSFDKGWL 162
             S +++ ++ ++ +  L D+AL   H     G  P   ++N++L   I+S    SF +  +
Sbjct:   134 SSVFDLVVKSYSRLSLIDKALSIVHLAQAHGFMPGVLSYNAVLDATIRSKRNISFAEN-V 192

Query:   163 FFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCK 222
             F      +V  +V+++ ILI+G C AG+++ A  + +++E  G  PNVV Y +LIDG CK
Sbjct:   193 FKEMLESQVSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTYNTLIDGYCK 252

Query:   223 NGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYT 282
                I+    L R +   GL     +Y V+I GL + G  K+      +M   G S    T
Sbjct:   253 LRKIDDGFKLLRSMALKGLEPNLISYNVVINGLCREGRMKEVSFVLTEMNRRGYSLDEVT 312

Query:   283 YNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMK 342
             YN LI  YC EG   +   +  EM    +  +V+TY +LI  +CK   +  A   LDQM+
Sbjct:   313 YNTLIKGYCKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMR 372

Query:   343 MAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSK 402
             + G+ PN  TY  L+DGF   G  ++A+R+  ++  NG SPSVVTYN LI      G  +
Sbjct:   373 VRGLCPNERTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKME 432

Query:   403 MASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLI 462
              A  ++ +M+E+G++P  V+Y+ ++  F RS D+++A  +   M + G  PD  TY  LI
Sbjct:   433 DAIAVLEDMKEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIKPDTITYSSLI 492

Query:   463 HGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLV 522
              G C +   KEA  L+  M    L P++  Y  +I  YC EG+  +AL+L  EM EKG++
Sbjct:   493 QGFCEQRRTKEACDLYEEMLRVGLPPDEFTYTALINAYCMEGDLEKALQLHNEMVEKGVL 552

Query:   523 PNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRAKNNIE 574
             P++ +YS  I  L +  +  EA+ LL ++      PS   Y+ L    +NIE
Sbjct:   553 PDVVTYSVLINGLNKQSRTREAKRLLLKLFYEESVPSDVTYHTLIENCSNIE 604

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

TAIR|locus:2026192 RPF2 "rna processing factor 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 681 (244.8 bits), Expect = 5.1e-67, P = 5.1e-67
 Identities = 141/459 (30%), Positives = 249/459 (54%)

Query:   111 SIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLL--IFVIKSCSFDKGWLFFSENR 168
             S+++ +  S+   +A+    QM  +G +P + TFN+L+  +F+    S  +         
Sbjct:   156 SLLNGYCHSKRISEAVALVDQMFVTGYQPNTVTFNTLIHGLFLHNKAS--EAMALIDRMV 213

Query:   169 CK-VELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIE 227
              K  + D+ ++G+++ G C+ GD + AF +LN++E+    P V+IY ++IDG CK   ++
Sbjct:   214 AKGCQPDLVTYGVVVNGLCKRGDTDLAFNLLNKMEQGKLEPGVLIYNTIIDGLCKYKHMD 273

Query:   228 RAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLI 287
              A  LF+++   G+     TY+ LI  L   G   D       M    ++P ++T++ LI
Sbjct:   274 DALNLFKEMETKGIRPNVVTYSSLISCLCNYGRWSDASRLLSDMIERKINPDVFTFSALI 333

Query:   288 HEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGIS 347
               +  EGK+ E  KL+DEM  R +  ++VTY++LI G C   R+ EA+++ + M      
Sbjct:   334 DAFVKEGKLVEAEKLYDEMVKRSIDPSIVTYSSLINGFCMHDRLDEAKQMFEFMVSKHCF 393

Query:   348 PNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDL 407
             P+V+TYN LI GFC     ++   +F ++   G   + VTYN+LI+   +AG+  MA ++
Sbjct:   394 PDVVTYNTLIKGFCKYKRVEEGMEVFREMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEI 453

Query:   408 VREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCM 467
              +EM   G+ P+ +TY  L+D   ++  +EKA  ++  +Q+S   P +YTY ++I G+C 
Sbjct:   454 FKEMVSDGVPPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCK 513

Query:   468 KGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIAS 527
              G +++   LF ++    ++P+ V YN MI G+C++G+   A  L  EM E G +PN   
Sbjct:   514 AGKVEDGWDLFCNLSLKGVKPDVVAYNTMISGFCRKGSKEEADALFKEMKEDGTLPNSGC 573

Query:   528 YSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNIL 566
             Y++ I    +DG    +  L+ +M   G     S   ++
Sbjct:   574 YNTLIRARLRDGDREASAELIKEMRSCGFAGDASTIGLV 612

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0000966 "RNA 5'-end processing" evidence=IMP

GO:0003723 "RNA binding" evidence=IDA

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

 Score = 658 (236.7 bits), Expect = 1.4e-64, P = 1.4e-64
 Identities = 143/435 (32%), Positives = 240/435 (55%)

Query:   136 GVRPRSNTFNSLLI-FVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKA 194
             G  P + TF++L+  F ++    +   L       K   D+ +   LI G C  G +++A
Sbjct:   135 GYEPDTITFSTLVNGFCLEGRVSEAVALVDRMVEMKQRPDLVTVSTLINGLCLKGRVSEA 194

Query:   195 FEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICG 254
               +++++ E GF P+ V Y  +++  CK+G+   A  LFRK+ E  + A+   Y+++I  
Sbjct:   195 LVLIDRMVEYGFQPDEVTYGPVLNRLCKSGNSALALDLFRKMEERNIKASVVQYSIVIDS 254

Query:   255 LFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACN 314
             L K+G   D    + +M++ G+   + TY+ LI   CN+GK  +G K+  EM  R +  +
Sbjct:   255 LCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIGRNIIPD 314

Query:   315 VVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFN 374
             VVT++ LI    KE ++ EA+ L ++M   GI+P+ ITYN LIDGFC      +A ++F+
Sbjct:   315 VVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMFD 374

Query:   375 QLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSD 434
              + S G  P +VTY++LI ++ KA        L RE+  +G+ P+ +TY  L+  F +S 
Sbjct:   375 LMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQSG 434

Query:   435 DMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYN 494
              +  A E++  M   G  P V TYG+L+ GLC  G + +A ++F  M ++++     +YN
Sbjct:   435 KLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIYN 494

Query:   495 MMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKL 554
             ++I G C       A  L   +++KG+ P++ +Y+  IG LC+ G   EA++L  +M + 
Sbjct:   495 IIIHGMCNASKVDDAWSLFCSLSDKGVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMKED 554

Query:   555 GLKPSVSLYNILYRA 569
             G  P    YNIL RA
Sbjct:   555 GCTPDDFTYNILIRA 569

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2015494 RPF3 "RNA processing factor 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 654 (235.3 bits), Expect = 3.7e-64, P = 3.7e-64
 Identities = 141/459 (30%), Positives = 242/459 (52%)

Query:   111 SIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLL--IFVIKSCSFDKGWLFFSENR 168
             S+++ +   +   +A+    QM     +P + TFN+L+  +F+    S     +     R
Sbjct:   155 SLLNGYCHGKRISEAVALVDQMFVMEYQPNTVTFNTLIHGLFLHNKASEAVALIDRMVAR 214

Query:   169 -CKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIE 227
              C+   D++++G ++ G C+ GD++ A  +L ++E+     +VVIYT++ID  C   ++ 
Sbjct:   215 GCQP--DLFTYGTVVNGLCKRGDIDLALSLLKKMEKGKIEADVVIYTTIIDALCNYKNVN 272

Query:   228 RAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLI 287
              A  LF ++   G+     TY  LI  L   G   D       M    ++P++ T++ LI
Sbjct:   273 DALNLFTEMDNKGIRPNVVTYNSLIRCLCNYGRWSDASRLLSDMIERKINPNVVTFSALI 332

Query:   288 HEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGIS 347
               +  EGK+ E  KL+DEM  R +  ++ TY++LI G C   R+ EA+ + + M      
Sbjct:   333 DAFVKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCF 392

Query:   348 PNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDL 407
             PNV+TYN LI GFC A   ++   LF ++   G   + VTYN LI+   +AG+  MA  +
Sbjct:   393 PNVVTYNTLIKGFCKAKRVEEGMELFREMSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKI 452

Query:   408 VREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCM 467
              ++M   G+ P  +TY+IL+D   +   +EKA  ++  +QKS   PD+YTY ++I G+C 
Sbjct:   453 FKKMVSDGVPPDIITYSILLDGLCKYGKLEKALVVFEYLQKSKMEPDIYTYNIMIEGMCK 512

Query:   468 KGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIAS 527
              G +++   LF S+    ++PN ++Y  MI G+C++G    A  L  EM E G +PN  +
Sbjct:   513 AGKVEDGWDLFCSLSLKGVKPNVIIYTTMISGFCRKGLKEEADALFREMKEDGTLPNSGT 572

Query:   528 YSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNIL 566
             Y++ I    +DG    +  L+ +M   G     S  +++
Sbjct:   573 YNTLIRARLRDGDKAASAELIKEMRSCGFVGDASTISMV 611

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006397 "mRNA processing" evidence=IMP

TAIR|locus:2026207 AT1G62680 [Arabidopsis thaliana (taxid:3702)]

 Score = 648 (233.2 bits), Expect = 1.6e-63, P = 1.6e-63
 Identities = 152/484 (31%), Positives = 258/484 (53%)

Query:    79 TSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKS-RLSDQALFYFHQMLDSGV 137
             T+SS  P    C   + +  +S+ V+   L E +    L+  +L+D A+  F  M+ S  
Sbjct:    25 TASS--PSFSHCSSCRCWVRASSSVSGGDLRERLSKTRLRDIKLND-AIDLFSDMVKSRP 81

Query:   138 RPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVEL-----DVYSFGILIKGCCEAGDLN 192
              P    FN LL  ++K   +D   +  S  + K+E+     D+Y+F I+I   C    ++
Sbjct:    82 FPSIVDFNRLLSAIVKLKKYD---VVISLGK-KMEVLGIRNDLYTFNIVINCFCCCFQVS 137

Query:   193 KAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLI 252
              A  +L ++ ++G+ P+ V   SL++G C+   +  A  L  K+ E+G       Y  +I
Sbjct:   138 LALSILGKMLKLGYEPDRVTIGSLVNGFCRRNRVSDAVSLVDKMVEIGYKPDIVAYNAII 197

Query:   253 CGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVA 312
               L K     D F+F+++++  G+ P++ TY  L++  CN  + S+  +L  +M  +++ 
Sbjct:   198 DSLCKTKRVNDAFDFFKEIERKGIRPNVVTYTALVNGLCNSSRWSDAARLLSDMIKKKIT 257

Query:   313 CNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRL 372
              NV+TY+ L+    K  +V EA+ L ++M    I P+++TY+ LI+G C     D+A ++
Sbjct:   258 PNVITYSALLDAFVKNGKVLEAKELFEEMVRMSIDPDIVTYSSLINGLCLHDRIDEANQM 317

Query:   373 FNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVR 432
             F+ + S G    VV+YN LI  F KA   +    L REM +RG+  + VTY  LI  F +
Sbjct:   318 FDLMVSKGCLADVVSYNTLINGFCKAKRVEDGMKLFREMSQRGLVSNTVTYNTLIQGFFQ 377

Query:   433 SDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVV 492
             + D++KA E +S M   G SPD++TY +L+ GLC  G +++A  +F  M + +++ + V 
Sbjct:   378 AGDVDKAQEFFSQMDFFGISPDIWTYNILLGGLCDNGELEKALVIFEDMQKREMDLDIVT 437

Query:   493 YNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQML 552
             Y  +I G CK G    A  L   ++ KGL P+I +Y++ +  LC  G   E E L  +M 
Sbjct:   438 YTTVIRGMCKTGKVEEAWSLFCSLSLKGLKPDIVTYTTMMSGLCTKGLLHEVEALYTKMK 497

Query:   553 KLGL 556
             + GL
Sbjct:   498 QEGL 501

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 638 (229.6 bits), Expect = 1.8e-62, P = 1.8e-62
 Identities = 140/460 (30%), Positives = 244/460 (53%)

Query:   112 IIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKV 171
             +I+   + R    A     +++  G  P +  FN+LL  +   C   +  L   +   ++
Sbjct:   129 MINCFCRCRKLSYAFSTMGKIMKLGYEPDTVIFNTLLNGLCLECRVSEA-LELVDRMVEM 187

Query:   172 --ELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERA 229
               +  + +   L+ G C  G ++ A  +++++ E GF PN V Y  +++  CK+G    A
Sbjct:   188 GHKPTLITLNTLVNGLCLNGKVSDAVVLIDRMVETGFQPNEVTYGPVLNVMCKSGQTALA 247

Query:   230 KMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHE 289
               L RK+ E  +      Y+++I GL K+G   + F  + +M++ G    + TYN LI  
Sbjct:   248 MELLRKMEERNIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGG 307

Query:   290 YCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPN 349
             +CN G+  +G KL  +M  R+++ NVVT++ LI    KE +++EA++LL +M   GI+PN
Sbjct:   308 FCNAGRWDDGAKLLRDMIKRKISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQRGIAPN 367

Query:   350 VITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVR 409
              ITYN LIDGFC     ++A ++ + + S G  P ++T+N+LI  + KA       +L R
Sbjct:   368 TITYNSLIDGFCKENRLEEAIQMVDLMISKGCDPDIMTFNILINGYCKANRIDDGLELFR 427

Query:   410 EMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKG 469
             EM  RG+  + VTY  L+  F +S  +E A +++  M      PD+ +Y +L+ GLC  G
Sbjct:   428 EMSLRGVIANTVTYNTLVQGFCQSGKLEVAKKLFQEMVSRRVRPDIVSYKILLDGLCDNG 487

Query:   470 NMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYS 529
              +++A ++F  + ++K+E +  +Y ++I G C       A  L   +  KG+  +  +Y+
Sbjct:   488 ELEKALEIFGKIEKSKMELDIGIYMIIIHGMCNASKVDDAWDLFCSLPLKGVKLDARAYN 547

Query:   530 STIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRA 569
               I  LC+     +A++L  +M + G  P    YNIL RA
Sbjct:   548 IMISELCRKDSLSKADILFRKMTEEGHAPDELTYNILIRA 587

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2163041 AT5G41170 [Arabidopsis thaliana (taxid:3702)]

 Score = 635 (228.6 bits), Expect = 3.8e-62, P = 3.8e-62
 Identities = 128/388 (32%), Positives = 213/388 (54%)

Query:   172 ELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKM 231
             E D+ +F  LI G C    + +A  ++NQ+ EMG  P+VV+YT++ID  CKNG +  A  
Sbjct:   139 EPDIVTFTSLINGFCLGNRMEEAMSMVNQMVEMGIKPDVVMYTTIIDSLCKNGHVNYALS 198

Query:   232 LFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYC 291
             LF ++   G+      YT L+ GL  +G  +D       M    + P + T+N LI  + 
Sbjct:   199 LFDQMENYGIRPDVVMYTSLVNGLCNSGRWRDADSLLRGMTKRKIKPDVITFNALIDAFV 258

Query:   292 NEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVI 351
              EGK  +  +L++EM    +A N+ TY +LI G C E  V EA ++   M+  G  P+V+
Sbjct:   259 KEGKFLDAEELYNEMIRMSIAPNIFTYTSLINGFCMEGCVDEARQMFYLMETKGCFPDVV 318

Query:   352 TYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREM 411
              Y  LI+GFC   + D A ++F ++   G + + +TY  LI+ F + G   +A ++   M
Sbjct:   319 AYTSLINGFCKCKKVDDAMKIFYEMSQKGLTGNTITYTTLIQGFGQVGKPNVAQEVFSHM 378

Query:   412 EERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQK---SGFSPDVYTYGVLIHGLCMK 468
               RG+ P+  TY +L+     +  ++KA  ++  MQK    G +P+++TY VL+HGLC  
Sbjct:   379 VSRGVPPNIRTYNVLLHCLCYNGKVKKALMIFEDMQKREMDGVAPNIWTYNVLLHGLCYN 438

Query:   469 GNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASY 528
             G +++A  +F  M + +++   + Y ++I G CK G    A+ L   +  KG+ PN+ +Y
Sbjct:   439 GKLEKALMVFEDMRKREMDIGIITYTIIIQGMCKAGKVKNAVNLFCSLPSKGVKPNVVTY 498

Query:   529 SSTIGVLCQDGKWPEAEVLLNQMLKLGL 556
             ++ I  L ++G   EA VL  +M + G+
Sbjct:   499 TTMISGLFREGLKHEAHVLFRKMKEDGV 526

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 633 (227.9 bits), Expect = 6.2e-62, P = 6.2e-62
 Identities = 155/467 (33%), Positives = 245/467 (52%)

Query:   109 YESIIDAHLK-SRLSDQALFYFHQMLDSGVRPRSNTFNSLLI-FVIKSCSFDKGWLFFSE 166
             Y  +I+   + S+LS  AL    +M+  G  P   T NSLL  F   +   D   L    
Sbjct:   119 YSILINCFCRRSQLS-LALAVLAKMMKLGYEPDIVTLNSLLNGFCHGNRISDAVSLVGQM 177

Query:   167 NRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDI 226
                  + D ++F  LI G       ++A  +++++   G  P++V Y  +++G CK GDI
Sbjct:   178 VEMGYQPDSFTFNTLIHGLFRHNRASEAVALVDRMVVKGCQPDLVTYGIVVNGLCKRGDI 237

Query:   227 ERAKMLFRKI--GEL--GLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYT 282
             + A  L +K+  G++  G+V   +T    +C  +KN    D    + +M   G+ P++ T
Sbjct:   238 DLALSLLKKMEQGKIEPGVVI-YNTIIDALCN-YKN--VNDALNLFTEMDNKGIRPNVVT 293

Query:   283 YNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMK 342
             YN LI   CN G+ S+  +L  +M  R++  NVVT++ LI    KE ++ EAE+L D+M 
Sbjct:   294 YNSLIRCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMI 353

Query:   343 MAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSK 402
                I P++ TY+ LI+GFC     D+A  +F  + S    P+VVTYN LI+ F KA    
Sbjct:   354 KRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVD 413

Query:   403 MASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLI 462
                +L REM +RG+  + VTYT LI  F ++ + + A  ++  M   G  PD+ TY +L+
Sbjct:   414 EGMELFREMSQRGLVGNTVTYTTLIHGFFQARECDNAQIVFKQMVSDGVLPDIMTYSILL 473

Query:   463 HGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLV 522
              GLC  G ++ A  +F  +  +K+EP+   YN+MI G CK G       L   ++ KG+ 
Sbjct:   474 DGLCNNGKVETALVVFEYLQRSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVK 533

Query:   523 PNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRA 569
             PN+ +Y++ +   C+ G   EA+ L  +M + G  P    YN L RA
Sbjct:   534 PNVVTYTTMMSGFCRKGLKEEADALFREMKEEGPLPDSGTYNTLIRA 580

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 632 (227.5 bits), Expect = 7.9e-62, P = 7.9e-62
 Identities = 143/476 (30%), Positives = 243/476 (51%)

Query:    98 SSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSF 157
             S  N   + RL   ++D  +K+   D A+  F  M+ S   P    F+ L   + K+  +
Sbjct:    50 SDRNLSYRERLRSGLVD--IKA---DDAIDLFRDMIHSRPLPTVIDFSRLFSAIAKTKQY 104

Query:   158 DKGWLFFSENRCK-VELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSL 216
             D       +   K +  ++Y+  I+I   C    L  AF  + ++ ++G+ PN + +++L
Sbjct:   105 DLVLALCKQMELKGIAHNLYTLSIMINCFCRCRKLCLAFSAMGKIIKLGYEPNTITFSTL 164

Query:   217 IDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGV 276
             I+G C  G +  A  L  ++ E+G      T   L+ GL  +G + +     +KM   G 
Sbjct:   165 INGLCLEGRVSEALELVDRMVEMGHKPDLITINTLVNGLCLSGKEAEAMLLIDKMVEYGC 224

Query:   277 SPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAER 336
              P+  TY  +++  C  G+ +   +L  +M  R +  + V Y+ +I GLCK   +  A  
Sbjct:   225 QPNAVTYGPVLNVMCKSGQTALAMELLRKMEERNIKLDAVKYSIIIDGLCKHGSLDNAFN 284

Query:   337 LLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFS 396
             L ++M+M GI+ N+ITYN LI GFC+AG  D   +L   +     +P+VVT++VLI +F 
Sbjct:   285 LFNEMEMKGITTNIITYNILIGGFCNAGRWDDGAKLLRDMIKRKINPNVVTFSVLIDSFV 344

Query:   397 KAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVY 456
             K G  + A +L +EM  RGI P  +TYT LID F + + ++KA +M  LM   G  P++ 
Sbjct:   345 KEGKLREAEELHKEMIHRGIAPDTITYTSLIDGFCKENHLDKANQMVDLMVSKGCDPNIR 404

Query:   457 TYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEM 516
             T+ +LI+G C    + +  +LF  M    +  + V YN +I G+C+ G    A  L  EM
Sbjct:   405 TFNILINGYCKANRIDDGLELFRKMSLRGVVADTVTYNTLIQGFCELGKLNVAKELFQEM 464

Query:   517 NEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRAKNN 572
               + + PNI +Y   +  LC +G+  +A  +  ++ K  ++  + +YNI+     N
Sbjct:   465 VSRKVPPNIVTYKILLDGLCDNGESEKALEIFEKIEKSKMELDIGIYNIIIHGMCN 520

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)
Q9T0D6	PP306_ARATH	No assigned EC number	0.5721	0.9616	0.9752	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	574
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-41
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-34
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-24
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-21
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	4e-20
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-19
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-19
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-18
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-18
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-18
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-17
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-14
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-13
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-13
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-12
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	8e-12
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-11
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-10
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-09
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-09
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-08
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-08
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-08
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	8e-08
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	9e-08
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-07
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	8e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	4e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-06
pfam01535	31	pfam01535, PPR, PPR repeat	5e-06
pfam01535	31	pfam01535, PPR, PPR repeat	6e-06
pfam01535	31	pfam01535, PPR, PPR repeat	6e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-05
pfam01535	31	pfam01535, PPR, PPR repeat	1e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-05
pfam01535	31	pfam01535, PPR, PPR repeat	4e-05
pfam01535	31	pfam01535, PPR, PPR repeat	6e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	9e-05
pfam01535	31	pfam01535, PPR, PPR repeat	1e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	2e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	5e-04
pfam01535	31	pfam01535, PPR, PPR repeat	8e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.001
pfam01535	31	pfam01535, PPR, PPR repeat	0.001
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.003

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

 Score =  159 bits (404), Expect = 3e-41
 Identities = 101/393 (25%), Positives = 180/393 (45%), Gaps = 45/393 (11%)

Query: 177 SFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKI 236
           +F +L+  C  + D++ A  VL  ++E G   +  +YT+LI  C K+G ++         
Sbjct: 439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAM------- 491

Query: 237 GELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKV 296
                                       FE + +M   GV  +++T+  LI      G+V
Sbjct: 492 ----------------------------FEVFHEMVNAGVEANVHTFGALIDGCARAGQV 523

Query: 297 SEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAG--ISPNVITYN 354
           ++ F  +  MR + V  + V +N LI    +   V  A  +L +MK     I P+ IT  
Sbjct: 524 AKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVG 583

Query: 355 KLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEER 414
            L+    +AG+ D+A  ++  +       +   Y + + + S+ G+   A  +  +M+++
Sbjct: 584 ALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKK 643

Query: 415 GITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEA 474
           G+ P EV ++ L+D    + D++KAFE+    +K G      +Y  L+       N K+A
Sbjct: 644 GVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKA 703

Query: 475 SKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSY-RALRLLGEMNEKGLVPNIASYSSTIG 533
            +L+  +   KL P     N +I   C EGN   +AL +L EM   GL PN  +YS  + 
Sbjct: 704 LELYEDIKSIKLRPTVSTMNALITALC-EGNQLPKALEVLSEMKRLGLCPNTITYSILL- 761

Query: 534 VLCQDGKWPEAEV---LLNQMLKLGLKPSVSLY 563
           V  +  +  +A+V   LL+Q  + G+KP++ + 
Sbjct: 762 VASE--RKDDADVGLDLLSQAKEDGIKPNLVMC 792

Length = 1060

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

 Score =  140 bits (353), Expect = 1e-34
 Identities = 82/325 (25%), Positives = 161/325 (49%), Gaps = 5/325 (1%)

Query: 107 RLYESIIDAHLKSRLSDQALF-YFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFS 165
           +LY ++I    KS   D A+F  FH+M+++GV    +TF +L+    ++    K +  + 
Sbjct: 473 KLYTTLISTCAKSGKVD-AMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYG 531

Query: 166 ENRCK-VELDVYSFGILIKGCCEAGDLNKAFEVLNQL--EEMGFSPNVVIYTSLIDGCCK 222
             R K V+ D   F  LI  C ++G +++AF+VL ++  E     P+ +   +L+  C  
Sbjct: 532 IMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACAN 591

Query: 223 NGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYT 282
            G ++RAK +++ I E  +  T   YT+ +    + G        Y+ M+  GV P    
Sbjct: 592 AGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVF 651

Query: 283 YNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMK 342
           ++ L+    + G + + F++  + R + +    V+Y++L+         ++A  L + +K
Sbjct: 652 FSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIK 711

Query: 343 MAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSK 402
              + P V T N LI   C+  +  KA  + +++K  G  P+ +TY++L+ A  +  ++ 
Sbjct: 712 SIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDAD 771

Query: 403 MASDLVREMEERGITPSEVTYTILI 427
           +  DL+ + +E GI P+ V    + 
Sbjct: 772 VGLDLLSQAKEDGIKPNLVMCRCIT 796

Length = 1060

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

 Score =  108 bits (270), Expect = 2e-24
 Identities = 94/391 (24%), Positives = 166/391 (42%), Gaps = 15/391 (3%)

Query: 162 LFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCC 221
           LFF+     V+ D+ +   +I  C   GD     E+   + + GF+ +V +  SLI    
Sbjct: 275 LFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYL 334

Query: 222 KNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLY 281
             G    A+ +F ++     V    ++T +I G  KNGL     E Y  M+ + VSP   
Sbjct: 335 SLGSWGEAEKVFSRMETKDAV----SWTAMISGYEKNGLPDKALETYALMEQDNVSPDEI 390

Query: 282 TYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQM 341
           T   ++      G +  G KL +    + +   VV  N LI    K   + +A  +   +
Sbjct: 391 TIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNI 450

Query: 342 KMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNS 401
                  +VI++  +I G        +A   F Q+    + P+ VT    + A ++ G  
Sbjct: 451 P----EKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLK-PNSVTLIAALSACARIGAL 505

Query: 402 KMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVL 461
               ++   +   GI         L+D +VR   M  A+  ++  +K     DV ++ +L
Sbjct: 506 MCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEK-----DVVSWNIL 560

Query: 462 IHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEK-G 520
           + G    G    A +LFN M E+ + P++V +  ++    + G   + L     M EK  
Sbjct: 561 LTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYS 620

Query: 521 LVPNIASYSSTIGVLCQDGKWPEAEVLLNQM 551
           + PN+  Y+  + +L + GK  EA   +N+M
Sbjct: 621 ITPNLKHYACVVDLLGRAGKLTEAYNFINKM 651

Length = 857

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

 Score = 98.8 bits (246), Expect = 2e-21
 Identities = 89/394 (22%), Positives = 145/394 (36%), Gaps = 86/394 (21%)

Query: 216 LIDGCCKN-----GDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEK 270
           L DG  K+      D+E+        G L +    H      C   K    K+ F F  K
Sbjct: 381 LRDGRIKDCIDLLEDMEKR-------GLLDMDKIYHAKFFKACK--KQRAVKEAFRF-AK 430

Query: 271 MQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMR 330
           +  N   P+L T+N L+    +   +    ++   ++   +  +   Y TLI    K  +
Sbjct: 431 LIRN---PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGK 487

Query: 331 VQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNV 390
           V     +  +M  AG+  NV T+  LIDG   AG+  KAF  +  ++S    P  V +N 
Sbjct: 488 VDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNA 547

Query: 391 LIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSG 450
           LI A  ++G    A D++ EM+     P        ID                      
Sbjct: 548 LISACGQSGAVDRAFDVLAEMKAET-HP--------ID---------------------- 576

Query: 451 FSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRAL 510
             PD  T G L+      G +  A +++  + E  ++    VY + +    ++G+   AL
Sbjct: 577 --PDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFAL 634

Query: 511 RLLGEMNEKGLVPN-----------------------------------IASYSSTIGVL 535
            +  +M +KG+ P+                                     SYSS +G  
Sbjct: 635 SIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGAC 694

Query: 536 CQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRA 569
                W +A  L   +  + L+P+VS  N L  A
Sbjct: 695 SNAKNWKKALELYEDIKSIKLRPTVSTMNALITA 728

Length = 1060

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

 Score = 94.1 bits (234), Expect = 4e-20
 Identities = 103/471 (21%), Positives = 185/471 (39%), Gaps = 77/471 (16%)

Query: 118 KSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYS 177
           K+   D+AL  +H+ML +GVRP                                  DVY+
Sbjct: 164 KAGYFDEALCLYHRMLWAGVRP----------------------------------DVYT 189

Query: 178 FGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIG 237
           F  +++ C    DL +  EV   +   GF  +V +  +LI    K GD+  A+++F ++ 
Sbjct: 190 FPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMP 249

Query: 238 ELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVS 297
               +    ++  +I G F+NG   +G E +  M+   V P L T   +I      G   
Sbjct: 250 RRDCI----SWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDER 305

Query: 298 EGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLI 357
            G ++   +     A +V   N+LI          EAE++  +M+    + + +++  +I
Sbjct: 306 LGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMI 361

Query: 358 DGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGIT 417
            G+   G  DKA   +  ++ +  SP  +T   ++ A +  G+  +   L    E +G+ 
Sbjct: 362 SGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLI 421

Query: 418 PSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKL 477
              V    LI+ + +   ++KA E++  + +     DV ++  +I GL +     EA   
Sbjct: 422 SYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIF 477

Query: 478 FNSMWETKLEPNDVVYNMMI-----FGYCKEGNSYRALRLLGEMNEKGLVPN-------- 524
           F  M    L+PN V     +      G    G    A  L   +   G +PN        
Sbjct: 478 FRQM-LLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVR 536

Query: 525 -----------------IASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKP 558
                            + S++  +      GK   A  L N+M++ G+ P
Sbjct: 537 CGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNP 587

Length = 857

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

 Score = 92.6 bits (230), Expect = 1e-19
 Identities = 105/465 (22%), Positives = 176/465 (37%), Gaps = 106/465 (22%)

Query: 182 IKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGC--------------------- 220
           ++  C  G L +A ++L  ++E+    +   Y +L   C                     
Sbjct: 58  LRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHP 117

Query: 221 --------------CKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFE 266
                          + G++  A  +F K+ E  L     ++ VL+ G  K G   +   
Sbjct: 118 SLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLF----SWNVLVGGYAKAGYFDEALC 173

Query: 267 FYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTY-------- 318
            Y +M   GV P +YT+ C++   C          + D  R REV  +VV +        
Sbjct: 174 LYHRMLWAGVRPDVYTFPCVLRT-CG--------GIPDLARGREVHAHVVRFGFELDVDV 224

Query: 319 -NTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLK 377
            N LI    K   V  A  + D+M       + I++N +I G+ + GE  +   LF  ++
Sbjct: 225 VNALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTMR 280

Query: 378 SNGQSPSVVT-----------------------------------YNVLIRAFSKAGNSK 402
                P ++T                                    N LI+ +   G+  
Sbjct: 281 ELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWG 340

Query: 403 MASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLI 462
            A  +   ME +      V++T +I  + ++   +KA E Y+LM++   SPD  T   ++
Sbjct: 341 EAEKVFSRMETKDA----VSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVL 396

Query: 463 HGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLV 522
                 G++    KL        L    VV N +I  Y K     +AL +   + EK   
Sbjct: 397 SACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK--- 453

Query: 523 PNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKP-SVSLYNIL 566
            ++ S++S I  L  + +  EA +   QML L LKP SV+L   L
Sbjct: 454 -DVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAAL 496

Length = 857

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

 Score = 80.9 bits (201), Expect = 3e-19
 Identities = 29/49 (59%), Positives = 37/49 (75%)

Query: 314 NVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCD 362
           +VVTYNTLI G CK+ +V+EA +L ++MK  GI PNV TY+ LIDG C 
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 = 78.6 bits (195), Expect = 2e-18
 Identities = 24/50 (48%), Positives = 36/50 (72%)

Query: 348 PNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSK 397
           P+V+TYN LIDG+C  G+ ++A +LFN++K  G  P+V TY++LI    K
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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 89.2 bits (221), Expect = 2e-18
 Identities = 65/294 (22%), Positives = 123/294 (41%), Gaps = 51/294 (17%)

Query: 268 YEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCK 327
           Y  ++ +G  P  Y  N ++  +   G + +  +LFDEM  R    N+ ++ T+I GL  
Sbjct: 146 YWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPER----NLASWGTIIGGLVD 201

Query: 328 EMRVQEAERLLDQM-----------------------------------KMAGISPNVIT 352
               +EA  L  +M                                      G+  +   
Sbjct: 202 AGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFV 261

Query: 353 YNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREME 412
              LID +   G+ + A  +F+ +       + V +N ++  ++  G S+ A  L  EM 
Sbjct: 262 SCALIDMYSKCGDIEDARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMR 317

Query: 413 ERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMK 472
           + G++  + T++I+I  F R   +E A + ++ + ++GF  D+     L+      G M+
Sbjct: 318 DSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRME 377

Query: 473 EASKLFNSMWETKLEP--NDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPN 524
           +A  +F+ M      P  N + +N +I GY   G   +A+ +   M  +G+ PN
Sbjct: 378 DARNVFDRM------PRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPN 425

Length = 697

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

 Score = 76.7 bits (190), Expect = 8e-18
 Identities = 28/50 (56%), Positives = 34/50 (68%)

Query: 278 PSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCK 327
           P + TYN LI  YC +GKV E  KLF+EM+ R +  NV TY+ LI GLCK
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 = 74.0 bits (183), Expect = 7e-17
 Identities = 22/49 (44%), Positives = 33/49 (67%)

Query: 418 PSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLC 466
           P  VTY  LID + +   +E+A ++++ M+K G  P+VYTY +LI GLC
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 72.1 bits (178), Expect = 4e-16
 Identities = 24/50 (48%), Positives = 31/50 (62%)

Query: 383 PSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVR 432
           P VVTYN LI  + K G  + A  L  EM++RGI P+  TY+ILID   +
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 = 66.3 bits (163), Expect = 4e-14
 Identities = 25/50 (50%), Positives = 33/50 (66%)

Query: 453 PDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCK 502
           PDV TY  LI G C KG ++EA KLFN M +  ++PN   Y+++I G CK
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 = 65.9 bits (162), Expect = 5e-14
 Identities = 20/49 (40%), Positives = 32/49 (65%)

Query: 174 DVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCK 222
           DV ++  LI G C+ G + +A ++ N++++ G  PNV  Y+ LIDG CK
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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 73.7 bits (181), Expect = 1e-13
 Identities = 86/354 (24%), Positives = 153/354 (43%), Gaps = 47/354 (13%)

Query: 185 CCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVAT 244
           C   GDL+   ++    E  G    VV+  +LI+   K   I++A  +F  I E  ++  
Sbjct: 399 CACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVI-- 456

Query: 245 QHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFD 304
             ++T +I GL  N    +   F+ +M L  + P+  T    +      G +  G     
Sbjct: 457 --SWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCG----- 508

Query: 305 EMRHREVACNVVTYNTLICGLCKEMRVQEAERLLD------QMKMAGISPN-----VITY 353
               +E+  +V     L  G+  +  +  A  LLD      +M  A    N     V+++
Sbjct: 509 ----KEIHAHV-----LRTGIGFDGFLPNA--LLDLYVRCGRMNYAWNQFNSHEKDVVSW 557

Query: 354 NKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEE 413
           N L+ G+   G+   A  LFN++  +G +P  VT+  L+ A S++G      +    MEE
Sbjct: 558 NILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEE 617

Query: 414 R-GITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMK 472
           +  ITP+   Y  ++D   R+  + +A   Y+ + K   +PD   +G L++   +  +++
Sbjct: 618 KYSITPNLKHYACVVDLLGRAGKLTEA---YNFINKMPITPDPAVWGALLNACRIHRHVE 674

Query: 473 ----EASKLFNSMWETKLEPNDVVYNMMIFG-YCKEGNSYRALRLLGEMNEKGL 521
                A  +F      +L+PN V Y +++   Y   G      R+   M E GL
Sbjct: 675 LGELAAQHIF------ELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGL 722

Length = 857

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

 Score = 73.0 bits (179), Expect = 2e-13
 Identities = 94/469 (20%), Positives = 186/469 (39%), Gaps = 50/469 (10%)

Query: 106 SRLYESIIDA--HLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLF 163
           +  Y+++++A   LKS    +A+++   +  SG  P     N +L+  +K          
Sbjct: 123 ASTYDALVEACIALKSIRCVKAVYWH--VESSGFEPDQYMMNRVLLMHVKCGMLIDARRL 180

Query: 164 FSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKN 223
           F E     E ++ S+G +I G  +AG+  +AF +  ++ E G       +  ++      
Sbjct: 181 FDE---MPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGL 237

Query: 224 GDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTY 283
           G     + L   + + G+V        LI    K G  +D    ++ M       +   +
Sbjct: 238 GSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAW 293

Query: 284 NCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKM 343
           N ++  Y   G   E   L+ EMR   V+ +  T++ +I       R+     LL+  K 
Sbjct: 294 NSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMI-------RIFSRLALLEHAKQ 346

Query: 344 A-------GISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFS 396
           A       G   +++    L+D +   G  + A  +F+++       +++++N LI  + 
Sbjct: 347 AHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYG 402

Query: 397 KAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLM-QKSGFSPDV 455
             G    A ++   M   G+ P+ VT+  ++ +   S   E+ +E++  M +     P  
Sbjct: 403 NHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRA 462

Query: 456 YTYGVLIHGLCMKGNMKEASKLFN--------SMWETKLEPNDVVYNMMIFGYCKEGNSY 507
             Y  +I  L  +G + EA  +          +MW   L    +  N+       E    
Sbjct: 463 MHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNL-------ELGRL 515

Query: 508 RALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGL 556
            A +L G   EK     + +Y   + +    G+  EA  ++  + + GL
Sbjct: 516 AAEKLYGMGPEK-----LNNYVVLLNLYNSSGRQAEAAKVVETLKRKGL 559

Length = 697

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

 Score = 62.4 bits (153), Expect = 8e-13
 Identities = 23/50 (46%), Positives = 33/50 (66%)

Query: 208 PNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFK 257
           P+VV Y +LIDG CK G +E A  LF ++ + G+    +TY++LI GL K
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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 69.9 bits (171), Expect = 2e-12
 Identities = 82/355 (23%), Positives = 141/355 (39%), Gaps = 56/355 (15%)

Query: 214 TSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLI--CGLFKNGLQKDGFEFYEKM 271
            S +   C +G +E+A  L   + EL +   +  Y  L   C  +K    ++G     + 
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCE-WKRA-VEEGSRVCSRA 112

Query: 272 QLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRV 331
             +  S  +   N ++  +   G++   + +F +M  R    ++ ++N L+ G  K    
Sbjct: 113 LSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPER----DLFSWNVLVGGYAKAGYF 168

Query: 332 QEAERLLDQMKMAGISPNVITY-----------------------------------NKL 356
            EA  L  +M  AG+ P+V T+                                   N L
Sbjct: 169 DEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNAL 228

Query: 357 IDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGI 416
           I  +   G+   A  +F+++         +++N +I  + + G      +L   M E  +
Sbjct: 229 ITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTMRELSV 284

Query: 417 TPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASK 476
            P  +T T +I +     D     EM+  + K+GF+ DV     LI      G+  EA K
Sbjct: 285 DPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEK 344

Query: 477 LFNSMWETKLEPNDVV-YNMMIFGYCKEGNSYRALRLLGEMNEKGLVPN---IAS 527
           +F+ M ETK    D V +  MI GY K G   +AL     M +  + P+   IAS
Sbjct: 345 VFSRM-ETK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIAS 394

Length = 857

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

 Score = 60.1 bits (147), Expect = 7e-12
 Identities = 23/50 (46%), Positives = 33/50 (66%)

Query: 488 PNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQ 537
           P+ V YN +I GYCK+G    AL+L  EM ++G+ PN+ +YS  I  LC+
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 67.6 bits (165), Expect = 8e-12
 Identities = 55/251 (21%), Positives = 106/251 (42%), Gaps = 13/251 (5%)

Query: 293 EGKVSEGFKLFDEMRHR-EVACNVVTYNTLI--CGLCKEMRVQEAERLLDQMKMAGISPN 349
            G+  E  +LF+ +           TY+ L+  C   K +R    + +   ++ +G  P+
Sbjct: 100 CGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRC--VKAVYWHVESSGFEPD 157

Query: 350 VITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVR 409
               N+++      G    A RLF+++       ++ ++  +I     AGN + A  L R
Sbjct: 158 QYMMNRVLLMHVKCGMLIDARRLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFR 213

Query: 410 EMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKG 469
           EM E G      T+ +++ +           +++  + K+G   D +    LI      G
Sbjct: 214 EMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCG 273

Query: 470 NMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYS 529
           ++++A  +F+ M E       V +N M+ GY   G S  AL L  EM + G+  +  ++S
Sbjct: 274 DIEDARCVFDGMPEKTT----VAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFS 329

Query: 530 STIGVLCQDGK 540
             I +  +   
Sbjct: 330 IMIRIFSRLAL 340

Length = 697

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

 Score = 56.6 bits (138), Expect = 7e-11
 Identities = 19/29 (65%), Positives = 23/29 (79%)

Query: 314 NVVTYNTLICGLCKEMRVQEAERLLDQMK 342
           +VVTYNTLI GLC+  RV EA  LLD+M+
Sbjct: 6   DVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 55.0 bits (134), Expect = 3e-10
 Identities = 16/31 (51%), Positives = 22/31 (70%)

Query: 345 GISPNVITYNKLIDGFCDAGETDKAFRLFNQ 375
           G+ P+V+TYN LIDG C AG  D+A  L ++
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDE 32

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

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

 Score = 53.1 bits (129), Expect = 1e-09
 Identities = 15/34 (44%), Positives = 19/34 (55%)

Query: 274 NGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMR 307
            G+ P + TYN LI   C  G+V E  +L DEM 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 53.1 bits (129), Expect = 1e-09
 Identities = 16/33 (48%), Positives = 19/33 (57%)

Query: 449 SGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSM 481
            G  PDV TY  LI GLC  G + EA +L + M
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 57.2 bits (138), Expect = 2e-08
 Identities = 61/294 (20%), Positives = 114/294 (38%), Gaps = 82/294 (27%)

Query: 124 QALFYFHQMLDSGVRPRSNTF-----------------------------------NSLL 148
           +AL +F QML + ++P S T                                    N+LL
Sbjct: 473 EALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALL 531

Query: 149 IFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSP 208
              ++    +  W  F+ +    E DV S+ IL+ G    G  + A E+ N++ E G +P
Sbjct: 532 DLYVRCGRMNYAWNQFNSH----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNP 587

Query: 209 NVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFY 268
           + V                                   T+  L+C   ++G+   G E++
Sbjct: 588 DEV-----------------------------------TFISLLCACSRSGMVTQGLEYF 612

Query: 269 EKMQLN-GVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCK 327
             M+    ++P+L  Y C++      GK++E +   ++M    +  +   +  L+   C+
Sbjct: 613 HSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM---PITPDPAVWGALLNA-CR 668

Query: 328 EMRVQEAERLLDQMKMAGISPNVITYNKLI-DGFCDAGETDKAFRLFNQLKSNG 380
             R  E   L  Q  +  + PN + Y  L+ + + DAG+ D+  R+   ++ NG
Sbjct: 669 IHRHVELGELAAQ-HIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENG 721

Length = 857

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

 Score = 49.8 bits (120), Expect = 2e-08
 Identities = 22/35 (62%), Positives = 25/35 (71%)

Query: 316 VTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNV 350
           VTYNTLI GLCK  RV+EA  L  +MK  GI P+V
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 56.4 bits (136), Expect = 3e-08
 Identities = 59/244 (24%), Positives = 97/244 (39%), Gaps = 32/244 (13%)

Query: 145 NSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEM 204
           N+L+    K    DK    F       E DV S+  +I G       N+ FE L    +M
Sbjct: 428 NALIEMYSKCKCIDKALEVF---HNIPEKDVISWTSIIAGLRLN---NRCFEALIFFRQM 481

Query: 205 GFS--PNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGL-FKNGLQ 261
             +  PN V   + +  C + G    A M  ++I         H + VL  G+ F   L 
Sbjct: 482 LLTLKPNSVTLIAALSACARIG----ALMCGKEI---------HAH-VLRTGIGFDGFLP 527

Query: 262 KDGFEFYEKM--------QLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVAC 313
               + Y +         Q N     + ++N L+  Y   GK S   +LF+ M    V  
Sbjct: 528 NALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNP 587

Query: 314 NVVTYNTLICGLCKEMRVQEAERLLDQMKMA-GISPNVITYNKLIDGFCDAGETDKAFRL 372
           + VT+ +L+C   +   V +       M+    I+PN+  Y  ++D    AG+  +A+  
Sbjct: 588 DEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNF 647

Query: 373 FNQL 376
            N++
Sbjct: 648 INKM 651

Length = 857

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

 Score = 49.3 bits (119), Expect = 3e-08
 Identities = 13/32 (40%), Positives = 19/32 (59%)

Query: 204 MGFSPNVVIYTSLIDGCCKNGDIERAKMLFRK 235
            G  P+VV Y +LIDG C+ G ++ A  L  +
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDE 32

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

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

 Score = 47.9 bits (115), Expect = 8e-08
 Identities = 13/34 (38%), Positives = 22/34 (64%)

Query: 385 VVTYNVLIRAFSKAGNSKMASDLVREMEERGITP 418
           + TYN L+ A +KAG+  +A  ++ EM+  G+ P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 47.8 bits (115), Expect = 9e-08
 Identities = 14/35 (40%), Positives = 22/35 (62%)

Query: 421 VTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDV 455
           VTY  LID   ++  +E+A E++  M++ G  PDV
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 54.9 bits (132), Expect = 1e-07
 Identities = 51/249 (20%), Positives = 98/249 (39%), Gaps = 43/249 (17%)

Query: 319 NTLICGLCKEMRVQEAERLLDQMKMAGISPNVITY------------------------- 353
           N+ +  LC   ++++A +LL+ M+   +  +   Y                         
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS 114

Query: 354 ----------NKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKM 403
                     N ++  F   GE   A+ +F ++        + ++NVL+  ++KAG    
Sbjct: 115 SHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPER----DLFSWNVLVGGYAKAGYFDE 170

Query: 404 ASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIH 463
           A  L   M   G+ P   T+  ++ +     D+ +  E+++ + + GF  DV     LI 
Sbjct: 171 ALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALIT 230

Query: 464 GLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVP 523
                G++  A  +F+ M         + +N MI GY + G     L L   M E  + P
Sbjct: 231 MYVKCGDVVSARLVFDRMPRRDC----ISWNAMISGYFENGECLEGLELFFTMRELSVDP 286

Query: 524 NIASYSSTI 532
           ++ + +S I
Sbjct: 287 DLMTITSVI 295

Length = 857

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

 Score = 53.7 bits (129), Expect = 2e-07
 Identities = 36/145 (24%), Positives = 68/145 (46%), Gaps = 25/145 (17%)

Query: 123 DQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFS--ENRCKVELDVYSFGI 180
             A+  F++M++SGV P   TF SLL    +S    +G  +F   E +  +  ++  +  
Sbjct: 571 SMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYAC 630

Query: 181 LIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELG 240
           ++     AG L +A+  +N   +M  +P+  ++ +L++ C           + R + ELG
Sbjct: 631 VVDLLGRAGKLTEAYNFIN---KMPITPDPAVWGALLNAC----------RIHRHV-ELG 676

Query: 241 LVATQHT---------YTVLICGLF 256
            +A QH          Y +L+C L+
Sbjct: 677 ELAAQHIFELDPNSVGYYILLCNLY 701

Length = 857

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

 Score = 47.4 bits (114), Expect = 2e-07
 Identities = 19/44 (43%), Positives = 29/44 (65%)

Query: 523 PNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNIL 566
           P++ +Y++ I   C+ GK  EA  L N+M K G+KP+V  Y+IL
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSIL 44

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|205109 pfam12854, PPR_1, PPR repeat

 Score = 45.0 bits (108), Expect = 8e-07
 Identities = 14/31 (45%), Positives = 19/31 (61%)

Query: 486 LEPNDVVYNMMIFGYCKEGNSYRALRLLGEM 516
           L+P+ V YN +I G C+ G    A+ LL EM
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 43.5 bits (104), Expect = 3e-06
 Identities = 16/34 (47%), Positives = 19/34 (55%)

Query: 379 NGQSPSVVTYNVLIRAFSKAGNSKMASDLVREME 412
            G  P VVTYN LI    +AG    A +L+ EME
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 43.6 bits (104), Expect = 3e-06
 Identities = 12/35 (34%), Positives = 22/35 (62%)

Query: 176 YSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNV 210
            ++  LI G C+AG + +A E+  +++E G  P+V
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 43.6 bits (104), Expect = 3e-06
 Identities = 18/35 (51%), Positives = 22/35 (62%)

Query: 386 VTYNVLIRAFSKAGNSKMASDLVREMEERGITPSE 420
           VTYN LI    KAG  + A +L +EM+ERGI P  
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 43.1 bits (103), Expect = 4e-06
 Identities = 12/32 (37%), Positives = 23/32 (71%)

Query: 171 VELDVYSFGILIKGCCEAGDLNKAFEVLNQLE 202
           ++ DV ++  LI G C AG +++A E+L+++E
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 43.2 bits (103), Expect = 5e-06
 Identities = 17/35 (48%), Positives = 22/35 (62%)

Query: 351 ITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSV 385
           +TYN LIDG C AG  ++A  LF ++K  G  P V
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 42.8 bits (102), Expect = 5e-06
 Identities = 15/35 (42%), Positives = 20/35 (57%)

Query: 281 YTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNV 315
            TYN LI   C  G+V E  +LF EM+ R +  +V
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 42.8 bits (102), Expect = 5e-06
 Identities = 15/31 (48%), Positives = 21/31 (67%)

Query: 316 VTYNTLICGLCKEMRVQEAERLLDQMKMAGI 346
           VTYN+LI G CK  +++EA  L  +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|144943 pfam01535, PPR, PPR repeat

 Score = 42.8 bits (102), Expect = 6e-06
 Identities = 10/31 (32%), Positives = 19/31 (61%)

Query: 421 VTYTILIDSFVRSDDMEKAFEMYSLMQKSGF 451
           VTY  LI  + ++  +E+A E++  M++ 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|144943 pfam01535, PPR, PPR repeat

 Score = 42.8 bits (102), Expect = 6e-06
 Identities = 15/31 (48%), Positives = 22/31 (70%)

Query: 386 VTYNVLIRAFSKAGNSKMASDLVREMEERGI 416
           VTYN LI  + KAG  + A +L +EM+E+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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 42.1 bits (100), Expect = 1e-05
 Identities = 16/35 (45%), Positives = 21/35 (60%)

Query: 456 YTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPND 490
            TY  LI GLC  G ++EA +LF  M E  +EP+ 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 41.7 bits (99), Expect = 1e-05
 Identities = 15/31 (48%), Positives = 20/31 (64%)

Query: 211 VIYTSLIDGCCKNGDIERAKMLFRKIGELGL 241
           V Y SLI G CK G +E A  LF+++ E 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 40.8 bits (97), Expect = 3e-05
 Identities = 12/34 (35%), Positives = 20/34 (58%)

Query: 414 RGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQ 447
           +G+ P  VTY  LID   R+  +++A E+   M+
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 40.9 bits (97), Expect = 3e-05
 Identities = 16/35 (45%), Positives = 21/35 (60%)

Query: 491 VVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNI 525
           V YN +I G CK G    AL L  EM E+G+ P++
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 40.5 bits (96), Expect = 4e-05
 Identities = 17/31 (54%), Positives = 19/31 (61%)

Query: 491 VVYNMMIFGYCKEGNSYRALRLLGEMNEKGL 521
           V YN +I GYCK G    AL L  EM EKG+
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|144943 pfam01535, PPR, PPR repeat

 Score = 39.7 bits (94), Expect = 6e-05
 Identities = 15/31 (48%), Positives = 19/31 (61%)

Query: 281 YTYNCLIHEYCNEGKVSEGFKLFDEMRHREV 311
            TYN LI  YC  GK+ E  +LF EM+ + V
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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 39.4 bits (93), Expect = 9e-05
 Identities = 15/32 (46%), Positives = 21/32 (65%)

Query: 211 VIYTSLIDGCCKNGDIERAKMLFRKIGELGLV 242
           V Y +LIDG CK G +E A  LF+++ E G+ 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIE 32

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

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

 Score = 39.0 bits (92), Expect = 1e-04
 Identities = 14/30 (46%), Positives = 21/30 (70%)

Query: 351 ITYNKLIDGFCDAGETDKAFRLFNQLKSNG 380
           +TYN LI G+C AG+ ++A  LF ++K  G
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKG 30

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

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

 Score = 38.1 bits (90), Expect = 2e-04
 Identities = 14/33 (42%), Positives = 23/33 (69%)

Query: 519 KGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQM 551
           KGL P++ +Y++ I  LC+ G+  EA  LL++M
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 38.3 bits (90), Expect = 2e-04
 Identities = 9/34 (26%), Positives = 16/34 (47%)

Query: 420 EVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSP 453
             TY  L+ +  ++ D + A  +   M+ SG  P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 37.5 bits (88), Expect = 5e-04
 Identities = 11/34 (32%), Positives = 19/34 (55%)

Query: 350 VITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSP 383
           + TYN L+     AG+ D A  +  ++K++G  P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 36.7 bits (86), Expect = 8e-04
 Identities = 13/28 (46%), Positives = 16/28 (57%)

Query: 456 YTYGVLIHGLCMKGNMKEASKLFNSMWE 483
            TY  LI G C  G ++EA +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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 36.6 bits (86), Expect = 0.001
 Identities = 12/40 (30%), Positives = 24/40 (60%)

Query: 109 YESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLL 148
           Y ++ID + K    ++AL  F++M   G++P   T++ L+
Sbjct: 6   YNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILI 45

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

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

 Score = 36.3 bits (85), Expect = 0.001
 Identities = 11/31 (35%), Positives = 19/31 (61%)

Query: 176 YSFGILIKGCCEAGDLNKAFEVLNQLEEMGF 206
            ++  LI G C+AG L +A E+  +++E 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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 35.2 bits (82), Expect = 0.003
 Identities = 10/33 (30%), Positives = 17/33 (51%)

Query: 107 RLYESIIDAHLKSRLSDQALFYFHQMLDSGVRP 139
             Y +++ A  K+   D AL    +M  SG++P
Sbjct: 2   ETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	574
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	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	99.96
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.96
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.94
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.93
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.93
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.92
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.92
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.91
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.91
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.9
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.9
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.9
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.89
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.89
PRK14574	822	hmsH outer membrane protein; Provisional	99.88
PRK14574	822	hmsH outer membrane protein; Provisional	99.87
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.81
KOG2003	840	consensus TPR repeat-containing protein [General f	99.81
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.77
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.77
KOG2003	840	consensus TPR repeat-containing protein [General f	99.76
KOG2076	895	consensus RNA polymerase III transcription factor	99.76
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.75
KOG2076	895	consensus RNA polymerase III transcription factor	99.75
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.73
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.72
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.69
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.68
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.66
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.66
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.66
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.65
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.65
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.64
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.64
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.62
KOG1126	638	consensus DNA-binding cell division cycle control	99.61
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.61
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.59
KOG1126	638	consensus DNA-binding cell division cycle control	99.59
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.57
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.57
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.56
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.56
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.55
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.53
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.52
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.51
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.48
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.48
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.47
PRK12370	553	invasion protein regulator; Provisional	99.47
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.45
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.44
PRK12370	553	invasion protein regulator; Provisional	99.43
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.43
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.42
KOG1129	478	consensus TPR repeat-containing protein [General f	99.41
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.4
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.38
KOG1129	478	consensus TPR repeat-containing protein [General f	99.33
PF13041	50	PPR_2: PPR repeat family	99.32
PF13041	50	PPR_2: PPR repeat family	99.32
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.31
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.3
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.29
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.28
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.27
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.24
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.24
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.24
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.23
PRK11189	296	lipoprotein NlpI; Provisional	99.23
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.22
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.2
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.2
PRK11189	296	lipoprotein NlpI; Provisional	99.19
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.17
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.17
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.15
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.14
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.13
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	99.13
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.13
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.1
PRK04841	903	transcriptional regulator MalT; Provisional	99.05
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.04
PRK04841	903	transcriptional regulator MalT; Provisional	99.02
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.0
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.95
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.94
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.94
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.92
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.91
PLN02789	320	farnesyltranstransferase	98.9
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.86
PLN02789	320	farnesyltranstransferase	98.86
KOG1125	579	consensus TPR repeat-containing protein [General f	98.84
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.82
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.81
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.81
KOG1125	579	consensus TPR repeat-containing protein [General f	98.79
PF12854	34	PPR_1: PPR repeat	98.75
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.75
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.74
PF12854	34	PPR_1: PPR repeat	98.72
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.7
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.67
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.66
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.65
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.64
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.62
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.61
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.6
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.56
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.56
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.55
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.5
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.49
PRK15359	144	type III secretion system chaperone protein SscB;	98.49
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.48
PRK15359	144	type III secretion system chaperone protein SscB;	98.48
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.43
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.42
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.37
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.28
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.28
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.21
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.19
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.17
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.1
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.08
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.07
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.07
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.07
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.97
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.97
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.94
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.93
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.9
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.85
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.85
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.84
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.82
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.81
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.76
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.76
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.75
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.75
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.73
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.73
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.72
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.72
KOG0553	304	consensus TPR repeat-containing protein [General f	97.72
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.72
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.7
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.69
KOG0553	304	consensus TPR repeat-containing protein [General f	97.69
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.68
PF12688	120	TPR_5: Tetratrico peptide repeat	97.68
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.68
PF12688	120	TPR_5: Tetratrico peptide repeat	97.68
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.68
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.67
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.66
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.65
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.64
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.6
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.59
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.56
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.54
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.53
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.52
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.48
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.45
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.41
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.4
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.4
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.4
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.38
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.37
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.34
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.3
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.3
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.29
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.27
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.26
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.24
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.24
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.23
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.21
KOG1258	577	consensus mRNA processing protein [RNA processing	97.2
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.13
PRK10803	263	tol-pal system protein YbgF; Provisional	97.08
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.06
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.98
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.97
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.96
PRK10803	263	tol-pal system protein YbgF; Provisional	96.91
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.85
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.82
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.82
PF13371	73	TPR_9: Tetratricopeptide repeat	96.81
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.8
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.8
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.79
PF13371	73	TPR_9: Tetratricopeptide repeat	96.66
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.61
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.58
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.52
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.51
PRK15331	165	chaperone protein SicA; Provisional	96.47
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.44
PRK15331	165	chaperone protein SicA; Provisional	96.35
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.19
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.18
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.05
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.97
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.94
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.9
KOG1585	308	consensus Protein required for fusion of vesicles	95.89
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.86
KOG4555	175	consensus TPR repeat-containing protein [Function	95.86
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.84
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.84
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.78
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.76
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.75
KOG4555	175	consensus TPR repeat-containing protein [Function	95.73
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.71
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.57
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.54
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.54
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.42
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.34
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.32
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.3
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.29
PRK11906	458	transcriptional regulator; Provisional	95.28
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.27
PF13512	142	TPR_18: Tetratricopeptide repeat	95.23
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.2
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.15
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.05
PF13512	142	TPR_18: Tetratricopeptide repeat	94.93
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.84
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.82
KOG3941	406	consensus Intermediate in Toll signal transduction	94.77
KOG3941	406	consensus Intermediate in Toll signal transduction	94.72
PRK11906	458	transcriptional regulator; Provisional	94.6
KOG1258	577	consensus mRNA processing protein [RNA processing	94.51
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.39
PF13428	44	TPR_14: Tetratricopeptide repeat	94.34
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.33
COG4105	254	ComL DNA uptake lipoprotein [General function pred	94.3
PF13428	44	TPR_14: Tetratricopeptide repeat	94.28
KOG1550	552	consensus Extracellular protein SEL-1 and related	94.21
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.2
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	93.86
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.73
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.73
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.63
KOG1585	308	consensus Protein required for fusion of vesicles	93.59
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.54
KOG1941	518	consensus Acetylcholine receptor-associated protei	93.5
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.2
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.13
KOG1941	518	consensus Acetylcholine receptor-associated protei	93.01
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	92.95
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.66
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.44
PF13431	34	TPR_17: Tetratricopeptide repeat	91.9
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	91.89
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	91.66
PF13431	34	TPR_17: Tetratricopeptide repeat	91.59
KOG4570	418	consensus Uncharacterized conserved protein [Funct	91.5
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	91.41
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.26
KOG1550	552	consensus Extracellular protein SEL-1 and related	91.12
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	91.06
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.0
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	90.79
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	90.52
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	90.5
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	90.1
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	90.03
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	90.02
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	89.95
PRK09687	280	putative lyase; Provisional	89.79
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	89.76
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	89.72
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	89.66
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	89.49
PRK09687	280	putative lyase; Provisional	89.48
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	89.15
KOG4570	418	consensus Uncharacterized conserved protein [Funct	88.74
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	88.64
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	88.46
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	88.2
KOG4234	271	consensus TPR repeat-containing protein [General f	87.14
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	86.98
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	86.5
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	86.48
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	86.45
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	86.26
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	86.13
KOG4648	536	consensus Uncharacterized conserved protein, conta	85.88
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	85.81
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	85.73
KOG4234	271	consensus TPR repeat-containing protein [General f	85.13
PRK11619	644	lytic murein transglycosylase; Provisional	85.09
KOG4648	536	consensus Uncharacterized conserved protein, conta	84.95
COG3947	361	Response regulator containing CheY-like receiver a	84.55
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	84.53
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	84.45
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	84.29
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	84.19
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	84.16
COG4455	273	ImpE Protein of avirulence locus involved in tempe	83.98
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	83.33
COG4455	273	ImpE Protein of avirulence locus involved in tempe	82.84
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	82.39
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	82.36
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	82.21
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	81.86
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	81.17
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	80.97

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.7e-73  Score=602.61  Aligned_cols=504  Identities=20%  Similarity=0.289  Sum_probs=456.7

Q ss_pred             hHHHHHHHHHHhhCCC-CCCHHHHHHHHHHHHhhhccCChHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhCCCCCCCC
Q 043999           25 PLKAFSLFNWASRQGL-QHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPV  103 (574)
Q Consensus        25 ~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  103 (574)
                      ...|+++|++|.+.|+ .++...++.++..|..   .+...+|..++..+                            +.
T Consensus       386 l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~---~g~~~eAl~lf~~M----------------------------~~  434 (1060)
T PLN03218        386 IKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKK---QRAVKEAFRFAKLI----------------------------RN  434 (1060)
T ss_pred             HHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHH---CCCHHHHHHHHHHc----------------------------CC
Confidence            4456666666655553 3344445555555555   55555555544333                            23


Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccC-CCCCHHHHHHHH
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCK-VELDVYSFGILI  182 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~li  182 (574)
                      |+.++|+.|+.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|+++|++|... ..||..+|+.+|
T Consensus       435 pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI  514 (1060)
T PLN03218        435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALI  514 (1060)
T ss_pred             CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            7889999999999999999999999999999999999999999999999999999999999999876 789999999999


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh--CCCCCChhhHHHHHHHHHhcCC
Q 043999          183 KGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGE--LGLVATQHTYTVLICGLFKNGL  260 (574)
Q Consensus       183 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~~li~~~~~~g~  260 (574)
                      .+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|..  .++.||..+|++++.+|++.|+
T Consensus       515 ~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~  594 (1060)
T PLN03218        515 DGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQ  594 (1060)
T ss_pred             HHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCC
Confidence            99999999999999999999999999999999999999999999999999999976  6789999999999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          261 QKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQ  340 (574)
Q Consensus       261 ~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  340 (574)
                      +++|.++|++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.+++++
T Consensus       595 ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~e  674 (1060)
T PLN03218        595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQD  674 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH
Q 043999          341 MKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSE  420 (574)
Q Consensus       341 m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  420 (574)
                      |.+.|+.||..+|+.||.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+.|+.||.
T Consensus       675 M~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~  754 (1060)
T PLN03218        675 ARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNT  754 (1060)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----c-------------------CCHHHHHHH
Q 043999          421 VTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCM----K-------------------GNMKEASKL  477 (574)
Q Consensus       421 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~-------------------g~~~~A~~~  477 (574)
                      .||+.++.+|++.|++++|.++|++|.+.|+.||..+|++++..|.+    +                   +..++|..+
T Consensus       755 ~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~l  834 (1060)
T PLN03218        755 ITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMV  834 (1060)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHH
Confidence            99999999999999999999999999999999999999999865432    1                   124679999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 043999          478 FNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLK  557 (574)
Q Consensus       478 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~  557 (574)
                      |++|.+.|+.||..||+.++.++++.+..+.+..++++|...+..|+..+|+++++++++.  .++|..++++|.+.|+.
T Consensus       835 f~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~Gi~  912 (1060)
T PLN03218        835 YRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLGVV  912 (1060)
T ss_pred             HHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcCCC
Confidence            9999999999999999999998889999999999999999888899999999999998542  36899999999999999


Q ss_pred             CCHH
Q 043999          558 PSVS  561 (574)
Q Consensus       558 p~~~  561 (574)
                      |+..
T Consensus       913 p~~~  916 (1060)
T PLN03218        913 PSVS  916 (1060)
T ss_pred             CCcc
Confidence            9985

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=8e-73  Score=598.99  Aligned_cols=502  Identities=20%  Similarity=0.293  Sum_probs=476.1

Q ss_pred             CCCHHHHHHHHHHHHhhhccCChHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhCCCCCCCCcchhHHHHHHHHHHhcC
Q 043999           41 QHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSR  120 (574)
Q Consensus        41 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  120 (574)
                      .++...|..++..|++   .|++.+|..+|..|...+.                       .+++..+++.++.+|.+.|
T Consensus       367 ~~~~~~~~~~y~~l~r---~G~l~eAl~Lfd~M~~~gv-----------------------v~~~~v~~~~li~~~~~~g  420 (1060)
T PLN03218        367 KRKSPEYIDAYNRLLR---DGRIKDCIDLLEDMEKRGL-----------------------LDMDKIYHAKFFKACKKQR  420 (1060)
T ss_pred             CCCchHHHHHHHHHHH---CcCHHHHHHHHHHHHhCCC-----------------------CCchHHHHHHHHHHHHHCC
Confidence            3456678888888888   9999999999999975442                       2356778899999999999


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccC-CCCCHHHHHHHHHHHHhcCChhHHHHHHH
Q 043999          121 LSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCK-VELDVYSFGILIKGCCEAGDLNKAFEVLN  199 (574)
Q Consensus       121 ~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~  199 (574)
                      .+++|+.+|+.|..    ||..+|+.++.+|++.|++++|+++|++|... ..||..+|+.+|.+|++.|++++|.++|+
T Consensus       421 ~~~eAl~lf~~M~~----pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~  496 (1060)
T PLN03218        421 AVKEAFRFAKLIRN----PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFH  496 (1060)
T ss_pred             CHHHHHHHHHHcCC----CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHH
Confidence            99999999999964    89999999999999999999999999999887 89999999999999999999999999999


Q ss_pred             HHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH--CCCC
Q 043999          200 QLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQL--NGVS  277 (574)
Q Consensus       200 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~g~~  277 (574)
                      +|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|..  .|+.
T Consensus       497 eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~  576 (1060)
T PLN03218        497 EMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPID  576 (1060)
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999986  6789


Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 043999          278 PSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLI  357 (574)
Q Consensus       278 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li  357 (574)
                      ||..+|+++|.+|++.|++++|.++|++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++
T Consensus       577 PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI  656 (1060)
T PLN03218        577 PDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALV  656 (1060)
T ss_pred             CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHH
Q 043999          358 DGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDME  437 (574)
Q Consensus       358 ~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  437 (574)
                      ++|++.|++++|.+++++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|+++
T Consensus       657 ~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~e  736 (1060)
T PLN03218        657 DVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLP  736 (1060)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----c----------
Q 043999          438 KAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCK----E----------  503 (574)
Q Consensus       438 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~----~----------  503 (574)
                      +|.++|++|.+.|+.||..+|+.++.+|++.|++++|.+++++|.+.|+.||..+|+.++..|.+    +          
T Consensus       737 eAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f  816 (1060)
T PLN03218        737 KALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSF  816 (1060)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhh
Confidence            99999999999999999999999999999999999999999999999999999999999865432    1          


Q ss_pred             ---------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHhhhhc
Q 043999          504 ---------GNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRAKNN  572 (574)
Q Consensus       504 ---------g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~  572 (574)
                               +..++|..+|++|.+.|+.||..||+.++.++++.+..+.+..++++|...+..|+..+|++||.++.+
T Consensus       817 ~~g~~~~~n~w~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~  894 (1060)
T PLN03218        817 DSGRPQIENKWTSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGE  894 (1060)
T ss_pred             hccccccccchHHHHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhcc
Confidence                     234679999999999999999999999999999999999999999999888889999999999999854

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.1e-73  Score=615.77  Aligned_cols=538  Identities=18%  Similarity=0.284  Sum_probs=466.3

Q ss_pred             HHHHHhcc-CChHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhhhccCChHHHHHHHHHHHhcCCCCCCCCHHHHHHHHH
Q 043999           15 NLISRMAK-LPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLT   93 (574)
Q Consensus        15 ~~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   93 (574)
                      .++..+.+ ....+|+.+|+.|.+.|+.|+..+|..+++.|..   .+.+..+..++..++..+...+....+.++..+.
T Consensus        56 ~~i~~l~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~n~li~~~~  132 (857)
T PLN03077         56 SQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEW---KRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFV  132 (857)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcCCCCChhHHHHHHHHHhh---CCCHHHHHHHHHHHHHcCCCCCchHHHHHHHHHH
Confidence            55666655 4577899999999999999999999999999988   8899999999999988887777777888888765


Q ss_pred             hh---------CCCCCCCCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH--------------------
Q 043999           94 QL---------FPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTF--------------------  144 (574)
Q Consensus        94 ~~---------~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~--------------------  144 (574)
                      +.         |.  ..+.+|.++||+||.+|++.|++++|+++|++|.+.|+.||.+||                    
T Consensus       133 ~~g~~~~A~~~f~--~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~  210 (857)
T PLN03077        133 RFGELVHAWYVFG--KMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVH  210 (857)
T ss_pred             hCCChHHHHHHHh--cCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHH
Confidence            43         22  245689999999999999999999999999999998888887776                    


Q ss_pred             ---------------HHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC
Q 043999          145 ---------------NSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPN  209 (574)
Q Consensus       145 ---------------~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  209 (574)
                                     |.++.+|++.|++++|.++|++|..   +|+++||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus       211 ~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~---~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd  287 (857)
T PLN03077        211 AHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPR---RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPD  287 (857)
T ss_pred             HHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCC---CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC
Confidence                           5566677888999999999999874   6889999999999999999999999999999999999


Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHH
Q 043999          210 VVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHE  289 (574)
Q Consensus       210 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~  289 (574)
                      ..||+.++.+|++.|+++.|.+++..|.+.|+.||..+|++|+.+|++.|++++|.++|++|.    .||..+|+++|.+
T Consensus       288 ~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~  363 (857)
T PLN03077        288 LMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISG  363 (857)
T ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999986    4788899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHH
Q 043999          290 YCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKA  369 (574)
Q Consensus       290 ~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  369 (574)
                      |++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++++.|.+.|+.|+..+|+.|+++|++.|++++|
T Consensus       364 ~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A  443 (857)
T PLN03077        364 YEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKA  443 (857)
T ss_pred             HHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          370 FRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKS  449 (574)
Q Consensus       370 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  449 (574)
                      .++|++|.+    +|..+|+.+|.+|++.|+.++|..+|++|.. ++.||..||+.++.+|++.|.++.+.+++..+.+.
T Consensus       444 ~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~  518 (857)
T PLN03077        444 LEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRT  518 (857)
T ss_pred             HHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHh
Confidence            999998864    5888999999999999999999999999976 58899999999999999999999999888888888


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 043999          450 GFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYS  529 (574)
Q Consensus       450 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  529 (574)
                      |+.+|..++++|+++|+++|++++|.++|+++     .||..+||++|.+|++.|+.++|.++|++|.+.|+.||..||+
T Consensus       519 g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-----~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~  593 (857)
T PLN03077        519 GIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFI  593 (857)
T ss_pred             CCCccceechHHHHHHHHcCCHHHHHHHHHhc-----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHH
Confidence            88888777777777777777777777777766     4677777777777777777777777777777777777777777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHH-HcCCCCCHHHHHHHHhhhhcCC
Q 043999          530 STIGVLCQDGKWPEAEVLLNQML-KLGLKPSVSLYNILYRAKNNIE  574 (574)
Q Consensus       530 ~l~~~~~~~g~~~~A~~~~~~m~-~~g~~p~~~~~~~l~~~~~~~~  574 (574)
                      .++.+|++.|++++|.++|++|. +.|+.|+..+|++++.+|.+.|
T Consensus       594 ~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G  639 (857)
T PLN03077        594 SLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAG  639 (857)
T ss_pred             HHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCC
Confidence            77777777777777777777777 5677777777777777777654

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=5.6e-71  Score=596.85  Aligned_cols=532  Identities=20%  Similarity=0.296  Sum_probs=332.7

Q ss_pred             hHHHHHHHhcc-CChHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhhhccCChHHHHHHHHHHHhcCCCCCCCCHHHHHH
Q 043999           12 LTLNLISRMAK-LPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLC   90 (574)
Q Consensus        12 ~~~~~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   90 (574)
                      +...|+..+.+ .+...|+..|+.|.    .|+..+|+.+++.+++   .+++++|..++.+|...++.++.++++.++.
T Consensus       123 ~~n~li~~~~~~g~~~~A~~~f~~m~----~~d~~~~n~li~~~~~---~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~  195 (857)
T PLN03077        123 LGNAMLSMFVRFGELVHAWYVFGKMP----ERDLFSWNVLVGGYAK---AGYFDEALCLYHRMLWAGVRPDVYTFPCVLR  195 (857)
T ss_pred             HHHHHHHHHHhCCChHHHHHHHhcCC----CCCeeEHHHHHHHHHh---CCCHHHHHHHHHHHHHcCCCCChhHHHHHHH
Confidence            44455555443 33455666666664    2455666666666666   6666666666666666566666666666655


Q ss_pred             HHHhhCC-----C------CCCCCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhH
Q 043999           91 HLTQLFP-----S------SSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDK  159 (574)
Q Consensus        91 ~~~~~~~-----~------~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~  159 (574)
                      .+.....     +      .....+++++||+||.+|++.|++++|.++|++|.    .||..+||.+|.+|++.|++++
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~----~~d~~s~n~li~~~~~~g~~~e  271 (857)
T PLN03077        196 TCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMP----RRDCISWNAMISGYFENGECLE  271 (857)
T ss_pred             HhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCC----CCCcchhHHHHHHHHhCCCHHH
Confidence            4322100     0      00123455666666666666666666666666664    2455666666666666666666


Q ss_pred             HHHHHHHcccC-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 043999          160 GWLFFSENRCK-VELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGE  238 (574)
Q Consensus       160 A~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  238 (574)
                      |+++|++|... +.||..||+.++.+|++.|+++.|.+++..|.+.|+.||..+|++|+.+|++.|++++|.++|++|.+
T Consensus       272 Al~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~  351 (857)
T PLN03077        272 GLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET  351 (857)
T ss_pred             HHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC
Confidence            66666666554 56666666666666666666666666666666666666666666666666666666666666666643


Q ss_pred             CCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH
Q 043999          239 LGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTY  318 (574)
Q Consensus       239 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  318 (574)
                          ||..+|+++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++++.|.+.|+.|+..+|
T Consensus       352 ----~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~  427 (857)
T PLN03077        352 ----KDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVA  427 (857)
T ss_pred             ----CCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHH
Confidence                4556666666666666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 043999          319 NTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKA  398 (574)
Q Consensus       319 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~  398 (574)
                      |.++.+|++.|++++|.++|++|.+    +|..+|+++|.+|++.|+.++|.++|++|.. ++.||..||+.++.+|++.
T Consensus       428 n~Li~~y~k~g~~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~  502 (857)
T PLN03077        428 NALIEMYSKCKCIDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARI  502 (857)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhh
Confidence            6666666666666666666666643    4556666666666666666666666666654 3566666666666666666


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 043999          399 GNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLF  478 (574)
Q Consensus       399 g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  478 (574)
                      |..+.+.+++..+.+.|+.+|..++++|+++|++.|++++|.++|+.+     .||..+|+++|.+|++.|+.++|.++|
T Consensus       503 g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-----~~d~~s~n~lI~~~~~~G~~~~A~~lf  577 (857)
T PLN03077        503 GALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELF  577 (857)
T ss_pred             chHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-----CCChhhHHHHHHHHHHcCCHHHHHHHH
Confidence            666666666666666666666666666666666666666666666554     456666666666666666666666666


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 043999          479 NSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMN-EKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLK  557 (574)
Q Consensus       479 ~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~  557 (574)
                      ++|.+.|+.||..||+.++.+|++.|++++|.++|++|. +.|+.|+..+|++++++|++.|++++|.+++++|   .++
T Consensus       578 ~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m---~~~  654 (857)
T PLN03077        578 NRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM---PIT  654 (857)
T ss_pred             HHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHC---CCC
Confidence            666666666666666666666666666666666666666 4566666666666666666666666666666666   356


Q ss_pred             CCHHHHHHHHhhhh
Q 043999          558 PSVSLYNILYRAKN  571 (574)
Q Consensus       558 p~~~~~~~l~~~~~  571 (574)
                      ||..+|++|+.+|.
T Consensus       655 pd~~~~~aLl~ac~  668 (857)
T PLN03077        655 PDPAVWGALLNACR  668 (857)
T ss_pred             CCHHHHHHHHHHHH
Confidence            66666666666653

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

Probab=100.00  E-value=1.8e-66  Score=548.69  Aligned_cols=475  Identities=18%  Similarity=0.299  Sum_probs=451.1

Q ss_pred             CCHHHHHHHHHHHHhhhccCChHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhCCCCCCCCcchhHHHHHHHHHHhcCC
Q 043999           42 HTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRL  121 (574)
Q Consensus        42 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  121 (574)
                      .+..+++.++..+..   .+++.+|..+|..+...+.                       ..+|..+|+.++.++.+.++
T Consensus        85 ~~~~~~~~~i~~l~~---~g~~~~Al~~f~~m~~~~~-----------------------~~~~~~t~~~ll~a~~~~~~  138 (697)
T PLN03081         85 KSGVSLCSQIEKLVA---CGRHREALELFEILEAGCP-----------------------FTLPASTYDALVEACIALKS  138 (697)
T ss_pred             CCceeHHHHHHHHHc---CCCHHHHHHHHHHHHhcCC-----------------------CCCCHHHHHHHHHHHHhCCC
Confidence            344589999999999   9999999999988764321                       23678999999999999999


Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 043999          122 SDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQL  201 (574)
Q Consensus       122 ~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  201 (574)
                      ++.|.+++..|.+.|+.||..+++.++.+|++.|++++|.++|++|..   ||+++||.++.+|++.|++++|.++|++|
T Consensus       139 ~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~---~~~~t~n~li~~~~~~g~~~~A~~lf~~M  215 (697)
T PLN03081        139 IRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPE---RNLASWGTIIGGLVDAGNYREAFALFREM  215 (697)
T ss_pred             HHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCC---CCeeeHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999985   79999999999999999999999999999


Q ss_pred             HHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHh
Q 043999          202 EEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLY  281 (574)
Q Consensus       202 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~  281 (574)
                      .+.|+.|+..+|+.++.++++.|+.+.+.+++..+.+.|+.||..+|++|+.+|++.|++++|.++|++|.    .+|.+
T Consensus       216 ~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~v  291 (697)
T PLN03081        216 WEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTV  291 (697)
T ss_pred             HHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999996    46999


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 043999          282 TYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFC  361 (574)
Q Consensus       282 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~  361 (574)
                      +||++|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++++.|.+.|++||..+|++|+++|+
T Consensus       292 t~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~  371 (697)
T PLN03081        292 AWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYS  371 (697)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHH
Q 043999          362 DAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFE  441 (574)
Q Consensus       362 ~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  441 (574)
                      +.|++++|.++|++|.    .||..+||.||.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|.+++|.+
T Consensus       372 k~G~~~~A~~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~  447 (697)
T PLN03081        372 KWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWE  447 (697)
T ss_pred             HCCCHHHHHHHHHhCC----CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHH
Confidence            9999999999999996    479999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHH-CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          442 MYSLMQK-SGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKG  520 (574)
Q Consensus       442 ~~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  520 (574)
                      +|+.|.+ .|+.|+..+|+.++++|++.|++++|.+++++|   +..|+..+|++|+.+|+..|+++.|..+++++.+  
T Consensus       448 ~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~--  522 (697)
T PLN03081        448 IFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYG--  522 (697)
T ss_pred             HHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhC--
Confidence            9999975 699999999999999999999999999999876   5789999999999999999999999999999986  


Q ss_pred             CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 043999          521 LVP-NIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKP  558 (574)
Q Consensus       521 ~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p  558 (574)
                      +.| +..+|..+++.|++.|++++|.+++++|.+.|+..
T Consensus       523 ~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k  561 (697)
T PLN03081        523 MGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSM  561 (697)
T ss_pred             CCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCcc
Confidence            455 46799999999999999999999999999999753

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

Probab=100.00  E-value=3.4e-65  Score=539.04  Aligned_cols=454  Identities=20%  Similarity=0.272  Sum_probs=435.1

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccC-CCCCHHHHHHH
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSG-VRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCK-VELDVYSFGIL  181 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g-~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l  181 (574)
                      .+.++|+++|.+|.+.|++++|+++|+.|...+ +.||..+|+.++.++.+.++++.|.+++..|... +.||+.+||.+
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            456789999999999999999999999998764 7899999999999999999999999999999876 88999999999


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCH
Q 043999          182 IKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQ  261 (574)
Q Consensus       182 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  261 (574)
                      +.+|++.|++++|.++|++|.+    ||.++|++++.+|++.|++++|+++|++|.+.|+.|+..+|+.++.++++.|..
T Consensus       165 i~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~  240 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSA  240 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcH
Confidence            9999999999999999999974    899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          262 KDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQM  341 (574)
Q Consensus       262 ~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m  341 (574)
                      +.+.+++..+.+.|+.||..+|++|+++|+++|++++|.++|++|.+.    |.++||.++.+|++.|+.++|.++|++|
T Consensus       241 ~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~----~~vt~n~li~~y~~~g~~~eA~~lf~~M  316 (697)
T PLN03081        241 RAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEM  316 (697)
T ss_pred             HHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCC----ChhHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999754    9999999999999999999999999999


Q ss_pred             HHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHh
Q 043999          342 KMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEV  421 (574)
Q Consensus       342 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  421 (574)
                      .+.|+.||..||+.++.+|++.|++++|.+++..|.+.|+.||..+|+.|+.+|++.|++++|.++|++|.+    ||..
T Consensus       317 ~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~  392 (697)
T PLN03081        317 RDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLI  392 (697)
T ss_pred             HHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCee
Confidence            999999999999999999999999999999999999999999999999999999999999999999999964    6899


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHH
Q 043999          422 TYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWE-TKLEPNDVVYNMMIFGY  500 (574)
Q Consensus       422 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~~p~~~~~~~li~~~  500 (574)
                      +|+.+|.+|++.|+.++|.++|++|.+.|+.||..||++++.+|++.|++++|.++|++|.+ .|+.|+..+|+.++.+|
T Consensus       393 t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l  472 (697)
T PLN03081        393 SWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELL  472 (697)
T ss_pred             eHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999986 59999999999999999


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHhhhhcCC
Q 043999          501 CKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPS-VSLYNILYRAKNNIE  574 (574)
Q Consensus       501 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~~  574 (574)
                      ++.|++++|.+++++|   ++.|+..+|++++.+|+..|+++.|..+++++.  ++.|+ ..+|..|+++|++.|
T Consensus       473 ~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~--~~~p~~~~~y~~L~~~y~~~G  542 (697)
T PLN03081        473 GREGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLY--GMGPEKLNNYVVLLNLYNSSG  542 (697)
T ss_pred             HhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHh--CCCCCCCcchHHHHHHHHhCC
Confidence            9999999999999876   478999999999999999999999999999997  45776 569999999998765

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

Probab=100.00  E-value=4e-32  Score=300.78  Aligned_cols=533  Identities=14%  Similarity=0.065  Sum_probs=435.2

Q ss_pred             hccCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhhhccCChHHHHHHHHHHHhcCCCCCCCCHHHHH----------
Q 043999           20 MAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLL----------   89 (574)
Q Consensus        20 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~----------   89 (574)
                      +...++.+|+..+..+.... +.++..+..+...+..   .+++++|...+.+......... .....+-          
T Consensus       340 ~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~  414 (899)
T TIGR02917       340 LRLGRVDEAIATLSPALGLD-PDDPAALSLLGEAYLA---LGDFEKAAEYLAKATELDPENA-AARTQLGISKLSQGDPS  414 (899)
T ss_pred             HHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHH---CCCHHHHHHHHHHHHhcCCCCH-HHHHHHHHHHHhCCChH
Confidence            34677888999998887653 3456677778888888   8999999999988765432110 0000000          


Q ss_pred             ---HHHHhhCCCCCCCCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHH
Q 043999           90 ---CHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSE  166 (574)
Q Consensus        90 ---~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~  166 (574)
                         ..+....   ...+.+...+..++..|.+.|++++|..+++++.+. .+++..++..+...+...|++++|.+.|++
T Consensus       415 ~A~~~~~~a~---~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  490 (899)
T TIGR02917       415 EAIADLETAA---QLDPELGRADLLLILSYLRSGQFDKALAAAKKLEKK-QPDNASLHNLLGAIYLGKGDLAKAREAFEK  490 (899)
T ss_pred             HHHHHHHHHH---hhCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence               0011110   112234456777888999999999999999999875 355778899999999999999999999999


Q ss_pred             cccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChh
Q 043999          167 NRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQH  246 (574)
Q Consensus       167 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  246 (574)
                      +....+.+...+..++..+...|++++|.+.++++.+.+ +.+..++..+...+.+.|+.++|...++++.+.++. +..
T Consensus       491 a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~  568 (899)
T TIGR02917       491 ALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQ-EIE  568 (899)
T ss_pred             HHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-chh
Confidence            887777788889999999999999999999999998764 346778899999999999999999999999876543 667


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 043999          247 TYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLC  326 (574)
Q Consensus       247 ~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  326 (574)
                      .+..++..+.+.|++++|..+++++.+.. +.+..+|..+...|.+.|++++|...|+.+.+..+. +...+..+...+.
T Consensus       569 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~  646 (899)
T TIGR02917       569 PALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPD-SALALLLLADAYA  646 (899)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHH
Confidence            78889999999999999999999998753 457788999999999999999999999999877544 6778889999999


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 043999          327 KEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASD  406 (574)
Q Consensus       327 ~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  406 (574)
                      +.|++++|...++++.+.. +.+..++..++..+...|++++|.++++.+.+.+ +.+...+..+...+.+.|++++|..
T Consensus       647 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~  724 (899)
T TIGR02917       647 VMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQ  724 (899)
T ss_pred             HcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHH
Confidence            9999999999999998764 5567888999999999999999999999998875 4477788888899999999999999


Q ss_pred             HHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 043999          407 LVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKL  486 (574)
Q Consensus       407 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~  486 (574)
                      .++++.+.+  |+..++..+...+.+.|++++|.+.++.+.+.. +.+...+..+...|.+.|++++|.+.|+++.+..+
T Consensus       725 ~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p  801 (899)
T TIGR02917       725 AYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAP  801 (899)
T ss_pred             HHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCC
Confidence            999998874  455777888899999999999999999998764 66788889999999999999999999999988754


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 043999          487 EPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNIL  566 (574)
Q Consensus       487 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  566 (574)
                       ++..+++.+...+...|+ .+|+.+++++.+. .+.+..++..+...+.+.|++++|..+++++++.+.. +..++..+
T Consensus       802 -~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l  877 (899)
T TIGR02917       802 -DNAVVLNNLAWLYLELKD-PRALEYAEKALKL-APNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE-AAAIRYHL  877 (899)
T ss_pred             -CCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhh-CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHHH
Confidence             378889999999999999 8899999999885 2335567778888999999999999999999987533 77888888


Q ss_pred             HhhhhcCC
Q 043999          567 YRAKNNIE  574 (574)
Q Consensus       567 ~~~~~~~~  574 (574)
                      ..+|...|
T Consensus       878 ~~~~~~~g  885 (899)
T TIGR02917       878 ALALLATG  885 (899)
T ss_pred             HHHHHHcC
Confidence            88877654

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=8.1e-32  Score=298.32  Aligned_cols=514  Identities=13%  Similarity=0.061  Sum_probs=434.6

Q ss_pred             ccCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhhhccCChHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhh-----
Q 043999           21 AKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQL-----   95 (574)
Q Consensus        21 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----   95 (574)
                      ...++.+|..+|+.+.+.. +.+...+..+...+..   .++++.|...+.+.+....... .....+...+...     
T Consensus       375 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~---~~~~~~A~~~~~~a~~~~~~~~-~~~~~l~~~~~~~~~~~~  449 (899)
T TIGR02917       375 ALGDFEKAAEYLAKATELD-PENAAARTQLGISKLS---QGDPSEAIADLETAAQLDPELG-RADLLLILSYLRSGQFDK  449 (899)
T ss_pred             HCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHh---CCChHHHHHHHHHHHhhCCcch-hhHHHHHHHHHhcCCHHH
Confidence            4577889999999987653 2345566667777777   8999999999888875432211 1111111111110     


Q ss_pred             ----CCC-CCCCCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccC
Q 043999           96 ----FPS-SSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCK  170 (574)
Q Consensus        96 ----~~~-~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~  170 (574)
                          +.. ....+.++.+|..+...|.+.|++++|.+.|+++++.. +.+...+..+...+...|++++|.+.|+++...
T Consensus       450 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  528 (899)
T TIGR02917       450 ALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTI  528 (899)
T ss_pred             HHHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence                000 01124567889999999999999999999999998864 345677888899999999999999999999888


Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHH
Q 043999          171 VELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTV  250 (574)
Q Consensus       171 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  250 (574)
                      .+.+..++..+...+.+.|+.++|...++++.+.+ +.+...+..++..+.+.|++++|..+++++.+... .+..+|..
T Consensus       529 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~  606 (899)
T TIGR02917       529 DPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAAP-DSPEAWLM  606 (899)
T ss_pred             CcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHH
Confidence            78899999999999999999999999999998764 34677888999999999999999999999987653 47789999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 043999          251 LICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMR  330 (574)
Q Consensus       251 li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  330 (574)
                      +..++.+.|++++|...|+++.+.. +.+...+..+...+.+.|++++|...++++.+..+. +..++..++..+...|+
T Consensus       607 l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~  684 (899)
T TIGR02917       607 LGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELKPD-NTEAQIGLAQLLLAAKR  684 (899)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCC
Confidence            9999999999999999999998764 346778889999999999999999999999887544 78899999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 043999          331 VQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVRE  410 (574)
Q Consensus       331 ~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  410 (574)
                      +++|..+++.+.+.. +.+...+..+...+.+.|++++|.+.|+.+...+  |+..++..+...+.+.|++++|...+++
T Consensus       685 ~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~  761 (899)
T TIGR02917       685 TESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEA  761 (899)
T ss_pred             HHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999999999999875 5677888889999999999999999999999874  5557788899999999999999999999


Q ss_pred             HHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH
Q 043999          411 MEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPND  490 (574)
Q Consensus       411 m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~  490 (574)
                      +.+.. +.+...+..+...|...|++++|..+|+++.+.. +++..+++.+...+.+.|+ .+|+..++++.+.... +.
T Consensus       762 ~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~-~~  837 (899)
T TIGR02917       762 WLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPN-IP  837 (899)
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCC-Cc
Confidence            99874 4478889999999999999999999999999875 6788899999999999999 8899999999886433 56


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          491 VVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQML  552 (574)
Q Consensus       491 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  552 (574)
                      .++..+...+...|++++|.++++++.+.+. .+..++..++.++++.|++++|.+++++|+
T Consensus       838 ~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       838 AILDTLGWLLVEKGEADRALPLLRKAVNIAP-EAAAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            7788899999999999999999999999753 388999999999999999999999999986

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=99.96  E-value=4.9e-23  Score=228.96  Aligned_cols=508  Identities=13%  Similarity=0.046  Sum_probs=329.9

Q ss_pred             ccCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhhhccCChHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhCCCCC
Q 043999           21 AKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSS  100 (574)
Q Consensus        21 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  100 (574)
                      .+.+++.|...+..+.... +.++..+..+.+.+..   .++.++|...+.++......++.  ...+...+ .      
T Consensus        40 ~~~~~d~a~~~l~kl~~~~-p~~p~~~~~~~~~~l~---~g~~~~A~~~l~~l~~~~P~~~~--~~~~~~~~-~------  106 (1157)
T PRK11447         40 ATHREDLVRQSLYRLELID-PNNPDVIAARFRLLLR---QGDSDGAQKLLDRLSQLAPDSNA--YRSSRTTM-L------  106 (1157)
T ss_pred             hhCChHHHHHHHHHHHccC-CCCHHHHHHHHHHHHh---CCCHHHHHHHHHHHHhhCCCChH--HHHHHHHH-H------
Confidence            4577777888888776542 3356777788888888   99999999999998765433221  11100000 0      


Q ss_pred             CCCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHH
Q 043999          101 NPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSN-TFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFG  179 (574)
Q Consensus       101 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  179 (574)
                      ...++......+.+.+.+.|++++|++.|+++.+.+ +|+.. ............|+.++|++.++++....|.+...+.
T Consensus       107 ~~~~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~  185 (1157)
T PRK11447        107 LSTPEGRQALQQARLLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRN  185 (1157)
T ss_pred             hcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHH
Confidence            012333344556667777777777777777777653 23321 1111111222347777777777777776666777777


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCC------------------C--------------CCHHhH--------------
Q 043999          180 ILIKGCCEAGDLNKAFEVLNQLEEMGF------------------S--------------PNVVIY--------------  213 (574)
Q Consensus       180 ~li~~~~~~g~~~~A~~~~~~m~~~g~------------------~--------------p~~~~~--------------  213 (574)
                      .+...+...|+.++|++.++++.+...                  .              |+....              
T Consensus       186 ~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~  265 (1157)
T PRK11447        186 TLALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQL  265 (1157)
T ss_pred             HHHHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhc
Confidence            777777777777777777777643210                  0              000000              


Q ss_pred             -------HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHhhH--
Q 043999          214 -------TSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSP-SLYTY--  283 (574)
Q Consensus       214 -------~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p-~~~~~--  283 (574)
                             ......+...|++++|+..|++..+..+. +...+..+...+.+.|++++|+..|++..+..... +...+  
T Consensus       266 ~dp~~~~~~~G~~~~~~g~~~~A~~~l~~aL~~~P~-~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~  344 (1157)
T PRK11447        266 ADPAFRARAQGLAAVDSGQGGKAIPELQQAVRANPK-DSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWES  344 (1157)
T ss_pred             cCcchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHH
Confidence                   01123455667778888888777765433 56677777777778888888888887777653221 11111  


Q ss_pred             ----------HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhH
Q 043999          284 ----------NCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITY  353 (574)
Q Consensus       284 ----------~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~  353 (574)
                                ......+.+.|++++|++.|+++.+..+. +...+..+...+...|++++|++.|+++.+.. +.+...+
T Consensus       345 ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~P~-~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~  422 (1157)
T PRK11447        345 LLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVDNT-DSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAV  422 (1157)
T ss_pred             HHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHH
Confidence                      12234556777778888877777776443 55666667777777778888877777776642 2222222


Q ss_pred             H------------------------------------------HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 043999          354 N------------------------------------------KLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVL  391 (574)
Q Consensus       354 ~------------------------------------------~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l  391 (574)
                      .                                          .+...+...|++++|++.+++..+.... +...+..+
T Consensus       423 ~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~L  501 (1157)
T PRK11447        423 RGLANLYRQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRL  501 (1157)
T ss_pred             HHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            2                                          2233455678888888888888776322 56667778


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHH--------------------------------------------H
Q 043999          392 IRAFSKAGNSKMASDLVREMEERGITPSEVTYTIL--------------------------------------------I  427 (574)
Q Consensus       392 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l--------------------------------------------i  427 (574)
                      ...|.+.|++++|...++++.+.... +...+..+                                            .
T Consensus       502 A~~~~~~G~~~~A~~~l~~al~~~P~-~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a  580 (1157)
T PRK11447        502 AQDLRQAGQRSQADALMRRLAQQKPN-DPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETA  580 (1157)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHH
Confidence            88888888888888888888764321 22222222                                            2


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 043999          428 DSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSY  507 (574)
Q Consensus       428 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  507 (574)
                      ..+...|+.++|..+++     ..+++...+..+...+.+.|++++|++.|+++++..+. +...+..++..|...|+++
T Consensus       581 ~~l~~~G~~~eA~~~l~-----~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~-~~~a~~~la~~~~~~g~~~  654 (1157)
T PRK11447        581 NRLRDSGKEAEAEALLR-----QQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPG-NADARLGLIEVDIAQGDLA  654 (1157)
T ss_pred             HHHHHCCCHHHHHHHHH-----hCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHH
Confidence            23344455555555444     12455666777888899999999999999999986433 6788899999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043999          508 RALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       508 ~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      +|++.++...+.. +.+..++..+..++...|++++|.+++++++..
T Consensus       655 eA~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        655 AARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             HHHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            9999999888742 234566777888889999999999999999864

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.96  E-value=3.3e-23  Score=230.35  Aligned_cols=398  Identities=13%  Similarity=0.075  Sum_probs=268.2

Q ss_pred             HHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-CHHhH------------HHH
Q 043999          150 FVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSP-NVVIY------------TSL  216 (574)
Q Consensus       150 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~------------~~l  216 (574)
                      .+...|++++|+..|++.....|.+..++..+...+.+.|++++|++.|++..+..... +...+            ...
T Consensus       278 ~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~  357 (1157)
T PRK11447        278 AAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQ  357 (1157)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHH
Confidence            45567888888888888777666777888888888888888888888888877643221 11111            122


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHH--------
Q 043999          217 IDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIH--------  288 (574)
Q Consensus       217 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~--------  288 (574)
                      ...+.+.|++++|+..|++..+..+. +...+..+...+...|++++|++.|++..+... .+...+..+..        
T Consensus       358 g~~~~~~g~~~eA~~~~~~Al~~~P~-~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p-~~~~a~~~L~~l~~~~~~~  435 (1157)
T PRK11447        358 GDAALKANNLAQAERLYQQARQVDNT-DSYAVLGLGDVAMARKDYAAAERYYQQALRMDP-GNTNAVRGLANLYRQQSPE  435 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCHH
Confidence            34566778888888888887776543 556677777888888888888888888776531 22333333333        


Q ss_pred             ----------------------------------HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 043999          289 ----------------------------------EYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEA  334 (574)
Q Consensus       289 ----------------------------------~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A  334 (574)
                                                        .+...|++++|++.|++..+..+. +...+..+...|.+.|++++|
T Consensus       436 ~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A  514 (1157)
T PRK11447        436 KALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQA  514 (1157)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHH
Confidence                                              334456666666666666555443 445555556666666666666


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH---------HHHHHHHHHHhcCChHHHH
Q 043999          335 ERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVV---------TYNVLIRAFSKAGNSKMAS  405 (574)
Q Consensus       335 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~---------~~~~li~~~~~~g~~~~A~  405 (574)
                      ...++++.+.. +.+...+..+...+...++.++|...++.+......++..         .+..+...+...|+.++|.
T Consensus       515 ~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~  593 (1157)
T PRK11447        515 DALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAE  593 (1157)
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHH
Confidence            66666655432 2233333333344455566666666655543221111111         1123345566777777777


Q ss_pred             HHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 043999          406 DLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETK  485 (574)
Q Consensus       406 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  485 (574)
                      .+++.     .+.+...+..+...+.+.|++++|...|+.+.+.. +.+...+..++..|...|++++|++.++...+..
T Consensus       594 ~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~  667 (1157)
T PRK11447        594 ALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA  667 (1157)
T ss_pred             HHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC
Confidence            77662     23455677888899999999999999999999874 5678889999999999999999999999887653


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-cCCCC
Q 043999          486 LEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGL--VP---NIASYSSTIGVLCQDGKWPEAEVLLNQMLK-LGLKP  558 (574)
Q Consensus       486 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-~g~~p  558 (574)
                      . .+...+..+..++...|++++|.++++++.....  +|   +...+..+...+...|++++|...|++.+. .|+.|
T Consensus       668 p-~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~~~~  745 (1157)
T PRK11447        668 N-DSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVASGITP  745 (1157)
T ss_pred             C-CChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCCCC
Confidence            2 2566677888899999999999999999987522  12   224566678889999999999999999973 45544

>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=3.9e-23  Score=195.30  Aligned_cols=435  Identities=15%  Similarity=0.086  Sum_probs=334.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhc
Q 043999          109 YESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEA  188 (574)
Q Consensus       109 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~  188 (574)
                      -..|..-..+.|++.+|.+.....-+.+ +.+......+-.++.+..+.+.....-.......+.-..+|..+.+.+-..
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~~ker  129 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKER  129 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHh
Confidence            5567777778899999988776655543 223333333445566666666555444444444566778888899999999


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhh-HHHHHHHHHhcCCHHHHHHH
Q 043999          189 GDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHT-YTVLICGLFKNGLQKDGFEF  267 (574)
Q Consensus       189 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~li~~~~~~g~~~~a~~~  267 (574)
                      |++++|+..++.+.+... ..+..|..+..++...|+.+.|.+.|.+.++.+  |+... .+.+...+-..|+.++|...
T Consensus       130 g~~~~al~~y~~aiel~p-~fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lgnLlka~Grl~ea~~c  206 (966)
T KOG4626|consen  130 GQLQDALALYRAAIELKP-KFIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLGNLLKAEGRLEEAKAC  206 (966)
T ss_pred             chHHHHHHHHHHHHhcCc-hhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchhHHHHhhcccchhHHH
Confidence            999999999999888532 256788889999999999999999998887754  44433 33445556668899999988


Q ss_pred             HHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 043999          268 YEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGIS  347 (574)
Q Consensus       268 ~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~  347 (574)
                      +.+.++... -=...|+.|...+-..|++..|+..|++..+..+. -...|-.|...|...+.+++|...|.+..... +
T Consensus       207 YlkAi~~qp-~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~-f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-p  283 (966)
T KOG4626|consen  207 YLKAIETQP-CFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPN-FLDAYINLGNVYKEARIFDRAVSCYLRALNLR-P  283 (966)
T ss_pred             HHHHHhhCC-ceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCc-chHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-C
Confidence            888887531 23457888888888899999999999988877544 45678888888989999999999998887653 3


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHH
Q 043999          348 PNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPS-VVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTIL  426 (574)
Q Consensus       348 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l  426 (574)
                      .....+..+...|...|.+|-|+..|++..+.  .|+ ...|+.|..++-..|++.+|.+.+.+...... ......+.|
T Consensus       284 n~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p-~hadam~NL  360 (966)
T KOG4626|consen  284 NHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCP-NHADAMNNL  360 (966)
T ss_pred             cchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCC-ccHHHHHHH
Confidence            34567777888888899999999999998876  344 57789999999999999999999998887632 245667888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCC
Q 043999          427 IDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPN-DVVYNMMIFGYCKEGN  505 (574)
Q Consensus       427 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~  505 (574)
                      ...+...|.+++|..+|....+.. +.-....+.|...|-+.|++++|+..+++.++  ++|+ ...|+.+...|-..|+
T Consensus       361 gni~~E~~~~e~A~~ly~~al~v~-p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~  437 (966)
T KOG4626|consen  361 GNIYREQGKIEEATRLYLKALEVF-PEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGD  437 (966)
T ss_pred             HHHHHHhccchHHHHHHHHHHhhC-hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhh
Confidence            889999999999999998887752 22345778888889999999999999999887  4665 5678889999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 043999          506 SYRALRLLGEMNEKGLVPNI-ASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSV  560 (574)
Q Consensus       506 ~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~  560 (574)
                      .+.|++.+.+...  +.|.- ..++.+...+...|++.+|++-+++.++.  +||.
T Consensus       438 v~~A~q~y~rAI~--~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLkl--kPDf  489 (966)
T KOG4626|consen  438 VSAAIQCYTRAIQ--INPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKL--KPDF  489 (966)
T ss_pred             HHHHHHHHHHHHh--cCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHcc--CCCC
Confidence            9999999988887  45653 66778888888899999999999998854  7775

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.93  E-value=1.9e-19  Score=191.49  Aligned_cols=509  Identities=11%  Similarity=0.039  Sum_probs=319.2

Q ss_pred             ccCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhhhccCChHHHHHHHHHHHhcCCCCCCCCHHHHHHHH--------
Q 043999           21 AKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHL--------   92 (574)
Q Consensus        21 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--------   92 (574)
                      .+.+..+|+..|+.+.+.. +-++.++..+.+.+..   .++.++|...+.+.+.... .+ .....++..+        
T Consensus        56 ~~Gd~~~A~~~l~~Al~~d-P~n~~~~~~LA~~yl~---~g~~~~A~~~~~kAv~ldP-~n-~~~~~~La~i~~~~kA~~  129 (987)
T PRK09782         56 KNNDEATAIREFEYIHQQV-PDNIPLTLYLAEAYRH---FGHDDRARLLLEDQLKRHP-GD-ARLERSLAAIPVEVKSVT  129 (987)
T ss_pred             hCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH---CCCHHHHHHHHHHHHhcCc-cc-HHHHHHHHHhccChhHHH
Confidence            3578889999999998764 2346678888888888   9999999999998876543 11 1111111111        


Q ss_pred             --HhhCCCCCCCCcchhHHHHHHHH--------HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH-HHHHHhcCChhHHH
Q 043999           93 --TQLFPSSSNPVTKSRLYESIIDA--------HLKSRLSDQALFYFHQMLDSGVRPRSNTFNSL-LIFVIKSCSFDKGW  161 (574)
Q Consensus        93 --~~~~~~~~~~~~~~~~~~~li~~--------~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l-l~~~~~~g~~~~A~  161 (574)
                        .+..   ...|.+..++..+...        |.+.++..++++    .......|+..+.... ...|.+.|++++|+
T Consensus       130 ~ye~l~---~~~P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~----lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai  202 (987)
T PRK09782        130 TVEELL---AQQKACDAVPTLRCRSEVGQNALRLAQLPVARAQLN----DATFAASPEGKTLRTDLLQRAIYLKQWSQAD  202 (987)
T ss_pred             HHHHHH---HhCCCChhHHHHHHHHhhccchhhhhhHHHHHHHHH----HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHH
Confidence              1110   1123344555555554        666655455554    2222223445544444 78888888888888


Q ss_pred             HHHHHcccCCCCCHHHHHHHHHHHHh-cCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 043999          162 LFFSENRCKVELDVYSFGILIKGCCE-AGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELG  240 (574)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  240 (574)
                      ..+.++.+..+.+......|...|.+ .++ +++..+++..    ++.+...+..++..|.+.|+.++|.++++++....
T Consensus       203 ~lL~~L~k~~pl~~~~~~~L~~ay~q~l~~-~~a~al~~~~----lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~  277 (987)
T PRK09782        203 TLYNEARQQNTLSAAERRQWFDVLLAGQLD-DRLLALQSQG----IFTDPQSRITYATALAYRGEKARLQHYLIENKPLF  277 (987)
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHhhCH-HHHHHHhchh----cccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccc
Confidence            88888887766677777777778877 366 7777775532    23577788888888888888888888888875443


Q ss_pred             CC-CChhhHHHH------------------------------HHHHHhcCCHHHHHHHH---------------------
Q 043999          241 LV-ATQHTYTVL------------------------------ICGLFKNGLQKDGFEFY---------------------  268 (574)
Q Consensus       241 ~~-~~~~~~~~l------------------------------i~~~~~~g~~~~a~~~~---------------------  268 (574)
                      .. |...+|--+                              +..+.++++++-+.++.                     
T Consensus       278 ~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~  357 (987)
T PRK09782        278 TTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRN  357 (987)
T ss_pred             cCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCc
Confidence            22 333333221                              22223333333222221                     


Q ss_pred             --------HHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-------------------------------
Q 043999          269 --------EKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHR-------------------------------  309 (574)
Q Consensus       269 --------~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-------------------------------  309 (574)
                              +.|.+.. +-+.....-+.-...+.|+.++|.++|+.....                               
T Consensus       358 ~~~~~~~~~~~y~~~-~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~  436 (987)
T PRK09782        358 KAEALRLARLLYQQE-PANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVA  436 (987)
T ss_pred             hhHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHH
Confidence                    0011000 000000011111122334444444443333220                               


Q ss_pred             --------------------------------C-CCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHH
Q 043999          310 --------------------------------E-VAC--NVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYN  354 (574)
Q Consensus       310 --------------------------------~-~~~--~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~  354 (574)
                                                      + .++  +...|..+..++.. ++.++|...+.+....  .|+.....
T Consensus       437 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L  513 (987)
T PRK09782        437 ILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHR  513 (987)
T ss_pred             HhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHH
Confidence                                            0 012  34555555555554 6777777777766654  35544333


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcC
Q 043999          355 KLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSD  434 (574)
Q Consensus       355 ~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  434 (574)
                      .+...+...|++++|...|+++...  .|+...+..+...+.+.|+.++|...+++..+.. +.+...+..+.......|
T Consensus       514 ~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~G  590 (987)
T PRK09782        514 AVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPG  590 (987)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCC
Confidence            3444556788888888888887654  3444556666777888888888888888888764 223333333344445668


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 043999          435 DMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLG  514 (574)
Q Consensus       435 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  514 (574)
                      ++++|...+++..+.  .|+...+..+...+.+.|+.++|+..+++.+...+. +...++.+...+...|++++|++.++
T Consensus       591 r~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd-~~~a~~nLG~aL~~~G~~eeAi~~l~  667 (987)
T PRK09782        591 QPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALELEPN-NSNYQAALGYALWDSGDIAQSREMLE  667 (987)
T ss_pred             CHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            899999998888875  466778888888888999999999999988886433 56778888888888999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 043999          515 EMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSV  560 (574)
Q Consensus       515 ~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~  560 (574)
                      +..+.. +-+...+..+..++...|++++|...+++.++.  .|+.
T Consensus       668 ~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l--~P~~  710 (987)
T PRK09782        668 RAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVIDD--IDNQ  710 (987)
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCC
Confidence            888852 335677888888888999999999999998865  5654

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

Probab=99.93  E-value=1.6e-21  Score=184.41  Aligned_cols=405  Identities=14%  Similarity=0.136  Sum_probs=302.2

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhH
Q 043999          114 DAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNK  193 (574)
Q Consensus       114 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  193 (574)
                      ..+.+..+.+.....-...++.. +--..+|..+...+-..|++++|+.+++.+.+..+..+..|..+..++...|+.+.
T Consensus        90 ai~~q~~r~d~s~a~~~~a~r~~-~q~ae~ysn~aN~~kerg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~  168 (966)
T KOG4626|consen   90 AIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILKERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLEL  168 (966)
T ss_pred             hhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHHHhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcc
Confidence            44555555555555444444432 23466777777888888888888888888777667777888888888888888888


Q ss_pred             HHHHHHHHHHCCCCCCHHhH-HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          194 AFEVLNQLEEMGFSPNVVIY-TSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQ  272 (574)
Q Consensus       194 A~~~~~~m~~~g~~p~~~~~-~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  272 (574)
                      |.+.|.+.++.  .|+.... +.+...+-..|++++|..-|.+..+..+. -...|+.|...+-.+|+...|+..|++..
T Consensus       169 a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~cYlkAi~~qp~-fAiawsnLg~~f~~~Gei~~aiq~y~eAv  245 (966)
T KOG4626|consen  169 AVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKACYLKAIETQPC-FAIAWSNLGCVFNAQGEIWLAIQHYEEAV  245 (966)
T ss_pred             cHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHHHHHHHHhhCCc-eeeeehhcchHHhhcchHHHHHHHHHHhh
Confidence            88888887764  4555443 33445555678888888888877765432 45678888888888888888888888887


Q ss_pred             HCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChh
Q 043999          273 LNGVSPS-LYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVI  351 (574)
Q Consensus       273 ~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~  351 (574)
                      +.  .|+ ...|..|...|...+.+++|...+.+.....+. ..+.+..+...|..+|..+-|+..|++.++.. +.=..
T Consensus       246 kl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn-~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~  321 (966)
T KOG4626|consen  246 KL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPN-HAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPD  321 (966)
T ss_pred             cC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCc-chhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchH
Confidence            65  343 457778888888888888888888887765443 56777778888888888888888888888753 22356


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HhHHHHHHHHH
Q 043999          352 TYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPS-EVTYTILIDSF  430 (574)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~li~~~  430 (574)
                      .|+.|.+++-..|++.+|...|.+..... +.-..+.+.|...+...|.+++|..+|....+-  .|. ....+.|...|
T Consensus       322 Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~  398 (966)
T KOG4626|consen  322 AYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIY  398 (966)
T ss_pred             HHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHH
Confidence            78888888888888888888888887762 224567778888888888899988888888765  333 35677888888


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHH
Q 043999          431 VRSDDMEKAFEMYSLMQKSGFSPD-VYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPN-DVVYNMMIFGYCKEGNSYR  508 (574)
Q Consensus       431 ~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~  508 (574)
                      -++|++++|...|++.++.  .|+ ...|+.+...|-..|+++.|.+.+.+++..  .|. ...++.|...|-..|+..+
T Consensus       399 kqqgnl~~Ai~~YkealrI--~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~--nPt~AeAhsNLasi~kDsGni~~  474 (966)
T KOG4626|consen  399 KQQGNLDDAIMCYKEALRI--KPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQI--NPTFAEAHSNLASIYKDSGNIPE  474 (966)
T ss_pred             HhcccHHHHHHHHHHHHhc--CchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhc--CcHHHHHHhhHHHHhhccCCcHH
Confidence            8999999999999888875  455 467888888899999999999999988875  443 5678888999999999999


Q ss_pred             HHHHHHHHHHCCCCCCH-HHHHHHHHHH
Q 043999          509 ALRLLGEMNEKGLVPNI-ASYSSTIGVL  535 (574)
Q Consensus       509 A~~~~~~m~~~g~~p~~-~~~~~l~~~~  535 (574)
                      |++-+++.++  ++||. ..|..++.++
T Consensus       475 AI~sY~~aLk--lkPDfpdA~cNllh~l  500 (966)
T KOG4626|consen  475 AIQSYRTALK--LKPDFPDAYCNLLHCL  500 (966)
T ss_pred             HHHHHHHHHc--cCCCCchhhhHHHHHH
Confidence            9999999888  56764 4454455443

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.92  E-value=7.1e-22  Score=196.29  Aligned_cols=303  Identities=15%  Similarity=0.095  Sum_probs=143.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HhhHHHHHHHHHhcCC
Q 043999          219 GCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPS---LYTYNCLIHEYCNEGK  295 (574)
Q Consensus       219 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~---~~~~~~li~~~~~~g~  295 (574)
                      .+...|++++|...|+++.+.++. +..++..+...+...|++++|..+++.+...+..++   ..++..+...|.+.|+
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~  122 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVDPE-TVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGL  122 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCC
Confidence            344556666666666666554322 344555555566666666666666665554321111   1234455555555555


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          296 VSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQ  375 (574)
Q Consensus       296 ~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  375 (574)
                      +++|..+|+++.+... .+..+++.++..+.+.|++++|...++.+.+.+..++...                       
T Consensus       123 ~~~A~~~~~~~l~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-----------------------  178 (389)
T PRK11788        123 LDRAEELFLQLVDEGD-FAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVE-----------------------  178 (389)
T ss_pred             HHHHHHHHHHHHcCCc-chHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHH-----------------------
Confidence            5555555555554322 2444555555555555555555555555554332111100                       


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 043999          376 LKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDV  455 (574)
Q Consensus       376 ~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~  455 (574)
                              ....+..+...+.+.|++++|...++++.+.. +.+...+..+...+.+.|++++|.++++++.+.+.....
T Consensus       179 --------~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~  249 (389)
T PRK11788        179 --------IAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLS  249 (389)
T ss_pred             --------HHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHH
Confidence                    00112233334444444444444444444332 112333444444445555555555555554443211112


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 043999          456 YTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVL  535 (574)
Q Consensus       456 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  535 (574)
                      .+++.++.+|.+.|++++|.+.++++.+.  .|+...+..++..+.+.|++++|..+++++.+.  .|+..++..++..+
T Consensus       250 ~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~  325 (389)
T PRK11788        250 EVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYH  325 (389)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHh
Confidence            33444555555555555555555555443  233333444555555555555555555555442  34544555444444


Q ss_pred             Hh---cCCHHHHHHHHHHHHHcCCCCC
Q 043999          536 CQ---DGKWPEAEVLLNQMLKLGLKPS  559 (574)
Q Consensus       536 ~~---~g~~~~A~~~~~~m~~~g~~p~  559 (574)
                      +.   .|+.+++..++++|.++++.|+
T Consensus       326 ~~~~~~g~~~~a~~~~~~~~~~~~~~~  352 (389)
T PRK11788        326 LAEAEEGRAKESLLLLRDLVGEQLKRK  352 (389)
T ss_pred             hhccCCccchhHHHHHHHHHHHHHhCC
Confidence            43   2345555555555554444443

>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=99.92  E-value=7.4e-20  Score=191.36  Aligned_cols=432  Identities=12%  Similarity=-0.019  Sum_probs=258.0

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHH
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCC  186 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~  186 (574)
                      ..+......|.+.|++++|+..|++.++.  .|+...|..+..+|.+.|++++|+..++......|.+..+|..+..+|.
T Consensus       128 ~~~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~  205 (615)
T TIGR00990       128 AKLKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            34667889999999999999999999875  5778888889999999999999999999998877888899999999999


Q ss_pred             hcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 043999          187 EAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFE  266 (574)
Q Consensus       187 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  266 (574)
                      ..|++++|+.-|......+.. +......++..+..    ..+........+... ++...+..+...+ ..........
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~~-~~~~~~~~~~~~l~----~~a~~~~~~~l~~~~-~~~~~~~~~~~~~-~~~~~~~~~~  278 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDGF-RNEQSAQAVERLLK----KFAESKAKEILETKP-ENLPSVTFVGNYL-QSFRPKPRPA  278 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCCC-ccHHHHHHHHHHHH----HHHHHHHHHHHhcCC-CCCCCHHHHHHHH-HHccCCcchh
Confidence            999999999988776654211 11111222222211    122222222222221 1222333222221 1111111111


Q ss_pred             HHHHHHHCCCCCCH-hhHHHHHHH---HHhcCCHHHHHHHHHHHHhCC-C-CCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          267 FYEKMQLNGVSPSL-YTYNCLIHE---YCNEGKVSEGFKLFDEMRHRE-V-ACNVVTYNTLICGLCKEMRVQEAERLLDQ  340 (574)
Q Consensus       267 ~~~~~~~~g~~p~~-~~~~~li~~---~~~~g~~~~A~~~~~~m~~~~-~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~  340 (574)
                      -+....+  ..++. ..+..+...   ....+++++|.+.|+...+.+ . +.....|+.+...+...|++++|+..++.
T Consensus       279 ~~~~~~~--~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~k  356 (615)
T TIGR00990       279 GLEDSNE--LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSK  356 (615)
T ss_pred             hhhcccc--cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            1111111  01110 011111110   012356677777777766543 1 12345566666666677777777777777


Q ss_pred             HHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH
Q 043999          341 MKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSE  420 (574)
Q Consensus       341 m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  420 (574)
                      .++.. +.+...|..+...+...|++++|...|+++.+.. +.+...|..+...+...|++++|...|++..+.. +.+.
T Consensus       357 al~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~  433 (615)
T TIGR00990       357 SIELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFI  433 (615)
T ss_pred             HHHcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCH
Confidence            66542 2234456666666777777777777777766653 2245666666777777777777777777776653 2244


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH------HHH
Q 043999          421 VTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDV------VYN  494 (574)
Q Consensus       421 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~------~~~  494 (574)
                      ..+..+...+.+.|++++|...|+...+.. +.+...++.+...+...|++++|++.|++.+......+..      .++
T Consensus       434 ~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~  512 (615)
T TIGR00990       434 FSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLIN  512 (615)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHH
Confidence            555666666777777777777777766542 3445666667777777777777777777766542221111      112


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043999          495 MMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       495 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      ..+..+...|++++|.+++++..+.. +.+...+..+...+.+.|++++|.++|++..+.
T Consensus       513 ~a~~~~~~~~~~~eA~~~~~kAl~l~-p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       513 KALALFQWKQDFIEAENLCEKALIID-PECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            22222333567777777777766642 223345666677777777777777777776644

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

Probab=99.92  E-value=5.4e-20  Score=183.23  Aligned_cols=529  Identities=13%  Similarity=0.085  Sum_probs=385.0

Q ss_pred             HhccCChHHHHHHHHHHhhC--CCCCCHHHHHHHHHHHHhhhccCChHHHHHHHHHHHhcCCCCCCCCHHHHHH------
Q 043999           19 RMAKLPPLKAFSLFNWASRQ--GLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLC------   90 (574)
Q Consensus        19 ~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~------   90 (574)
                      .+++.+...|+.+|..+...  ...|++..  .+-+++..   .++...|...+.+.+.-..    ...++++.      
T Consensus       174 ~ynkkdY~~al~yyk~al~inp~~~aD~rI--gig~Cf~k---l~~~~~a~~a~~ralqLdp----~~v~alv~L~~~~l  244 (1018)
T KOG2002|consen  174 AYNKKDYRGALKYYKKALRINPACKADVRI--GIGHCFWK---LGMSEKALLAFERALQLDP----TCVSALVALGEVDL  244 (1018)
T ss_pred             HhccccHHHHHHHHHHHHhcCcccCCCccc--hhhhHHHh---ccchhhHHHHHHHHHhcCh----hhHHHHHHHHHHHH
Confidence            44667777777777775542  34455432  22244445   5555665555555443211    11111111      


Q ss_pred             -------------HHHhhCCCCCCCCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcC
Q 043999           91 -------------HLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVR--PRSNTFNSLLIFVIKSC  155 (574)
Q Consensus        91 -------------~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~--p~~~~~~~ll~~~~~~g  155 (574)
                                   .+.+.+.   ..+.|+++.+.|.+.|.-.|+++.+..+...+......  .-..+|-.+..++...|
T Consensus       245 ~~~d~~s~~~~~~ll~~ay~---~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~G  321 (1018)
T KOG2002|consen  245 NFNDSDSYKKGVQLLQRAYK---ENNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQG  321 (1018)
T ss_pred             HccchHHHHHHHHHHHHHHh---hcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhc
Confidence                         1111111   13467889999999999999999999999999875321  12345777889999999


Q ss_pred             ChhHHHHHHHHcccCCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcC----CHHHHH
Q 043999          156 SFDKGWLFFSENRCKVELD-VYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNG----DIERAK  230 (574)
Q Consensus       156 ~~~~A~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g----~~~~A~  230 (574)
                      ++++|.+.|.+.....+.+ +..+--+...+.+.|+++.+...|+.+.+.. +.+..+...|...|...+    ..+.|.
T Consensus       322 d~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~  400 (1018)
T KOG2002|consen  322 DFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKAS  400 (1018)
T ss_pred             cHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHH
Confidence            9999999999887764545 6677888999999999999999999998863 335567777777777775    567888


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH----HCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          231 MLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQ----LNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEM  306 (574)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~----~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  306 (574)
                      .++.+..+..+. |...|-.+...+....-+.. +.+|....    ..+-.+.+...|.+...+...|++++|...|...
T Consensus       401 ~~l~K~~~~~~~-d~~a~l~laql~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A  478 (1018)
T KOG2002|consen  401 NVLGKVLEQTPV-DSEAWLELAQLLEQTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSA  478 (1018)
T ss_pred             HHHHHHHhcccc-cHHHHHHHHHHHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHH
Confidence            888888776543 78889888888776655544 77765544    4555678889999999999999999999999988


Q ss_pred             HhC---CCCCCH------HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          307 RHR---EVACNV------VTYNTLICGLCKEMRVQEAERLLDQMKMAGISPN-VITYNKLIDGFCDAGETDKAFRLFNQL  376 (574)
Q Consensus       307 ~~~---~~~~~~------~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~  376 (574)
                      ...   ...+|.      .+-..+...+-..++.+.|.+.|..+.+.  .|+ +..|-.++.+.-..+...+|...+...
T Consensus       479 ~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~  556 (1018)
T KOG2002|consen  479 LGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDA  556 (1018)
T ss_pred             hhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHH
Confidence            765   222232      23344566666788999999999999886  344 334444443444457888999999988


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-CCCCCHhHHHHHHHHHHh------------cCCHHHHHHHH
Q 043999          377 KSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEER-GITPSEVTYTILIDSFVR------------SDDMEKAFEMY  443 (574)
Q Consensus       377 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~li~~~~~------------~g~~~~A~~~~  443 (574)
                      ...+ ..++..++.+...+.+...+..|.+-|+...+. ...+|..+..+|.+.|.+            .+..++|+++|
T Consensus       557 l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y  635 (1018)
T KOG2002|consen  557 LNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLY  635 (1018)
T ss_pred             Hhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHH
Confidence            7753 447777888888899988998888877766543 223677777777776543            34578999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCC
Q 043999          444 SLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEK-GLV  522 (574)
Q Consensus       444 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~  522 (574)
                      .++++.. +.+.+.-|-+.-.++..|++.+|..+|.++.+... -...+|-.+.++|..+|++-.|++.|+...++ +..
T Consensus       636 ~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~  713 (1018)
T KOG2002|consen  636 GKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKK  713 (1018)
T ss_pred             HHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            9999875 67788888888899999999999999999998643 25678999999999999999999999998765 334


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 043999          523 PNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILY  567 (574)
Q Consensus       523 p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  567 (574)
                      .+..+...|..++.+.|++.+|.+.+...+.....-..+.+|..+
T Consensus       714 ~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~  758 (1018)
T KOG2002|consen  714 NRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLAL  758 (1018)
T ss_pred             CCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHH
Confidence            467788899999999999999999999988764333444555443

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.92  E-value=9.7e-22  Score=195.33  Aligned_cols=298  Identities=15%  Similarity=0.111  Sum_probs=139.7

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCC----CHHHHHHHHHHHHhc
Q 043999          113 IDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVEL----DVYSFGILIKGCCEA  188 (574)
Q Consensus       113 i~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~~li~~~~~~  188 (574)
                      ...+...|++++|+..|+++++.+ +.+..++..+...+...|++++|...++.+......    ...++..++..|.+.
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            344456666666666666666653 223445555666666666666666666655543111    123455555666666


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCh----hhHHHHHHHHHhcCCHHHH
Q 043999          189 GDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQ----HTYTVLICGLFKNGLQKDG  264 (574)
Q Consensus       189 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a  264 (574)
                      |++++|.++|+++.+.. +++..++..++..+.+.|++++|.+.++++.+.+..+..    ..+..+...+.+.|++++|
T Consensus       121 g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  199 (389)
T PRK11788        121 GLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAA  199 (389)
T ss_pred             CCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHH
Confidence            66666666666655432 224455555556666666666666666555544322211    1223334444444555555


Q ss_pred             HHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          265 FEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMA  344 (574)
Q Consensus       265 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  344 (574)
                      ...|+++.+.. +.+...+..+...+.+.|++++|.+.++++.+.++.....+++.++.+|.+.|++++|...++.+.+.
T Consensus       200 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  278 (389)
T PRK11788        200 RALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE  278 (389)
T ss_pred             HHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            55555444332 11233344444444444444444444444443322212233444444444444444444444444433


Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh---cCChHHHHHHHHHHHHCCCC
Q 043999          345 GISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSK---AGNSKMASDLVREMEERGIT  417 (574)
Q Consensus       345 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~~~~  417 (574)
                        .|+...+..++..+.+.|++++|.++++++.+.  .|+..+++.++..+..   .|+.+++..++++|.+.++.
T Consensus       279 --~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~  350 (389)
T PRK11788        279 --YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLK  350 (389)
T ss_pred             --CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHh
Confidence              223333344444444444444444444444332  2344444444433332   22444444444444443333

>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=99.91  E-value=4.1e-19  Score=185.80  Aligned_cols=416  Identities=11%  Similarity=0.002  Sum_probs=290.3

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHh
Q 043999          143 TFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCK  222 (574)
Q Consensus       143 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  222 (574)
                      .+......+.+.|++++|++.|++.... .|+...|..+..+|.+.|++++|++.+++.++.. +.+...+..+..+|..
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~-~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIEC-KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            3455677888999999999999998765 4577889999999999999999999999998864 2256688889999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 043999          223 NGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKL  302 (574)
Q Consensus       223 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  302 (574)
                      .|++++|+..|......+...+.. ...++..+..    ..+........+.. +++...+..+.. |...........-
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~-~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~  279 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQ-SAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPAG  279 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHH-HHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchhh
Confidence            999999999887765543221221 1122211111    22233333333321 222233333322 2222222222211


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHH---HHhcCCHHHHHHHHHHHHHCC-C-CCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          303 FDEMRHREVACNVVTYNTLICG---LCKEMRVQEAERLLDQMKMAG-I-SPNVITYNKLIDGFCDAGETDKAFRLFNQLK  377 (574)
Q Consensus       303 ~~~m~~~~~~~~~~~~~~li~~---~~~~~~~~~A~~~~~~m~~~g-~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  377 (574)
                      +....+.... ....+..+...   ....+++++|...|+...+.+ . +.+...+..+...+...|++++|...+++..
T Consensus       280 ~~~~~~~~~~-~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal  358 (615)
T TIGR00990       280 LEDSNELDEE-TGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSI  358 (615)
T ss_pred             hhcccccccc-cccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            2211111100 01111111111   123578999999999998865 2 3345678888889999999999999999998


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 043999          378 SNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYT  457 (574)
Q Consensus       378 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  457 (574)
                      +.. +.+...|..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...|++..+.. +.+...
T Consensus       359 ~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~  435 (615)
T TIGR00990       359 ELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFS  435 (615)
T ss_pred             HcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHH
Confidence            863 2246688888999999999999999999998874 3367888999999999999999999999999875 556778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH------HHHHH
Q 043999          458 YGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIA------SYSST  531 (574)
Q Consensus       458 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~------~~~~l  531 (574)
                      +..+...+.+.|++++|+..+++.++..+. +...|+.+...+...|++++|++.|++..+.....+..      .++..
T Consensus       436 ~~~la~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a  514 (615)
T TIGR00990       436 HIQLGVTQYKEGSIASSMATFRRCKKNFPE-APDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKA  514 (615)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHH
Confidence            888999999999999999999999875322 57889999999999999999999999998852111111      12222


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHhhhhcCC
Q 043999          532 IGVLCQDGKWPEAEVLLNQMLKLGLKPSVS-LYNILYRAKNNIE  574 (574)
Q Consensus       532 ~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~l~~~~~~~~  574 (574)
                      +..+...|++++|..++++.++.  .|+.. .+..+...|...|
T Consensus       515 ~~~~~~~~~~~eA~~~~~kAl~l--~p~~~~a~~~la~~~~~~g  556 (615)
T TIGR00990       515 LALFQWKQDFIEAENLCEKALII--DPECDIAVATMAQLLLQQG  556 (615)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcc
Confidence            33344579999999999999865  56554 6777777776554

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.91  E-value=3.7e-18  Score=181.79  Aligned_cols=211  Identities=14%  Similarity=0.054  Sum_probs=147.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHH
Q 043999          352 TYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFV  431 (574)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  431 (574)
                      .|..+..++.. +++++|...+.+....  .|+......+...+...|++++|...++++...  .|+...+..+...+.
T Consensus       479 a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all  553 (987)
T PRK09782        479 AWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQ  553 (987)
T ss_pred             HHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHH
Confidence            33444444443 5566677766666554  355443333444456788888888888887554  344455666677788


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 043999          432 RSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALR  511 (574)
Q Consensus       432 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  511 (574)
                      +.|+.++|...++...+.. +++...+..+...+...|++++|...+++.++.  .|+...|..+..++.+.|++++|+.
T Consensus       554 ~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~  630 (987)
T PRK09782        554 AAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVS  630 (987)
T ss_pred             HCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            8888888888888887764 333334444444455669999999999998875  4677888888999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHhhhhcC
Q 043999          512 LLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSV-SLYNILYRAKNNI  573 (574)
Q Consensus       512 ~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~  573 (574)
                      .+++..+.. +.+...+..+..++...|++++|+..+++.++.  .|+. ..+..+-.+|..+
T Consensus       631 ~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l--~P~~~~a~~nLA~al~~l  690 (987)
T PRK09782        631 DLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKG--LPDDPALIRQLAYVNQRL  690 (987)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHC
Confidence            999998852 335567778888899999999999999999875  5654 4566665555544

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.90  E-value=5.3e-19  Score=184.23  Aligned_cols=360  Identities=11%  Similarity=0.033  Sum_probs=261.7

Q ss_pred             HHhcCChHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhH
Q 043999          116 HLKSRLSDQALFYFHQMLDSGV--RPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNK  193 (574)
Q Consensus       116 ~~~~g~~~~A~~~~~~~~~~g~--~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  193 (574)
                      +.++.+++.---+|....+..-  .-+..-...++..+.+.|++++|+.+++......+.+...+..++......|++++
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         15 LLKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHH
Confidence            3456677766666655433210  01222334456667788899999988888888777778888888888888899999


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          194 AFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQL  273 (574)
Q Consensus       194 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  273 (574)
                      |.+.++++.+.. +.+...+..+...+.+.|++++|...+++..+..+. +...+..+...+...|++++|...++.+..
T Consensus        95 A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~-~~~a~~~la~~l~~~g~~~eA~~~~~~~~~  172 (656)
T PRK15174         95 VLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSG-NSQIFALHLRTLVLMDKELQAISLARTQAQ  172 (656)
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence            999998888753 235567788888888889999999888888776433 566788888888888888888888888766


Q ss_pred             CCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhH
Q 043999          274 NGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITY  353 (574)
Q Consensus       274 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~  353 (574)
                      .... +...+..+ ..+...|++++|...++.+.+....++...+..+...+.+.|++++|+..++++.+.. +.+...+
T Consensus       173 ~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~  249 (656)
T PRK15174        173 EVPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALR  249 (656)
T ss_pred             hCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHH
Confidence            5322 22333333 3477788888888888888776544455555566677888888888888888888764 4456677


Q ss_pred             HHHHHHHHhcCCHHH----HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHH
Q 043999          354 NKLIDGFCDAGETDK----AFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDS  429 (574)
Q Consensus       354 ~~li~~~~~~g~~~~----A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  429 (574)
                      ..+...+...|++++    |...|+++.+.. +.+...+..+...+.+.|++++|...+++..+... .+...+..+...
T Consensus       250 ~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P-~~~~a~~~La~~  327 (656)
T PRK15174        250 RSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHP-DLPYVRAMYARA  327 (656)
T ss_pred             HHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHH
Confidence            778888888888875    788888887763 23567788888888888888888888888887632 245566677778


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043999          430 FVRSDDMEKAFEMYSLMQKSGFSPDV-YTYGVLIHGLCMKGNMKEASKLFNSMWET  484 (574)
Q Consensus       430 ~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~  484 (574)
                      +.+.|++++|...++.+.+..  |+. ..+..+..++...|+.++|...|++..+.
T Consensus       328 l~~~G~~~eA~~~l~~al~~~--P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        328 LRQVGQYTAASDEFVQLAREK--GVTSKWNRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            888888888888888887653  433 33444566778888888888888888775

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.90  E-value=3.1e-19  Score=185.90  Aligned_cols=354  Identities=11%  Similarity=0.036  Sum_probs=289.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhc
Q 043999          109 YESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEA  188 (574)
Q Consensus       109 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~  188 (574)
                      ....+..+.+.|++++|+.+++..+... +-+...+..++.+....|++++|...|+++....|.+...+..+...+.+.
T Consensus        45 ~~~~~~~~~~~g~~~~A~~l~~~~l~~~-p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~~  123 (656)
T PRK15174         45 IILFAIACLRKDETDVGLTLLSDRVLTA-KNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLKS  123 (656)
T ss_pred             HHHHHHHHHhcCCcchhHHHhHHHHHhC-CCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHc
Confidence            4567788889999999999999998874 334556666778888899999999999999988888999999999999999


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 043999          189 GDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFY  268 (574)
Q Consensus       189 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  268 (574)
                      |++++|.+.+++..+.. +.+...+..+...+...|++++|...++++....+. +...+..+ ..+...|++++|...+
T Consensus       124 g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~  200 (656)
T PRK15174        124 KQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDLA  200 (656)
T ss_pred             CCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHH
Confidence            99999999999999853 235678889999999999999999999998776544 33344333 3478899999999999


Q ss_pred             HHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH----HHHHHHHHHHC
Q 043999          269 EKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQE----AERLLDQMKMA  344 (574)
Q Consensus       269 ~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~----A~~~~~~m~~~  344 (574)
                      +.+.+....++...+..+...+.+.|++++|...++++.+..+. +...+..+...+.+.|++++    |...|+++.+.
T Consensus       201 ~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l  279 (656)
T PRK15174        201 RALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLD-GAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF  279 (656)
T ss_pred             HHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh
Confidence            99887643345555566678899999999999999999987655 78888899999999999986    89999999886


Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-hHH
Q 043999          345 GISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSE-VTY  423 (574)
Q Consensus       345 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~  423 (574)
                      . +.+...+..+...+.+.|++++|...+++..+... .+...+..+...+.+.|++++|...++++.+.+  |+. ..+
T Consensus       280 ~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P-~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~--P~~~~~~  355 (656)
T PRK15174        280 N-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHP-DLPYVRAMYARALRQVGQYTAASDEFVQLAREK--GVTSKWN  355 (656)
T ss_pred             C-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--ccchHHH
Confidence            4 45677889999999999999999999999998743 356677788899999999999999999998763  443 334


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043999          424 TILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWET  484 (574)
Q Consensus       424 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  484 (574)
                      ..+..++...|+.++|...|++..+.  .|+..           ...+++|...+.+..+.
T Consensus       356 ~~~a~al~~~G~~deA~~~l~~al~~--~P~~~-----------~~~~~ea~~~~~~~~~~  403 (656)
T PRK15174        356 RYAAAALLQAGKTSEAESVFEHYIQA--RASHL-----------PQSFEEGLLALDGQISA  403 (656)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--Chhhc-----------hhhHHHHHHHHHHHHHh
Confidence            44567789999999999999999876  34432           24455677667666654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.90  E-value=9.7e-19  Score=186.21  Aligned_cols=420  Identities=11%  Similarity=0.053  Sum_probs=218.3

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHH
Q 043999          105 KSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKG  184 (574)
Q Consensus       105 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~  184 (574)
                      ++..-.-.+......|+.++|++++.+..... +.+...+..+...+.+.|++++|.+++++.....|.+...+..++..
T Consensus        14 ~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~   92 (765)
T PRK10049         14 SNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILT   92 (765)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            33334455566667778888887777776532 33455567777777777788888777777766666667777777777


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHH
Q 043999          185 CCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDG  264 (574)
Q Consensus       185 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  264 (574)
                      +...|++++|+..+++..+.. +.+.. +..+..++...|+.++|+..++++.+..+. +...+..+...+...|..++|
T Consensus        93 l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~A  169 (765)
T PRK10049         93 LADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAPA  169 (765)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHHH
Confidence            777777777777777777652 22444 667777777777777777777777776543 455555666677777777777


Q ss_pred             HHHHHHHHHCCCCCCH------hhHHHHHHHHH-----hcCCH---HHHHHHHHHHHhC-CCCCCHH-HHH----HHHHH
Q 043999          265 FEFYEKMQLNGVSPSL------YTYNCLIHEYC-----NEGKV---SEGFKLFDEMRHR-EVACNVV-TYN----TLICG  324 (574)
Q Consensus       265 ~~~~~~~~~~g~~p~~------~~~~~li~~~~-----~~g~~---~~A~~~~~~m~~~-~~~~~~~-~~~----~li~~  324 (574)
                      +..++....   .|+.      .....++....     ..+++   ++|++.++.+.+. ...|+.. .+.    ..+..
T Consensus       170 l~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~  246 (765)
T PRK10049        170 LGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGA  246 (765)
T ss_pred             HHHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHH
Confidence            777765543   2221      01111111111     11112   3444444444432 1111110 010    01222


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCC-CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCC
Q 043999          325 LCKEMRVQEAERLLDQMKMAGIS-PNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSP---SVVTYNVLIRAFSKAGN  400 (574)
Q Consensus       325 ~~~~~~~~~A~~~~~~m~~~g~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~---~~~~~~~li~~~~~~g~  400 (574)
                      +...|++++|+..|+.+.+.+.+ |+. ....+...|...|++++|...|+++.+.....   .......+..++.+.|+
T Consensus       247 Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~  325 (765)
T PRK10049        247 LLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESEN  325 (765)
T ss_pred             HHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhccc
Confidence            33444555555555555444311 111 11112344445555555555555544321110   01223333334444555


Q ss_pred             hHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCCHHHHHHH
Q 043999          401 SKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPD---VYTYGVLIHGLCMKGNMKEASKL  477 (574)
Q Consensus       401 ~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~  477 (574)
                      +++|..+++++.+... ++...+.                       ...-.|+   ...+..+...+...|+.++|++.
T Consensus       326 ~~eA~~~l~~~~~~~P-~~~~~~~-----------------------~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~  381 (765)
T PRK10049        326 YPGALTVTAHTINNSP-PFLRLYG-----------------------SPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMR  381 (765)
T ss_pred             HHHHHHHHHHHhhcCC-ceEeecC-----------------------CCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            5555555554443310 0000000                       0000112   12333445555566666666666


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 043999          478 FNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPN-IASYSSTIGVLCQDGKWPEAEVLLNQMLKLGL  556 (574)
Q Consensus       478 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  556 (574)
                      ++++....+. +...+..+...+...|++++|++.+++..+.  .|+ ...+...+..+.+.|++++|..+++++++.  
T Consensus       382 l~~al~~~P~-n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l--~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~--  456 (765)
T PRK10049        382 ARELAYNAPG-NQGLRIDYASVLQARGWPRAAENELKKAEVL--EPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAR--  456 (765)
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--
Confidence            6666554322 4555666666666666666666666666653  233 344445555566666666666666666643  


Q ss_pred             CCCHH
Q 043999          557 KPSVS  561 (574)
Q Consensus       557 ~p~~~  561 (574)
                      .|+..
T Consensus       457 ~Pd~~  461 (765)
T PRK10049        457 EPQDP  461 (765)
T ss_pred             CCCCH
Confidence            44443

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

Probab=99.89  E-value=5.6e-18  Score=169.11  Aligned_cols=442  Identities=12%  Similarity=0.065  Sum_probs=337.5

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRS--NTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIK  183 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~--~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  183 (574)
                      ..+|-.+.++|...|++++|...|.+..+..  |+.  ..+-.|.+.+.+.|+.+++...|+.+....|.+..+..+|..
T Consensus       307 aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~--~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~  384 (1018)
T KOG2002|consen  307 AESFYQLGRSYHAQGDFEKAFKYYMESLKAD--NDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGC  384 (1018)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHccC--CCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHh
Confidence            4568899999999999999999999998864  444  444557788999999999999999999998999999999999


Q ss_pred             HHHhcC----ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH----hCCCCCChhhHHHHHHHH
Q 043999          184 GCCEAG----DLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIG----ELGLVATQHTYTVLICGL  255 (574)
Q Consensus       184 ~~~~~g----~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~~~~~li~~~  255 (574)
                      .|...+    ..+.|..++.+..+.- +.|...|-.+...+-.. +...++..|....    ..+-.+.+...|.+...+
T Consensus       385 Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~-d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslh  462 (1018)
T KOG2002|consen  385 LYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQT-DPWASLDAYGNALDILESKGKQIPPEVLNNVASLH  462 (1018)
T ss_pred             HHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhc-ChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHH
Confidence            998876    5677777777777653 34667787777777554 4444477776543    445457788999999999


Q ss_pred             HhcCCHHHHHHHHHHHHHC---CCCCCH------hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 043999          256 FKNGLQKDGFEFYEKMQLN---GVSPSL------YTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLC  326 (574)
Q Consensus       256 ~~~g~~~~a~~~~~~~~~~---g~~p~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  326 (574)
                      ...|.+++|...|......   ...+|.      .+-..+...+-..++.+.|.+.|..+.+..+. -+..|-.+.....
T Consensus       463 f~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~-YId~ylRl~~ma~  541 (1018)
T KOG2002|consen  463 FRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPG-YIDAYLRLGCMAR  541 (1018)
T ss_pred             HHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCch-hHHHHHHhhHHHH
Confidence            9999999999999988765   223333      33445667777788999999999999987443 4445555554444


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHh--------
Q 043999          327 KEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNG-QSPSVVTYNVLIRAFSK--------  397 (574)
Q Consensus       327 ~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g-~~~~~~~~~~li~~~~~--------  397 (574)
                      ..+...+|...+....... ..++..++.+.+.+.+...+..|.+-|+.+.+.- ..+|..+.-.|.+.|.+        
T Consensus       542 ~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn  620 (1018)
T KOG2002|consen  542 DKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRN  620 (1018)
T ss_pred             hccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccC
Confidence            5678889999999988764 4566677778889999999999998777776542 22566666666665543        


Q ss_pred             ----cCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 043999          398 ----AGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKE  473 (574)
Q Consensus       398 ----~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  473 (574)
                          .+..++|+++|.+.++... .|...-+.+.-.++..|++.+|..+|.++.+.. .....+|-.+.++|..+|++..
T Consensus       621 ~ek~kk~~~KAlq~y~kvL~~dp-kN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~-~~~~dv~lNlah~~~e~~qy~~  698 (1018)
T KOG2002|consen  621 PEKEKKHQEKALQLYGKVLRNDP-KNMYAANGIGIVLAEKGRFSEARDIFSQVREAT-SDFEDVWLNLAHCYVEQGQYRL  698 (1018)
T ss_pred             hHHHHHHHHHHHHHHHHHHhcCc-chhhhccchhhhhhhccCchHHHHHHHHHHHHH-hhCCceeeeHHHHHHHHHHHHH
Confidence                2456789999999888743 377888888889999999999999999999875 3455678889999999999999


Q ss_pred             HHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH------------------
Q 043999          474 ASKLFNSMWET-KLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGV------------------  534 (574)
Q Consensus       474 A~~~~~~~~~~-~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~------------------  534 (574)
                      |+++|+...+. ...-+..+...|..++.+.|++.+|.+.+.............-||..+-.                  
T Consensus       699 AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev  778 (1018)
T KOG2002|consen  699 AIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEV  778 (1018)
T ss_pred             HHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHH
Confidence            99999998876 33446788999999999999999999999988885322223444443321                  


Q ss_pred             HHhcCCHHHHHHHHHHHHHcC
Q 043999          535 LCQDGKWPEAEVLLNQMLKLG  555 (574)
Q Consensus       535 ~~~~g~~~~A~~~~~~m~~~g  555 (574)
                      ....+..++|.++|.+|...+
T Consensus       779 ~~a~~~le~a~r~F~~ls~~~  799 (1018)
T KOG2002|consen  779 LEAVKELEEARRLFTELSKNG  799 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHhcC
Confidence            122356788999999998654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.89  E-value=1.2e-18  Score=185.41  Aligned_cols=383  Identities=10%  Similarity=0.010  Sum_probs=251.0

Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHH
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILI  182 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li  182 (574)
                      +.+...+..+...+.+.|++++|.++|++.++.. +.+...+..+...+...|++++|+..++++....|.+.. +..+.
T Consensus        46 ~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~P~~~~-~~~la  123 (765)
T PRK10049         46 QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGAPDKAN-LLALA  123 (765)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHH
Confidence            4556779999999999999999999999998863 445677778888999999999999999999988788888 99999


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCh------hhHHHHHHHHH
Q 043999          183 KGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQ------HTYTVLICGLF  256 (574)
Q Consensus       183 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~------~~~~~li~~~~  256 (574)
                      ..+...|+.++|+..++++.+... .+...+..+...+...|..++|++.+++...   .|+.      .....++....
T Consensus       124 ~~l~~~g~~~~Al~~l~~al~~~P-~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~  199 (765)
T PRK10049        124 YVYKRAGRHWDELRAMTQALPRAP-QTQQYPTEYVQALRNNRLSAPALGAIDDANL---TPAEKRDLEADAAAELVRLSF  199 (765)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCChHHHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhc
Confidence            999999999999999999998643 2556667788888899999999999987664   1221      11222222222


Q ss_pred             -----hcCCH---HHHHHHHHHHHHC-CCCCCHh-hHH----HHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHH
Q 043999          257 -----KNGLQ---KDGFEFYEKMQLN-GVSPSLY-TYN----CLIHEYCNEGKVSEGFKLFDEMRHREVA-CNVVTYNTL  321 (574)
Q Consensus       257 -----~~g~~---~~a~~~~~~~~~~-g~~p~~~-~~~----~li~~~~~~g~~~~A~~~~~~m~~~~~~-~~~~~~~~l  321 (574)
                           ..+++   ++|++.++.+.+. ...|+.. .+.    ..+..+...|++++|+..|+.+.+.+.+ |+. ....+
T Consensus       200 ~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~l  278 (765)
T PRK10049        200 MPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWV  278 (765)
T ss_pred             ccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHH
Confidence                 22334   7788899988854 2233322 111    1134566789999999999999887643 322 22235


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 043999          322 ICGLCKEMRVQEAERLLDQMKMAGISP---NVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKA  398 (574)
Q Consensus       322 i~~~~~~~~~~~A~~~~~~m~~~g~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~  398 (574)
                      ...|...|++++|+..|+++.+.....   .......+..++...|++++|.++++.+.+... +....+.         
T Consensus       279 a~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P-~~~~~~~---------  348 (765)
T PRK10049        279 ASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSP-PFLRLYG---------  348 (765)
T ss_pred             HHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCC-ceEeecC---------
Confidence            778999999999999999987653111   123456677788999999999999999987521 1110000         


Q ss_pred             CChHHHHHHHHHHHHCCCCCCH---hHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 043999          399 GNSKMASDLVREMEERGITPSE---VTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEAS  475 (574)
Q Consensus       399 g~~~~A~~~~~~m~~~~~~p~~---~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  475 (574)
                                  ...  ..|+.   ..+..+...+...|+.++|.++++++.... +.+...+..+...+...|+.++|+
T Consensus       349 ------------~~~--~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~  413 (765)
T PRK10049        349 ------------SPT--SIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAE  413 (765)
T ss_pred             ------------CCC--CCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHH
Confidence                        000  01221   122333344444555555555555544432 333444455555555555555555


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          476 KLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       476 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      +.+++++...+. +...+...+..+...|++++|..+++++++
T Consensus       414 ~~l~~al~l~Pd-~~~l~~~~a~~al~~~~~~~A~~~~~~ll~  455 (765)
T PRK10049        414 NELKKAEVLEPR-NINLEVEQAWTALDLQEWRQMDVLTDDVVA  455 (765)
T ss_pred             HHHHHHHhhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            555555543211 233344444445555555555555555555

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.88  E-value=1.5e-16  Score=166.18  Aligned_cols=444  Identities=11%  Similarity=0.082  Sum_probs=327.7

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRS-NTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      ..|...|.. .+.|+++.|++.|++.++..  |+. .....++..+...|+.++|+..+++.....+........++..+
T Consensus        36 ~~y~~aii~-~r~Gd~~~Al~~L~qaL~~~--P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly  112 (822)
T PRK14574         36 TQYDSLIIR-ARAGDTAPVLDYLQEESKAG--PLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAY  112 (822)
T ss_pred             HHHHHHHHH-HhCCCHHHHHHHHHHHHhhC--ccchhhHHHHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHH
Confidence            445555544 59999999999999999864  443 22338888888999999999999999844455556666667899


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHH
Q 043999          186 CEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGF  265 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  265 (574)
                      ...|++++|+++++++.+.... +...+..++..+...++.++|++.++++....  |+...+..++..+...++..+|+
T Consensus       113 ~~~gdyd~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~d--p~~~~~l~layL~~~~~~~~~AL  189 (822)
T PRK14574        113 RNEKRWDQALALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAERD--PTVQNYMTLSYLNRATDRNYDAL  189 (822)
T ss_pred             HHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhcccC--cchHHHHHHHHHHHhcchHHHHH
Confidence            9999999999999999987533 46777788899999999999999999998764  45555555555555567776799


Q ss_pred             HHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH------HHHHHHH-----HhcCCH---
Q 043999          266 EFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTY------NTLICGL-----CKEMRV---  331 (574)
Q Consensus       266 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~------~~li~~~-----~~~~~~---  331 (574)
                      +.++++.+.. +-+...+..+...+.+.|-...|.++..+-... ..+...-+      ..++..-     ....++   
T Consensus       190 ~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~  267 (822)
T PRK14574        190 QASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIA  267 (822)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHH
Confidence            9999999874 336777888899999999999988777653321 11111001      1111100     012233   


Q ss_pred             HHHHHHHHHHHHC-C-CCCChhhH----HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 043999          332 QEAERLLDQMKMA-G-ISPNVITY----NKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMAS  405 (574)
Q Consensus       332 ~~A~~~~~~m~~~-g-~~~~~~~~----~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~  405 (574)
                      +.|+.-++.+... + .++....|    --.+-++...|+..++++.|+.+...+.+....+-..+.++|...+++++|.
T Consensus       268 d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~  347 (822)
T PRK14574        268 DKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAA  347 (822)
T ss_pred             HHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHH
Confidence            4455555555542 1 12222222    2334577789999999999999998876655567788999999999999999


Q ss_pred             HHHHHHHHCC-----CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-----------CC--CH-HHHHHHHHHHH
Q 043999          406 DLVREMEERG-----ITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGF-----------SP--DV-YTYGVLIHGLC  466 (574)
Q Consensus       406 ~~~~~m~~~~-----~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-----------~~--~~-~~~~~li~~~~  466 (574)
                      .+++++....     ..++......|.-++...+++++|..+++.+.+...           .|  |- ..+..++..+.
T Consensus       348 ~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~  427 (822)
T PRK14574        348 PILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLV  427 (822)
T ss_pred             HHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHH
Confidence            9999997643     122344457888999999999999999999987311           12  22 23445677788


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHH
Q 043999          467 MKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVP-NIASYSSTIGVLCQDGKWPEAE  545 (574)
Q Consensus       467 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~  545 (574)
                      ..|++.+|++.++++....+. |......+...+...|++.+|.+.++.....  .| +..+....+.++...|++.+|.
T Consensus       428 ~~gdl~~Ae~~le~l~~~aP~-n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l--~P~~~~~~~~~~~~al~l~e~~~A~  504 (822)
T PRK14574        428 ALNDLPTAQKKLEDLSSTAPA-NQNLRIALASIYLARDLPRKAEQELKAVESL--APRSLILERAQAETAMALQEWHQME  504 (822)
T ss_pred             HcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh--CCccHHHHHHHHHHHHhhhhHHHHH
Confidence            999999999999999887544 8899999999999999999999999777664  44 4567778888889999999999


Q ss_pred             HHHHHHHHcCCCCCHHHH
Q 043999          546 VLLNQMLKLGLKPSVSLY  563 (574)
Q Consensus       546 ~~~~~m~~~g~~p~~~~~  563 (574)
                      .+.+.+.+.  .|+...-
T Consensus       505 ~~~~~l~~~--~Pe~~~~  520 (822)
T PRK14574        505 LLTDDVISR--SPEDIPS  520 (822)
T ss_pred             HHHHHHHhh--CCCchhH
Confidence            999999865  6665543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.87  E-value=4.8e-16  Score=162.50  Aligned_cols=435  Identities=11%  Similarity=0.045  Sum_probs=323.3

Q ss_pred             cCChHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhCCCCCCCCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 043999           60 SHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRP  139 (574)
Q Consensus        60 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p  139 (574)
                      .|++..|...+.+.++..                        |...+.++ .++..+...|+.++|+..+++..... +.
T Consensus        47 ~Gd~~~Al~~L~qaL~~~------------------------P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~-n~  100 (822)
T PRK14574         47 AGDTAPVLDYLQEESKAG------------------------PLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSM-NI  100 (822)
T ss_pred             CCCHHHHHHHHHHHHhhC------------------------ccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCC-CC
Confidence            788888888888776432                        11112334 88888889999999999999998321 22


Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHH
Q 043999          140 RSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDG  219 (574)
Q Consensus       140 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  219 (574)
                      .......+...+...|++++|+++|+++....|.+...+..++..+.+.++.++|++.++++...  .|+...+..++..
T Consensus       101 ~~~~llalA~ly~~~gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL  178 (822)
T PRK14574        101 SSRGLASAARAYRNEKRWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYL  178 (822)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHH
Confidence            23333334567888899999999999999988888899999999999999999999999999875  4666666556555


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhH------HHHHHHH---
Q 043999          220 CCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTY------NCLIHEY---  290 (574)
Q Consensus       220 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~------~~li~~~---  290 (574)
                      +...++..+|++.++++.+.++. +...+..+...+.+.|-...|.++..+-... +.+...-+      ...++.-   
T Consensus       179 ~~~~~~~~~AL~~~ekll~~~P~-n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~  256 (822)
T PRK14574        179 NRATDRNYDALQASSEAVRLAPT-SEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLP  256 (822)
T ss_pred             HHhcchHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccc
Confidence            65577777799999999998644 6778888999999999999998877653311 11111111      1111110   


Q ss_pred             --HhcCC---HHHHHHHHHHHHhC-CCCCCH-HHH----HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 043999          291 --CNEGK---VSEGFKLFDEMRHR-EVACNV-VTY----NTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDG  359 (574)
Q Consensus       291 --~~~g~---~~~A~~~~~~m~~~-~~~~~~-~~~----~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~  359 (574)
                        ....+   .+.|+.-++.+... +..|.. ..|    --.+.++...+++.++++.|+.+...|.+....+-..+.++
T Consensus       257 ~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~ada  336 (822)
T PRK14574        257 TRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASA  336 (822)
T ss_pred             cccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHH
Confidence              01122   34455556665542 222221 222    23456778899999999999999998876566688899999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCC-----CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-------------CCCHh
Q 043999          360 FCDAGETDKAFRLFNQLKSNG-----QSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGI-------------TPSEV  421 (574)
Q Consensus       360 ~~~~g~~~~A~~~~~~~~~~g-----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-------------~p~~~  421 (574)
                      |...+++++|..++..+....     ..++......|..++...+++++|..+++++.+...             .||-.
T Consensus       337 yl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~  416 (822)
T PRK14574        337 YIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWI  416 (822)
T ss_pred             HHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHH
Confidence            999999999999999997643     123444467889999999999999999999987411             12222


Q ss_pred             -HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 043999          422 -TYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGY  500 (574)
Q Consensus       422 -~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~  500 (574)
                       .+..++..+...|++.+|.+.++.+.... |-|......+.+.+...|...+|++.++.+....+. +..+....+.++
T Consensus       417 ~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~-~~~~~~~~~~~a  494 (822)
T PRK14574        417 EGQTLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVESLAPR-SLILERAQAETA  494 (822)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCc-cHHHHHHHHHHH
Confidence             23456677889999999999999998775 788899999999999999999999999877665322 566777888899


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 043999          501 CKEGNSYRALRLLGEMNEKGLVPNIASY  528 (574)
Q Consensus       501 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~  528 (574)
                      ...|++++|..+.+.+.+.  .|+....
T Consensus       495 l~l~e~~~A~~~~~~l~~~--~Pe~~~~  520 (822)
T PRK14574        495 MALQEWHQMELLTDDVISR--SPEDIPS  520 (822)
T ss_pred             HhhhhHHHHHHHHHHHHhh--CCCchhH
Confidence            9999999999999999985  5655433

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.81  E-value=1.2e-14  Score=132.71  Aligned_cols=430  Identities=14%  Similarity=0.191  Sum_probs=246.4

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--Chh-HHHHHHHHcccCCCCCHHHHHH
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSC--SFD-KGWLFFSENRCKVELDVYSFGI  180 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g--~~~-~A~~~~~~~~~~~~~~~~~~~~  180 (574)
                      ..+++=|.|+.. ..+|...++.-+|++|...|++.+...-..|+...+-.+  ++- .-++.|-.|......+..+|  
T Consensus       114 ~~V~~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sW--  190 (625)
T KOG4422|consen  114 LQVETENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSW--  190 (625)
T ss_pred             hhhcchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccc--
Confidence            345667777775 468899999999999999998877776666665433222  222 23455555554433333333  


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCC
Q 043999          181 LIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGL  260 (574)
Q Consensus       181 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  260 (574)
                            +.|++.+  -+|+..     +.+..++..+|.++|+--..+.|.+++++-.....+.+..+||.+|.+-.-   
T Consensus       191 ------K~G~vAd--L~~E~~-----PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~---  254 (625)
T KOG4422|consen  191 ------KSGAVAD--LLFETL-----PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSY---  254 (625)
T ss_pred             ------ccccHHH--HHHhhc-----CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh---
Confidence                  2343332  222221     235566777777777777777777777766655555666677776654322   


Q ss_pred             HHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHH----HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH-HH
Q 043999          261 QKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEG----FKLFDEMRHREVACNVVTYNTLICGLCKEMRVQE-AE  335 (574)
Q Consensus       261 ~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A----~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~-A~  335 (574)
                       ....+++.+|....+.||..|+|+++.+..+.|+++.|    .+++.+|++.|++|...+|..+|..+++.++..+ |.
T Consensus       255 -~~~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as  333 (625)
T KOG4422|consen  255 -SVGKKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVAS  333 (625)
T ss_pred             -hccHHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhH
Confidence             12256666777666677777777777777777766543    4556666777777777777777777766665532 44


Q ss_pred             HHHHHHHHC----CC----CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCCC---HHHHHHHHHHHHhcCC
Q 043999          336 RLLDQMKMA----GI----SPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNG----QSPS---VVTYNVLIRAFSKAGN  400 (574)
Q Consensus       336 ~~~~~m~~~----g~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g----~~~~---~~~~~~li~~~~~~g~  400 (574)
                      .++.++...    .+    +.|...|..-++.|.+..+.+-|.++..-+....    +.|+   ..-|..+....|+...
T Consensus       334 ~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es  413 (625)
T KOG4422|consen  334 SWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMES  413 (625)
T ss_pred             HHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHH
Confidence            444443321    11    2233445555666666666666666554443220    1122   1224455556666666


Q ss_pred             hHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-C--------H
Q 043999          401 SKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKG-N--------M  471 (574)
Q Consensus       401 ~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~--------~  471 (574)
                      .+.-...|+.|.-.-..|+..+...++.+..-.++++-.-++|..+...|..-.......++..+++.. .        +
T Consensus       414 ~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql  493 (625)
T KOG4422|consen  414 IDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQL  493 (625)
T ss_pred             HHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHH
Confidence            777777777776555566666666667766667777777777766666654444444444444444332 0        0


Q ss_pred             HH-----HHHHHH-------HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHHHHH---HHHHHH
Q 043999          472 KE-----ASKLFN-------SMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGL-VPNIASYS---STIGVL  535 (574)
Q Consensus       472 ~~-----A~~~~~-------~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~---~l~~~~  535 (574)
                      ..     |..+++       ++..  ..-.....+...-.+.+.|+.++|.+++.....++- .|-....+   .+.+.-
T Consensus       494 ~~~~ak~aad~~e~~e~~~~R~r~--~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a  571 (625)
T KOG4422|consen  494 QVAFAKCAADIKEAYESQPIRQRA--QDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSA  571 (625)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHh--ccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHH
Confidence            00     111111       1122  222344556666667788888888888877755432 22222333   444555


Q ss_pred             HhcCCHHHHHHHHHHHHHcC
Q 043999          536 CQDGKWPEAEVLLNQMLKLG  555 (574)
Q Consensus       536 ~~~g~~~~A~~~~~~m~~~g  555 (574)
                      .+......|...++-|.+.+
T Consensus       572 ~~~~spsqA~~~lQ~a~~~n  591 (625)
T KOG4422|consen  572 KVSNSPSQAIEVLQLASAFN  591 (625)
T ss_pred             HhcCCHHHHHHHHHHHHHcC
Confidence            66677777777777776543

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

Probab=99.81  E-value=9.8e-17  Score=146.97  Aligned_cols=457  Identities=14%  Similarity=0.142  Sum_probs=313.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH-HHHHHHHhcCChhHHHHHHHHcccCCCC-----CHHHHHHH
Q 043999          108 LYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFN-SLLIFVIKSCSFDKGWLFFSENRCKVEL-----DVYSFGIL  181 (574)
Q Consensus       108 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~-~ll~~~~~~g~~~~A~~~~~~~~~~~~~-----~~~~~~~l  181 (574)
                      +...|..-|..+....+|+..|+-+++...-|+.-... .+...+.+...+.+|+++|+-....+|.     -+...+.+
T Consensus       203 vl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~ni  282 (840)
T KOG2003|consen  203 VLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNI  282 (840)
T ss_pred             HHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhc
Confidence            34456777888888999999999988877667654432 2456788889999999999877765322     23356667


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhh--------HHHHHH
Q 043999          182 IKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHT--------YTVLIC  253 (574)
Q Consensus       182 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~--------~~~li~  253 (574)
                      ...+.+.|.++.|+..|+...+.  .||..+--.|+-++..-|+-++..+.|.+|......||..-        -..|+.
T Consensus       283 gvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~  360 (840)
T KOG2003|consen  283 GVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLN  360 (840)
T ss_pred             CeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHH
Confidence            77788999999999999998775  58888777777778888999999999999976433332221        122222


Q ss_pred             HHHh---------cC--CHHHHHHHHHHHHHCCCCCCHhh-------------H--------HHHHHHHHhcCCHHHHHH
Q 043999          254 GLFK---------NG--LQKDGFEFYEKMQLNGVSPSLYT-------------Y--------NCLIHEYCNEGKVSEGFK  301 (574)
Q Consensus       254 ~~~~---------~g--~~~~a~~~~~~~~~~g~~p~~~~-------------~--------~~li~~~~~~g~~~~A~~  301 (574)
                      --.+         .+  +.++++-.-.+++.--+.||-..             +        ..-...|.++|+++.|++
T Consensus       361 eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aie  440 (840)
T KOG2003|consen  361 EAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIE  440 (840)
T ss_pred             HHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHH
Confidence            2111         11  12222222222222222333110             0        111245788999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHH-Hh-cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          302 LFDEMRHREVACNVVTYNTLICGL-CK-EMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSN  379 (574)
Q Consensus       302 ~~~~m~~~~~~~~~~~~~~li~~~-~~-~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  379 (574)
                      +++-..++.-+.-...-+.|-..+ .+ -.++.+|.++-+...... .-+......-.+.....|++++|.+.|++....
T Consensus       441 ilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~ykeal~n  519 (840)
T KOG2003|consen  441 ILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKEALNN  519 (840)
T ss_pred             HHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHHHHcC
Confidence            999888774332222333332222 22 345777777777666442 334444444444555678999999999998865


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 043999          380 GQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYG  459 (574)
Q Consensus       380 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  459 (574)
                      +-.-....|| +.-.+-..|+.++|++.|-++... +..+..+...+.+.|....+...|.+++.+.... ++.|+.+..
T Consensus       520 dasc~ealfn-iglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ils  596 (840)
T KOG2003|consen  520 DASCTEALFN-IGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILS  596 (840)
T ss_pred             chHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHH
Confidence            3221122222 233456789999999998887643 2336677778888888889999999998877665 577888999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhc
Q 043999          460 VLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGV-LCQD  538 (574)
Q Consensus       460 ~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~-~~~~  538 (574)
                      .|...|-+.|+-.+|.+.+-+--+. ++-+..+...|...|....-+++|+.+|++..-  +.|+..-|..++.. +.+.
T Consensus       597 kl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc~rrs  673 (840)
T KOG2003|consen  597 KLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASCFRRS  673 (840)
T ss_pred             HHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHhc
Confidence            9999999999999998887765543 344788888888888888889999999998876  78999999888754 4567


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHhhhhcCC
Q 043999          539 GKWPEAEVLLNQMLKLGLKPSVSLYNILYRAKNNIE  574 (574)
Q Consensus       539 g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~  574 (574)
                      |++..|..++++..++ +.-|..+...|++.+..||
T Consensus       674 gnyqka~d~yk~~hrk-fpedldclkflvri~~dlg  708 (840)
T KOG2003|consen  674 GNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLG  708 (840)
T ss_pred             ccHHHHHHHHHHHHHh-CccchHHHHHHHHHhcccc
Confidence            9999999999998865 5567778888888776664

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

Probab=99.77  E-value=2.2e-12  Score=124.10  Aligned_cols=435  Identities=11%  Similarity=0.082  Sum_probs=249.1

Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccC-----CCCCHHHHHHHHHHHHhcCChhHH
Q 043999          120 RLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCK-----VELDVYSFGILIKGCCEAGDLNKA  194 (574)
Q Consensus       120 g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~~~li~~~~~~g~~~~A  194 (574)
                      .-++.|..+++...+. ++.+...|.+-...--..|+.+...++..+-...     +..+...|-.=...|-..|..-.+
T Consensus       420 etYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~Tc  498 (913)
T KOG0495|consen  420 ETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITC  498 (913)
T ss_pred             HHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhH
Confidence            3444444444444433 3334444444333333444444444443332111     233333444444444444444444


Q ss_pred             HHHHHHHHHCCCCCC--HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          195 FEVLNQLEEMGFSPN--VVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQ  272 (574)
Q Consensus       195 ~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  272 (574)
                      ..+....+..|+.-.  ..||+.-.+.|.+.+.++-|..+|...++--+. +...|...+..--..|..++-..+|++..
T Consensus       499 QAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~-k~slWlra~~~ek~hgt~Esl~Allqkav  577 (913)
T KOG0495|consen  499 QAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPC-KKSLWLRAAMFEKSHGTRESLEALLQKAV  577 (913)
T ss_pred             HHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccc-hhHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            444444444333211  234555555566666666666666666554322 45556666555556667777777777766


Q ss_pred             HCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhh
Q 043999          273 LNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVIT  352 (574)
Q Consensus       273 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~  352 (574)
                      .. ++-....|......+-..|++..|..++....+..+. +...|-.-+..-..+.+++.|..+|.+....  .|+...
T Consensus       578 ~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~--sgTeRv  653 (913)
T KOG0495|consen  578 EQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERV  653 (913)
T ss_pred             Hh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchh
Confidence            65 2334455556666666677777777777777766555 6667777777777777777777777776654  455556


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHH
Q 043999          353 YNKLIDGFCDAGETDKAFRLFNQLKSNGQSPS-VVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFV  431 (574)
Q Consensus       353 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  431 (574)
                      |.--++.---.+..++|.+++++..+.  .|+ ...|..+.+.+-+.++.+.|...|..-.+. ++-....|..|...--
T Consensus       654 ~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleE  730 (913)
T KOG0495|consen  654 WMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEE  730 (913)
T ss_pred             hHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHH
Confidence            655555555567777777777777665  334 345666666777777777777776655544 2334445666666666


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 043999          432 RSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALR  511 (574)
Q Consensus       432 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  511 (574)
                      +.|.+-.|..++++..-.+ +.+...|-..|.+-.+.|+.+.|..+..++++. ++-+...|..-|...-+.++-....+
T Consensus       731 k~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks~D  808 (913)
T KOG0495|consen  731 KDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKSID  808 (913)
T ss_pred             HhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchHHHH
Confidence            7777777777777776665 556677777777777788887777777776654 22244455555555444444333333


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHhhhhc
Q 043999          512 LLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSV-SLYNILYRAKNN  572 (574)
Q Consensus       512 ~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~  572 (574)
                      .+++.     .-|+.+...+...+....++++|.++|++.++.  .||. .+|..+..-+..
T Consensus       809 ALkkc-----e~dphVllaia~lfw~e~k~~kar~Wf~Ravk~--d~d~GD~wa~fykfel~  863 (913)
T KOG0495|consen  809 ALKKC-----EHDPHVLLAIAKLFWSEKKIEKAREWFERAVKK--DPDNGDAWAWFYKFELR  863 (913)
T ss_pred             HHHhc-----cCCchhHHHHHHHHHHHHHHHHHHHHHHHHHcc--CCccchHHHHHHHHHHH
Confidence            33322     225555555666666666677777777777654  4443 355555544443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.77  E-value=1.5e-13  Score=125.48  Aligned_cols=360  Identities=11%  Similarity=0.153  Sum_probs=231.5

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHcccC-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHH
Q 043999          139 PRSNTFNSLLIFVIKSCSFDKGWLFFSENRCK-VELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLI  217 (574)
Q Consensus       139 p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li  217 (574)
                      .+..|+..+|.++||--+.+.|.+++++.... .+.+..+||.+|.+-.-    ....+++.+|....+.||..|+|+++
T Consensus       205 KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~----~~~K~Lv~EMisqkm~Pnl~TfNalL  280 (625)
T KOG4422|consen  205 KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSY----SVGKKLVAEMISQKMTPNLFTFNALL  280 (625)
T ss_pred             CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh----hccHHHHHHHHHhhcCCchHhHHHHH
Confidence            35667788888888888888888888877665 67777888877765432    22367788888777888888888888


Q ss_pred             HHHHhcCCHHHH----HHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHH-HHHHHHHHHH----CCCCC----CHhhHH
Q 043999          218 DGCCKNGDIERA----KMLFRKIGELGLVATQHTYTVLICGLFKNGLQKD-GFEFYEKMQL----NGVSP----SLYTYN  284 (574)
Q Consensus       218 ~~~~~~g~~~~A----~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~~~~----~g~~p----~~~~~~  284 (574)
                      .+..+.|+++.|    .+++.+|.+.|+.|...+|..+|..+++.++..+ +..++.++..    +.++|    |...|.
T Consensus       281 ~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~  360 (625)
T KOG4422|consen  281 SCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQ  360 (625)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHH
Confidence            888888877654    4566777888888888888888888888777644 3344444432    22222    334455


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCC----CCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 043999          285 CLIHEYCNEGKVSEGFKLFDEMRHRE----VACN---VVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLI  357 (574)
Q Consensus       285 ~li~~~~~~g~~~~A~~~~~~m~~~~----~~~~---~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li  357 (574)
                      ..+..|.+..+.+-|.++..-.....    +.|+   ..-|..+....|+....+.-...|+.|.-.-+-|+..+...++
T Consensus       361 ~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~l  440 (625)
T KOG4422|consen  361 SAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLL  440 (625)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHH
Confidence            66677777777777777766554321    2222   2345567777888888888888888888777778888888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHh---HHHHHHHHHHhcC
Q 043999          358 DGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEV---TYTILIDSFVRSD  434 (574)
Q Consensus       358 ~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~---~~~~li~~~~~~g  434 (574)
                      .+..-.|.++-.-++|.+++..|..-+...                -.+++..|.+....|+..   -+.....-|+ ..
T Consensus       441 rA~~v~~~~e~ipRiw~D~~~~ght~r~~l----------------~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~a-ad  503 (625)
T KOG4422|consen  441 RALDVANRLEVIPRIWKDSKEYGHTFRSDL----------------REEILMLLARDKLHPLTPEREQLQVAFAKCA-AD  503 (625)
T ss_pred             HHHhhcCcchhHHHHHHHHHHhhhhhhHHH----------------HHHHHHHHhcCCCCCCChHHHHHHHHHHHHH-HH
Confidence            888888888888888888776553322221                123333344333333322   2222221111 11


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-C---CCCHHHHHHHHHHHHhcCCHHHHH
Q 043999          435 DMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETK-L---EPNDVVYNMMIFGYCKEGNSYRAL  510 (574)
Q Consensus       435 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~---~p~~~~~~~li~~~~~~g~~~~A~  510 (574)
                      -.+.....-.++...  .......+.++-.+.+.|+.++|.+++.-..+.+ -   .|......-+++.-.+..+...|.
T Consensus       504 ~~e~~e~~~~R~r~~--~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~  581 (625)
T KOG4422|consen  504 IKEAYESQPIRQRAQ--DWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAI  581 (625)
T ss_pred             HHHHHHhhHHHHHhc--cCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHH
Confidence            111122222334443  3445566777777889999999999999886543 2   233333345556666777888888


Q ss_pred             HHHHHHHHCCC
Q 043999          511 RLLGEMNEKGL  521 (574)
Q Consensus       511 ~~~~~m~~~g~  521 (574)
                      .+++-|...+.
T Consensus       582 ~~lQ~a~~~n~  592 (625)
T KOG4422|consen  582 EVLQLASAFNL  592 (625)
T ss_pred             HHHHHHHHcCc
Confidence            88888877643

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

Probab=99.76  E-value=4.9e-15  Score=135.96  Aligned_cols=421  Identities=15%  Similarity=0.120  Sum_probs=290.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH----HHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHH
Q 043999          111 SIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNT----FNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCC  186 (574)
Q Consensus       111 ~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~----~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~  186 (574)
                      .+.+.|++...+.+|+.+|+..+..-...+..+    .+.+...+.+.|+++.|+.-|+...+. .||..+-..|+-++.
T Consensus       242 nigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvtfiq~gqy~dainsfdh~m~~-~pn~~a~~nl~i~~f  320 (840)
T KOG2003|consen  242 NIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVTFIQAGQYDDAINSFDHCMEE-APNFIAALNLIICAF  320 (840)
T ss_pred             eecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCeeEEecccchhhHhhHHHHHHh-CccHHhhhhhhhhhe
Confidence            355678899999999999998887632223333    344445678999999999999987765 456665555666666


Q ss_pred             hcCChhHHHHHHHHHHHCCCCCC------------HHhHHHHH-----HHHHhcC--CHHHHHHHHHHHHhCCCCCChhh
Q 043999          187 EAGDLNKAFEVLNQLEEMGFSPN------------VVIYTSLI-----DGCCKNG--DIERAKMLFRKIGELGLVATQHT  247 (574)
Q Consensus       187 ~~g~~~~A~~~~~~m~~~g~~p~------------~~~~~~li-----~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~  247 (574)
                      .-|+-++..+.|.+|+.....||            ....+.-|     .-.-+.+  +.++++-.--++...-+.|+-..
T Consensus       321 ~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~  400 (840)
T KOG2003|consen  321 AIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAA  400 (840)
T ss_pred             ecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhc
Confidence            78999999999999986432232            22222222     1222222  22333332223332222232111


Q ss_pred             ---H----------HH--------HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHh--cCCHHHHHHHHH
Q 043999          248 ---Y----------TV--------LICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCN--EGKVSEGFKLFD  304 (574)
Q Consensus       248 ---~----------~~--------li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~--~g~~~~A~~~~~  304 (574)
                         |          ..        -..-+.++|+++.|++++.-+.+..-+.-...-+.|...+.-  -.++..|.+.-+
T Consensus       401 g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad  480 (840)
T KOG2003|consen  401 GCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYAD  480 (840)
T ss_pred             ccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHH
Confidence               1          11        123467899999999999888766433333334444433333  335777777666


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 043999          305 EMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPS  384 (574)
Q Consensus       305 ~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~  384 (574)
                      ......-- +......-.......|++++|...|++.+...-.-....| .+.-.+-..|++++|+..|-++... ...+
T Consensus       481 ~aln~dry-n~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~ealf-niglt~e~~~~ldeald~f~klh~i-l~nn  557 (840)
T KOG2003|consen  481 IALNIDRY-NAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTEALF-NIGLTAEALGNLDEALDCFLKLHAI-LLNN  557 (840)
T ss_pred             HHhccccc-CHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHHHHH-HhcccHHHhcCHHHHHHHHHHHHHH-HHhh
Confidence            65543111 2222222233445689999999999999876322112222 2334567889999999999877543 2236


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 043999          385 VVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHG  464 (574)
Q Consensus       385 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  464 (574)
                      ......+.+.|-...++.+|++++.+.... ++.|+....-|.+.|-+.|+-..|++.+-.--+. ++-+..+...|...
T Consensus       558 ~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ay  635 (840)
T KOG2003|consen  558 AEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAY  635 (840)
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHH
Confidence            777778888899999999999999887765 5668899999999999999999999988766555 57788899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 043999          465 LCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGY-CKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGK  540 (574)
Q Consensus       465 ~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~-~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~  540 (574)
                      |....-+++|+.+|++..-  +.|+..-|..++..| .+.|++++|.++++....+ ++.|.....-+++.+...|.
T Consensus       636 yidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  636 YIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            9999999999999998764  589999999988655 5689999999999999887 77788888888888877774

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

Probab=99.76  E-value=1.3e-12  Score=130.57  Aligned_cols=467  Identities=13%  Similarity=0.053  Sum_probs=325.4

Q ss_pred             cCChHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhCCCCCCCCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 043999           60 SHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRP  139 (574)
Q Consensus        60 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p  139 (574)
                      .|++++|..++.+.++.                         .+.+...|-+|...|-+.|+.+++...+--..-.+ +-
T Consensus       152 rg~~eeA~~i~~EvIkq-------------------------dp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~  205 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQ-------------------------DPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PK  205 (895)
T ss_pred             hCCHHHHHHHHHHHHHh-------------------------CccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CC
Confidence            68888888888887743                         24566779999999999999999998766554432 34


Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHH----hHHH
Q 043999          140 RSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVV----IYTS  215 (574)
Q Consensus       140 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----~~~~  215 (574)
                      |..-|..+.....+.|.+++|.-.|.++....|++....---+..|-+.|+...|.+.|.++.+...+.|..    ..-.
T Consensus       206 d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~  285 (895)
T KOG2076|consen  206 DYELWKRLADLSEQLGNINQARYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRR  285 (895)
T ss_pred             ChHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHH
Confidence            678899999999999999999999999998888888887778889999999999999999999864322222    2334


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCC-CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---------------
Q 043999          216 LIDGCCKNGDIERAKMLFRKIGELG-LVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPS---------------  279 (574)
Q Consensus       216 li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~---------------  279 (574)
                      .++.+...++-+.|.+.++.....+ -..+...++.++..+.+...++.+......+......+|               
T Consensus       286 ~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~  365 (895)
T KOG2076|consen  286 VAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPN  365 (895)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhcccccc
Confidence            5666777888899999998876622 223566788999999999999999988887766222222               


Q ss_pred             ------------HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          280 ------------LYTYNCLIHEYCNEGKVSEGFKLFDEMRHRE--VACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAG  345 (574)
Q Consensus       280 ------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~--~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g  345 (574)
                                  ... .-+.-++......+....+........  +.-++..|.-+..+|...|++.+|+.+|..+....
T Consensus       366 ~~~~~~~~~s~~l~v-~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~  444 (895)
T KOG2076|consen  366 ALCEVGKELSYDLRV-IRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNRE  444 (895)
T ss_pred             ccccCCCCCCccchh-HhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCc
Confidence                        222 112223333444444444444444444  44466788889999999999999999999998876


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH--------CCCC
Q 043999          346 ISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEE--------RGIT  417 (574)
Q Consensus       346 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--------~~~~  417 (574)
                      .-.+...|-.+..+|...|..+.|.+.|+...... +.+...--.|-..+.+.|++++|.+.+..+..        .+..
T Consensus       445 ~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~  523 (895)
T KOG2076|consen  445 GYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWE  523 (895)
T ss_pred             cccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhcccc
Confidence            66677889999999999999999999999998863 22455566677788899999999999998652        2344


Q ss_pred             CCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCC----------------------CCCCHHHHHHHHHHHHhcCCHHHHH
Q 043999          418 PSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSG----------------------FSPDVYTYGVLIHGLCMKGNMKEAS  475 (574)
Q Consensus       418 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----------------------~~~~~~~~~~li~~~~~~g~~~~A~  475 (574)
                      |+........+.+.+.|+.++-..+-..|+...                      .+-.......++.+-.+.++.....
T Consensus       524 ~e~ri~~~r~d~l~~~gk~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~  603 (895)
T KOG2076|consen  524 PERRILAHRCDILFQVGKREEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVME  603 (895)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhh
Confidence            555666666777888888887665555543211                      1111222233334444444322222


Q ss_pred             HHHHHH------HhCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CCHH----HHHHHHHHHHhcCCHH
Q 043999          476 KLFNSM------WETKLEPND--VVYNMMIFGYCKEGNSYRALRLLGEMNEKGLV-PNIA----SYSSTIGVLCQDGKWP  542 (574)
Q Consensus       476 ~~~~~~------~~~~~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~----~~~~l~~~~~~~g~~~  542 (574)
                      +-...-      ...++..+.  ..+.-++..+++.|++++|+.+...+.+.... -+..    .-...+.+.+..+++.
T Consensus       604 ~~l~d~~~~~~~e~~~Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~  683 (895)
T KOG2076|consen  604 KALSDGTEFRAVELRGLSIDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPG  683 (895)
T ss_pred             hcccchhhhhhhhhccCcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHH
Confidence            221111      112222221  23456778889999999999999888875321 1222    2245567778899999


Q ss_pred             HHHHHHHHHHHc
Q 043999          543 EAEVLLNQMLKL  554 (574)
Q Consensus       543 ~A~~~~~~m~~~  554 (574)
                      .|...+..|+..
T Consensus       684 ~a~~~lR~~i~~  695 (895)
T KOG2076|consen  684 DAFSYLRSVITQ  695 (895)
T ss_pred             HHHHHHHHHHHH
Confidence            999999999853

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

Probab=99.75  E-value=1.5e-12  Score=120.68  Aligned_cols=438  Identities=10%  Similarity=0.070  Sum_probs=320.5

Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHH
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILI  182 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li  182 (574)
                      ..+.-.|...+.+=.++.....|..++++.+..=+..| -.|-..+.+--..|++..|.++|++-..- .|+..+|++.|
T Consensus       104 ~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVd-qlWyKY~ymEE~LgNi~gaRqiferW~~w-~P~eqaW~sfI  181 (677)
T KOG1915|consen  104 YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVD-QLWYKYIYMEEMLGNIAGARQIFERWMEW-EPDEQAWLSFI  181 (677)
T ss_pred             cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHH-HHHHHHHHHHHHhcccHHHHHHHHHHHcC-CCcHHHHHHHH
Confidence            35666788888888999999999999999887522223 33445666666789999999999886653 78999999999


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CC-CCChhhHHHHHHHHHhcCC
Q 043999          183 KGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGEL-GL-VATQHTYTVLICGLFKNGL  260 (574)
Q Consensus       183 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~-~~~~~~~~~li~~~~~~g~  260 (574)
                      +.-.+-+.++.|..++++..-.  .|++.+|......=-++|.+..|..+|+...+. |- ..+...+.+....-.++..
T Consensus       182 ~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE  259 (677)
T KOG1915|consen  182 KFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKE  259 (677)
T ss_pred             HHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999998763  589999998888888999999999999887653 11 1123344555555556777


Q ss_pred             HHHHHHHHHHHHHCCCCCC--HhhHHHHHHHHHhcCCHHHHHHH--------HHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 043999          261 QKDGFEFYEKMQLNGVSPS--LYTYNCLIHEYCNEGKVSEGFKL--------FDEMRHREVACNVVTYNTLICGLCKEMR  330 (574)
Q Consensus       261 ~~~a~~~~~~~~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~--------~~~m~~~~~~~~~~~~~~li~~~~~~~~  330 (574)
                      ++.|.-+|.-.+.+- +.+  ...|..+...--+-|+.....+.        ++.+.+.++- |-.+|-..+..-...|+
T Consensus       260 ~ERar~iykyAld~~-pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~np~-nYDsWfdylrL~e~~g~  337 (677)
T KOG1915|consen  260 YERARFIYKYALDHI-PKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKNPY-NYDSWFDYLRLEESVGD  337 (677)
T ss_pred             HHHHHHHHHHHHHhc-CcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhCCC-CchHHHHHHHHHHhcCC
Confidence            888888888877652 222  33444444444445654433322        4455555444 77888888888888899


Q ss_pred             HHHHHHHHHHHHHCCCCCChh--hHHHHH----H----HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH----HH
Q 043999          331 VQEAERLLDQMKMAGISPNVI--TYNKLI----D----GFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRA----FS  396 (574)
Q Consensus       331 ~~~A~~~~~~m~~~g~~~~~~--~~~~li----~----~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~----~~  396 (574)
                      .+...++|+.++.. ++|-..  .|...|    +    -=....+++.+.++|+...+. ++-...|+..+--.    ..
T Consensus       338 ~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~feI  415 (677)
T KOG1915|consen  338 KDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEI  415 (677)
T ss_pred             HHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cCcccchHHHHHHHHHHHHH
Confidence            99999999999876 455321  122222    1    113468899999999998884 44455565554433    35


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 043999          397 KAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASK  476 (574)
Q Consensus       397 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  476 (574)
                      ++.+...|.+++...+  |..|...+|...|..-.+.++++.+..+|++.++.+ +.+..+|......-...|+.+.|..
T Consensus       416 Rq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~-Pe~c~~W~kyaElE~~LgdtdRaRa  492 (677)
T KOG1915|consen  416 RQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS-PENCYAWSKYAELETSLGDTDRARA  492 (677)
T ss_pred             HHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-hHhhHHHHHHHHHHHHhhhHHHHHH
Confidence            6788999999988776  457888899999999999999999999999999876 5677788888877788999999999


Q ss_pred             HHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-----hcC-----------
Q 043999          477 LFNSMWETK-LEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLC-----QDG-----------  539 (574)
Q Consensus       477 ~~~~~~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~-----~~g-----------  539 (574)
                      +|.-+++.. +......|.+.|+-=...|.+++|..+++++++.  .+...+|.++...-.     +.|           
T Consensus       493 ifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~r--t~h~kvWisFA~fe~s~~~~~~~~~~~~~e~~~~  570 (677)
T KOG1915|consen  493 IFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDR--TQHVKVWISFAKFEASASEGQEDEDLAELEITDE  570 (677)
T ss_pred             HHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh--cccchHHHhHHHHhccccccccccchhhhhcchh
Confidence            999988752 2223556777787778899999999999999985  445567776665433     334           


Q ss_pred             CHHHHHHHHHHHHH
Q 043999          540 KWPEAEVLLNQMLK  553 (574)
Q Consensus       540 ~~~~A~~~~~~m~~  553 (574)
                      .+..|.++|+++..
T Consensus       571 ~~~~AR~iferAn~  584 (677)
T KOG1915|consen  571 NIKRARKIFERANT  584 (677)
T ss_pred             HHHHHHHHHHHHHH
Confidence            56778888888764

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

Probab=99.75  E-value=1.2e-12  Score=130.79  Aligned_cols=361  Identities=12%  Similarity=0.050  Sum_probs=257.6

Q ss_pred             hccCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhhhccCChHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhCCCC
Q 043999           20 MAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSS   99 (574)
Q Consensus        20 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   99 (574)
                      +++++..+|..++....++. +.++..|..|..++-.   .|+...+........                         
T Consensus       150 farg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEq---rGd~eK~l~~~llAA-------------------------  200 (895)
T KOG2076|consen  150 FARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQ---RGDIEKALNFWLLAA-------------------------  200 (895)
T ss_pred             HHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHH---cccHHHHHHHHHHHH-------------------------
Confidence            36788999999999999875 3346678888888877   788887765443222                         


Q ss_pred             CCCCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCH-HH-
Q 043999          100 SNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDV-YS-  177 (574)
Q Consensus       100 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~-  177 (574)
                      +..+.|...|..+.....+.|++++|.-.|.+.++.. +++-...-.-...|-+.|+...|..-|.++....||.. .- 
T Consensus       201 HL~p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~  279 (895)
T KOG2076|consen  201 HLNPKDYELWKRLADLSEQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERI  279 (895)
T ss_pred             hcCCCChHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHH
Confidence            2234566789999999999999999999999999875 33433333356778899999999999999887755332 22 


Q ss_pred             ---HHHHHHHHHhcCChhHHHHHHHHHHHCC-CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhh------
Q 043999          178 ---FGILIKGCCEAGDLNKAFEVLNQLEEMG-FSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHT------  247 (574)
Q Consensus       178 ---~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~------  247 (574)
                         --..++.+...++-+.|.+.++.....+ -..+...++.++..+.+...++.|......+..+...+|..-      
T Consensus       280 ~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~  359 (895)
T KOG2076|consen  280 EDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDER  359 (895)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhh
Confidence               2234566777888899999998877622 233556788999999999999999988877765222222211      


Q ss_pred             ----------------HH----HHHHHHHhcCCHHHHHHHHHHHHHCC--CCCCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          248 ----------------YT----VLICGLFKNGLQKDGFEFYEKMQLNG--VSPSLYTYNCLIHEYCNEGKVSEGFKLFDE  305 (574)
Q Consensus       248 ----------------~~----~li~~~~~~g~~~~a~~~~~~~~~~g--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  305 (574)
                                      |.    -+.-++.+....+...-+...+.+..  +.-+...|..+..+|...|++.+|+++|..
T Consensus       360 ~~~~~~~~~~~~~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~  439 (895)
T KOG2076|consen  360 RREEPNALCEVGKELSYDLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSP  439 (895)
T ss_pred             ccccccccccCCCCCCccchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence                            11    22333444444444444555555554  334566888999999999999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC------
Q 043999          306 MRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSN------  379 (574)
Q Consensus       306 m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------  379 (574)
                      +......-+...|-.+..+|...|.+++|.+.|+..+... +-+...--+|...+.+.|+.++|.+.++.+..-      
T Consensus       440 i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e  518 (895)
T KOG2076|consen  440 ITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAE  518 (895)
T ss_pred             HhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchh
Confidence            9888666678899999999999999999999999998763 334455566778889999999999999886421      


Q ss_pred             --CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 043999          380 --GQSPSVVTYNVLIRAFSKAGNSKMASDLVREM  411 (574)
Q Consensus       380 --g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  411 (574)
                        +..|+..........+.+.|+.++=..+..+|
T Consensus       519 ~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~~~L  552 (895)
T KOG2076|consen  519 ACAWEPERRILAHRCDILFQVGKREEFINTASTL  552 (895)
T ss_pred             hccccHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence              23334444444455666777776644443333

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

Probab=99.73  E-value=5.7e-12  Score=116.85  Aligned_cols=449  Identities=11%  Similarity=0.050  Sum_probs=342.6

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHH
Q 043999          105 KSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKG  184 (574)
Q Consensus       105 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~  184 (574)
                      +...|-....-=..++++..|..+|++.+..+ ..+...|-..+.+-.+..++..|..++++.....|.--..|.-.+..
T Consensus        72 ~~~~WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ym  150 (677)
T KOG1915|consen   72 NMQVWIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYM  150 (677)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            34456555555667788899999999999865 44777888889999999999999999999887766656667777777


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHH
Q 043999          185 CCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDG  264 (574)
Q Consensus       185 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  264 (574)
                      --..|++..|.++|++-.+  ..|+...|.+.|+.=.+-+.++.|..++++..--  .|++.+|.-....-.+.|...-+
T Consensus       151 EE~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~a  226 (677)
T KOG1915|consen  151 EEMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALA  226 (677)
T ss_pred             HHHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHH
Confidence            7788999999999999887  4799999999999999999999999999998764  48999999999999999999999


Q ss_pred             HHHHHHHHHC-C-CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCH---HHHHH--
Q 043999          265 FEFYEKMQLN-G-VSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACN-VVTYNTLICGLCKEMRV---QEAER--  336 (574)
Q Consensus       265 ~~~~~~~~~~-g-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~---~~A~~--  336 (574)
                      ..+|+...+. | -..+...+.+....-.++..++.|.-+|+-.+..-+... ...|......=-+-|+.   ++++-  
T Consensus       227 R~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~K  306 (677)
T KOG1915|consen  227 RSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGK  306 (677)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhh
Confidence            9999988753 1 011233455555555667889999999998877633321 34444444443445553   33332  


Q ss_pred             ---HHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHH--------HHHhcCChHH
Q 043999          337 ---LLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSV--VTYNVLIR--------AFSKAGNSKM  403 (574)
Q Consensus       337 ---~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~--~~~~~li~--------~~~~~g~~~~  403 (574)
                         -|+.+.+.+ +.|-.+|-..+..-...|+.+...++|++.+.. ++|-.  ..|...|-        .-....+.+.
T Consensus       307 Rk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~er  384 (677)
T KOG1915|consen  307 RKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVER  384 (677)
T ss_pred             hhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence               244555554 667788888888888999999999999999876 44422  12222221        1235688999


Q ss_pred             HHHHHHHHHHCCCCCCHhHHHHHHH----HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 043999          404 ASDLVREMEERGITPSEVTYTILID----SFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFN  479 (574)
Q Consensus       404 A~~~~~~m~~~~~~p~~~~~~~li~----~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  479 (574)
                      +.++++..++. ++-...||.-+=-    -..++.++..|.+++...+.  .-|...++...|..-.+.+++|.+.++++
T Consensus       385 tr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG--~cPK~KlFk~YIelElqL~efDRcRkLYE  461 (677)
T KOG1915|consen  385 TRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIG--KCPKDKLFKGYIELELQLREFDRCRKLYE  461 (677)
T ss_pred             HHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhc--cCCchhHHHHHHHHHHHHhhHHHHHHHHH
Confidence            99999999884 4545666655433    33578899999999988774  47888899999999999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 043999          480 SMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGL-VPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKP  558 (574)
Q Consensus       480 ~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p  558 (574)
                      +.++-++. +..+|......=...|+.+.|..+|+-.+.... ......|.+.|+.-...|.++.|..+++++++.  .+
T Consensus       462 kfle~~Pe-~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~r--t~  538 (677)
T KOG1915|consen  462 KFLEFSPE-NCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDR--TQ  538 (677)
T ss_pred             HHHhcChH-hhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh--cc
Confidence            99987654 788888888877889999999999999987521 123467888888888899999999999999976  44


Q ss_pred             CHHHHHHH
Q 043999          559 SVSLYNIL  566 (574)
Q Consensus       559 ~~~~~~~l  566 (574)
                      ....|-..
T Consensus       539 h~kvWisF  546 (677)
T KOG1915|consen  539 HVKVWISF  546 (677)
T ss_pred             cchHHHhH
Confidence            44455443

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

Probab=99.72  E-value=3.1e-11  Score=116.36  Aligned_cols=437  Identities=11%  Similarity=-0.012  Sum_probs=345.8

Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHH----hCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccC---CCCCH
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQML----DSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCK---VELDV  175 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~---~~~~~  175 (574)
                      +.+..+|.+-...=-++|+.+....+..+-+    ..|+.-+-..|-.=...+-..|.+-.+..+......-   ...--
T Consensus       437 ptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~  516 (913)
T KOG0495|consen  437 PTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRK  516 (913)
T ss_pred             CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhH
Confidence            4566788887777778899988888877643    5677778778877777777888887777777665432   23345


Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 043999          176 YSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGL  255 (574)
Q Consensus       176 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  255 (574)
                      .||+.-...|.+.+.++-|+.+|...++. ++.+...|...+..--..|..++-..+|++....-++ ....|-....-+
T Consensus       517 ~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~pk-ae~lwlM~ake~  594 (913)
T KOG0495|consen  517 STWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCPK-AEILWLMYAKEK  594 (913)
T ss_pred             hHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCc-chhHHHHHHHHH
Confidence            68999999999999999999999998875 3346677887777777789999999999999876443 667788888888


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 043999          256 FKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAE  335 (574)
Q Consensus       256 ~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~  335 (574)
                      ...|+...|..++....+.... +...|..-+........+++|..+|.+....  .|+...|.--+..---.+..++|+
T Consensus       595 w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~  671 (913)
T KOG0495|consen  595 WKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEAL  671 (913)
T ss_pred             HhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHH
Confidence            8899999999999999887433 6778888889999999999999999998765  456667776666666789999999


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 043999          336 RLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERG  415 (574)
Q Consensus       336 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  415 (574)
                      +++++.++. ++--...|-.+.+.+-+.++++.|.+.|..-.+. ++-.+..|-.+...--+.|.+-.|..++++..-++
T Consensus       672 rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN  749 (913)
T KOG0495|consen  672 RLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN  749 (913)
T ss_pred             HHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC
Confidence            999998876 2333456777888889999999999988776554 44456678777787788899999999999988775


Q ss_pred             CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 043999          416 ITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNM  495 (574)
Q Consensus       416 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~  495 (574)
                      .. +...|...|..-.+.|..+.|..+..+.... ++.+...|..-|....+.++-......+++.     .-|+.+...
T Consensus       750 Pk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks~DALkkc-----e~dphVlla  822 (913)
T KOG0495|consen  750 PK-NALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKSIDALKKC-----EHDPHVLLA  822 (913)
T ss_pred             CC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchHHHHHHHhc-----cCCchhHHH
Confidence            44 7888999999999999999999998888765 4667778888888877777755555555543     457778888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043999          496 MIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       496 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      +...+-...++++|.+.|.+.++.+ +....+|.-+...+.+.|.-++-..++++....
T Consensus       823 ia~lfw~e~k~~kar~Wf~Ravk~d-~d~GD~wa~fykfel~hG~eed~kev~~~c~~~  880 (913)
T KOG0495|consen  823 IAKLFWSEKKIEKAREWFERAVKKD-PDNGDAWAWFYKFELRHGTEEDQKEVLKKCETA  880 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHccC-CccchHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            8888888899999999999999863 334578888888889999888888888877643

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

Probab=99.69  E-value=3.7e-12  Score=117.90  Aligned_cols=163  Identities=11%  Similarity=0.017  Sum_probs=82.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHH
Q 043999          352 TYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFV  431 (574)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  431 (574)
                      |...+.+.|+-.++.++|...|++..+.+.. ....|+.+..-|....+...|.+-++..++.. +.|...|-.|.++|.
T Consensus       332 TCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYe  409 (559)
T KOG1155|consen  332 TCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYE  409 (559)
T ss_pred             ceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHH
Confidence            4444445555555555555555555544211 33445555555555555555555555555442 224555555555555


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 043999          432 RSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALR  511 (574)
Q Consensus       432 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  511 (574)
                      -.+...=|+-.|++..... +.|...|.+|..+|.+.++.++|++.|......+-. +...+..|...|-+.++.++|..
T Consensus       410 im~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~~LakLye~l~d~~eAa~  487 (559)
T KOG1155|consen  410 IMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALVRLAKLYEELKDLNEAAQ  487 (559)
T ss_pred             HhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHHHHHHHHHHHHhHHHHHH
Confidence            5555555555555554442 344555555555555555555555555555543311 33455555555555555555555


Q ss_pred             HHHHHHH
Q 043999          512 LLGEMNE  518 (574)
Q Consensus       512 ~~~~m~~  518 (574)
                      .+++-++
T Consensus       488 ~yek~v~  494 (559)
T KOG1155|consen  488 YYEKYVE  494 (559)
T ss_pred             HHHHHHH
Confidence            5554443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.68  E-value=6.5e-13  Score=130.79  Aligned_cols=291  Identities=11%  Similarity=0.010  Sum_probs=153.5

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHH--HHHHHHHhcCCHHHHH
Q 043999          223 NGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYN--CLIHEYCNEGKVSEGF  300 (574)
Q Consensus       223 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~--~li~~~~~~g~~~~A~  300 (574)
                      .|++++|++.+.+..+..-.| ...|........+.|+++.|.+.+.++.+.  .|+.....  .....+...|++++|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p-~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQP-VVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccch-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            567776666665544432111 112222233335566666666666666543  33332221  2244555566666666


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          301 KLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNG  380 (574)
Q Consensus       301 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g  380 (574)
                      +.++++.+..+. ++.....+...|.+.|++++|..++..+.+.+..++. ....+-                       
T Consensus       174 ~~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~-~~~~l~-----------------------  228 (398)
T PRK10747        174 HGVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEE-HRAMLE-----------------------  228 (398)
T ss_pred             HHHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHH-HHHHHH-----------------------
Confidence            666666555443 4555555556666666666666666665554422111 111000                       


Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 043999          381 QSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGV  460 (574)
Q Consensus       381 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  460 (574)
                          ..+|..++.......+.+...++++.+.+. .+.++.....+...+...|+.++|.+++++..+.  +|+....  
T Consensus       229 ----~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--  299 (398)
T PRK10747        229 ----QQAWIGLMDQAMADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--  299 (398)
T ss_pred             ----HHHHHHHHHHHHHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--
Confidence                001112222222223334444444444332 1235555666666666677777777766666653  3444221  


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 043999          461 LIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGK  540 (574)
Q Consensus       461 li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~  540 (574)
                      ++.+....++.+++.+..++..+..+. |...+..+...+.+.|++++|.+.|+++.+  ..|+..++..+..++.+.|+
T Consensus       300 ~l~~~l~~~~~~~al~~~e~~lk~~P~-~~~l~l~lgrl~~~~~~~~~A~~~le~al~--~~P~~~~~~~La~~~~~~g~  376 (398)
T PRK10747        300 LLIPRLKTNNPEQLEKVLRQQIKQHGD-TPLLWSTLGQLLMKHGEWQEASLAFRAALK--QRPDAYDYAWLADALDRLHK  376 (398)
T ss_pred             HHHhhccCCChHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCHHHHHHHHHHHHHcCC
Confidence            223334456677777777766665332 455566667777777777777777777776  35666666667777777777


Q ss_pred             HHHHHHHHHHHHH
Q 043999          541 WPEAEVLLNQMLK  553 (574)
Q Consensus       541 ~~~A~~~~~~m~~  553 (574)
                      .++|..++++.+.
T Consensus       377 ~~~A~~~~~~~l~  389 (398)
T PRK10747        377 PEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHHh
Confidence            7777777766653

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

Probab=99.66  E-value=3.1e-11  Score=111.86  Aligned_cols=356  Identities=11%  Similarity=0.041  Sum_probs=244.0

Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHH-----------------------------HHHHHH
Q 043999          171 VELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTS-----------------------------LIDGCC  221 (574)
Q Consensus       171 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~-----------------------------li~~~~  221 (574)
                      ...|.+.+......+-+.|..+.|++.|......- +..-..|..                             +..++.
T Consensus       160 ~~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~-P~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~~  238 (559)
T KOG1155|consen  160 GEKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRY-PWFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLKKAYQ  238 (559)
T ss_pred             ccchhHHHHHHHHHHHhhchHHHHHHHHHHHHhcC-CcchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHHHHHH
Confidence            34455555555566666667777776666655421 111111111                             223344


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCCHhhHHHHHHHHHhcCCHH-H
Q 043999          222 KNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGV--SPSLYTYNCLIHEYCNEGKVS-E  298 (574)
Q Consensus       222 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~--~p~~~~~~~li~~~~~~g~~~-~  298 (574)
                      ...+.+++.+-.+.....|...+...-+....+.....++++|+.+|+++.+...  --|..+|..++-.--.+.++. -
T Consensus       239 el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~L  318 (559)
T KOG1155|consen  239 ELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYL  318 (559)
T ss_pred             HHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHH
Confidence            4456666666666666666654444444455556666777777777777776521  014556665553322222211 1


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          299 GFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKS  378 (574)
Q Consensus       299 A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  378 (574)
                      |..++ .+-+-    .+.|...+.+.|.-.++.++|...|++.++.+ +.....|+.+.+-|....+...|.+-++.+++
T Consensus       319 A~~v~-~idKy----R~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd  392 (559)
T KOG1155|consen  319 AQNVS-NIDKY----RPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVD  392 (559)
T ss_pred             HHHHH-HhccC----CccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHh
Confidence            11111 11111    44566777788888899999999999999876 44667889999999999999999999999998


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 043999          379 NGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTY  458 (574)
Q Consensus       379 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  458 (574)
                      .. +.|-..|..|.++|.-.+.+.-|+-.|++..+.. +.|...|.+|.++|.+.++.++|.+.|......| ..+...+
T Consensus       393 i~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l  469 (559)
T KOG1155|consen  393 IN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSAL  469 (559)
T ss_pred             cC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHH
Confidence            74 4588999999999999999999999999998863 4488999999999999999999999999999876 4566889


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 043999          459 GVLIHGLCMKGNMKEASKLFNSMWET----KL-EP-NDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTI  532 (574)
Q Consensus       459 ~~li~~~~~~g~~~~A~~~~~~~~~~----~~-~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  532 (574)
                      ..|.+.|-+.++.++|...|.+-++.    |. .| ...+-.-|..-+.+.+++++|..+......-             
T Consensus       470 ~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~-------------  536 (559)
T KOG1155|consen  470 VRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKG-------------  536 (559)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcC-------------
Confidence            99999999999999999999987762    22 22 1222233555667778888877766554432             


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc
Q 043999          533 GVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       533 ~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                           .-..++|..++.+....
T Consensus       537 -----~~e~eeak~LlReir~~  553 (559)
T KOG1155|consen  537 -----ETECEEAKALLREIRKI  553 (559)
T ss_pred             -----CchHHHHHHHHHHHHHh
Confidence                 12346777777777653

>TIGR00540 hemY_coli hemY protein

Probab=99.66  E-value=8.3e-13  Score=130.80  Aligned_cols=120  Identities=13%  Similarity=0.064  Sum_probs=50.5

Q ss_pred             hcCChhHHHHHHHHHHHCCCCCCH-HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHH
Q 043999          187 EAGDLNKAFEVLNQLEEMGFSPNV-VIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGF  265 (574)
Q Consensus       187 ~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  265 (574)
                      ..|+++.|.+.+.+..+..  |+. ..+-.....+.+.|+.++|.+.+.+..+....+...........+...|++++|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~~--~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHA--AEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            4555566655555544432  222 2222333444455555555555555443321111112222234444444444444


Q ss_pred             HHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043999          266 EFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHR  309 (574)
Q Consensus       266 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  309 (574)
                      ..++.+.+.. +-+...+..+...+.+.|++++|.+.+..+.+.
T Consensus       174 ~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~  216 (409)
T TIGR00540       174 HGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKA  216 (409)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHc
Confidence            4444444432 112333444444444444444444444444443

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.66  E-value=1e-12  Score=129.47  Aligned_cols=79  Identities=19%  Similarity=0.197  Sum_probs=31.5

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHH
Q 043999          364 GETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMY  443 (574)
Q Consensus       364 g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  443 (574)
                      ++.+++.+..+...+.. +-|...+..+...+.+.+++++|.+.|+.+.+.  .|+..++..+...+.+.|+.++|.+++
T Consensus       308 ~~~~~al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~  384 (398)
T PRK10747        308 NNPEQLEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMR  384 (398)
T ss_pred             CChHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            44444444444443331 112333333444444444444444444444432  234344444444444444444444444


Q ss_pred             HH
Q 043999          444 SL  445 (574)
Q Consensus       444 ~~  445 (574)
                      ++
T Consensus       385 ~~  386 (398)
T PRK10747        385 RD  386 (398)
T ss_pred             HH
Confidence            33

>TIGR00540 hemY_coli hemY protein

Probab=99.65  E-value=8.1e-13  Score=130.88  Aligned_cols=120  Identities=12%  Similarity=0.092  Sum_probs=49.3

Q ss_pred             cCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHH
Q 043999          154 SCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLF  233 (574)
Q Consensus       154 ~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  233 (574)
                      .|+++.|.+.+.+.....+.....+-.......+.|+.+.|.+.+++..+....++..........+...|++++|.+.+
T Consensus        97 ~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l  176 (409)
T TIGR00540        97 EGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGV  176 (409)
T ss_pred             CCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHH
Confidence            34444444444433332222222233333444444444444444444433211111112222344444444455555444


Q ss_pred             HHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          234 RKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLN  274 (574)
Q Consensus       234 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  274 (574)
                      +++.+..+. +...+..+...+.+.|++++|.+.+..+.+.
T Consensus       177 ~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~  216 (409)
T TIGR00540       177 DKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKA  216 (409)
T ss_pred             HHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHc
Confidence            444444322 3334444444445555555555555444444

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.

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

Probab=99.65  E-value=1.4e-11  Score=117.02  Aligned_cols=453  Identities=12%  Similarity=0.078  Sum_probs=303.7

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      ..-+..+++-+..+.++.-|.-+-++....+..|+..  --+.+++.-.|++++|..+...-.- ...|..+.......+
T Consensus        16 ~~~~~~~~r~~l~q~~y~~a~f~adkV~~l~~dp~d~--~~~aq~l~~~~~y~ra~~lit~~~l-e~~d~~cryL~~~~l   92 (611)
T KOG1173|consen   16 LEKYRRLVRDALMQHRYKTALFWADKVAGLTNDPADI--YWLAQVLYLGRQYERAAHLITTYKL-EKRDIACRYLAAKCL   92 (611)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHhccCChHHH--HHHHHHHHhhhHHHHHHHHHHHhhh-hhhhHHHHHHHHHHH
Confidence            3445566666666677777777777766554444333  2356666667777777665554321 244666777777777


Q ss_pred             HhcCChhHHHHHHH----HHHHCC---------CCCCHHh----HHHHH-------HHHHhcCCHHHHHHHHHHHHhCCC
Q 043999          186 CEAGDLNKAFEVLN----QLEEMG---------FSPNVVI----YTSLI-------DGCCKNGDIERAKMLFRKIGELGL  241 (574)
Q Consensus       186 ~~~g~~~~A~~~~~----~m~~~g---------~~p~~~~----~~~li-------~~~~~~g~~~~A~~~~~~~~~~~~  241 (574)
                      .+..++++|..++.    .+....         +.+|..-    -+.-.       ..|....+.++|...|.+....++
T Consensus        93 ~~lk~~~~al~vl~~~~~~~~~f~yy~~~~~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~~D~  172 (611)
T KOG1173|consen   93 VKLKEWDQALLVLGRGHVETNPFSYYEKDAANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEALLADA  172 (611)
T ss_pred             HHHHHHHHHHHHhcccchhhcchhhcchhhhceeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHHhcch
Confidence            77777777777776    221100         0111111    01111       123334455666666665544322


Q ss_pred             CCChhhHHHHHHHHHh-----------------cCCHHHHHHHHHHHH-----------------HCCCCCCHhhHHHHH
Q 043999          242 VATQHTYTVLICGLFK-----------------NGLQKDGFEFYEKMQ-----------------LNGVSPSLYTYNCLI  287 (574)
Q Consensus       242 ~~~~~~~~~li~~~~~-----------------~g~~~~a~~~~~~~~-----------------~~g~~p~~~~~~~li  287 (574)
                      . .-..+..++....-                 .+...+-++.+-++.                 -.+..-+......-.
T Consensus       173 ~-c~Ea~~~lvs~~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dll~~~a  251 (611)
T KOG1173|consen  173 K-CFEAFEKLVSAHMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDLLAEKA  251 (611)
T ss_pred             h-hHHHHHHHHHHHhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHHHHHHH
Confidence            2 11122222221111                 011111111111111                 011223444455556


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHH
Q 043999          288 HEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETD  367 (574)
Q Consensus       288 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  367 (574)
                      +-+...+++.+..++++...+..+ +....+-.-|.++...|+..+-..+=.++.+. .|....+|-++.-.|...|+..
T Consensus       252 d~~y~~c~f~~c~kit~~lle~dp-fh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~i~k~s  329 (611)
T KOG1173|consen  252 DRLYYGCRFKECLKITEELLEKDP-FHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLMIGKYS  329 (611)
T ss_pred             HHHHHcChHHHHHHHhHHHHhhCC-CCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHHhcCcH
Confidence            677788999999999999988743 36667777778899999988888888888876 4667889999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          368 KAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQ  447 (574)
Q Consensus       368 ~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  447 (574)
                      +|++.|.+....+.. =...|-.+...|.-.|..++|...+...-+. ++-...-+--+.--|.+.+.++-|.+.|.+..
T Consensus       330 eARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~  407 (611)
T KOG1173|consen  330 EARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQAL  407 (611)
T ss_pred             HHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            999999988765322 2457888999999999999999999887654 11111123334445888999999999999988


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 043999          448 KSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWET--KLEP----NDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGL  521 (574)
Q Consensus       448 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  521 (574)
                      ... |.|+...+.+.-.....+.+.+|..+|+..+..  ...+    -..+++.|+.+|.+.+++++|+..+++.+.. .
T Consensus       408 ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l-~  485 (611)
T KOG1173|consen  408 AIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLL-S  485 (611)
T ss_pred             hcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHc-C
Confidence            764 778888898888888899999999999988732  1111    2346889999999999999999999999986 3


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHhhh
Q 043999          522 VPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRAK  570 (574)
Q Consensus       522 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  570 (574)
                      +.|..++.++.-.+...|+++.|...|.+.+  .+.|+..+...+++-+
T Consensus       486 ~k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  486 PKDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELLKLA  532 (611)
T ss_pred             CCchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHHHHH
Confidence            5588999999999999999999999999998  5699998888877654

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

Probab=99.64  E-value=1.4e-15  Score=143.02  Aligned_cols=262  Identities=16%  Similarity=0.157  Sum_probs=106.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc
Q 043999          285 CLIHEYCNEGKVSEGFKLFDEMRHRE-VACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDA  363 (574)
Q Consensus       285 ~li~~~~~~g~~~~A~~~~~~m~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~  363 (574)
                      .+...+.+.|++++|+++++...... .+.|...|..+.......++.++|...++++...+.. +...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            45677778888888888886544443 2335555566666667788888888888888876522 55566677766 688


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCCCHhHHHHHHHHHHhcCCHHHHHHH
Q 043999          364 GETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERG-ITPSEVTYTILIDSFVRSDDMEKAFEM  442 (574)
Q Consensus       364 g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~  442 (574)
                      +++++|.+++....+.  .++...+...+..+.+.++++++..+++++.... .+++...|..+...+.+.|+.++|.+.
T Consensus        91 ~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             cccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            8888888888776654  3566667778888888899999999888877532 345677788888888899999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 043999          443 YSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLV  522 (574)
Q Consensus       443 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  522 (574)
                      +++..+.. |.|......++..+...|+.+++.++++...... ..|+..+..+..+|...|+.++|+.++++..+. .+
T Consensus       169 ~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~-~p  245 (280)
T PF13429_consen  169 YRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKL-NP  245 (280)
T ss_dssp             HHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH-ST
T ss_pred             HHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccccccc-cc
Confidence            99988864 4457778888888999999998888888776653 335667788889999999999999999998875 24


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          523 PNIASYSSTIGVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       523 p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      .|+.+...+.+++...|+.++|.++.++..+
T Consensus       246 ~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  246 DDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             T-HHHHHHHHHHHT-----------------
T ss_pred             ccccccccccccccccccccccccccccccc
Confidence            4777888888999999999999988887754

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

Probab=99.64  E-value=1.2e-11  Score=115.27  Aligned_cols=398  Identities=12%  Similarity=0.041  Sum_probs=244.6

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPR-SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      ..+-+..+-|.++|.+++|++.|.+.++.  .|+ +.-|...-.+|...|++++..+-..+..+..|.-+-++..-.+++
T Consensus       116 ~~lK~~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~P~Y~KAl~RRA~A~  193 (606)
T KOG0547|consen  116 AALKTKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALELNPDYVKALLRRASAH  193 (606)
T ss_pred             HHHHhhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcHHHHHHHHHHHHH
Confidence            45666778889999999999999999985  577 667777888899999999999888887776566667787778888


Q ss_pred             HhcCChhHHHHHHHHHH-HCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh-CC--CCCChhhHHHHHHHHHh----
Q 043999          186 CEAGDLNKAFEVLNQLE-EMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGE-LG--LVATQHTYTVLICGLFK----  257 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~-~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~--~~~~~~~~~~li~~~~~----  257 (574)
                      -+.|++++|+.=..-.- -.|+. |..+--.+=..+-     ..|..-.++-.+ .+  +.|+.....+....+..    
T Consensus       194 E~lg~~~eal~D~tv~ci~~~F~-n~s~~~~~eR~Lk-----k~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~  267 (606)
T KOG0547|consen  194 EQLGKFDEALFDVTVLCILEGFQ-NASIEPMAERVLK-----KQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKP  267 (606)
T ss_pred             HhhccHHHHHHhhhHHHHhhhcc-cchhHHHHHHHHH-----HHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccc
Confidence            88888888754322211 11111 1111111111111     111111111111 11  22333222222222111    


Q ss_pred             ------------------------cCCHHHHHHHHHHHHHC-CCCCCH-----------hhHHHHHHHHHhcCCHHHHHH
Q 043999          258 ------------------------NGLQKDGFEFYEKMQLN-GVSPSL-----------YTYNCLIHEYCNEGKVSEGFK  301 (574)
Q Consensus       258 ------------------------~g~~~~a~~~~~~~~~~-g~~p~~-----------~~~~~li~~~~~~g~~~~A~~  301 (574)
                                              ...+.+|.+.+.+-... -..++.           .+.......+.-.|+.-.|..
T Consensus       268 ~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~  347 (606)
T KOG0547|consen  268 LFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQE  347 (606)
T ss_pred             cccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhh
Confidence                                    01122222222221110 001111           111111112334677778888


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 043999          302 LFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQ  381 (574)
Q Consensus       302 ~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~  381 (574)
                      -|+..++....++ ..|--+...|....+.++-.+.|....+.+ +.|+.+|..-..++.-.+++++|..-|++.++...
T Consensus       348 d~~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~p  425 (606)
T KOG0547|consen  348 DFDAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDP  425 (606)
T ss_pred             hHHHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcCh
Confidence            8888877755533 336666777888888888888888887765 44666777777777777888888888888877532


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-------CC
Q 043999          382 SPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFS-------PD  454 (574)
Q Consensus       382 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-------~~  454 (574)
                       .+...|-.+..+..+.++++++...|++.+++ ++..+..|+.....+..++++++|.+.|+..++....       +.
T Consensus       426 -e~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~  503 (606)
T KOG0547|consen  426 -ENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAA  503 (606)
T ss_pred             -hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccch
Confidence             24556666666667788888888888888776 4446677888888888888888888888887764211       11


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          455 VYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       455 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      +.+.-.++..- -.+++..|.+++++..+.+++ ....|..|...-.+.|+.++|+++|++...
T Consensus       504 plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  504 PLVHKALLVLQ-WKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             hhhhhhHhhhc-hhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            22222222222 337888888888888876444 456788888888888888888888887654

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

Probab=99.62  E-value=3.8e-15  Score=140.15  Aligned_cols=259  Identities=16%  Similarity=0.135  Sum_probs=64.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcC
Q 043999          111 SIIDAHLKSRLSDQALFYFHQMLDSGVRPR-SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAG  189 (574)
Q Consensus       111 ~li~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g  189 (574)
                      .+...+.+.|++++|++++++......+|+ ..-|..+.......+++++|...++++....+.+...+..++.. ...+
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccc
Confidence            345555566666666666644433321222 22233333344445555566655555554433344445455444 4555


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 043999          190 DLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELG-LVATQHTYTVLICGLFKNGLQKDGFEFY  268 (574)
Q Consensus       190 ~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~  268 (574)
                      ++++|.+++++..+..  ++...+...+..+.+.++++++.++++++.... ...+...|..+...+.+.|+.++|++.+
T Consensus        92 ~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~  169 (280)
T PF13429_consen   92 DPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDY  169 (280)
T ss_dssp             ----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             cccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            5555555555444321  344444555555555555555555555544321 1234444555555555555555555555


Q ss_pred             HHHHHCCCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 043999          269 EKMQLNGVSP-SLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGIS  347 (574)
Q Consensus       269 ~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~  347 (574)
                      ++.++.  .| |....+.++..+...|+.+++.++++...+.. +.|+..+..+..++...|+.++|...|+...+.. +
T Consensus       170 ~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p  245 (280)
T PF13429_consen  170 RKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-P  245 (280)
T ss_dssp             HHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-T
T ss_pred             HHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-c
Confidence            555544  22 34444555555555555555555554444332 2234444455555555555555555555554432 3


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          348 PNVITYNKLIDGFCDAGETDKAFRLFNQL  376 (574)
Q Consensus       348 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~  376 (574)
                      .|......+.+++...|+.++|.++..++
T Consensus       246 ~d~~~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  246 DDPLWLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             T-HHHHHHHHHHHT---------------
T ss_pred             ccccccccccccccccccccccccccccc
Confidence            34444445555555555555555554443

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

Probab=99.61  E-value=4.2e-13  Score=129.84  Aligned_cols=288  Identities=15%  Similarity=0.094  Sum_probs=224.5

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCHHHHHH
Q 043999          259 GLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVA--CNVVTYNTLICGLCKEMRVQEAER  336 (574)
Q Consensus       259 g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~  336 (574)
                      -+..+|...|.++..+- .-...+...+..+|...+++++|.++|+.+++..+-  -+...|.+.+--+-+    +-++.
T Consensus       333 y~~~~A~~~~~klp~h~-~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls  407 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSHH-YNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALS  407 (638)
T ss_pred             HHHHHHHHHHHhhHHhc-CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHH
Confidence            35678999999866552 223456677889999999999999999999876321  156677776654321    12223


Q ss_pred             HH-HHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 043999          337 LL-DQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSP-SVVTYNVLIRAFSKAGNSKMASDLVREMEER  414 (574)
Q Consensus       337 ~~-~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  414 (574)
                      .+ +.+.+. -+-.+.+|.++.++|.-+++.+.|++.|++..+.  .| ...+|+.+..-+.....+|.|...|+..+..
T Consensus       408 ~Laq~Li~~-~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~  484 (638)
T KOG1126|consen  408 YLAQDLIDT-DPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALGV  484 (638)
T ss_pred             HHHHHHHhh-CCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhcC
Confidence            33 333433 2557889999999999999999999999999986  44 6788888888899999999999999998765


Q ss_pred             CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 043999          415 GITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYN  494 (574)
Q Consensus       415 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~  494 (574)
                      ... +...|-.+.-.|.+.++++.|.-.|+++.+.+ +-+.+....+...+-+.|+.|+|+++++++...+.+ |+..--
T Consensus       485 ~~r-hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~  561 (638)
T KOG1126|consen  485 DPR-HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKY  561 (638)
T ss_pred             Cch-hhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHH
Confidence            221 33455567778999999999999999999876 566777888888899999999999999999987655 555555


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH
Q 043999          495 MMIFGYCKEGNSYRALRLLGEMNEKGLVPN-IASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVS  561 (574)
Q Consensus       495 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  561 (574)
                      ..+..+...+++++|+..++++.+  +.|+ ..+|..+...|.+.|+.+.|+.-|--|.+.  +|...
T Consensus       562 ~~~~il~~~~~~~eal~~LEeLk~--~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~l--dpkg~  625 (638)
T KOG1126|consen  562 HRASILFSLGRYVEALQELEELKE--LVPQESSVFALLGKIYKRLGNTDLALLHFSWALDL--DPKGA  625 (638)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHH--hCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcC--CCccc
Confidence            566777888999999999999999  4555 467778889999999999999999999865  45443

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

Probab=99.61  E-value=3.8e-12  Score=112.51  Aligned_cols=298  Identities=15%  Similarity=0.090  Sum_probs=212.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCC----CCHHHHHHHHHH
Q 043999          109 YESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVE----LDVYSFGILIKG  184 (574)
Q Consensus       109 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~~~li~~  184 (574)
                      |.+=++.+ -++++++|+++|-+|.+.. +.+..+--+|.+.|...|.+|.|+.+.+.+..+..    .-..+...|.+-
T Consensus        39 Yv~GlNfL-Ls~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~D  116 (389)
T COG2956          39 YVKGLNFL-LSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRD  116 (389)
T ss_pred             HHhHHHHH-hhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHH
Confidence            44444443 3578899999999999853 33455666788889999999999999998877511    123356667788


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCh----hhHHHHHHHHHhcCC
Q 043999          185 CCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQ----HTYTVLICGLFKNGL  260 (574)
Q Consensus       185 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~  260 (574)
                      |...|-+|.|.++|..+.+.|. .-......|+..|-...+|++|++.-+++.+.+..+..    ..|.-|...+....+
T Consensus       117 ym~aGl~DRAE~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~  195 (389)
T COG2956         117 YMAAGLLDRAEDIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSD  195 (389)
T ss_pred             HHHhhhhhHHHHHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhh
Confidence            8899999999999999887542 24557788999999999999999999998887654332    234455555566788


Q ss_pred             HHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          261 QKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQ  340 (574)
Q Consensus       261 ~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  340 (574)
                      .+.|..++.+..+.+. -.+..-..+.+.+...|++..|.+.++.+.+.++.--+.+...|..+|.+.|+.++....+..
T Consensus       196 ~d~A~~~l~kAlqa~~-~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~  274 (389)
T COG2956         196 VDRARELLKKALQADK-KCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRR  274 (389)
T ss_pred             HHHHHHHHHHHHhhCc-cceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            8888888888887632 234444556677888899999999999988886665566777888888899999998888888


Q ss_pred             HHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh---cCChHHHHHHHHHHHHC
Q 043999          341 MKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSK---AGNSKMASDLVREMEER  414 (574)
Q Consensus       341 m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~  414 (574)
                      +.+..  +....-..+.+......-.+.|...+.+-...  +|+...+..++.....   .|...+.+.+++.|...
T Consensus       275 ~~~~~--~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge  347 (389)
T COG2956         275 AMETN--TGADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             HHHcc--CCccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHH
Confidence            87763  34444444555444445555665555544443  5888888888876543   34456666677777643

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

Probab=99.59  E-value=1.1e-11  Score=109.75  Aligned_cols=220  Identities=14%  Similarity=0.086  Sum_probs=112.6

Q ss_pred             cCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHH------hHHHHHHHHHhcCCHH
Q 043999          154 SCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVV------IYTSLIDGCCKNGDIE  227 (574)
Q Consensus       154 ~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~------~~~~li~~~~~~g~~~  227 (574)
                      +++.++|..+|-+|....+.+..+.-+|.+.|-+.|+.|.|+++.+.+.+.   ||..      ....|..-|...|-+|
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~D  124 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLLD  124 (389)
T ss_pred             hcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhhh
Confidence            466777777777777666666666777777777777777777777777653   4422      2334455566666666


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHh----hHHHHHHHHHhcCCHHHHHHHH
Q 043999          228 RAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLY----TYNCLIHEYCNEGKVSEGFKLF  303 (574)
Q Consensus       228 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~----~~~~li~~~~~~g~~~~A~~~~  303 (574)
                      .|+++|..+.+.+.. -..+...|+..|-...++++|++.-+++.+.+..+..+    .|--|...+....+++.|..++
T Consensus       125 RAE~~f~~L~de~ef-a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l  203 (389)
T COG2956         125 RAEDIFNQLVDEGEF-AEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELL  203 (389)
T ss_pred             HHHHHHHHHhcchhh-hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            666666666554322 33445556666666666666666666665544332211    1222333333334444444444


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          304 DEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKS  378 (574)
Q Consensus       304 ~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  378 (574)
                      .+..+.+.+ .+..--.+.......|+++.|.+.++...+.+..--..+...|..+|...|+.++....+..+.+
T Consensus       204 ~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~  277 (389)
T COG2956         204 KKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAME  277 (389)
T ss_pred             HHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            444443222 12222223333444444444444444444433222223334444444444444444444444433

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

Probab=99.59  E-value=7.9e-13  Score=128.01  Aligned_cols=282  Identities=12%  Similarity=0.101  Sum_probs=203.0

Q ss_pred             ChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCC--CCCHHhHHHHHHHHHhcCCHHHHHHHH
Q 043999          156 SFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGF--SPNVVIYTSLIDGCCKNGDIERAKMLF  233 (574)
Q Consensus       156 ~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~A~~~~  233 (574)
                      +..+|...|+...............+.++|...+++++|.++|+.+.+...  --+..+|.+.+--+-+.   -+---+-
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~---v~Ls~La  410 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE---VALSYLA  410 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh---HHHHHHH
Confidence            456888888886666666667778888888899999999999988876421  11456677666544321   1111222


Q ss_pred             HHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 043999          234 RKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSP-SLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVA  312 (574)
Q Consensus       234 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  312 (574)
                      +.+.+... -.+.+|.++.++|.-+++.+.|++.|++....  .| ...+|+.+..-+.....+|.|...|+..+..   
T Consensus       411 q~Li~~~~-~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~---  484 (638)
T KOG1126|consen  411 QDLIDTDP-NSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALGV---  484 (638)
T ss_pred             HHHHhhCC-CCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhcC---
Confidence            23333322 36788888889998889999999988888865  34 6778888888888888888888888887766   


Q ss_pred             CCHHHHH---HHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 043999          313 CNVVTYN---TLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYN  389 (574)
Q Consensus       313 ~~~~~~~---~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~  389 (574)
                       |+..||   -+...|.+.++++.|+-.|+.+.+.+ +.+.+....+...+-+.|+.|+|+.+++++...+.. |+..--
T Consensus       485 -~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~  561 (638)
T KOG1126|consen  485 -DPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKY  561 (638)
T ss_pred             -CchhhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHH
Confidence             444444   45667888888888888888888775 456667777777888888888888888888776543 555544


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          390 VLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSG  450 (574)
Q Consensus       390 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  450 (574)
                      ..+..+...++.++|+..++++++. ++-+...+..+...|-+.|+.+.|+.-|.-+.+..
T Consensus       562 ~~~~il~~~~~~~eal~~LEeLk~~-vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ld  621 (638)
T KOG1126|consen  562 HRASILFSLGRYVEALQELEELKEL-VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLD  621 (638)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHHh-CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCC
Confidence            5566677778888888888888776 23345667777778888888888888887777653

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

Probab=99.57  E-value=1.2e-10  Score=116.12  Aligned_cols=252  Identities=13%  Similarity=0.116  Sum_probs=159.0

Q ss_pred             HHHHHhhCCCCCCHHHHHHHHHHHHhhhccCChHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhCCCCCCCCcchhHHH
Q 043999           31 LFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYE  110 (574)
Q Consensus        31 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  110 (574)
                      |+-.+...|+.|+..||.++|..++.   .|+.+.|- +|..|-....+....+++.++..-...-.......|-+.+|.
T Consensus        12 fla~~e~~gi~PnRvtyqsLiarYc~---~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt   87 (1088)
T KOG4318|consen   12 FLALHEISGILPNRVTYQSLIARYCT---KGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYT   87 (1088)
T ss_pred             HHHHHHHhcCCCchhhHHHHHHHHcc---cCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHH
Confidence            44445567999999999999999998   88888887 666665444444444444444331111111112245568999


Q ss_pred             HHHHHHHhcCChHHHHHHHHH-HH-------hCCCCCCHHH--------------HHHHHHHHHhcCChhHHHHHHHHcc
Q 043999          111 SIIDAHLKSRLSDQALFYFHQ-ML-------DSGVRPRSNT--------------FNSLLIFVIKSCSFDKGWLFFSENR  168 (574)
Q Consensus       111 ~li~~~~~~g~~~~A~~~~~~-~~-------~~g~~p~~~~--------------~~~ll~~~~~~g~~~~A~~~~~~~~  168 (574)
                      +|..+|.+.|+... ++..++ |.       ..|+..-..-              -..++..+.-.|-++.+++++..++
T Consensus        88 ~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~P  166 (1088)
T KOG4318|consen   88 NLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVP  166 (1088)
T ss_pred             HHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence            99999999999765 444443 11       2222110111              1113334455667777777777666


Q ss_pred             cCCCCCHHHHHHHHHHHHhc-CChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhh
Q 043999          169 CKVELDVYSFGILIKGCCEA-GDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHT  247 (574)
Q Consensus       169 ~~~~~~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  247 (574)
                      ..-...++..  .++-+... ..+++-..+.+...+   .|+..+|..+++.-...|+++.|..++.+|.+.|++.+...
T Consensus       167 vsa~~~p~~v--fLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~Hy  241 (1088)
T KOG4318|consen  167 VSAWNAPFQV--FLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHY  241 (1088)
T ss_pred             cccccchHHH--HHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCccccc
Confidence            5411121111  23333322 233444443333333   47888899999988889999999999999999888877777


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCC
Q 043999          248 YTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGK  295 (574)
Q Consensus       248 ~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~  295 (574)
                      |-.|+-+   .+...-+..+++.|.+.|+.|+..|+...+-.+.++|.
T Consensus       242 FwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  242 FWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             chhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            6666655   77777788888888888999998888777666665444

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

Probab=99.57  E-value=7e-11  Score=110.28  Aligned_cols=398  Identities=14%  Similarity=0.066  Sum_probs=258.6

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-HHhHHHHHHHHH
Q 043999          143 TFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPN-VVIYTSLIDGCC  221 (574)
Q Consensus       143 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~  221 (574)
                      .+....+-+.+.|.+++|++.|.+..+..|..++-|.....+|...|+|++..+--.+.++.  .|+ +..+..-..++-
T Consensus       117 ~lK~~GN~~f~~kkY~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl--~P~Y~KAl~RRA~A~E  194 (606)
T KOG0547|consen  117 ALKTKGNKFFRNKKYDEAIKYYTQAIELCPDEPIFYSNRAACYESLGDWEKVIEDCTKALEL--NPDYVKALLRRASAHE  194 (606)
T ss_pred             HHHhhhhhhhhcccHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhc--CcHHHHHHHHHHHHHH
Confidence            34445666788889999999998888764444788888888888899999888888777774  455 335666667777


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH-CC--CCCCHhhHHHHHHHHH-------
Q 043999          222 KNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQL-NG--VSPSLYTYNCLIHEYC-------  291 (574)
Q Consensus       222 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~g--~~p~~~~~~~li~~~~-------  291 (574)
                      ..|++++|+.=..-..-.+-..+..+--.+=+.+-+     .|..-..+-.+ ++  +-|......+....+.       
T Consensus       195 ~lg~~~eal~D~tv~ci~~~F~n~s~~~~~eR~Lkk-----~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~  269 (606)
T KOG0547|consen  195 QLGKFDEALFDVTVLCILEGFQNASIEPMAERVLKK-----QAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLF  269 (606)
T ss_pred             hhccHHHHHHhhhHHHHhhhcccchhHHHHHHHHHH-----HHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccc
Confidence            788888876433222111111111111111111111     11111111111 11  1233222222221110       


Q ss_pred             ----------------h--cC---CHHHHHHHHHHHHh-CCCCC--C---------HHHHHHHHHHHHhcCCHHHHHHHH
Q 043999          292 ----------------N--EG---KVSEGFKLFDEMRH-REVAC--N---------VVTYNTLICGLCKEMRVQEAERLL  338 (574)
Q Consensus       292 ----------------~--~g---~~~~A~~~~~~m~~-~~~~~--~---------~~~~~~li~~~~~~~~~~~A~~~~  338 (574)
                                      .  .+   .+.+|.+.+.+-.. ....+  +         ..+...-...+.-.|+.-.|..-|
T Consensus       270 ~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~  349 (606)
T KOG0547|consen  270 DNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDF  349 (606)
T ss_pred             cCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhH
Confidence                            0  11   12233332222110 00011  1         112222222334578889999999


Q ss_pred             HHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC
Q 043999          339 DQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITP  418 (574)
Q Consensus       339 ~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  418 (574)
                      +..++....++ ..|-.+..+|....+.++..+.|++....+.. ++.+|..-.+.+.-.+++++|..=|++.+..... 
T Consensus       350 ~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe-  426 (606)
T KOG0547|consen  350 DAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPE-  426 (606)
T ss_pred             HHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChh-
Confidence            99988753333 23777778899999999999999999887543 7788888888888899999999999999887432 


Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-----CCH--H
Q 043999          419 SEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLE-----PND--V  491 (574)
Q Consensus       419 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-----p~~--~  491 (574)
                      +...|..+.-+..+.+++++++..|++..+. ++.-+..|+.....+...+++++|.+.|+..++....     .+.  .
T Consensus       427 ~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~pl  505 (606)
T KOG0547|consen  427 NAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPL  505 (606)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhh
Confidence            5566777777778899999999999999876 5677889999999999999999999999999874222     111  1


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          492 VYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       492 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      +--.++.. --.+++..|.+++++..+.+ +-....|..|.....+.|+.++|+++|++...
T Consensus       506 V~Ka~l~~-qwk~d~~~a~~Ll~KA~e~D-pkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  506 VHKALLVL-QWKEDINQAENLLRKAIELD-PKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             hhhhHhhh-chhhhHHHHHHHHHHHHccC-chHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            11222211 13489999999999999853 22457899999999999999999999998763

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

Probab=99.56  E-value=7.4e-11  Score=107.82  Aligned_cols=292  Identities=14%  Similarity=0.092  Sum_probs=146.0

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 043999          223 NGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKL  302 (574)
Q Consensus       223 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  302 (574)
                      .|++.+|+++..+-.+.+-. ....|..-+.+.-+.|+.+.+-.++.+..+..-.++....-+........|+...|..-
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 EGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            67777777777776655543 23344455556666677777777776666553344555555666666666777777666


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 043999          303 FDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQS  382 (574)
Q Consensus       303 ~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~  382 (574)
                      .+++.+.++. ++........+|.+.|++.+...++..+.+.|.-.|...-..                           
T Consensus       176 v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~l---------------------------  227 (400)
T COG3071         176 VDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARL---------------------------  227 (400)
T ss_pred             HHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHH---------------------------
Confidence            6666665554 555666666666667777776666666666664433321000                           


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 043999          383 PSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLI  462 (574)
Q Consensus       383 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  462 (574)
                       ...+|..+++-....+..+.-...+++.... .+.++..-.+++.-+.+.|+.++|.++..+..+.+..|+..    ..
T Consensus       228 -e~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~----~~  301 (400)
T COG3071         228 -EQQAWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLC----RL  301 (400)
T ss_pred             -HHHHHHHHHHHHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHH----HH
Confidence             0112333333322222223222333333222 12233334444444445555555555555544444333311    11


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 043999          463 HGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWP  542 (574)
Q Consensus       463 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~  542 (574)
                      -.+.+-++.+.-++..++-...... ++..+.+|+..|.+.+.+.+|.+.|+...+  ..|+..+|+.+.+++.+.|+..
T Consensus       302 ~~~l~~~d~~~l~k~~e~~l~~h~~-~p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~  378 (400)
T COG3071         302 IPRLRPGDPEPLIKAAEKWLKQHPE-DPLLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPE  378 (400)
T ss_pred             HhhcCCCCchHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChH
Confidence            1233334444444444433332111 334445555555555555555555554444  3455555555555555555555


Q ss_pred             HHHHHHHHHH
Q 043999          543 EAEVLLNQML  552 (574)
Q Consensus       543 ~A~~~~~~m~  552 (574)
                      +|.+..++.+
T Consensus       379 ~A~~~r~e~L  388 (400)
T COG3071         379 EAEQVRREAL  388 (400)
T ss_pred             HHHHHHHHHH
Confidence            5555555444

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

Probab=99.56  E-value=1.4e-08  Score=98.29  Aligned_cols=401  Identities=10%  Similarity=0.085  Sum_probs=229.1

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccC-------CCCCHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCK-------VELDVYSF  178 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~~  178 (574)
                      ..+|...+......|-++-++.+|++.++.    ++..-+-.+..+++.++.++|.+.+......       .+.+-..|
T Consensus       138 ~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw  213 (835)
T KOG2047|consen  138 DRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLW  213 (835)
T ss_pred             ccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHH
Confidence            457888899888999999999999999884    3344777888999999999999999887643       34455667


Q ss_pred             HHHHHHHHhcCChhHH---HHHHHHHHHCCCCCC--HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 043999          179 GILIKGCCEAGDLNKA---FEVLNQLEEMGFSPN--VVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLIC  253 (574)
Q Consensus       179 ~~li~~~~~~g~~~~A---~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  253 (574)
                      .-+-+..+++-+.-..   ..+++.+...  -+|  ...|++|.+-|.+.|.+++|.++|++....-  ..+.-|+.+.+
T Consensus       214 ~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd  289 (835)
T KOG2047|consen  214 LELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFD  289 (835)
T ss_pred             HHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHH
Confidence            7777666665443322   2333333332  233  3478888899999999999999888876532  23344555555


Q ss_pred             HHHhcCC----------------------HHHHHHHHHHHHHCC-----------CCCCHhhHHHHHHHHHhcCCHHHHH
Q 043999          254 GLFKNGL----------------------QKDGFEFYEKMQLNG-----------VSPSLYTYNCLIHEYCNEGKVSEGF  300 (574)
Q Consensus       254 ~~~~~g~----------------------~~~a~~~~~~~~~~g-----------~~p~~~~~~~li~~~~~~g~~~~A~  300 (574)
                      .|.+-..                      ++-.+..|+.+....           -+.++..|..-+.  +..|+..+-.
T Consensus       290 ~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i  367 (835)
T KOG2047|consen  290 AYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQI  367 (835)
T ss_pred             HHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHH
Confidence            5543211                      111122233332221           0112223322222  2245566666


Q ss_pred             HHHHHHHhCCCCC------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---hhhHHHHHHHHHhcCCHHHHHH
Q 043999          301 KLFDEMRHREVAC------NVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPN---VITYNKLIDGFCDAGETDKAFR  371 (574)
Q Consensus       301 ~~~~~m~~~~~~~------~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~---~~~~~~li~~~~~~g~~~~A~~  371 (574)
                      ..+.+..+. +.|      -...|..+...|-..|+++.|..+|++..+-..+.-   ..+|.....+=.++.+++.|++
T Consensus       368 ~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~  446 (835)
T KOG2047|consen  368 NTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALK  446 (835)
T ss_pred             HHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHH
Confidence            666666543 211      224566777777778888888888887776533221   2344444555556677777777


Q ss_pred             HHHHHHHCCCC-----------------CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcC
Q 043999          372 LFNQLKSNGQS-----------------PSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSD  434 (574)
Q Consensus       372 ~~~~~~~~g~~-----------------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  434 (574)
                      +.+.....--.                 .+...|...++..-..|-++....+++++.+..+. ++.........+-...
T Consensus       447 lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~  525 (835)
T KOG2047|consen  447 LMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHK  525 (835)
T ss_pred             HHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhH
Confidence            77666432111                 12334555555555667777777777777766443 2211111111223445


Q ss_pred             CHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHh---cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH--HhcCCHHH
Q 043999          435 DMEKAFEMYSLMQKSGFSPDV-YTYGVLIHGLCM---KGNMKEASKLFNSMWETKLEPNDVVYNMMIFGY--CKEGNSYR  508 (574)
Q Consensus       435 ~~~~A~~~~~~~~~~~~~~~~-~~~~~li~~~~~---~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~--~~~g~~~~  508 (574)
                      -++++.++|++-+..--.|++ ..|+..+.-+.+   .-+++.|..+|++.++ +++|...-+--|+.+-  -+.|....
T Consensus       526 yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~  604 (835)
T KOG2047|consen  526 YFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARH  604 (835)
T ss_pred             HHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHH
Confidence            566777777665544323443 244444433332   2356777777777776 5555433333333222  23466666


Q ss_pred             HHHHHHHHHHC
Q 043999          509 ALRLLGEMNEK  519 (574)
Q Consensus       509 A~~~~~~m~~~  519 (574)
                      |+.++++....
T Consensus       605 amsiyerat~~  615 (835)
T KOG2047|consen  605 AMSIYERATSA  615 (835)
T ss_pred             HHHHHHHHHhc
Confidence            77777775543

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

Probab=99.55  E-value=9.4e-11  Score=107.12  Aligned_cols=294  Identities=15%  Similarity=0.101  Sum_probs=185.7

Q ss_pred             hcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 043999          187 EAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFE  266 (574)
Q Consensus       187 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  266 (574)
                      -.|++.+|.+...+-.+.+-. ....|..-+.+--..|+.+.+-.++.+..+....++....-+........|+.+.|..
T Consensus        96 ~eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            479999999999998877644 3456777778888999999999999999887445567777788889999999999999


Q ss_pred             HHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 043999          267 FYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGI  346 (574)
Q Consensus       267 ~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~  346 (574)
                      -.+++.+.+. -+..........|.+.|++.+...++..+.+.+.-.|...                 .++=        
T Consensus       175 ~v~~ll~~~p-r~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~-----------------~~le--------  228 (400)
T COG3071         175 NVDQLLEMTP-RHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEA-----------------ARLE--------  228 (400)
T ss_pred             HHHHHHHhCc-CChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHH-----------------HHHH--------
Confidence            9999998763 3677788899999999999999999999999977644321                 1100        


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHH
Q 043999          347 SPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTIL  426 (574)
Q Consensus       347 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l  426 (574)
                         ..+|+.+++-....+..+.-...|+..... .+.++..-.+++.-+.+.|+.++|.++..+..+++..|.   ...+
T Consensus       229 ---~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~---L~~~  301 (400)
T COG3071         229 ---QQAWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR---LCRL  301 (400)
T ss_pred             ---HHHHHHHHHHHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh---HHHH
Confidence               012222333222222223323333333221 122334444455555555666666666655555544433   1111


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 043999          427 IDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNS  506 (574)
Q Consensus       427 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  506 (574)
                       -.+.+-++.+.-.+..++-.+. .+.++..+.+|...|.+.+.+.+|.+.|+...+  ..|+..+|+.+.+++.+.|+.
T Consensus       302 -~~~l~~~d~~~l~k~~e~~l~~-h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~  377 (400)
T COG3071         302 -IPRLRPGDPEPLIKAAEKWLKQ-HPEDPLLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEP  377 (400)
T ss_pred             -HhhcCCCCchHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCCh
Confidence             1233444544444444444332 133445556666666666666666666665554  355666666666666666666


Q ss_pred             HHHHHHHHHHHH
Q 043999          507 YRALRLLGEMNE  518 (574)
Q Consensus       507 ~~A~~~~~~m~~  518 (574)
                      .+|.++.++...
T Consensus       378 ~~A~~~r~e~L~  389 (400)
T COG3071         378 EEAEQVRREALL  389 (400)
T ss_pred             HHHHHHHHHHHH
Confidence            666666665543

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

Probab=99.53  E-value=1.3e-08  Score=98.58  Aligned_cols=452  Identities=14%  Similarity=0.114  Sum_probs=303.9

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDS-GVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKG  184 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~  184 (574)
                      +.+|-.......++|+...-...|++.+.. -+.-....|...+......|-.+-+..+|++....   ++..-+--|..
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~---~P~~~eeyie~  178 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV---APEAREEYIEY  178 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc---CHHHHHHHHHH
Confidence            467999999999999999999999998864 22234567888999898999999999999998765   55557777889


Q ss_pred             HHhcCChhHHHHHHHHHHHCC------CCCCHHhHHHHHHHHHhcCCHHHH---HHHHHHHHhCCCCCChhhHHHHHHHH
Q 043999          185 CCEAGDLNKAFEVLNQLEEMG------FSPNVVIYTSLIDGCCKNGDIERA---KMLFRKIGELGLVATQHTYTVLICGL  255 (574)
Q Consensus       185 ~~~~g~~~~A~~~~~~m~~~g------~~p~~~~~~~li~~~~~~g~~~~A---~~~~~~~~~~~~~~~~~~~~~li~~~  255 (574)
                      +++.+++++|.+.+.......      -+.+...|..+-+...++-+.-..   ..+++.+..+-...--..|++|.+.|
T Consensus       179 L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYY  258 (835)
T KOG2047|consen  179 LAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYY  258 (835)
T ss_pred             HHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHH
Confidence            999999999999998876421      234556677777776665543332   23344443322111235799999999


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhc----------------C------CHHHHHHHHHHHHhCCC--
Q 043999          256 FKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNE----------------G------KVSEGFKLFDEMRHREV--  311 (574)
Q Consensus       256 ~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~----------------g------~~~~A~~~~~~m~~~~~--  311 (574)
                      .+.|.+++|.++|++....  ...+.-|+.+.+.|+.-                |      +++-....|+.+..+.+  
T Consensus       259 Ir~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~  336 (835)
T KOG2047|consen  259 IRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLL  336 (835)
T ss_pred             HHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchH
Confidence            9999999999999998865  22344444444444321                1      12223344444433321  


Q ss_pred             ---------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC------hhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          312 ---------ACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPN------VITYNKLIDGFCDAGETDKAFRLFNQL  376 (574)
Q Consensus       312 ---------~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~~  376 (574)
                               +.++..|..-+..  ..|+..+-...|.++.+. +.|.      ...|..+...|-..|+++.|..+|++.
T Consensus       337 lNsVlLRQn~~nV~eW~kRV~l--~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka  413 (835)
T KOG2047|consen  337 LNSVLLRQNPHNVEEWHKRVKL--YEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKA  413 (835)
T ss_pred             HHHHHHhcCCccHHHHHhhhhh--hcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHh
Confidence                     1134444444333  367777888888887764 2332      235788889999999999999999999


Q ss_pred             HHCCCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-----------CC------CHhHHHHHHHHHHhcCCH
Q 043999          377 KSNGQSPS---VVTYNVLIRAFSKAGNSKMASDLVREMEERGI-----------TP------SEVTYTILIDSFVRSDDM  436 (574)
Q Consensus       377 ~~~g~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-----------~p------~~~~~~~li~~~~~~g~~  436 (574)
                      .+...+.-   ..+|......-.+..+++.|+.+++......-           ++      +...|...++..-..|-+
T Consensus       414 ~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtf  493 (835)
T KOG2047|consen  414 TKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTF  493 (835)
T ss_pred             hcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccH
Confidence            87644322   34566666667788889999998887653211           11      223466667766778899


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHh---cCCHHHHHHH
Q 043999          437 EKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPN-DVVYNMMIFGYCK---EGNSYRALRL  512 (574)
Q Consensus       437 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~li~~~~~---~g~~~~A~~~  512 (574)
                      +....+|+.+.+..+ .++.+.-.....+-...-++++.+++++-+..-.-|+ ...|+..+.-+.+   .-+.+.|..+
T Consensus       494 estk~vYdriidLri-aTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdL  572 (835)
T KOG2047|consen  494 ESTKAVYDRIIDLRI-ATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDL  572 (835)
T ss_pred             HHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHH
Confidence            999999999988764 2333322233334456668999999988776544455 3467777766654   2368999999


Q ss_pred             HHHHHHCCCCCCHHH--HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH--HHHHHHHh
Q 043999          513 LGEMNEKGLVPNIAS--YSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSV--SLYNILYR  568 (574)
Q Consensus       513 ~~~m~~~g~~p~~~~--~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~l~~  568 (574)
                      |++.++ |.+|...-  |......--+.|....|..++++... ++++..  ..||+.|+
T Consensus       573 FEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~-~v~~a~~l~myni~I~  630 (835)
T KOG2047|consen  573 FEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS-AVKEAQRLDMYNIYIK  630 (835)
T ss_pred             HHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh-cCCHHHHHHHHHHHHH
Confidence            999999 57765432  22222233446888899999999764 345543  36777765

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

Probab=99.52  E-value=2.2e-09  Score=104.01  Aligned_cols=440  Identities=13%  Similarity=0.112  Sum_probs=291.5

Q ss_pred             CCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHH
Q 043999          102 PVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGIL  181 (574)
Q Consensus       102 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l  181 (574)
                      ++.....|..++..| ..+++...+.+.+.+++. .+....|.....-.+...|+-++|.............+.+.|..+
T Consensus         4 ~~KE~~lF~~~lk~y-E~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~   81 (700)
T KOG1156|consen    4 SPKENALFRRALKCY-ETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVL   81 (700)
T ss_pred             ChHHHHHHHHHHHHH-HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHH
Confidence            344456677788877 678899999999988873 444555666555667788999999998888777667778889999


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCH
Q 043999          182 IKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQ  261 (574)
Q Consensus       182 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  261 (574)
                      .-.+-...++++|++.+......+. -|...+.-+.-.-.+.|+++.......++.+..+. ....|..++.++.-.|+.
T Consensus        82 gl~~R~dK~Y~eaiKcy~nAl~~~~-dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~-~ra~w~~~Avs~~L~g~y  159 (700)
T KOG1156|consen   82 GLLQRSDKKYDEAIKCYRNALKIEK-DNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPS-QRASWIGFAVAQHLLGEY  159 (700)
T ss_pred             HHHHhhhhhHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhh-hHHHHHHHHHHHHHHHHH
Confidence            9888899999999999999888653 36677777777777888888888888777765432 456788888888899999


Q ss_pred             HHHHHHHHHHHHCC-CCCCHhhHHHHH------HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 043999          262 KDGFEFYEKMQLNG-VSPSLYTYNCLI------HEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEA  334 (574)
Q Consensus       262 ~~a~~~~~~~~~~g-~~p~~~~~~~li------~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A  334 (574)
                      ..|..++++..+.. -.|+...+.-..      ....+.|..++|.+.+......-+. ....-.+-...+.+.+++++|
T Consensus       160 ~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~D-kla~~e~ka~l~~kl~~lEeA  238 (700)
T KOG1156|consen  160 KMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVD-KLAFEETKADLLMKLGQLEEA  238 (700)
T ss_pred             HHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHH-HHHHhhhHHHHHHHHhhHHhH
Confidence            99999998887654 245655553332      3345678888888877665443111 222233456678889999999


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHH-HHHhcCCHHHHH-HHHHHHHHCCCCCCHHHHHHH-HHHHHhcCChHHHHHHHHHH
Q 043999          335 ERLLDQMKMAGISPNVITYNKLID-GFCDAGETDKAF-RLFNQLKSNGQSPSVVTYNVL-IRAFSKAGNSKMASDLVREM  411 (574)
Q Consensus       335 ~~~~~~m~~~g~~~~~~~~~~li~-~~~~~g~~~~A~-~~~~~~~~~g~~~~~~~~~~l-i~~~~~~g~~~~A~~~~~~m  411 (574)
                      ..++..++..  .||..-|..... ++.+-.+.-++. .+|....+.  .|-...-..+ ++......-.+....++..+
T Consensus       239 ~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~--y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~  314 (700)
T KOG1156|consen  239 VKVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK--YPRHECPRRLPLSVLNGEELKEIVDKYLRPL  314 (700)
T ss_pred             HHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc--CcccccchhccHHHhCcchhHHHHHHHHHHH
Confidence            9999999887  466666655444 443333333343 666666553  1111111111 11111223344455667777


Q ss_pred             HHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHH----HHHHHCC----------CCCCHHH--HHHHHHHHHhcCCHHHHH
Q 043999          412 EERGITPSEVTYTILIDSFVRSDDMEKAFEMY----SLMQKSG----------FSPDVYT--YGVLIHGLCMKGNMKEAS  475 (574)
Q Consensus       412 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~----~~~~~~~----------~~~~~~~--~~~li~~~~~~g~~~~A~  475 (574)
                      .+.|+++   ++..+...|-.....+-..++.    ..+...|          -+|+...  +-.++..+-+.|+++.|.
T Consensus       315 l~Kg~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~  391 (700)
T KOG1156|consen  315 LSKGVPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVAL  391 (700)
T ss_pred             hhcCCCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHH
Confidence            7887764   3344443332222111111111    1111111          1455544  445677888999999999


Q ss_pred             HHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043999          476 KLFNSMWETKLEPN-DVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       476 ~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      ..++..++.  .|+ +..|..=.+.+...|++++|..++++..+.+ .||...-..-+.-..++.+.++|.++.....+.
T Consensus       392 ~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~  468 (700)
T KOG1156|consen  392 EYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRANEIEEAEEVLSKFTRE  468 (700)
T ss_pred             HHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHccccHHHHHHHHHhhhc
Confidence            999998875  454 4456666788899999999999999998864 445544335556667788999999888887766


Q ss_pred             CC
Q 043999          555 GL  556 (574)
Q Consensus       555 g~  556 (574)
                      |.
T Consensus       469 ~~  470 (700)
T KOG1156|consen  469 GF  470 (700)
T ss_pred             cc
Confidence            54

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.51  E-value=2.8e-10  Score=101.95  Aligned_cols=422  Identities=13%  Similarity=0.116  Sum_probs=223.6

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHH
Q 043999          116 HLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAF  195 (574)
Q Consensus       116 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  195 (574)
                      +....++..|+.+++.-...+-.....+-.-+..++...|++++|+..|..+.....++...+-.|.-.+.-.|.+.+|.
T Consensus        32 fls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA~  111 (557)
T KOG3785|consen   32 FLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEAK  111 (557)
T ss_pred             HHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHHH
Confidence            33455566666655544432211111122223344556666666666666555554445555555554444556666665


Q ss_pred             HHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          196 EVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNG  275 (574)
Q Consensus       196 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g  275 (574)
                      .+-.+..     .++-....+++.-.+.|+-++...+.+.+.+     ...---+|.+.....-.+.+|++++.+.+.. 
T Consensus       112 ~~~~ka~-----k~pL~~RLlfhlahklndEk~~~~fh~~LqD-----~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~d-  180 (557)
T KOG3785|consen  112 SIAEKAP-----KTPLCIRLLFHLAHKLNDEKRILTFHSSLQD-----TLEDQLSLASVHYMRMHYQEAIDVYKRVLQD-  180 (557)
T ss_pred             HHHhhCC-----CChHHHHHHHHHHHHhCcHHHHHHHHHHHhh-----hHHHHHhHHHHHHHHHHHHHHHHHHHHHHhc-
Confidence            5544322     1333344444555555555555555444432     1122233444444444556666666665543 


Q ss_pred             CCCCHhhHHHHH-HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh--cCC----------------------
Q 043999          276 VSPSLYTYNCLI-HEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCK--EMR----------------------  330 (574)
Q Consensus       276 ~~p~~~~~~~li-~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~--~~~----------------------  330 (574)
                       .|+-...|..+ -+|.+..-++-+.++++-.++.-+. +...-|.......+  .|+                      
T Consensus       181 -n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~pd-StiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~  258 (557)
T KOG3785|consen  181 -NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPD-STIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEY  258 (557)
T ss_pred             -ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCC-cHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHH
Confidence             23333333322 2344445555555555544443211 23333333322222  122                      


Q ss_pred             -----------HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HH--
Q 043999          331 -----------VQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRA-FS--  396 (574)
Q Consensus       331 -----------~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~-~~--  396 (574)
                                 -+.|++++-.+.+.  -|  ..--.|+-.|.+.+++++|..+..++.-.  .|-......+..+ +.  
T Consensus       259 l~rHNLVvFrngEgALqVLP~L~~~--IP--EARlNL~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKgvv~aalGQe  332 (557)
T KOG3785|consen  259 LCRHNLVVFRNGEGALQVLPSLMKH--IP--EARLNLIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKGVVFAALGQE  332 (557)
T ss_pred             HHHcCeEEEeCCccHHHhchHHHhh--Ch--HhhhhheeeecccccHHHHHHHHhhcCCC--ChHHHHHHHHHHHHhhhh
Confidence                       22333333332221  11  12234555678899999999887766421  2222222222211 11  


Q ss_pred             --hcCChHHHHHHHHHHHHCCCCCCH-hHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 043999          397 --KAGNSKMASDLVREMEERGITPSE-VTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKE  473 (574)
Q Consensus       397 --~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  473 (574)
                        ......-|.+.|+-.-+.+..-|. .--.++..++.-..++++.+..++.+...-...|...+ .+..+++..|++.+
T Consensus       333 ~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~e  411 (557)
T KOG3785|consen  333 TGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVE  411 (557)
T ss_pred             cCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHH
Confidence              112233455555443333333332 22455666677778899999999888877544444444 57789999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHH-HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          474 ASKLFNSMWETKLEPNDVVYN-MMIFGYCKEGNSYRALRLLGEMNEKGLVPNIAS-YSSTIGVLCQDGKWPEAEVLLNQM  551 (574)
Q Consensus       474 A~~~~~~~~~~~~~p~~~~~~-~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~-~~~l~~~~~~~g~~~~A~~~~~~m  551 (574)
                      |+++|-.+....++ |..+|. .|.++|.+.|+++.|.+++-++..   +.+..+ ...+.+-|.+.+.+--|.+.|+.+
T Consensus       412 aEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~l  487 (557)
T KOG3785|consen  412 AEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNT---PSERFSLLQLIANDCYKANEFYYAAKAFDEL  487 (557)
T ss_pred             HHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCC---chhHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence            99999887665545 556665 456788999999999887755533   223333 344557888999998888888888


Q ss_pred             HHcCCCCCHHHH
Q 043999          552 LKLGLKPSVSLY  563 (574)
Q Consensus       552 ~~~g~~p~~~~~  563 (574)
                      ...  .|+..-|
T Consensus       488 E~l--DP~pEnW  497 (557)
T KOG3785|consen  488 EIL--DPTPENW  497 (557)
T ss_pred             Hcc--CCCcccc
Confidence            755  5665544

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

Probab=99.48  E-value=2.3e-09  Score=102.74  Aligned_cols=221  Identities=10%  Similarity=0.072  Sum_probs=141.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHH--hc
Q 043999          111 SIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCC--EA  188 (574)
Q Consensus       111 ~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~--~~  188 (574)
                      +=++.+.++|++++|.....+++..+ +-+...+..=+.++.+.+++++|+++.+.-......+.+.   +=++||  +.
T Consensus        17 t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~~~~~~~---fEKAYc~Yrl   92 (652)
T KOG2376|consen   17 TDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGALLVINSFF---FEKAYCEYRL   92 (652)
T ss_pred             HHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhhhcchhh---HHHHHHHHHc
Confidence            44567778999999999999999875 4467777778888999999999997776654322222222   234554  78


Q ss_pred             CChhHHHHHHHHHHHCCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh-cCCHHHHHH
Q 043999          189 GDLNKAFEVLNQLEEMGFSPN-VVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFK-NGLQKDGFE  266 (574)
Q Consensus       189 g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~a~~  266 (574)
                      +..|+|+..++-     ..++ ..+...-...+.+.|++++|+++|+.+.+.+..    .+...+.+-+. .+-...+ +
T Consensus        93 nk~Dealk~~~~-----~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~d----d~d~~~r~nl~a~~a~l~~-~  162 (652)
T KOG2376|consen   93 NKLDEALKTLKG-----LDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSD----DQDEERRANLLAVAAALQV-Q  162 (652)
T ss_pred             ccHHHHHHHHhc-----ccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCc----hHHHHHHHHHHHHHHhhhH-H
Confidence            999999999883     3333 346777778899999999999999999876543    22222211111 1101111 1


Q ss_pred             HHHHHHHCCCCCCHhhHHH---HHHHHHhcCCHHHHHHHHHHHHhCC-------CC------CCH-HHHHHHHHHHHhcC
Q 043999          267 FYEKMQLNGVSPSLYTYNC---LIHEYCNEGKVSEGFKLFDEMRHRE-------VA------CNV-VTYNTLICGLCKEM  329 (574)
Q Consensus       267 ~~~~~~~~g~~p~~~~~~~---li~~~~~~g~~~~A~~~~~~m~~~~-------~~------~~~-~~~~~li~~~~~~~  329 (574)
                         .+......| ..+|..   ....+...|++.+|+++++...+.+       -.      -+. ..-..+...+...|
T Consensus       163 ---~~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~G  238 (652)
T KOG2376|consen  163 ---LLQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQG  238 (652)
T ss_pred             ---HHHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhc
Confidence               122222233 223433   3445667899999999998873211       00      011 11223455677899


Q ss_pred             CHHHHHHHHHHHHHCCCCCCh
Q 043999          330 RVQEAERLLDQMKMAGISPNV  350 (574)
Q Consensus       330 ~~~~A~~~~~~m~~~g~~~~~  350 (574)
                      +.++|..+|...++.. ++|.
T Consensus       239 qt~ea~~iy~~~i~~~-~~D~  258 (652)
T KOG2376|consen  239 QTAEASSIYVDIIKRN-PADE  258 (652)
T ss_pred             chHHHHHHHHHHHHhc-CCCc
Confidence            9999999999988875 4454

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.48  E-value=6.9e-09  Score=102.67  Aligned_cols=430  Identities=13%  Similarity=0.034  Sum_probs=214.3

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccC--CCCCHHHHHHH
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCK--VELDVYSFGIL  181 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l  181 (574)
                      .++.+|..|.-+..+.|+++.+.+.|++....- .-....|..+-..+...|.-..|+.+++.....  .++|...+-..
T Consensus       321 nd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lma  399 (799)
T KOG4162|consen  321 NDAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMA  399 (799)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHHH
Confidence            356677777777777777777777777765432 224556666666777777766777777665444  24444444444


Q ss_pred             HHHHHh-cCChhHHHHHHHHHHHC--CCC--CCHHhHHHHHHHHHhc-----------CCHHHHHHHHHHHHhCCCCCCh
Q 043999          182 IKGCCE-AGDLNKAFEVLNQLEEM--GFS--PNVVIYTSLIDGCCKN-----------GDIERAKMLFRKIGELGLVATQ  245 (574)
Q Consensus       182 i~~~~~-~g~~~~A~~~~~~m~~~--g~~--p~~~~~~~li~~~~~~-----------g~~~~A~~~~~~~~~~~~~~~~  245 (574)
                      -+.|.+ .|.++++++.-.+....  |..  .....|-.+.-+|...           ....++++.+++..+.+.. |+
T Consensus       400 sklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~-dp  478 (799)
T KOG4162|consen  400 SKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT-DP  478 (799)
T ss_pred             HHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC-Cc
Confidence            444443 35556666555555441  110  1122333333333221           1123445555555444332 22


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 043999          246 HTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGL  325 (574)
Q Consensus       246 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~  325 (574)
                      .....+.--|...++.+.|.+..++..+-+...+...|..|.-.+...+++.+|+.+.+.....-.. |-.....-+..-
T Consensus       479 ~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~-N~~l~~~~~~i~  557 (799)
T KOG4162|consen  479 LVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGD-NHVLMDGKIHIE  557 (799)
T ss_pred             hHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhh-hhhhchhhhhhh
Confidence            2222233334455556666666665555544445555555555555556666666655554432100 111111111111


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcC---C
Q 043999          326 CKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSN--GQSPSVVTYNVLIRAFSKAG---N  400 (574)
Q Consensus       326 ~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--g~~~~~~~~~~li~~~~~~g---~  400 (574)
                      ..-++.+++......+...=  -+.....       ..++-....+....+.-.  ...-...++..+.......+   .
T Consensus       558 ~~~~~~e~~l~t~~~~L~~w--e~~~~~q-------~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~  628 (799)
T KOG4162|consen  558 LTFNDREEALDTCIHKLALW--EAEYGVQ-------QTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAG  628 (799)
T ss_pred             hhcccHHHHHHHHHHHHHHH--HhhhhHh-------hhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcc
Confidence            22344444444333332110  0000000       000011111111111000  01111223322222221111   1


Q ss_pred             hHHHHHHHHHHHHCCCCC--C------HhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 043999          401 SKMASDLVREMEERGITP--S------EVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMK  472 (574)
Q Consensus       401 ~~~A~~~~~~m~~~~~~p--~------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  472 (574)
                      .+..      +......|  +      ...|......+.+.+..++|...+.+..... +..+..|......+...|+.+
T Consensus       629 se~~------Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~  701 (799)
T KOG4162|consen  629 SELK------LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLE  701 (799)
T ss_pred             cccc------cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhH
Confidence            1111      22211112  2      1235556666777777777777777666542 455566666667777778888


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH--HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          473 EASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALR--LLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQ  550 (574)
Q Consensus       473 ~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~--~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  550 (574)
                      +|.+.|......++. ++....++...+.+.|+..-|..  ++.++++.+ +.+...|..+...+.+.|+.+.|...|+.
T Consensus       702 EA~~af~~Al~ldP~-hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf~a  779 (799)
T KOG4162|consen  702 EAKEAFLVALALDPD-HVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECFQA  779 (799)
T ss_pred             HHHHHHHHHHhcCCC-CcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHHHH
Confidence            888888877764322 45567777777778777666666  777777753 33567777888888888888888888877


Q ss_pred             HHHc
Q 043999          551 MLKL  554 (574)
Q Consensus       551 m~~~  554 (574)
                      ..+.
T Consensus       780 a~qL  783 (799)
T KOG4162|consen  780 ALQL  783 (799)
T ss_pred             HHhh
Confidence            7654

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

Probab=99.47  E-value=8.6e-10  Score=105.15  Aligned_cols=285  Identities=13%  Similarity=0.052  Sum_probs=197.1

Q ss_pred             CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHH
Q 043999          207 SPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCL  286 (574)
Q Consensus       207 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~l  286 (574)
                      .-+........+-+...+++.+..++++.+.+..+ +....+..-|.++...|+..+-+.+=.++.+.- +....+|.++
T Consensus       241 ~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dp-fh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aV  318 (611)
T KOG1173|consen  241 AENLDLLAEKADRLYYGCRFKECLKITEELLEKDP-FHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAV  318 (611)
T ss_pred             hhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCC-CCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhH
Confidence            34566666677777788888888888888877653 355566666778888888777777777777652 3456778888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCH
Q 043999          287 IHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGET  366 (574)
Q Consensus       287 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  366 (574)
                      .--|.-.|+..+|++.|.+...-+.. -...|-.....|.-.+..|+|+..+..+.+. ++-....+--+.--|.+.++.
T Consensus       319 g~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~  396 (611)
T KOG1173|consen  319 GCYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNL  396 (611)
T ss_pred             HHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccH
Confidence            88787788888888888876554332 3456777788888888888888888776553 111222233344556777888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC--CCC----CCHhHHHHHHHHHHhcCCHHHHH
Q 043999          367 DKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEER--GIT----PSEVTYTILIDSFVRSDDMEKAF  440 (574)
Q Consensus       367 ~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~----p~~~~~~~li~~~~~~g~~~~A~  440 (574)
                      +.|.+.|.+.... .+.|+...+-+.-...+.+.+.+|...|+.....  .+.    .-..+++.|..+|.+.+.+++|+
T Consensus       397 kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI  475 (611)
T KOG1173|consen  397 KLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAI  475 (611)
T ss_pred             HHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHH
Confidence            8888888877765 2346777777777777778888888888776521  011    13345677777788888888888


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 043999          441 EMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFG  499 (574)
Q Consensus       441 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~  499 (574)
                      ..+++.+... +.+..++.++.-.|...|+++.|.+.|.+.+-  +.|+..+-..++..
T Consensus       476 ~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~  531 (611)
T KOG1173|consen  476 DYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKL  531 (611)
T ss_pred             HHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHH
Confidence            8888777664 66777777777778888888888888887765  46666555555543

>PRK12370 invasion protein regulator; Provisional

Probab=99.47  E-value=1.1e-10  Score=120.33  Aligned_cols=268  Identities=11%  Similarity=0.077  Sum_probs=176.4

Q ss_pred             CCHHHHHHHHHHHHh-----cCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHh---------cCChhHHHHHHHHHHHC
Q 043999          139 PRSNTFNSLLIFVIK-----SCSFDKGWLFFSENRCKVELDVYSFGILIKGCCE---------AGDLNKAFEVLNQLEEM  204 (574)
Q Consensus       139 p~~~~~~~ll~~~~~-----~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~---------~g~~~~A~~~~~~m~~~  204 (574)
                      .+...|...+.+...     .+..++|...|++.....|.+...|..+..++..         .+++++|...+++..+.
T Consensus       254 ~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~l  333 (553)
T PRK12370        254 NSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATEL  333 (553)
T ss_pred             CChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhc
Confidence            455555555554322     1335688888888887767777777777665542         24478888888888876


Q ss_pred             CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHH
Q 043999          205 GFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYN  284 (574)
Q Consensus       205 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~  284 (574)
                      .. -+...+..+...+...|++++|...|++..+.++. +...+..+...+...|++++|+..+++..+.... +...+.
T Consensus       334 dP-~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~  410 (553)
T PRK12370        334 DH-NNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGI  410 (553)
T ss_pred             CC-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHH
Confidence            42 25667777888888888888888888888877643 5667788888888888888888888888876322 222333


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcC
Q 043999          285 CLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAG  364 (574)
Q Consensus       285 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  364 (574)
                      .++..+...|++++|...+++..+...+-++..+..+...+...|+.++|...++++.... +.+....+.+...|+..|
T Consensus       411 ~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g  489 (553)
T PRK12370        411 TKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE-ITGLIAVNLLYAEYCQNS  489 (553)
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc-chhHHHHHHHHHHHhccH
Confidence            4444566678888888888887765433355567777788888888888888888876541 223344455556666666


Q ss_pred             CHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 043999          365 ETDKAFRLFNQLKSNG-QSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERG  415 (574)
Q Consensus       365 ~~~~A~~~~~~~~~~g-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  415 (574)
                        +.|...++.+.+.. ..+....+  +-..+.-.|+.+.+... +++.+.+
T Consensus       490 --~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        490 --ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             --HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhccc
Confidence              46777666665431 11221222  33334456666666655 7776653

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.45  E-value=7.3e-11  Score=108.13  Aligned_cols=200  Identities=12%  Similarity=0.059  Sum_probs=138.0

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHH
Q 043999          105 KSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKG  184 (574)
Q Consensus       105 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~  184 (574)
                      ....+..+...|...|++++|.+.+++.++.. +.+...+..+...+...|++++|.+.+++.....+.+...+..+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  108 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHH
Confidence            35678888899999999999999999988764 33566777777888888888888888888776666677777778888


Q ss_pred             HHhcCChhHHHHHHHHHHHCCC-CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHH
Q 043999          185 CCEAGDLNKAFEVLNQLEEMGF-SPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKD  263 (574)
Q Consensus       185 ~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  263 (574)
                      +...|++++|.+.+++..+... ......+..+...+...|++++|.+.+++..+.... +...+..+...+...|++++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ-RPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-ChHHHHHHHHHHHHcCCHHH
Confidence            8888888888888888776421 122345556666677777777777777776655422 34456666666666677777


Q ss_pred             HHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          264 GFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMR  307 (574)
Q Consensus       264 a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  307 (574)
                      |...+++..+. .+.+...+..+...+...|+.++|..+.+.+.
T Consensus       188 A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  230 (234)
T TIGR02521       188 ARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQ  230 (234)
T ss_pred             HHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            66666666654 23344455555566666666666666655554

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

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

Probab=99.44  E-value=1.4e-08  Score=98.54  Aligned_cols=422  Identities=13%  Similarity=0.093  Sum_probs=240.4

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 043999          118 KSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEV  197 (574)
Q Consensus       118 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  197 (574)
                      .-|+-++|.+..+..++.++ -+.+.|..+.-.+....++++|++.|..+....+.|...|.-+.-.-++.|+++...+.
T Consensus        53 ~lg~~~ea~~~vr~glr~d~-~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~t  131 (700)
T KOG1156|consen   53 CLGKKEEAYELVRLGLRNDL-KSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLET  131 (700)
T ss_pred             cccchHHHHHHHHHHhccCc-ccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHH
Confidence            45777777777777766543 36677777777777777788888888877776677777777777666777777777777


Q ss_pred             HHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCChhhHHHHH------HHHHhcCCHHHHHHHHHH
Q 043999          198 LNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELG-LVATQHTYTVLI------CGLFKNGLQKDGFEFYEK  270 (574)
Q Consensus       198 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~li------~~~~~~g~~~~a~~~~~~  270 (574)
                      -.+..+.. +.....|..++.++.-.|+...|..+++...+.. -.|+...+....      ....+.|..++|++.+..
T Consensus       132 r~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~  210 (700)
T KOG1156|consen  132 RNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLD  210 (700)
T ss_pred             HHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHh
Confidence            77766642 2244567777777777788888888777776543 234544443332      234456677777766655


Q ss_pred             HHHCCCCCCHh-hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH-HHHHHHHHCCCCC
Q 043999          271 MQLNGVSPSLY-TYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAE-RLLDQMKMAGISP  348 (574)
Q Consensus       271 ~~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~-~~~~~m~~~g~~~  348 (574)
                      -...  ..|.. .-..-...+.+.+++++|..++..++.+.+. +...|-.+..++.+-.+.-++. .+|....+. .+.
T Consensus       211 ~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rnPd-n~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~-y~r  286 (700)
T KOG1156|consen  211 NEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERNPD-NLDYYEGLEKALGKIKDMLEALKALYAILSEK-YPR  286 (700)
T ss_pred             hhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhCch-hHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc-Ccc
Confidence            4432  11222 2234456677788888888888888776443 3344444445554333333333 555555443 111


Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH----HCC---------
Q 043999          349 NVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREME----ERG---------  415 (574)
Q Consensus       349 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~----~~~---------  415 (574)
                      ....-..=++......-.+..-+++..+.+.|+++-.   ..+...|-.-...+-..++...+.    ..|         
T Consensus       287 ~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf---~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~  363 (700)
T KOG1156|consen  287 HECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVF---KDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGK  363 (700)
T ss_pred             cccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchh---hhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccc
Confidence            1111000111111122234444556666666655322   222222211111111111111111    111         


Q ss_pred             -CCCCHhHH--HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 043999          416 -ITPSEVTY--TILIDSFVRSDDMEKAFEMYSLMQKSGFSPDV-YTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDV  491 (574)
Q Consensus       416 -~~p~~~~~--~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  491 (574)
                       -+|....|  -.++..+-+.|+++.|...++....+  .|+. ..|..=.+.+...|++++|..++++..+.+. ||..
T Consensus       364 ~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~-aDR~  440 (700)
T KOG1156|consen  364 QEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDT-ADRA  440 (700)
T ss_pred             cCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc-hhHH
Confidence             13444333  34566777888888888888888765  5554 3555556778888888888888888877542 3444


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--CC----HHHHHHH--HHHHHhcCCHHHHHHHHHHH
Q 043999          492 VYNMMIFGYCKEGNSYRALRLLGEMNEKGLV--PN----IASYSST--IGVLCQDGKWPEAEVLLNQM  551 (574)
Q Consensus       492 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p~----~~~~~~l--~~~~~~~g~~~~A~~~~~~m  551 (574)
                      .-..-..-..++.+.++|.++.....+.|..  .+    .-.|-.+  ..+|.++|++.+|++=|...
T Consensus       441 INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i  508 (700)
T KOG1156|consen  441 INSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEI  508 (700)
T ss_pred             HHHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhH
Confidence            3334555566778888888888887776531  01    0122222  24667777777776655544

>PRK12370 invasion protein regulator; Provisional

Probab=99.43  E-value=2.1e-10  Score=118.10  Aligned_cols=267  Identities=16%  Similarity=0.127  Sum_probs=191.5

Q ss_pred             CCCHHHHHHHHHHHHh-----cCChhHHHHHHHHHHHCCCCCC-HHhHHHHHHHHH---------hcCCHHHHHHHHHHH
Q 043999          172 ELDVYSFGILIKGCCE-----AGDLNKAFEVLNQLEEMGFSPN-VVIYTSLIDGCC---------KNGDIERAKMLFRKI  236 (574)
Q Consensus       172 ~~~~~~~~~li~~~~~-----~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~---------~~g~~~~A~~~~~~~  236 (574)
                      +.+...|...+++-..     .+++++|.+.|++..+.  .|+ ...|..+..++.         ..+++++|...+++.
T Consensus       253 ~~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~A  330 (553)
T PRK12370        253 LNSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKA  330 (553)
T ss_pred             CCChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHH
Confidence            4555656555555322     24578999999999885  344 455666655544         234589999999999


Q ss_pred             HhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 043999          237 GELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVV  316 (574)
Q Consensus       237 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~  316 (574)
                      .+.++. +..++..+...+...|++++|...|++..+.+ +.+...+..+...+...|++++|...+++..+..+. +..
T Consensus       331 l~ldP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~  407 (553)
T PRK12370        331 TELDHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAA  407 (553)
T ss_pred             HhcCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-Chh
Confidence            988755 77888899999999999999999999999874 335667888999999999999999999999988665 333


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHH
Q 043999          317 TYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPS-VVTYNVLIRAF  395 (574)
Q Consensus       317 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~-~~~~~~li~~~  395 (574)
                      .+..++..+...|++++|...++++.+...+-+...+..+...+...|+.++|...+.++...  .|+ ....+.+...|
T Consensus       408 ~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~  485 (553)
T PRK12370        408 AGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEY  485 (553)
T ss_pred             hHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHH
Confidence            344455556778999999999999887642324555777888899999999999999988665  333 44455566667


Q ss_pred             HhcCChHHHHHHHHHHHHCC-CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          396 SKAGNSKMASDLVREMEERG-ITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSG  450 (574)
Q Consensus       396 ~~~g~~~~A~~~~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  450 (574)
                      ...|  +.|...++++.+.. ..+....+  +-..+.-.|+-+.+... +++.+.+
T Consensus       486 ~~~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        486 CQNS--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             hccH--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            7777  47888777776531 12222223  33335556776666655 7776653

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.43  E-value=2e-08  Score=99.54  Aligned_cols=445  Identities=14%  Similarity=0.076  Sum_probs=259.1

Q ss_pred             hHHHHHHH-HHHhcCChHHHHHHHH----HHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHH
Q 043999          107 RLYESIID-AHLKSRLSDQALFYFH----QMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGIL  181 (574)
Q Consensus       107 ~~~~~li~-~~~~~g~~~~A~~~~~----~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l  181 (574)
                      +.+..+|. .+.-..+.+++.-..-    ++....+..|...|..+--++...|+++.+-+.|++.....-.....|+.+
T Consensus       284 ~~Lllli~es~i~Re~~~d~ilslm~~~~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~  363 (799)
T KOG4162|consen  284 VILLLLIEESLIPRENIEDAILSLMLLLRKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQL  363 (799)
T ss_pred             HHHHHHHHhhccccccHHHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHH
Confidence            34444443 3334455666654333    333333455777788888888888888888888888776645566778888


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHH-HHHH-hcCCHHHHHHHHHHHHhC--CC--CCChhhHHHHHHHH
Q 043999          182 IKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLI-DGCC-KNGDIERAKMLFRKIGEL--GL--VATQHTYTVLICGL  255 (574)
Q Consensus       182 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li-~~~~-~~g~~~~A~~~~~~~~~~--~~--~~~~~~~~~li~~~  255 (574)
                      ...|...|.-..|..++++-......|+..+--.++ ..|. +.+.++++++.-.+..+.  +.  ......|-.+.-+|
T Consensus       364 als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y  443 (799)
T KOG4162|consen  364 ALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAY  443 (799)
T ss_pred             HHHHHHhccchHHHHHHHhhcccccCCCcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHH
Confidence            888888888888888888765543234333333333 3333 346677777766666541  10  11233444444444


Q ss_pred             Hhc-----------CCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 043999          256 FKN-----------GLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICG  324 (574)
Q Consensus       256 ~~~-----------g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~  324 (574)
                      ...           ....++++.+++..+.+.. |+.....+.--|+..++++.|.+...+..+-+..-+...|..+.-.
T Consensus       444 ~~~A~~a~~~seR~~~h~kslqale~av~~d~~-dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALv  522 (799)
T KOG4162|consen  444 GFQARQANLKSERDALHKKSLQALEEAVQFDPT-DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALV  522 (799)
T ss_pred             HhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC-CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHH
Confidence            321           1234566777777665422 3333333444566677888888888888777666678888888888


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHH
Q 043999          325 LCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMA  404 (574)
Q Consensus       325 ~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  404 (574)
                      +...+++.+|+.+.+...+.- .-|......-++.-...++.++++.....+...        |... ....+.++-...
T Consensus       523 lSa~kr~~~Al~vvd~al~E~-~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~--------we~~-~~~q~~~~~g~~  592 (799)
T KOG4162|consen  523 LSAQKRLKEALDVVDAALEEF-GDNHVLMDGKIHIELTFNDREEALDTCIHKLAL--------WEAE-YGVQQTLDEGKL  592 (799)
T ss_pred             HhhhhhhHHHHHHHHHHHHHh-hhhhhhchhhhhhhhhcccHHHHHHHHHHHHHH--------HHhh-hhHhhhhhhhhh
Confidence            888888888888887766541 112211112222233356666666555544331        1000 000111111222


Q ss_pred             HHHHHHHHHC--CCCCCHhHHHHHHHHHH-hcC--CHHHHHHHHHHHHHCCC--CCC------HHHHHHHHHHHHhcCCH
Q 043999          405 SDLVREMEER--GITPSEVTYTILIDSFV-RSD--DMEKAFEMYSLMQKSGF--SPD------VYTYGVLIHGLCMKGNM  471 (574)
Q Consensus       405 ~~~~~~m~~~--~~~p~~~~~~~li~~~~-~~g--~~~~A~~~~~~~~~~~~--~~~------~~~~~~li~~~~~~g~~  471 (574)
                      .++...+.-.  ...-...++..+..-.. +..  ..+..      +.+...  .|+      ...|......+.+.+..
T Consensus       593 ~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~------Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~  666 (799)
T KOG4162|consen  593 LRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELK------LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGND  666 (799)
T ss_pred             hhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccc------cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCc
Confidence            2222222110  01111223332222221 111  11111      222111  233      23455667778899999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHH--HH
Q 043999          472 KEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPN-IASYSSTIGVLCQDGKWPEAEV--LL  548 (574)
Q Consensus       472 ~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~--~~  548 (574)
                      ++|...+.+..... .-....|......+...|...+|.+.|.....  +.|+ .....++...+.+.|+..-|..  ++
T Consensus       667 ~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~--ldP~hv~s~~Ala~~lle~G~~~la~~~~~L  743 (799)
T KOG4162|consen  667 DEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVALA--LDPDHVPSMTALAELLLELGSPRLAEKRSLL  743 (799)
T ss_pred             hHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHh--cCCCCcHHHHHHHHHHHHhCCcchHHHHHHH
Confidence            99999999887653 22667788888888999999999999999988  4554 5677889999999998877777  99


Q ss_pred             HHHHHcCCCCC-HHHHHHHHhhhhcC
Q 043999          549 NQMLKLGLKPS-VSLYNILYRAKNNI  573 (574)
Q Consensus       549 ~~m~~~g~~p~-~~~~~~l~~~~~~~  573 (574)
                      .++++.  .|+ ...|-.|-..+-++
T Consensus       744 ~dalr~--dp~n~eaW~~LG~v~k~~  767 (799)
T KOG4162|consen  744 SDALRL--DPLNHEAWYYLGEVFKKL  767 (799)
T ss_pred             HHHHhh--CCCCHHHHHHHHHHHHHc
Confidence            999976  565 44666665554443

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

Probab=99.42  E-value=1.1e-09  Score=109.52  Aligned_cols=426  Identities=16%  Similarity=0.119  Sum_probs=248.9

Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHH
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILI  182 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li  182 (574)
                      .||.++|..||.-|+..|+.+.|- +|.-|.-...+.+...++.++.+-...|+.+.+.          .|-..+|..|.
T Consensus        22 ~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------ep~aDtyt~Ll   90 (1088)
T KOG4318|consen   22 LPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------EPLADTYTNLL   90 (1088)
T ss_pred             CCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------CCchhHHHHHH
Confidence            356699999999999999999888 8888876666667778888888887888776654          56788999999


Q ss_pred             HHHHhcCChhHHHHHHHH-HHH-------CCCCCCHH--------------hHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 043999          183 KGCCEAGDLNKAFEVLNQ-LEE-------MGFSPNVV--------------IYTSLIDGCCKNGDIERAKMLFRKIGELG  240 (574)
Q Consensus       183 ~~~~~~g~~~~A~~~~~~-m~~-------~g~~p~~~--------------~~~~li~~~~~~g~~~~A~~~~~~~~~~~  240 (574)
                      .+|...||+.. .+..++ |..       .|+-....              .-.+++....-.|-++.+++++..++...
T Consensus        91 ~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvsa  169 (1088)
T KOG4318|consen   91 KAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVSA  169 (1088)
T ss_pred             HHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCccc
Confidence            99999998765 222222 221       12111011              11223333444555666666665553321


Q ss_pred             CCCChhhHHHHHHHHHhc-CCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 043999          241 LVATQHTYTVLICGLFKN-GLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYN  319 (574)
Q Consensus       241 ~~~~~~~~~~li~~~~~~-g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~  319 (574)
                      ...   .+...++-+... ..+++-..+.....+   .|+..+|..+++.-...|+++.|..++.+|.++|.+.+..-|.
T Consensus       170 ~~~---p~~vfLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFw  243 (1088)
T KOG4318|consen  170 WNA---PFQVFLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFW  243 (1088)
T ss_pred             ccc---hHHHHHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccch
Confidence            111   111112222222 223333333333332   5889999999999999999999999999999999998888888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHH------------------------HHHHHHH
Q 043999          320 TLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDK------------------------AFRLFNQ  375 (574)
Q Consensus       320 ~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~------------------------A~~~~~~  375 (574)
                      .++-+   .+....++.+++-|.+.|+.|+..|+...+-.+.+.|....                        |.+.++.
T Consensus       244 pLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k~l~~  320 (1088)
T KOG4318|consen  244 PLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANKRLRQ  320 (1088)
T ss_pred             hhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHHhcccHhHHHHHH
Confidence            88877   78888888899999999999999988665554444322111                        1111111


Q ss_pred             ------------HHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC--CCC-CHhHHHHHHHHHHhcCC-----
Q 043999          376 ------------LKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERG--ITP-SEVTYTILIDSFVRSDD-----  435 (574)
Q Consensus       376 ------------~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~--~~p-~~~~~~~li~~~~~~g~-----  435 (574)
                                  ..-.|+.-....|...+. ...+|+-++..++...|....  ..+ ++..|..++.-|.+.-+     
T Consensus       321 nl~~~v~~s~k~~fLlg~d~~~aiws~c~~-l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrqyFrr~e~~~~~  399 (1088)
T KOG4318|consen  321 NLRKSVIGSTKKLFLLGTDILEAIWSMCEK-LRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQYFRRIERHICS  399 (1088)
T ss_pred             HHHHHHHHHhhHHHHhccccchHHHHHHHH-HHHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHHHHHHHHhhHHH
Confidence                        111133323344443333 233666666666666654221  111 22233333333322111     


Q ss_pred             -----------------HHHHHHHHHHHHH----------------CCCC-------CCHHHHHHHHHHHHhcCCHHHHH
Q 043999          436 -----------------MEKAFEMYSLMQK----------------SGFS-------PDVYTYGVLIHGLCMKGNMKEAS  475 (574)
Q Consensus       436 -----------------~~~A~~~~~~~~~----------------~~~~-------~~~~~~~~li~~~~~~g~~~~A~  475 (574)
                                       ..+..+.......                ..+.       +-...-+.++..++..-+..+++
T Consensus       400 ~i~~~~qgls~~l~se~tp~vsell~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~n~lK~l  479 (1088)
T KOG4318|consen  400 RIYYAGQGLSLNLNSEDTPRVSELLENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEYNKLKIL  479 (1088)
T ss_pred             HHHHHHHHHHhhhchhhhHHHHHHHHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence                             1111111111100                0000       01112334455555555555555


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          476 KLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEK--GLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       476 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      ..-+..... .-  ...|..||+-++...+.+.|..+.++....  .+..|..-+..+.+.+.+.+....+.++++++.+
T Consensus       480 ~~~ekye~~-lf--~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL~e~ks  556 (1088)
T KOG4318|consen  480 CDEEKYEDL-LF--AGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTILYEDKS  556 (1088)
T ss_pred             HHHHHHHHH-Hh--hhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHHhhhhH
Confidence            433333221 11  156788888888888888888888877543  2334556677888888888888888888888875

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

Probab=99.41  E-value=2.7e-11  Score=107.28  Aligned_cols=232  Identities=13%  Similarity=0.074  Sum_probs=179.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHh
Q 043999          108 LYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCE  187 (574)
Q Consensus       108 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~  187 (574)
                      --+.+.++|.+.|.+.+|...|+..++.  .|-+.||..|-.+|.+..+...|+.+|.+-.+.+|.|+....-+.+.+-.
T Consensus       225 Wk~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  225 WKQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHH
Confidence            3367788888889988888888888775  45667787888888888888888888888888888888888888888888


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 043999          188 AGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEF  267 (574)
Q Consensus       188 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  267 (574)
                      .++.++|.+++++..+.. +.++.....+...|.-.++.+-|+..|+++.+.|+. ++..|+.+.-+|.-.++++-++.-
T Consensus       303 m~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~s  380 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPS  380 (478)
T ss_pred             HHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHH
Confidence            888888888888887753 235666777777788888888888888888888876 777888888888888888888888


Q ss_pred             HHHHHHCCCCCC--HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          268 YEKMQLNGVSPS--LYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMA  344 (574)
Q Consensus       268 ~~~~~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  344 (574)
                      |.+.+..--.|+  ...|..+.......|++..|.+.|+-.+..+.. +...+|.|.-.-.+.|++++|..++......
T Consensus       381 f~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  381 FQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            887775433343  335666666667778888888888877766544 5667777777777788888888887776654

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.40  E-value=3.1e-10  Score=103.97  Aligned_cols=198  Identities=13%  Similarity=0.024  Sum_probs=100.7

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHH
Q 043999          141 SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGC  220 (574)
Q Consensus       141 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  220 (574)
                      ...+..+...+...|++++|...+++.....|.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~  109 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            34445555666666666666666666555445555666666666666666666666666665543 22344555555566


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCC-CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHH
Q 043999          221 CKNGDIERAKMLFRKIGELGLV-ATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEG  299 (574)
Q Consensus       221 ~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A  299 (574)
                      ...|++++|.+.+++..+.... .....+..+...+...|++++|.+.+.+..+.. +.+...+..+...+...|++++|
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHH
Confidence            6666666666666665543211 122334444445555555555555555544432 11233444444445555555555


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          300 FKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQM  341 (574)
Q Consensus       300 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m  341 (574)
                      ...+++..+. .+.+...+..+...+...|+.++|..+.+.+
T Consensus       189 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  229 (234)
T TIGR02521       189 RAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQL  229 (234)
T ss_pred             HHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            5555544443 1223333334444444444444444444443

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.

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.38  E-value=6.7e-08  Score=87.07  Aligned_cols=393  Identities=10%  Similarity=0.045  Sum_probs=246.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcC
Q 043999          110 ESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAG  189 (574)
Q Consensus       110 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g  189 (574)
                      .-+..++.+.|++++|+..|.-+.+.. .|+...+-.|.-+..-.|.+.+|..+-....+    ++-.-..|...-.+.|
T Consensus        61 lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k----~pL~~RLlfhlahkln  135 (557)
T KOG3785|consen   61 LWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQYIEAKSIAEKAPK----TPLCIRLLFHLAHKLN  135 (557)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHHHHHHHHHhhCCC----ChHHHHHHHHHHHHhC
Confidence            346678889999999999999987754 45666666677777788999999988877654    4444455556666777


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHH-HHHHHhcCCHHHHHHHH
Q 043999          190 DLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVL-ICGLFKNGLQKDGFEFY  268 (574)
Q Consensus       190 ~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l-i~~~~~~g~~~~a~~~~  268 (574)
                      +-++-....+.+..     ...---+|.......-.+.+|++++.+....+  |.-...|.- .-+|.+..-++-+.+++
T Consensus       136 dEk~~~~fh~~LqD-----~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn--~ey~alNVy~ALCyyKlDYydvsqevl  208 (557)
T KOG3785|consen  136 DEKRILTFHSSLQD-----TLEDQLSLASVHYMRMHYQEAIDVYKRVLQDN--PEYIALNVYMALCYYKLDYYDVSQEVL  208 (557)
T ss_pred             cHHHHHHHHHHHhh-----hHHHHHhHHHHHHHHHHHHHHHHHHHHHHhcC--hhhhhhHHHHHHHHHhcchhhhHHHHH
Confidence            77777776666654     22334455555556667889999999887654  334444443 34667777778788877


Q ss_pred             HHHHHCCCCCCH-hhHHHHHHHHHh--cCCHH---------------------------------HHHHHHHHHHhCCCC
Q 043999          269 EKMQLNGVSPSL-YTYNCLIHEYCN--EGKVS---------------------------------EGFKLFDEMRHREVA  312 (574)
Q Consensus       269 ~~~~~~g~~p~~-~~~~~li~~~~~--~g~~~---------------------------------~A~~~~~~m~~~~~~  312 (574)
                      .-.++.  -||. ...|.......+  .|+..                                 .|++++-.+.+.   
T Consensus       209 ~vYL~q--~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~---  283 (557)
T KOG3785|consen  209 KVYLRQ--FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKH---  283 (557)
T ss_pred             HHHHHh--CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhh---
Confidence            776654  3343 333333322222  12221                                 122222111111   


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH-----HHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 043999          313 CNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDG-----FCDAGETDKAFRLFNQLKSNGQSPSVVT  387 (574)
Q Consensus       313 ~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~-----~~~~g~~~~A~~~~~~~~~~g~~~~~~~  387 (574)
                       -+..--.++-.|.+++++.+|..+.+++.-.  .|-......+..+     ......+.-|...|+..-+++..-|...
T Consensus       284 -IPEARlNL~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIp  360 (557)
T KOG3785|consen  284 -IPEARLNLIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIP  360 (557)
T ss_pred             -ChHhhhhheeeecccccHHHHHHHHhhcCCC--ChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhccccccccccc
Confidence             1223344556688999999999988776421  3333322222221     1222345566666666655544433322


Q ss_pred             -HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 043999          388 -YNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLC  466 (574)
Q Consensus       388 -~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  466 (574)
                       -.++...+.-..++++.+-.++.....-.. |...--.+.++++..|.+.+|.++|-.+....++.+..-...|..+|.
T Consensus       361 GRQsmAs~fFL~~qFddVl~YlnSi~sYF~N-dD~Fn~N~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi  439 (557)
T KOG3785|consen  361 GRQSMASYFFLSFQFDDVLTYLNSIESYFTN-DDDFNLNLAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYI  439 (557)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-cchhhhHHHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHH
Confidence             344556666677888888888888765333 333344577899999999999999988765544444444456778999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 043999          467 MKGNMKEASKLFNSMWETKLEPNDVVY-NMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASY  528 (574)
Q Consensus       467 ~~g~~~~A~~~~~~~~~~~~~p~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  528 (574)
                      ++++.+.|++++-++-.   ..+..+. ..+.+-|.+.+.+--|.+.|+.+..  ..|++..|
T Consensus       440 ~nkkP~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~--lDP~pEnW  497 (557)
T KOG3785|consen  440 RNKKPQLAWDMMLKTNT---PSERFSLLQLIANDCYKANEFYYAAKAFDELEI--LDPTPENW  497 (557)
T ss_pred             hcCCchHHHHHHHhcCC---chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHc--cCCCcccc
Confidence            99999999887766532   2233333 3445678889999888899988877  45666655

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

Probab=99.33  E-value=2.4e-10  Score=101.34  Aligned_cols=228  Identities=14%  Similarity=0.063  Sum_probs=139.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHHh
Q 043999          319 NTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTY-NVLIRAFSK  397 (574)
Q Consensus       319 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~-~~li~~~~~  397 (574)
                      +.+..+|.+.|.+.+|.+.++.-++.  .|-+.||..|-..|.+..+++.|+.++.+-.+.  .|-.+|| ..+...+-.
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHH
Confidence            44566666666666666666666554  344555666666666666677776666666554  3333333 334455556


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 043999          398 AGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKL  477 (574)
Q Consensus       398 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  477 (574)
                      .++.++|.++++...+.. +.++.....+...|.-.++++-|+.+|+++...| ..++..|+.+.-+|.-.+++|-++.-
T Consensus       303 m~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG-~~speLf~NigLCC~yaqQ~D~~L~s  380 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMG-AQSPELFCNIGLCCLYAQQIDLVLPS  380 (478)
T ss_pred             HHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhc-CCChHHHhhHHHHHHhhcchhhhHHH
Confidence            666667777776666552 2244455555556666667777777777777666 34566666666666666677777766


Q ss_pred             HHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          478 FNSMWETKLEPN--DVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       478 ~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      |++....--.|+  ..+|-.+.......|++..|.+.|+-.+..+ ..+...++.+.-.-.+.|++++|..+++....
T Consensus       381 f~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  381 FQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            666665433333  3456566666666677777777777666542 22445666666666667777777777766653

>PF13041 PPR_2: PPR repeat family

Probab=99.32  E-value=5.2e-12  Score=83.22  Aligned_cols=49  Identities=37%  Similarity=0.651  Sum_probs=29.9

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHhhhh
Q 043999          523 PNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRAKN  571 (574)
Q Consensus       523 p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~  571 (574)
                      ||..+|++++++|++.|++++|.++|++|.+.|+.||..||++++++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            5556666666666666666666666666666666666666666666554

>PF13041 PPR_2: PPR repeat family

Probab=99.32  E-value=4.9e-12  Score=83.36  Aligned_cols=50  Identities=34%  Similarity=0.788  Sum_probs=33.6

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHh
Q 043999          173 LDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCK  222 (574)
Q Consensus       173 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  222 (574)
                      ||+.+||++|++|++.|++++|.++|++|.+.|++||..||+.+|++|++
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            56666666666666666666666666666666666666666666666653

>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=99.31  E-value=1.4e-08  Score=101.16  Aligned_cols=293  Identities=13%  Similarity=0.079  Sum_probs=186.1

Q ss_pred             HHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhc----
Q 043999          148 LIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKN----  223 (574)
Q Consensus       148 l~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~----  223 (574)
                      ...+...|++++|++.+++-...+.............+.+.|+.++|..++..+++.+. .|..-|..+..+..-.    
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNP-dn~~Yy~~L~~~~g~~~~~~   89 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNP-DNYDYYRGLEEALGLQLQLS   89 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHhhhcccc
Confidence            34556777777777777776555555666677777777778888888888888777652 2333444444444222    


Q ss_pred             -CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHH-HHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 043999          224 -GDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQK-DGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFK  301 (574)
Q Consensus       224 -g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~-~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  301 (574)
                       .+.+...++++++...-  |...+...+.-.+.....+. .+..++..++..|++   .+++.+-..|....+..-..+
T Consensus        90 ~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~  164 (517)
T PF12569_consen   90 DEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIES  164 (517)
T ss_pred             cccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHH
Confidence             24666677777776543  22222222221222222222 344556666777754   345555555554545544555


Q ss_pred             HHHHHHhC--------------CCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCC
Q 043999          302 LFDEMRHR--------------EVACNV--VTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGE  365 (574)
Q Consensus       302 ~~~~m~~~--------------~~~~~~--~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  365 (574)
                      ++......              .-+|..  .++..+...|...|++++|+.+++..++.. |..+..|..-...+-+.|+
T Consensus       165 l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht-Pt~~ely~~KarilKh~G~  243 (517)
T PF12569_consen  165 LVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT-PTLVELYMTKARILKHAGD  243 (517)
T ss_pred             HHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHCCC
Confidence            55554322              112333  244556677788999999999999988873 3336677788888889999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhH--------HHHHHHHHHhcCCHH
Q 043999          366 TDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVT--------YTILIDSFVRSDDME  437 (574)
Q Consensus       366 ~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~--------~~~li~~~~~~g~~~  437 (574)
                      +++|.+.++...+.+.. |...-+..+..+.+.|+.++|.+++....+.+..|....        ......+|.+.|++.
T Consensus       244 ~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~  322 (517)
T PF12569_consen  244 LKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYG  322 (517)
T ss_pred             HHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            99999999998887543 666667777888899999999999888877654332211        234466788889988


Q ss_pred             HHHHHHHHHHH
Q 043999          438 KAFEMYSLMQK  448 (574)
Q Consensus       438 ~A~~~~~~~~~  448 (574)
                      .|++.|..+.+
T Consensus       323 ~ALk~~~~v~k  333 (517)
T PF12569_consen  323 LALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHHH
Confidence            88887766643

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 [], [].

>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=99.30  E-value=2e-08  Score=100.02  Aligned_cols=89  Identities=19%  Similarity=0.226  Sum_probs=44.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhH-HHHHHHHHhc---
Q 043999          218 DGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTY-NCLIHEYCNE---  293 (574)
Q Consensus       218 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~-~~li~~~~~~---  293 (574)
                      ..+...|++++|++.+++-.+. +.............+.+.|+.++|..+++.+++.+  |+...| ..+..+..-.   
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhccc
Confidence            4455666666666666554332 22123334445566666666666666666666653  333333 3333333111   


Q ss_pred             --CCHHHHHHHHHHHHhC
Q 043999          294 --GKVSEGFKLFDEMRHR  309 (574)
Q Consensus       294 --g~~~~A~~~~~~m~~~  309 (574)
                        ...+...++++++...
T Consensus        89 ~~~~~~~~~~~y~~l~~~  106 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEK  106 (517)
T ss_pred             ccccHHHHHHHHHHHHHh
Confidence              1345555555555544

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

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

Probab=99.29  E-value=9.3e-07  Score=81.57  Aligned_cols=288  Identities=12%  Similarity=0.046  Sum_probs=167.4

Q ss_pred             cCCHHHHHHHHHHHHHC-CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 043999          258 NGLQKDGFEFYEKMQLN-GVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAER  336 (574)
Q Consensus       258 ~g~~~~a~~~~~~~~~~-g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  336 (574)
                      .++...+...+-.+... -++.|+.....+.+.+...|+.++|+..|++....++. +..........+.+.|++++...
T Consensus       209 ~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy-~i~~MD~Ya~LL~~eg~~e~~~~  287 (564)
T KOG1174|consen  209 NFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPD-NVEAMDLYAVLLGQEGGCEQDSA  287 (564)
T ss_pred             hcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChh-hhhhHHHHHHHHHhccCHhhHHH
Confidence            34444444433333222 24556667777777777777777777777776655221 22222223334456777777777


Q ss_pred             HHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 043999          337 LLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGI  416 (574)
Q Consensus       337 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  416 (574)
                      +...+.... +.....|-.-.......++++.|+.+-++.+.... .+...|-.-...+...|++++|.-.|+..+... 
T Consensus       288 L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~-r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-  364 (564)
T KOG1174|consen  288 LMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEP-RNHEALILKGRLLIALERHTQAVIAFRTAQMLA-  364 (564)
T ss_pred             HHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCc-ccchHHHhccHHHHhccchHHHHHHHHHHHhcc-
Confidence            776665432 11222222223333455667777777777666422 133444444455667777777777777766542 


Q ss_pred             CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH-HHHH-hcCCHHHHHHHHHHHHhCCCCCC-HHHH
Q 043999          417 TPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLI-HGLC-MKGNMKEASKLFNSMWETKLEPN-DVVY  493 (574)
Q Consensus       417 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li-~~~~-~~g~~~~A~~~~~~~~~~~~~p~-~~~~  493 (574)
                      +-+...|..|+.+|...|++.+|.-.-+...+. ++.+..+.+.+. ..+. ...--++|.+++++.+..  .|+ ....
T Consensus       365 p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV  441 (564)
T KOG1174|consen  365 PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAV  441 (564)
T ss_pred             hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHH
Confidence            235667777777777777777777666555443 233444443331 1121 222246677777766653  444 3345


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043999          494 NMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       494 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      +.+...+...|+.+.++.++++.+.  ..||....+.+.+.+...+.+.+|...|...+..
T Consensus       442 ~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~  500 (564)
T KOG1174|consen  442 NLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQ  500 (564)
T ss_pred             HHHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            5566666777777777777777776  3567777777777777777777777777777643

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

Probab=99.28  E-value=5e-07  Score=83.29  Aligned_cols=403  Identities=14%  Similarity=0.050  Sum_probs=261.7

Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-hhHHHHHHHHcccCCCCCHHHHHHH
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCS-FDKGWLFFSENRCKVELDVYSFGIL  181 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~-~~~A~~~~~~~~~~~~~~~~~~~~l  181 (574)
                      +.+...-...+.+|...++-+.|+....+....-   ...--|.++.-+.+.|. -.++.--+.+.....+.   .... 
T Consensus        94 ~~~~e~~r~~aecy~~~~n~~~Ai~~l~~~p~t~---r~p~inlMla~l~~~g~r~~~~vl~ykevvrecp~---aL~~-  166 (564)
T KOG1174|consen   94 FGDAEQRRRAAECYRQIGNTDMAIETLLQVPPTL---RSPRINLMLARLQHHGSRHKEAVLAYKEVIRECPM---ALQV-  166 (564)
T ss_pred             cccHHHHHHHHHHHHHHccchHHHHHHhcCCccc---cchhHHHHHHHHHhccccccHHHHhhhHHHHhcch---HHHH-
Confidence            4556666678889999999999998766554321   12223444444444432 22222222222221111   1111 


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHh--cCCHHHHHHHHHHHHhCC-CCCChhhHHHHHHHHHhc
Q 043999          182 IKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCK--NGDIERAKMLFRKIGELG-LVATQHTYTVLICGLFKN  258 (574)
Q Consensus       182 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~--~g~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~  258 (574)
                      |.+..+.+ +..+...=..|.....+|+..+...-+.+++.  .++-..|...+-.+.... +.-++.....+..++...
T Consensus       167 i~~ll~l~-v~g~e~~S~~m~~~~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~  245 (564)
T KOG1174|consen  167 IEALLELG-VNGNEINSLVMHAATVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYN  245 (564)
T ss_pred             HHHHHHHh-hcchhhhhhhhhheecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhh
Confidence            11111110 01111111123333345555555555555443  455555655555554433 344677888999999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHh-hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 043999          259 GLQKDGFEFYEKMQLNGVSPSLY-TYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERL  337 (574)
Q Consensus       259 g~~~~a~~~~~~~~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~  337 (574)
                      |+.++|+..|++....  .|+.. ......-.+.+.|+.+.-..+...+....-. ....|-.-........+++.|+.+
T Consensus       246 Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~-ta~~wfV~~~~l~~~K~~~rAL~~  322 (564)
T KOG1174|consen  246 GDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKY-TASHWFVHAQLLYDEKKFERALNF  322 (564)
T ss_pred             cCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhc-chhhhhhhhhhhhhhhhHHHHHHH
Confidence            9999999999998865  33332 2333344556788888888887777654211 334454445555668889999999


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC
Q 043999          338 LDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGIT  417 (574)
Q Consensus       338 ~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  417 (574)
                      -+..++.. +.+...+-.-...+...+++++|.-.|+..+..- +-+...|..|+..|...|++.+|..+-+...+. +.
T Consensus       323 ~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~  399 (564)
T KOG1174|consen  323 VEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQ  399 (564)
T ss_pred             HHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hh
Confidence            98888764 3345555555677888999999999999988752 247889999999999999999999888776654 33


Q ss_pred             CCHhHHHHHH-HHHHh-cCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 043999          418 PSEVTYTILI-DSFVR-SDDMEKAFEMYSLMQKSGFSPD-VYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYN  494 (574)
Q Consensus       418 p~~~~~~~li-~~~~~-~g~~~~A~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~  494 (574)
                      .+..+.+.+. ..+.. ..--++|.++++...+.  .|+ ....+.+...+...|+.+.++.+++..+.  ..||....+
T Consensus       400 ~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~  475 (564)
T KOG1174|consen  400 NSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHN  475 (564)
T ss_pred             cchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHHHHHh--hccccHHHH
Confidence            3555555553 23322 23348899999988775  455 34667778888999999999999999886  378999999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 043999          495 MMIFGYCKEGNSYRALRLLGEMNEKGLVPNI  525 (574)
Q Consensus       495 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  525 (574)
                      .|.+.+...+.+++|++.|...+..  .|+.
T Consensus       476 ~Lgd~~~A~Ne~Q~am~~y~~ALr~--dP~~  504 (564)
T KOG1174|consen  476 HLGDIMRAQNEPQKAMEYYYKALRQ--DPKS  504 (564)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhc--Cccc
Confidence            9999999999999999999999884  4543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.27  E-value=4.7e-09  Score=103.18  Aligned_cols=249  Identities=21%  Similarity=0.208  Sum_probs=154.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC-----C-CCCChhh-HHHHHHHHHhcCCHHHHHHHHHHHHHC-----CC-CC-CH
Q 043999          320 TLICGLCKEMRVQEAERLLDQMKMA-----G-ISPNVIT-YNKLIDGFCDAGETDKAFRLFNQLKSN-----GQ-SP-SV  385 (574)
Q Consensus       320 ~li~~~~~~~~~~~A~~~~~~m~~~-----g-~~~~~~~-~~~li~~~~~~g~~~~A~~~~~~~~~~-----g~-~~-~~  385 (574)
                      .+...|...|+++.|+.++++..+.     | ..|...+ .+.+...|...+++++|..+|+++...     |- .| -.
T Consensus       204 ~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va  283 (508)
T KOG1840|consen  204 NLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVA  283 (508)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHH
Confidence            3444555555555555555444332     1 0122222 223555666667777776666666432     11 11 12


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHC-----CC-CCCH-hHHHHHHHHHHhcCCHHHHHHHHHHHHHC---CCCCC-
Q 043999          386 VTYNVLIRAFSKAGNSKMASDLVREMEER-----GI-TPSE-VTYTILIDSFVRSDDMEKAFEMYSLMQKS---GFSPD-  454 (574)
Q Consensus       386 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~~-~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~-  454 (574)
                      .+++.|...|++.|++++|...+++..+.     |. .|.. ..++.+...++..+++++|..+++...+.   -+.++ 
T Consensus       284 ~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~  363 (508)
T KOG1840|consen  284 ATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDN  363 (508)
T ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccc
Confidence            34555556677777777766666654421     11 1222 22555666778888888888888766432   11222 


Q ss_pred             ---HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC----C--CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----C
Q 043999          455 ---VYTYGVLIHGLCMKGNMKEASKLFNSMWETK----L--EP-NDVVYNMMIFGYCKEGNSYRALRLLGEMNEK----G  520 (574)
Q Consensus       455 ---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----~--~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g  520 (574)
                         ..+++.|...|.+.|++++|.+++++++...    -  .+ ....++.|...|.+.+++.+|.++|.+...-    |
T Consensus       364 ~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g  443 (508)
T KOG1840|consen  364 VNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCG  443 (508)
T ss_pred             hHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhC
Confidence               3578889999999999999999999987541    1  11 2456788888999999999999888875432    2


Q ss_pred             C-CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH---c---CCCCCHHHHHHHHh
Q 043999          521 L-VPN-IASYSSTIGVLCQDGKWPEAEVLLNQMLK---L---GLKPSVSLYNILYR  568 (574)
Q Consensus       521 ~-~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~---~---g~~p~~~~~~~l~~  568 (574)
                      . .|+ ..+|..|..+|.+.|++++|.++.+....   .   +..|+.........
T Consensus       444 ~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  499 (508)
T KOG1840|consen  444 PDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLNAREQRLGTASPTVEDEKLRLA  499 (508)
T ss_pred             CCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHcCCCCCcchhHHHHhhh
Confidence            1 123 36888999999999999999999988862   1   34556555554443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.24  E-value=1.8e-07  Score=95.22  Aligned_cols=449  Identities=14%  Similarity=0.028  Sum_probs=259.8

Q ss_pred             CCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHH
Q 043999          102 PVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGV-RPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGI  180 (574)
Q Consensus       102 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~-~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  180 (574)
                      +..+...+-.+.+.|.+..+++.|..+.-..-+... ..-...|....-.+.+.++...|...|+......|.|...|..
T Consensus       522 Datdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~g  601 (1238)
T KOG1127|consen  522 DATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLG  601 (1238)
T ss_pred             CchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHH
Confidence            456778889999999999999999988433322210 0112334445556778899999999999988888889999999


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCHH-hHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCCChhhHHHHHH
Q 043999          181 LIKGCCEAGDLNKAFEVLNQLEEMGFSPNVV-IYTSLIDGCCKNGDIERAKMLFRKIGEL------GLVATQHTYTVLIC  253 (574)
Q Consensus       181 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~~~~~li~  253 (574)
                      ++.+|.+.|++..|.++|.+....  .|+.. .---.....|..|++.+|...+..+...      +..--..++..+..
T Consensus       602 LGeAY~~sGry~~AlKvF~kAs~L--rP~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~ak  679 (1238)
T KOG1127|consen  602 LGEAYPESGRYSHALKVFTKASLL--RPLSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAK  679 (1238)
T ss_pred             HHHHHHhcCceehHHHhhhhhHhc--CcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            999999999999999999988774  34432 2222334567789999999988877532      11112334444445


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC-------CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 043999          254 GLFKNGLQKDGFEFYEKMQLN-------GVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLC  326 (574)
Q Consensus       254 ~~~~~g~~~~a~~~~~~~~~~-------g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  326 (574)
                      .+.-.|-..++.+++++-++.       ....+...|..+          ..|..+|-... .. .|+......+..-.-
T Consensus       680 d~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~a----------sdac~~f~q~e-~~-~vn~h~l~il~~q~e  747 (1238)
T KOG1127|consen  680 DSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVA----------SDACYIFSQEE-PS-IVNMHYLIILSKQLE  747 (1238)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHH----------hHHHHHHHHhc-cc-chHHHHHHHHHHHHH
Confidence            555566666666666654432       111111122111          12233333332 11 222222222222122


Q ss_pred             hcCCH---H---HHHHHHHHHHHCCCCCChhhHHHHHHHHHh----c----CCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 043999          327 KEMRV---Q---EAERLLDQMKMAGISPNVITYNKLIDGFCD----A----GETDKAFRLFNQLKSNGQSPSVVTYNVLI  392 (574)
Q Consensus       327 ~~~~~---~---~A~~~~~~m~~~g~~~~~~~~~~li~~~~~----~----g~~~~A~~~~~~~~~~g~~~~~~~~~~li  392 (574)
                      ..+..   +   -+.+.+-.-.+.  ..+..+|..|+..|.+    .    .+...|+..+.+.++.. ..+..+|+.|.
T Consensus       748 ~~~~l~~~d~l~Lg~~c~~~hlsl--~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~-ann~~~WnaLG  824 (1238)
T KOG1127|consen  748 KTGALKKNDLLFLGYECGIAHLSL--AIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLC-ANNEGLWNALG  824 (1238)
T ss_pred             hcccCcchhHHHHHHHHhhHHHHH--hhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHh-hccHHHHHHHH
Confidence            22211   1   111222111111  2234455555444433    1    22346777777776642 33667777765


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 043999          393 RAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMK  472 (574)
Q Consensus       393 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  472 (574)
                      -. ...|.+.-|...|-+-.... +....+|..+.-.+.+..+++.|...|...+... +.+...|--........|+.-
T Consensus       825 Vl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLd-P~nl~~WlG~Ali~eavG~ii  901 (1238)
T KOG1127|consen  825 VL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLD-PLNLVQWLGEALIPEAVGRII  901 (1238)
T ss_pred             Hh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhhcC-chhhHHHHHHHHhHHHHHHHH
Confidence            55 55677777777776655442 3356677777777888888888888888887754 445555555544555677777


Q ss_pred             HHHHHHHHH--Hh--CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH----------HHCCCCCCHHHHHHHHHHHHhc
Q 043999          473 EASKLFNSM--WE--TKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEM----------NEKGLVPNIASYSSTIGVLCQD  538 (574)
Q Consensus       473 ~A~~~~~~~--~~--~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m----------~~~g~~p~~~~~~~l~~~~~~~  538 (574)
                      ++..+|..-  ..  .|-.|+..-|-.........|+.++-+...+++          .. +.+.+...|......+-+.
T Consensus       902 ~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~-~~p~~~fAy~~~gstlEhL  980 (1238)
T KOG1127|consen  902 ERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFL-GHPQLCFAYAANGSTLEHL  980 (1238)
T ss_pred             HHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHh-cCcchhHHHHHHHhHHHHH
Confidence            777777762  22  233344444444444445566655544433332          22 2444557787888888888


Q ss_pred             CCHHHHHHHHHHHHH-cCCCCCHHHHHHHHhhhh
Q 043999          539 GKWPEAEVLLNQMLK-LGLKPSVSLYNILYRAKN  571 (574)
Q Consensus       539 g~~~~A~~~~~~m~~-~g~~p~~~~~~~l~~~~~  571 (574)
                      +.+.+|.....+.+. ...+-|..+|+.+..-+.
T Consensus       981 ~ey~~a~ela~RliglLe~k~d~sqynvak~~~g 1014 (1238)
T KOG1127|consen  981 EEYRAALELATRLIGLLELKLDESQYNVAKPDAG 1014 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhh
Confidence            888888887777652 112456666665544433

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.24  E-value=3.2e-07  Score=82.50  Aligned_cols=310  Identities=9%  Similarity=0.041  Sum_probs=160.4

Q ss_pred             HHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHh-HHHHHHHHHhcC
Q 043999          146 SLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVI-YTSLIDGCCKNG  224 (574)
Q Consensus       146 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~-~~~li~~~~~~g  224 (574)
                      -+...+...|++.+|+..|....+..|.+-.++..-...|...|+-..|+.=+.+.++.  +||-.. -..-...+.+.|
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            34455556666666666666666554444455555556677777777777777777663  566432 222345567778


Q ss_pred             CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 043999          225 DIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFD  304 (574)
Q Consensus       225 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  304 (574)
                      .+++|..-|+..++..+.  .             |...++.+-+....+      .......+..+...|+...|+....
T Consensus       121 ele~A~~DF~~vl~~~~s--~-------------~~~~eaqskl~~~~e------~~~l~~ql~s~~~~GD~~~ai~~i~  179 (504)
T KOG0624|consen  121 ELEQAEADFDQVLQHEPS--N-------------GLVLEAQSKLALIQE------HWVLVQQLKSASGSGDCQNAIEMIT  179 (504)
T ss_pred             cHHHHHHHHHHHHhcCCC--c-------------chhHHHHHHHHhHHH------HHHHHHHHHHHhcCCchhhHHHHHH
Confidence            888888888777765432  1             111111111111110      0111122333444666666776666


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 043999          305 EMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPS  384 (574)
Q Consensus       305 ~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~  384 (574)
                      .+++..+. |...|..-..+|...|.+..|+.=++...+.. .-++.++--+-..+...|+.+.++...++..+.  .||
T Consensus       180 ~llEi~~W-da~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpd  255 (504)
T KOG0624|consen  180 HLLEIQPW-DASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPD  255 (504)
T ss_pred             HHHhcCcc-hhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--Ccc
Confidence            66665444 66666666667777777777766666655543 224444445555666677777777777666654  444


Q ss_pred             HHHHHHHH-------------HHHHhcCChHHHHHHHHHHHHCCCCCCHhH---HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          385 VVTYNVLI-------------RAFSKAGNSKMASDLVREMEERGITPSEVT---YTILIDSFVRSDDMEKAFEMYSLMQK  448 (574)
Q Consensus       385 ~~~~~~li-------------~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~---~~~li~~~~~~g~~~~A~~~~~~~~~  448 (574)
                      ...+-..-             ......++|.+++.-.+...+.......+.   +..+-.++...+++.+|++.-.+++.
T Consensus       256 HK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~  335 (504)
T KOG0624|consen  256 HKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLD  335 (504)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHh
Confidence            43221111             111233444444444444443322211111   22333444455555555555555554


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 043999          449 SGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWE  483 (574)
Q Consensus       449 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  483 (574)
                      .. +.|+.++.--..+|.-...++.|+.-|+.+.+
T Consensus       336 ~d-~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e  369 (504)
T KOG0624|consen  336 ID-PDDVQVLCDRAEAYLGDEMYDDAIHDYEKALE  369 (504)
T ss_pred             cC-chHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh
Confidence            32 22244555555555555555555555555554

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.24  E-value=1.8e-06  Score=88.24  Aligned_cols=138  Identities=17%  Similarity=0.145  Sum_probs=69.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 043999          386 VTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGL  465 (574)
Q Consensus       386 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  465 (574)
                      ..|+.+..+-.+.|...+|++-|-+.      -|+..|.-+++...+.|.+++-.+++...++...+|.+.  +.|+-+|
T Consensus      1105 ~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~Ay 1176 (1666)
T KOG0985|consen 1105 AVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAY 1176 (1666)
T ss_pred             HHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHH
Confidence            34555555555555555554444322      144556666666666666666666665555544344333  3555566


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 043999          466 CMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAE  545 (574)
Q Consensus       466 ~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~  545 (574)
                      ++.+++.+-+++..       .||......+.+-|...|.++.|.-++..         ...|..+...+...|.+..|.
T Consensus      1177 Akt~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~La~TLV~LgeyQ~AV 1240 (1666)
T KOG0985|consen 1177 AKTNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKLASTLVYLGEYQGAV 1240 (1666)
T ss_pred             HHhchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHHHHHHHHHHHHHHHH
Confidence            66666555444332       34444455555555555555555444432         223444555555555555554


Q ss_pred             HH
Q 043999          546 VL  547 (574)
Q Consensus       546 ~~  547 (574)
                      ..
T Consensus      1241 D~ 1242 (1666)
T KOG0985|consen 1241 DA 1242 (1666)
T ss_pred             HH
Confidence            44

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.23  E-value=3.6e-09  Score=104.00  Aligned_cols=242  Identities=17%  Similarity=0.132  Sum_probs=130.3

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhC-----CC-CCCHHH-HHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHH
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLDS-----GV-RPRSNT-FNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFG  179 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----g~-~p~~~~-~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  179 (574)
                      .+...|...|...|+++.|..+|.+.++.     |. .|...+ .+.+...|...+++++|..+|+++...         
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i---------  270 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTI---------  270 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH---------
Confidence            45555888888888888888888877653     10 122221 122334444455555555444443321         


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCC-CCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CC-CCCh-hhHHH
Q 043999          180 ILIKGCCEAGDLNKAFEVLNQLEEMGF-SPN-VVIYTSLIDGCCKNGDIERAKMLFRKIGEL-----GL-VATQ-HTYTV  250 (574)
Q Consensus       180 ~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~-~~~~-~~~~~  250 (574)
                                        ++..  .|- .|. ..+++.|...|++.|++++|...+++..+.     +. .|.+ ..++.
T Consensus       271 ------------------~e~~--~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~  330 (508)
T KOG1840|consen  271 ------------------REEV--FGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSE  330 (508)
T ss_pred             ------------------HHHh--cCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHH
Confidence                              0000  110 111 223444444555555555554444443210     11 1111 12344


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC---CCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-------CCCCHH
Q 043999          251 LICGLFKNGLQKDGFEFYEKMQLN---GVSPS----LYTYNCLIHEYCNEGKVSEGFKLFDEMRHRE-------VACNVV  316 (574)
Q Consensus       251 li~~~~~~g~~~~a~~~~~~~~~~---g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-------~~~~~~  316 (574)
                      ++..++..+++++|..++....+.   -+.++    ..+++.|...|.+.|++++|.++|+++....       ..-...
T Consensus       331 ~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~  410 (508)
T KOG1840|consen  331 LAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGK  410 (508)
T ss_pred             HHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhH
Confidence            455556666666666665544321   11111    2467777888888888888888887765431       111234


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH----CCC--CCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          317 TYNTLICGLCKEMRVQEAERLLDQMKM----AGI--SPNVITYNKLIDGFCDAGETDKAFRLFNQLK  377 (574)
Q Consensus       317 ~~~~li~~~~~~~~~~~A~~~~~~m~~----~g~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  377 (574)
                      .++.+...|.+.+++++|.++|.+...    .|.  +-...+|..|...|.+.|++++|.++.+.+.
T Consensus       411 ~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  411 PLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            566777777778888877777776432    221  2224567778888888888888888777665

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.23  E-value=1.7e-08  Score=95.21  Aligned_cols=218  Identities=13%  Similarity=0.001  Sum_probs=131.3

Q ss_pred             CChHHHHHHHHHHHhCC-CCCC--HHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHH
Q 043999          120 RLSDQALFYFHQMLDSG-VRPR--SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFE  196 (574)
Q Consensus       120 g~~~~A~~~~~~~~~~g-~~p~--~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  196 (574)
                      +..+.++.-+.+++... ..|+  ...|..+...+...|+.++|...|++.....|.+..+|+.+...+...|++++|.+
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            45667777777776532 1121  33466666677777888888888877777667777788888888888888888888


Q ss_pred             HHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 043999          197 VLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGV  276 (574)
Q Consensus       197 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~  276 (574)
                      .|++..+... -+..++..+...+...|++++|.+.|++..+.++.  ..............++.++|.+.|.+..... 
T Consensus       120 ~~~~Al~l~P-~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~--~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-  195 (296)
T PRK11189        120 AFDSVLELDP-TYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPN--DPYRALWLYLAESKLDPKQAKENLKQRYEKL-  195 (296)
T ss_pred             HHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-
Confidence            8888776432 13556777777777788888888888877765432  2111222222344567778887776654331 


Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          277 SPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHR---EVA---CNVVTYNTLICGLCKEMRVQEAERLLDQMKMAG  345 (574)
Q Consensus       277 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g  345 (574)
                      .|+...+ .+.  ....|+..++ +.++.+.+.   .+.   .....|..+...+.+.|++++|+..|++..+.+
T Consensus       196 ~~~~~~~-~~~--~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        196 DKEQWGW-NIV--EFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             CccccHH-HHH--HHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            2232221 222  2234554443 233333321   110   023456677777777777777777777777654

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

Probab=99.22  E-value=1.2e-07  Score=93.10  Aligned_cols=201  Identities=15%  Similarity=0.057  Sum_probs=131.2

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCCHHHH-HHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHH
Q 043999          105 KSRLYESIIDAHLKSRLSDQALFYFHQMLDSGV-RPRSNTF-NSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILI  182 (574)
Q Consensus       105 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~-~p~~~~~-~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li  182 (574)
                      ..-.|..+...+...|+++.+...+.+..+... .++.... ......+...|++++|.+.+++.....|.|...+.. .
T Consensus         5 ~~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~-~   83 (355)
T cd05804           5 FALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPRDLLALKL-H   83 (355)
T ss_pred             cHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHH-h
Confidence            345677777888888888888777777665421 1222222 222334567889999999998887776667666653 2


Q ss_pred             HHHHh----cCChhHHHHHHHHHHHCCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 043999          183 KGCCE----AGDLNKAFEVLNQLEEMGFSPN-VVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFK  257 (574)
Q Consensus       183 ~~~~~----~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  257 (574)
                      ..+..    .+..+.+.+.++..  .+..|+ ......+...+...|++++|.+.+++..+..+. +...+..+...+..
T Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~-~~~~~~~la~i~~~  160 (355)
T cd05804          84 LGAFGLGDFSGMRDHVARVLPLW--APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPD-DAWAVHAVAHVLEM  160 (355)
T ss_pred             HHHHHhcccccCchhHHHHHhcc--CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHHH
Confidence            23333    34445555555441  112233 334445666778888899999888888876543 56677778888888


Q ss_pred             cCCHHHHHHHHHHHHHCCC-CCCH--hhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043999          258 NGLQKDGFEFYEKMQLNGV-SPSL--YTYNCLIHEYCNEGKVSEGFKLFDEMRHR  309 (574)
Q Consensus       258 ~g~~~~a~~~~~~~~~~g~-~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~  309 (574)
                      .|++++|..++++...... .|+.  ..|..+...+...|++++|..++++....
T Consensus       161 ~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~  215 (355)
T cd05804         161 QGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAP  215 (355)
T ss_pred             cCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc
Confidence            8888888888888776432 1222  23456777788888888888888887543

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.

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

Probab=99.20  E-value=2.7e-06  Score=82.26  Aligned_cols=445  Identities=15%  Similarity=0.109  Sum_probs=248.5

Q ss_pred             hccCChHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhCCCCCCCCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 043999           58 MSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGV  137 (574)
Q Consensus        58 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~  137 (574)
                      ...+.+++|.....+++...                         +.+...+..=+.+..+.+++++|+.+.+.-.... 
T Consensus        23 ~~~~e~e~a~k~~~Kil~~~-------------------------pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~-   76 (652)
T KOG2376|consen   23 GKNGEYEEAVKTANKILSIV-------------------------PDDEDAIRCKVVALIQLDKYEDALKLIKKNGALL-   76 (652)
T ss_pred             ccchHHHHHHHHHHHHHhcC-------------------------CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhh-
Confidence            33677777777766665332                         2334445555666778888999886544322100 


Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-CHHhHHHH
Q 043999          138 RPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSP-NVVIYTSL  216 (574)
Q Consensus       138 ~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l  216 (574)
                      .-+.+.|. =..+..+.+..++|++.++...   +.+..+...-...+.+.|++++|+++++.+.+.+.+- +...-..+
T Consensus        77 ~~~~~~fE-KAYc~Yrlnk~Dealk~~~~~~---~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl  152 (652)
T KOG2376|consen   77 VINSFFFE-KAYCEYRLNKLDEALKTLKGLD---RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANL  152 (652)
T ss_pred             hcchhhHH-HHHHHHHcccHHHHHHHHhccc---ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHH
Confidence            00111111 1223347888999988888333   3455677777788889999999999999987764321 11111111


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHH---HHHHHhcCCHHHHHHHHHHHHHCC-------CCCCHh-----
Q 043999          217 IDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVL---ICGLFKNGLQKDGFEFYEKMQLNG-------VSPSLY-----  281 (574)
Q Consensus       217 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l---i~~~~~~g~~~~a~~~~~~~~~~g-------~~p~~~-----  281 (574)
                      +.+-.    .-.+- +.+..   ...| ..+|..+   ...+...|++.+|+++++...+.+       -.-+..     
T Consensus       153 ~a~~a----~l~~~-~~q~v---~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el  223 (652)
T KOG2376|consen  153 LAVAA----ALQVQ-LLQSV---PEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEEL  223 (652)
T ss_pred             HHHHH----hhhHH-HHHhc---cCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHH
Confidence            11110    01111 12221   1122 3344443   345667899999999988873211       010111     


Q ss_pred             --hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH----HHHHHHHHHHhcCCHH-HHHHHHHHHHHCCC--------
Q 043999          282 --TYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVV----TYNTLICGLCKEMRVQ-EAERLLDQMKMAGI--------  346 (574)
Q Consensus       282 --~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~----~~~~li~~~~~~~~~~-~A~~~~~~m~~~g~--------  346 (574)
                        .-.-+.-.+-..|+-.+|.+++...++..+. |..    .-|.++..-....-++ .++..++.......        
T Consensus       224 ~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~~~-D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls  302 (652)
T KOG2376|consen  224 NPIRVQLAYVLQLQGQTAEASSIYVDIIKRNPA-DEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLS  302 (652)
T ss_pred             HHHHHHHHHHHHHhcchHHHHHHHHHHHHhcCC-CchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHH
Confidence              1123455677889999999999999887654 432    2233332211111111 22222222211100        


Q ss_pred             --CCChhhH-HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH--hcCChHHHHHHHHHHHHCCCCCCHh
Q 043999          347 --SPNVITY-NKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFS--KAGNSKMASDLVREMEERGITPSEV  421 (574)
Q Consensus       347 --~~~~~~~-~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~--~~g~~~~A~~~~~~m~~~~~~p~~~  421 (574)
                        ....... +.++.+|  .+..+.+.+.-.....  -.|. ..+..++..+.  +...+..+..++...-+....-...
T Consensus       303 ~~qk~~i~~N~~lL~l~--tnk~~q~r~~~a~lp~--~~p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~  377 (652)
T KOG2376|consen  303 KKQKQAIYRNNALLALF--TNKMDQVRELSASLPG--MSPE-SLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKV  377 (652)
T ss_pred             HHHHHHHHHHHHHHHHH--hhhHHHHHHHHHhCCc--cCch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHH
Confidence              0011111 2233333  2344444444433322  1233 33344444332  2235677777777776653333345


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHH--------HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCCHH
Q 043999          422 TYTILIDSFVRSDDMEKAFEMYS--------LMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWET--KLEPNDV  491 (574)
Q Consensus       422 ~~~~li~~~~~~g~~~~A~~~~~--------~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~p~~~  491 (574)
                      +.-..+......|+++.|.+++.        .+.+.+..|  .+...+...+.+.++.+.|..++.+.+..  .-.+...
T Consensus       378 v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P--~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~  455 (652)
T KOG2376|consen  378 VLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLP--GTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSI  455 (652)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccCh--hHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccch
Confidence            56667777889999999999998        555555444  45566777788888877777777776642  1112222


Q ss_pred             ----HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          492 ----VYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQM  551 (574)
Q Consensus       492 ----~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m  551 (574)
                          ++..+...-.+.|+-++|..+++++.+. -++|..+...++.+|++. +.+.|..+-+++
T Consensus       456 ~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~-n~~d~~~l~~lV~a~~~~-d~eka~~l~k~L  517 (652)
T KOG2376|consen  456 ALLSLMREAAEFKLRHGNEEEASSLLEELVKF-NPNDTDLLVQLVTAYARL-DPEKAESLSKKL  517 (652)
T ss_pred             HHHhHHHHHhHHHHhcCchHHHHHHHHHHHHh-CCchHHHHHHHHHHHHhc-CHHHHHHHhhcC
Confidence                3333444445679999999999999996 366888888999999874 567777766555

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.20  E-value=1.6e-07  Score=89.60  Aligned_cols=98  Identities=12%  Similarity=-0.020  Sum_probs=64.3

Q ss_pred             CHHHHHHHHHhhCCCCCCCCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 043999           84 TPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLF  163 (574)
Q Consensus        84 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~  163 (574)
                      .+...+..++...   ...|+|.+.|..=..+|.+.|++++|++--.+-++.. +-..-.|+....++.-.|++++|+.-
T Consensus        17 d~~~ai~~~t~ai---~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~-p~w~kgy~r~Gaa~~~lg~~~eA~~a   92 (539)
T KOG0548|consen   17 DFETAIRLFTEAI---MLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRRLN-PDWAKGYSRKGAALFGLGDYEEAILA   92 (539)
T ss_pred             cHHHHHHHHHHHH---ccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHhcC-CchhhHHHHhHHHHHhcccHHHHHHH
Confidence            3444444444432   2345577777777777777777777777666666542 12356677777777777777777777


Q ss_pred             HHHcccCCCCCHHHHHHHHHHH
Q 043999          164 FSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       164 ~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      |.+-+...+.|...++-+..++
T Consensus        93 y~~GL~~d~~n~~L~~gl~~a~  114 (539)
T KOG0548|consen   93 YSEGLEKDPSNKQLKTGLAQAY  114 (539)
T ss_pred             HHHHhhcCCchHHHHHhHHHhh
Confidence            7777766667777777777666

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.19  E-value=2.9e-08  Score=93.63  Aligned_cols=217  Identities=12%  Similarity=-0.021  Sum_probs=135.1

Q ss_pred             CChhHHHHHHHHcccCCC----CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHH
Q 043999          155 CSFDKGWLFFSENRCKVE----LDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAK  230 (574)
Q Consensus       155 g~~~~A~~~~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  230 (574)
                      ++.+.++..+.++....+    .....|..+...|.+.|+.++|...|++..+... .+...|+.+...+...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRP-DMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHCCCHHHHH
Confidence            455666666666665322    2245577788888888888888888888887542 35678888888888888888888


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 043999          231 MLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHRE  310 (574)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  310 (574)
                      ..|++..+..+. +..+|..+...+...|++++|++.|++..+.  .|+..........+...++.++|...|++.....
T Consensus       119 ~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~  195 (296)
T PRK11189        119 EAFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKL  195 (296)
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC
Confidence            888888776543 4567777778888888888888888888765  3333222222222344667888888886654332


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC---CC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          311 VACNVVTYNTLICGLCKEMRVQEAERLLDQMKMA---GI---SPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNG  380 (574)
Q Consensus       311 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~---g~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g  380 (574)
                       .|+...+ .+..  ...|+..++ ..++.+.+.   .+   +.....|..+...+.+.|++++|...|++..+.+
T Consensus       196 -~~~~~~~-~~~~--~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        196 -DKEQWGW-NIVE--FYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             -CccccHH-HHHH--HHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence             2222222 2222  224444333 233333321   00   1123456667777777777777777777777653

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

Probab=99.17  E-value=2.6e-08  Score=84.71  Aligned_cols=196  Identities=12%  Similarity=-0.041  Sum_probs=129.2

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHH
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCC  186 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~  186 (574)
                      .+...|.-.|.+.|++..|..-+++.++.+ +.+..+|..+...|.+.|..+.|.+-|++.....|.+....|.....+|
T Consensus        36 ~arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC  114 (250)
T COG3063          36 KARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHH
Confidence            456777888888888888888888888875 2245667777777777788888877777777766677777777777777


Q ss_pred             hcCChhHHHHHHHHHHHCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHH
Q 043999          187 EAGDLNKAFEVLNQLEEMGFSP-NVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGF  265 (574)
Q Consensus       187 ~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  265 (574)
                      ..|++++|...|++......-+ -..+|..+.-+..+.|+++.|.+.|++..+.... ...+.-.+.....+.|++..|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHH
Confidence            7777777777777777642111 2346666666666777777777777776665433 3445555556666666666666


Q ss_pred             HHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          266 EFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDE  305 (574)
Q Consensus       266 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  305 (574)
                      .+++.....+. ++..+.-..|+.--..|+.+.+-+.=..
T Consensus       194 ~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~q  232 (250)
T COG3063         194 LYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQ  232 (250)
T ss_pred             HHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            66666655543 4555555555555555555555444333

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

Probab=99.17  E-value=4.2e-07  Score=89.16  Aligned_cols=199  Identities=10%  Similarity=0.021  Sum_probs=94.8

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCC-CCCH-HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHH
Q 043999          174 DVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGF-SPNV-VIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVL  251 (574)
Q Consensus       174 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  251 (574)
                      ....|..+...+...|+.+.+.+.+.+..+... .++. .........+...|++++|.+.+++..+..+. +...+.. 
T Consensus         5 ~~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~-   82 (355)
T cd05804           5 FALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPR-DLLALKL-   82 (355)
T ss_pred             cHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHH-
Confidence            344455555555555555555555444433211 1111 11112223344566666666666666554322 2223221 


Q ss_pred             HHHHHh----cCCHHHHHHHHHHHHHCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 043999          252 ICGLFK----NGLQKDGFEFYEKMQLNGVSPS-LYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLC  326 (574)
Q Consensus       252 i~~~~~----~g~~~~a~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  326 (574)
                      ...+..    .+..+.+.+.+...  ....|+ ......+...+...|++++|.+.+++..+..+. +...+..+...+.
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~-~~~~~~~la~i~~  159 (355)
T cd05804          83 HLGAFGLGDFSGMRDHVARVLPLW--APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPD-DAWAVHAVAHVLE  159 (355)
T ss_pred             hHHHHHhcccccCchhHHHHHhcc--CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHH
Confidence            111222    23333333333321  111222 223334445556666666666666666665433 4555566666666


Q ss_pred             hcCCHHHHHHHHHHHHHCCC-CCCh--hhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          327 KEMRVQEAERLLDQMKMAGI-SPNV--ITYNKLIDGFCDAGETDKAFRLFNQLK  377 (574)
Q Consensus       327 ~~~~~~~A~~~~~~m~~~g~-~~~~--~~~~~li~~~~~~g~~~~A~~~~~~~~  377 (574)
                      ..|++++|...+++...... .|+.  ..|..+...+...|++++|..++++..
T Consensus       160 ~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~  213 (355)
T cd05804         160 MQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHI  213 (355)
T ss_pred             HcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            66666666666666554321 1121  223345566666666666666666654

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.

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.15  E-value=1.2e-05  Score=82.36  Aligned_cols=413  Identities=16%  Similarity=0.175  Sum_probs=211.6

Q ss_pred             ccchhhHHHHHHHhccCChHH-HHHHHHHHhhCCCCCCHHHHHHHHHHHHhhhccCChHHHHHHHHHHHhcCCCCCCCCH
Q 043999            7 GEGQALTLNLISRMAKLPPLK-AFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTP   85 (574)
Q Consensus         7 ~~~~~~~~~~~~~~~~~~~~~-a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   85 (574)
                      -+|+..+..|...+-+.+..+ -+-++.+....| ..++.+++++.+++..   +++-++..      ++    .+.+--
T Consensus       835 v~gq~~~deLv~EvEkRNRLklLlp~LE~~i~eG-~~d~a~hnAlaKIyID---SNNnPE~f------Lk----eN~yYD  900 (1666)
T KOG0985|consen  835 VRGQFPVDELVEEVEKRNRLKLLLPWLESLIQEG-SQDPATHNALAKIYID---SNNNPERF------LK----ENPYYD  900 (1666)
T ss_pred             HhccCChHHHHHHHHhhhhHHHHHHHHHHHHhcc-CcchHHHhhhhheeec---CCCChHHh------cc----cCCcch
Confidence            367777778888877776654 445556666667 4578899999999987   55544321      00    011111


Q ss_pred             HHHHHHHHhhC---------CCCCCC------CcchhHHHHHHHHHHhcCChHHHH-----------HHHHHHHhCCCC-
Q 043999           86 RSLLCHLTQLF---------PSSSNP------VTKSRLYESIIDAHLKSRLSDQAL-----------FYFHQMLDSGVR-  138 (574)
Q Consensus        86 ~~l~~~~~~~~---------~~~~~~------~~~~~~~~~li~~~~~~g~~~~A~-----------~~~~~~~~~g~~-  138 (574)
                      +..+..++.--         ...+.+      +.....|-.+.+.+.+..+++--.           ++.++.++.+++ 
T Consensus       901 s~vVGkYCEKRDP~lA~vaYerGqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E  980 (1666)
T KOG0985|consen  901 SKVVGKYCEKRDPHLACVAYERGQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPE  980 (1666)
T ss_pred             hhHHhhhhcccCCceEEEeecccCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCc
Confidence            11122221110         000000      011123344444444444433222           233333333322 


Q ss_pred             -CCHHHHHHHHHHHHhcCChhHHHHHHHHcccC---CCCCHHHHHHHHHHHHh---------------------------
Q 043999          139 -PRSNTFNSLLIFVIKSCSFDKGWLFFSENRCK---VELDVYSFGILIKGCCE---------------------------  187 (574)
Q Consensus       139 -p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~~li~~~~~---------------------------  187 (574)
                       .|+...+....++-..+-..+-+++++++.-.   +..+...-|.|+-.-.+                           
T Consensus       981 ~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~iai~ 1060 (1666)
T KOG0985|consen  981 TQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIAIE 1060 (1666)
T ss_pred             cCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHHhh
Confidence             23444455566666666666777777665432   33333444444433333                           


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 043999          188 AGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEF  267 (574)
Q Consensus       188 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  267 (574)
                      ++-+++|..+|++..     .+....+.||.   .-+.+|.|.+.-++..      .+..|..+..+-.+.|...+|++-
T Consensus      1061 ~~LyEEAF~ifkkf~-----~n~~A~~VLie---~i~~ldRA~efAe~~n------~p~vWsqlakAQL~~~~v~dAieS 1126 (1666)
T KOG0985|consen 1061 NQLYEEAFAIFKKFD-----MNVSAIQVLIE---NIGSLDRAYEFAERCN------EPAVWSQLAKAQLQGGLVKDAIES 1126 (1666)
T ss_pred             hhHHHHHHHHHHHhc-----ccHHHHHHHHH---HhhhHHHHHHHHHhhC------ChHHHHHHHHHHHhcCchHHHHHH
Confidence            333344444443321     13333333332   1233444444333331      345677777777777777777666


Q ss_pred             HHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 043999          268 YEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGIS  347 (574)
Q Consensus       268 ~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~  347 (574)
                      |-+.      .|+..|..+++...+.|.+++-.+.+...+++.-+|.+.  ..++-+|++.++..+.+.++       ..
T Consensus      1127 yika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi-------~g 1191 (1666)
T KOG0985|consen 1127 YIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFI-------AG 1191 (1666)
T ss_pred             HHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHh-------cC
Confidence            5442      256667777777777777777777776666665554443  35666777777766554433       13


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHH
Q 043999          348 PNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILI  427 (574)
Q Consensus       348 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li  427 (574)
                      ||......+.+-|...+.++.|.-+|..         +..|..|...+...|++..|.+.-++.-      +..||..+-
T Consensus      1192 pN~A~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~La~TLV~LgeyQ~AVD~aRKAn------s~ktWK~Vc 1256 (1666)
T KOG0985|consen 1192 PNVANIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKLASTLVYLGEYQGAVDAARKAN------STKTWKEVC 1256 (1666)
T ss_pred             CCchhHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHHHHHHHHHHHHHHHHHHhhhcc------chhHHHHHH
Confidence            5666666666666666666666655532         3345566666666666666655544331      344555555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          428 DSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMW  482 (574)
Q Consensus       428 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  482 (574)
                      .+|...+.+.-|.     |-..++.....-...++..|-..|-+++-+.+++..+
T Consensus      1257 faCvd~~EFrlAQ-----iCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~L 1306 (1666)
T KOG0985|consen 1257 FACVDKEEFRLAQ-----ICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGL 1306 (1666)
T ss_pred             HHHhchhhhhHHH-----hcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhh
Confidence            5555444443321     1111122223334556666666666666666666543

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

Probab=99.14  E-value=7.1e-08  Score=82.09  Aligned_cols=205  Identities=12%  Similarity=-0.031  Sum_probs=157.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhc
Q 043999          144 FNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKN  223 (574)
Q Consensus       144 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  223 (574)
                      ...|.-.|...|++..|.+-+++..+..|.+.-+|..+...|-+.|+.+.|.+.|++...... -+..+.|....-+|..
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p-~~GdVLNNYG~FLC~q  116 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAP-NNGDVLNNYGAFLCAQ  116 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCC-CccchhhhhhHHHHhC
Confidence            334566788889999999999998888788888899999999999999999999998887542 3567788888888999


Q ss_pred             CCHHHHHHHHHHHHhCC-CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 043999          224 GDIERAKMLFRKIGELG-LVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKL  302 (574)
Q Consensus       224 g~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  302 (574)
                      |++++|...|++....- ...-..+|..+.-+..+.|+.+.|.+.|++.++.... ...+...+.....+.|++..|...
T Consensus       117 g~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar~~  195 (250)
T COG3063         117 GRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPARLY  195 (250)
T ss_pred             CChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHHHH
Confidence            99999999998876642 2223567888888888888888888888888876422 445667777888888888888888


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhH
Q 043999          303 FDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITY  353 (574)
Q Consensus       303 ~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~  353 (574)
                      ++.....+. ++..+.-..|..-.+.|+.+.+-+.=.++.+.  -|...-|
T Consensus       196 ~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~--fP~s~e~  243 (250)
T COG3063         196 LERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL--FPYSEEY  243 (250)
T ss_pred             HHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHH
Confidence            888877766 57777777777777788887777766666554  3444333

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.13  E-value=5.1e-07  Score=79.63  Aligned_cols=292  Identities=13%  Similarity=0.086  Sum_probs=183.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhc
Q 043999          109 YESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEA  188 (574)
Q Consensus       109 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~  188 (574)
                      +++.+..+.+..++++|+++...-.+.. +.+....+.|..+|-...++.+|-..|+++....|.-..-----...+.+.
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            5666666778889999999988887764 226667777888888888999999999888765333332222345667788


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHhHHHHHH--HHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 043999          189 GDLNKAFEVLNQLEEMGFSPNVVIYTSLID--GCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFE  266 (574)
Q Consensus       189 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~--~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  266 (574)
                      +.+..|+++...|...   |+...-..-+.  .....+++..+..+.++....|   +..+.+.......+.|+++.|.+
T Consensus        92 ~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAvq  165 (459)
T KOG4340|consen   92 CIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAVQ  165 (459)
T ss_pred             cccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHHH
Confidence            9999999998888652   33222222222  2345788888888888876433   55566666777788999999999


Q ss_pred             HHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-------------CH---------------HHH
Q 043999          267 FYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVAC-------------NV---------------VTY  318 (574)
Q Consensus       267 ~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~-------------~~---------------~~~  318 (574)
                      -|....+-+---....|+..+.. .+.|+.+.|++...++.++|++-             |+               ..+
T Consensus       166 kFqaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAf  244 (459)
T KOG4340|consen  166 KFQAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAF  244 (459)
T ss_pred             HHHHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHh
Confidence            99888765433345567665544 46788999999999988877541             11               112


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 043999          319 NTLICGLCKEMRVQEAERLLDQMKMAG-ISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSK  397 (574)
Q Consensus       319 ~~li~~~~~~~~~~~A~~~~~~m~~~g-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~  397 (574)
                      |.-...+.+.++++.|.+.+-+|.-.. ...|++|...+.-. -..+++.+..+-+.-+..... -...||..++-.||+
T Consensus       245 NLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~nP-fP~ETFANlLllyCK  322 (459)
T KOG4340|consen  245 NLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQNP-FPPETFANLLLLYCK  322 (459)
T ss_pred             hhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcCC-CChHHHHHHHHHHhh
Confidence            222233445666666666665553221 23344554433211 123444444444555554432 244566666666676


Q ss_pred             cCChHHHHHHHHH
Q 043999          398 AGNSKMASDLVRE  410 (574)
Q Consensus       398 ~g~~~~A~~~~~~  410 (574)
                      ..-++-|-+++.+
T Consensus       323 Neyf~lAADvLAE  335 (459)
T KOG4340|consen  323 NEYFDLAADVLAE  335 (459)
T ss_pred             hHHHhHHHHHHhh
Confidence            6666666666554

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=99.13  E-value=9e-06  Score=77.91  Aligned_cols=412  Identities=14%  Similarity=0.130  Sum_probs=230.5

Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHH
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILI  182 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li  182 (574)
                      |.|..+|+.||+-+..+ .++++++.++++... ++.....|..-|....+..+++...++|.+.... ..+...|..-+
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvk-vLnlDLW~lYl   93 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVK-VLNLDLWKLYL   93 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-HhhHhHHHHHH
Confidence            56789999999998766 999999999999875 4556788999999999999999999999998765 23566666665


Q ss_pred             HHHHh-cCChhHH----HHHHHHH-HHCCCCCCH-HhHHHHHHH---------HHhcCCHHHHHHHHHHHHhCCCCCChh
Q 043999          183 KGCCE-AGDLNKA----FEVLNQL-EEMGFSPNV-VIYTSLIDG---------CCKNGDIERAKMLFRKIGELGLVATQH  246 (574)
Q Consensus       183 ~~~~~-~g~~~~A----~~~~~~m-~~~g~~p~~-~~~~~li~~---------~~~~g~~~~A~~~~~~~~~~~~~~~~~  246 (574)
                      .---+ .|+...+    .+.|+-. .+.|+.+-. ..|+..+.-         |..+.+++...++++++...-...-..
T Consensus        94 ~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlEk  173 (656)
T KOG1914|consen   94 SYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLEK  173 (656)
T ss_pred             HHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHHH
Confidence            54332 3343332    3334332 334543322 234444433         344556777788888876532221111


Q ss_pred             hHHH------HHHHH-------HhcCCHHHHHHHHHHHHH--CCCCCCHhh---------------HHHHHHHHHhcCCH
Q 043999          247 TYTV------LICGL-------FKNGLQKDGFEFYEKMQL--NGVSPSLYT---------------YNCLIHEYCNEGKV  296 (574)
Q Consensus       247 ~~~~------li~~~-------~~~g~~~~a~~~~~~~~~--~g~~p~~~~---------------~~~li~~~~~~g~~  296 (574)
                      .|+-      =|+..       -+...+..|.++++++..  +|...+..+               |-.+|..--.++--
T Consensus       174 LW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL~  253 (656)
T KOG1914|consen  174 LWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPLR  253 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCcc
Confidence            2221      11111       112344556666666542  233222221               33333221111110


Q ss_pred             --------HHHHHHHHH-HHhCCCCCCHHHHHH-----HHHHHHhcCC-------HHHHHHHHHHHHHCCCCCChhhHHH
Q 043999          297 --------SEGFKLFDE-MRHREVACNVVTYNT-----LICGLCKEMR-------VQEAERLLDQMKMAGISPNVITYNK  355 (574)
Q Consensus       297 --------~~A~~~~~~-m~~~~~~~~~~~~~~-----li~~~~~~~~-------~~~A~~~~~~m~~~g~~~~~~~~~~  355 (574)
                              ....-++++ +.-.+..|++....+     .-+.+...|+       -+++..+++...+.-..-+..+|..
T Consensus       254 t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~~  333 (656)
T KOG1914|consen  254 TLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYFA  333 (656)
T ss_pred             cccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                    001111111 111222222211100     0111222232       3455556665544322233334433


Q ss_pred             HHHHHHhc---CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHhHHHHHHHHHH
Q 043999          356 LIDGFCDA---GETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITP-SEVTYTILIDSFV  431 (574)
Q Consensus       356 li~~~~~~---g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~  431 (574)
                      +.+.--..   ...+...+.++++...-...-..+|..+++.-.+..-+..|..+|.+..+.+..+ ++.+.++++..+|
T Consensus       334 ~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c  413 (656)
T KOG1914|consen  334 LADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC  413 (656)
T ss_pred             HHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh
Confidence            33221111   1245555566665543222223456667777777777888888888888776666 6667777777665


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHH
Q 043999          432 RSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPN--DVVYNMMIFGYCKEGNSYRA  509 (574)
Q Consensus       432 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A  509 (574)
                      . ++.+-|.++|+.-.+. +..++.--...++-+...++-..+..+|+..+..++.|+  ...|..++.-=..-|+...+
T Consensus       414 s-kD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si  491 (656)
T KOG1914|consen  414 S-KDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSI  491 (656)
T ss_pred             c-CChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHH
Confidence            4 5667788888765544 233444445666777777887888888888877655444  45788888777778888888


Q ss_pred             HHHHHHHHHC
Q 043999          510 LRLLGEMNEK  519 (574)
Q Consensus       510 ~~~~~~m~~~  519 (574)
                      .++-+++...
T Consensus       492 ~~lekR~~~a  501 (656)
T KOG1914|consen  492 LKLEKRRFTA  501 (656)
T ss_pred             HHHHHHHHHh
Confidence            8777776654

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.13  E-value=4.5e-07  Score=86.66  Aligned_cols=410  Identities=16%  Similarity=0.066  Sum_probs=221.9

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChh
Q 043999          113 IDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLN  192 (574)
Q Consensus       113 i~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  192 (574)
                      .++.+..|+++.|+..|-+.+... ++|.+.|.--..+|.+.|++++|++=-.+.....|.-.-.|.....++.-.|+++
T Consensus         9 gnaa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~~   87 (539)
T KOG0548|consen    9 GNAAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYE   87 (539)
T ss_pred             HHhhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHH
Confidence            356678899999999999988875 4477788888889999999999988777666555555678888999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCC-HHHHH-HHHHH
Q 043999          193 KAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGL-QKDGF-EFYEK  270 (574)
Q Consensus       193 ~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~a~-~~~~~  270 (574)
                      +|+..|.+-++.. +.|...++-+.+++.    .+.+.     +..   ..++..|..+..--...+. .+.+. .++..
T Consensus        88 eA~~ay~~GL~~d-~~n~~L~~gl~~a~~----~~~~~-----~~~---~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~  154 (539)
T KOG0548|consen   88 EAILAYSEGLEKD-PSNKQLKTGLAQAYL----EDYAA-----DQL---FTKPYFHEKLANLPLTNYSLSDPAYVKILEI  154 (539)
T ss_pred             HHHHHHHHHhhcC-CchHHHHHhHHHhhh----HHHHh-----hhh---ccCcHHHHHhhcChhhhhhhccHHHHHHHHH
Confidence            9999999887753 235566677777661    11111     110   0122222222211111100 01111 11111


Q ss_pred             HHHCCCCCCHhhH---HHHHHHHHhcCCHHHH-HHHHHHH-HhCCCCC----------------------CHHHHHHHHH
Q 043999          271 MQLNGVSPSLYTY---NCLIHEYCNEGKVSEG-FKLFDEM-RHREVAC----------------------NVVTYNTLIC  323 (574)
Q Consensus       271 ~~~~g~~p~~~~~---~~li~~~~~~g~~~~A-~~~~~~m-~~~~~~~----------------------~~~~~~~li~  323 (574)
                      ....  +.+...|   ..++.+.......+.- ...-..+ ...+..|                      -..-...+.+
T Consensus       155 ~~~~--p~~l~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgn  232 (539)
T KOG0548|consen  155 IQKN--PTSLKLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGN  232 (539)
T ss_pred             hhcC--cHhhhcccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHH
Confidence            1110  0000000   0011110000000000 0000000 0000000                      1122445666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH-------HHHHHH
Q 043999          324 GLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNV-------LIRAFS  396 (574)
Q Consensus       324 ~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~-------li~~~~  396 (574)
                      ...+..+++.|++-+....+..  .+..-++....+|...|.+..+...-+...+.|.. ...-|+.       +..+|.
T Consensus       233 aaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~  309 (539)
T KOG0548|consen  233 AAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYT  309 (539)
T ss_pred             HHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhh
Confidence            7777788888888888877764  35555566667788888877777776666665433 2222222       334566


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHH
Q 043999          397 KAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDV-YTYGVLIHGLCMKGNMKEAS  475 (574)
Q Consensus       397 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~  475 (574)
                      +.++.+.|+..|.+.......|+..         .+....+++....+...-.+  |.. .-...-...+.+.|++..|+
T Consensus       310 k~~~~~~ai~~~~kaLte~Rt~~~l---------s~lk~~Ek~~k~~e~~a~~~--pe~A~e~r~kGne~Fk~gdy~~Av  378 (539)
T KOG0548|consen  310 KREDYEGAIKYYQKALTEHRTPDLL---------SKLKEAEKALKEAERKAYIN--PEKAEEEREKGNEAFKKGDYPEAV  378 (539)
T ss_pred             hHHhHHHHHHHHHHHhhhhcCHHHH---------HHHHHHHHHHHHHHHHHhhC--hhHHHHHHHHHHHHHhccCHHHHH
Confidence            6777888888888766544443322         22233344444433333222  221 11111244556667777777


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043999          476 KLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       476 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      +.|.+++...+. |...|....-+|.+.|.+..|+.-.+...+.. ++....|..=..++....++++|...|++.++.
T Consensus       379 ~~YteAIkr~P~-Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~eale~  455 (539)
T KOG0548|consen  379 KHYTEAIKRDPE-DARLYSNRAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQEALEL  455 (539)
T ss_pred             HHHHHHHhcCCc-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            777776665433 56666666666777777777766666666641 222344444445555556666666666666654

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.10  E-value=1.6e-06  Score=85.59  Aligned_cols=312  Identities=17%  Similarity=0.136  Sum_probs=145.5

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcC
Q 043999          145 NSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNG  224 (574)
Q Consensus       145 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  224 (574)
                      .+.++++...|+-++|-++-+.     ..|   -.+.|+.|.+.|..-+|.+....=.+  ...|......+..++.+..
T Consensus       593 ~sy~q~l~dt~qd~ka~elk~s-----dgd---~laaiqlyika~~p~~a~~~a~n~~~--l~~de~il~~ia~alik~e  662 (1636)
T KOG3616|consen  593 RSYLQALMDTGQDEKAAELKES-----DGD---GLAAIQLYIKAGKPAKAARAALNDEE--LLADEEILEHIAAALIKGE  662 (1636)
T ss_pred             HHHHHHHHhcCchhhhhhhccc-----cCc---cHHHHHHHHHcCCchHHHHhhcCHHH--hhccHHHHHHHHHHHHhhH
Confidence            3445555566665555433211     111   12345667777777666554321111  1235555555666666666


Q ss_pred             CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhH-HHHHHHHHhcCCHHHHHHHH
Q 043999          225 DIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTY-NCLIHEYCNEGKVSEGFKLF  303 (574)
Q Consensus       225 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~-~~li~~~~~~g~~~~A~~~~  303 (574)
                      -+++|-.+|+++..         +.-.+.+|-+-.-+.+|+++-+-.    ++..+++. ......+...|+++.|...|
T Consensus       663 lydkagdlfeki~d---------~dkale~fkkgdaf~kaielarfa----fp~evv~lee~wg~hl~~~~q~daainhf  729 (1636)
T KOG3616|consen  663 LYDKAGDLFEKIHD---------FDKALECFKKGDAFGKAIELARFA----FPEEVVKLEEAWGDHLEQIGQLDAAINHF  729 (1636)
T ss_pred             HHHhhhhHHHHhhC---------HHHHHHHHHcccHHHHHHHHHHhh----CcHHHhhHHHHHhHHHHHHHhHHHHHHHH
Confidence            66666666666542         111223333333344444433221    11112211 12223344455555555544


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 043999          304 DEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSP  383 (574)
Q Consensus       304 ~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~  383 (574)
                      -+...         .--.+.+......+.+|+.+++.+....  .-..-|..+.+.|+..|+++.|.++|.+.-      
T Consensus       730 iea~~---------~~kaieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~------  792 (1636)
T KOG3616|consen  730 IEANC---------LIKAIEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD------  792 (1636)
T ss_pred             HHhhh---------HHHHHHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc------
Confidence            33211         1122334445566666666666665542  122334555566666666666666664331      


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043999          384 SVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIH  463 (574)
Q Consensus       384 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  463 (574)
                         .++--|..|.+.|+|++|.++-.+..  |.......|-+-..-+-+.|++.+|.++|-.+.    .|+.     .|.
T Consensus       793 ---~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~~-----aiq  858 (1636)
T KOG3616|consen  793 ---LFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPDK-----AIQ  858 (1636)
T ss_pred             ---hhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----CchH-----HHH
Confidence               23344566666666666666654432  222233444444444555666666665553222    2332     234


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 043999          464 GLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLL  513 (574)
Q Consensus       464 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  513 (574)
                      +|-+.|..+..+++..+--.   ..-..|...+..-|-..|+.+.|..-|
T Consensus       859 mydk~~~~ddmirlv~k~h~---d~l~dt~~~f~~e~e~~g~lkaae~~f  905 (1636)
T KOG3616|consen  859 MYDKHGLDDDMIRLVEKHHG---DHLHDTHKHFAKELEAEGDLKAAEEHF  905 (1636)
T ss_pred             HHHhhCcchHHHHHHHHhCh---hhhhHHHHHHHHHHHhccChhHHHHHH
Confidence            55555555555555443211   011223334444444555555555444

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.05  E-value=2.6e-06  Score=94.73  Aligned_cols=337  Identities=12%  Similarity=0.021  Sum_probs=207.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC------CCCH--hhHHHHHHHH
Q 043999          219 GCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGV------SPSL--YTYNCLIHEY  290 (574)
Q Consensus       219 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~------~p~~--~~~~~li~~~  290 (574)
                      .....|+++.+..+++.+.......+..........+...|+++++..++......--      .+..  .....+...+
T Consensus       383 ~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~  462 (903)
T PRK04841        383 SLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVA  462 (903)
T ss_pred             HHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHH
Confidence            3455677777777776653211111222334445556678899999988887654210      1111  1122233455


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC---CC--ChhhHHHHHHHHH
Q 043999          291 CNEGKVSEGFKLFDEMRHREVACNV----VTYNTLICGLCKEMRVQEAERLLDQMKMAGI---SP--NVITYNKLIDGFC  361 (574)
Q Consensus       291 ~~~g~~~~A~~~~~~m~~~~~~~~~----~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~---~~--~~~~~~~li~~~~  361 (574)
                      ...|++++|...+++....-...+.    ...+.+...+...|++++|...+++.....-   .+  ...++..+...+.
T Consensus       463 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~  542 (903)
T PRK04841        463 INDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILF  542 (903)
T ss_pred             HhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHH
Confidence            6789999999999887663222122    2345566677789999999999888764311   11  1234455667788


Q ss_pred             hcCCHHHHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC--CCCC--CHhHHHHHHHHH
Q 043999          362 DAGETDKAFRLFNQLKSN----GQS--P-SVVTYNVLIRAFSKAGNSKMASDLVREMEER--GITP--SEVTYTILIDSF  430 (574)
Q Consensus       362 ~~g~~~~A~~~~~~~~~~----g~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~p--~~~~~~~li~~~  430 (574)
                      ..|+++.|...+++....    +..  + ....+..+...+...|++++|...+.+....  ...+  ....+..+...+
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            899999999988876542    211  1 1233445556677789999999988887542  1112  223344455677


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCC-CCHHHH-----HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHH
Q 043999          431 VRSDDMEKAFEMYSLMQKSGFS-PDVYTY-----GVLIHGLCMKGNMKEASKLFNSMWETKLEPN---DVVYNMMIFGYC  501 (574)
Q Consensus       431 ~~~g~~~~A~~~~~~~~~~~~~-~~~~~~-----~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~---~~~~~~li~~~~  501 (574)
                      ...|+.++|...+......... .....+     ...+..+...|+.+.|.+.+...........   ...+..+..++.
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~  702 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQI  702 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHH
Confidence            8889999999988887542101 111111     1122444567899999998877654211111   112345667788


Q ss_pred             hcCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043999          502 KEGNSYRALRLLGEMNEK----GLVPN-IASYSSTIGVLCQDGKWPEAEVLLNQMLKLG  555 (574)
Q Consensus       502 ~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  555 (574)
                      ..|++++|...+++....    |..++ ..+...+..++.+.|+.++|...+.++++..
T Consensus       703 ~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        703 LLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            899999999999887653    32222 2455666778889999999999999998653

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.04  E-value=3.8e-07  Score=80.44  Aligned_cols=328  Identities=14%  Similarity=0.132  Sum_probs=191.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHH-HHHHHH
Q 043999          178 FGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTV-LICGLF  256 (574)
Q Consensus       178 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-li~~~~  256 (574)
                      +++.+..+.+..+++.|++++..-.++.. .+....+.|..+|....++..|-.-++++....  |...-|.. -...+.
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p-~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSP-RSRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYRLYQAQSLY   89 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHHHHHHHH
Confidence            45556666778888888888887776542 266677888888888888888888888886643  33333322 235566


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHhhHHHHH--HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 043999          257 KNGLQKDGFEFYEKMQLNGVSPSLYTYNCLI--HEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEA  334 (574)
Q Consensus       257 ~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li--~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A  334 (574)
                      +.+.+.+|+++...|...   |+...-..-+  ......+++..+..+.++....|   +..+.+.......+.|++++|
T Consensus        90 ~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaA  163 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAA  163 (459)
T ss_pred             HhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHH
Confidence            778888888888777642   2222111111  12234677777777777765332   555555566666788888888


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-------------CHH--------HHHHHHH
Q 043999          335 ERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSP-------------SVV--------TYNVLIR  393 (574)
Q Consensus       335 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~-------------~~~--------~~~~li~  393 (574)
                      .+-|+...+-+--.....||.-+. ..+.|+.+.|++...++++.|++.             |+.        .-+.++.
T Consensus       164 vqkFqaAlqvsGyqpllAYniALa-Hy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~e  242 (459)
T KOG4340|consen  164 VQKFQAALQVSGYQPLLAYNLALA-HYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVE  242 (459)
T ss_pred             HHHHHHHHhhcCCCchhHHHHHHH-HHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHH
Confidence            888888777554445556665543 446678888888888888776431             211        1233333


Q ss_pred             H-------HHhcCChHHHHHHHHHHHHC-CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 043999          394 A-------FSKAGNSKMASDLVREMEER-GITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGL  465 (574)
Q Consensus       394 ~-------~~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  465 (574)
                      +       +.+.++.+.|.+.+..|.-+ ....|++|...+.-.- -.+++.+..+-+..+...+ +-...|+..++-.|
T Consensus       243 AfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~n-PfP~ETFANlLlly  320 (459)
T KOG4340|consen  243 AFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQN-PFPPETFANLLLLY  320 (459)
T ss_pred             HhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            3       23556777777766666522 2234566655443221 2234444444455555443 23345666777777


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHH-hcCCHHHHHHHHHHHHH
Q 043999          466 CMKGNMKEASKLFNSMWETKLE-PNDVVYNMMIFGYC-KEGNSYRALRLLGEMNE  518 (574)
Q Consensus       466 ~~~g~~~~A~~~~~~~~~~~~~-p~~~~~~~li~~~~-~~g~~~~A~~~~~~m~~  518 (574)
                      |+..-++-|-.++.+-.....+ .+...|+ |+.++. ..-..++|.+-++.+..
T Consensus       321 CKNeyf~lAADvLAEn~~lTyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~  374 (459)
T KOG4340|consen  321 CKNEYFDLAADVLAENAHLTYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAG  374 (459)
T ss_pred             hhhHHHhHHHHHHhhCcchhHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHH
Confidence            7777777777776653221111 1222233 223332 23455666655555443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.02  E-value=4.6e-06  Score=92.73  Aligned_cols=369  Identities=11%  Similarity=-0.007  Sum_probs=223.3

Q ss_pred             HHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHH
Q 043999          150 FVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERA  229 (574)
Q Consensus       150 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  229 (574)
                      .+...|++.+|.......... ..-..............|+++.+...++.+.......+..........+...|++++|
T Consensus       350 ~~~~~g~~~~Al~~a~~a~d~-~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a  428 (903)
T PRK04841        350 AWLAQGFPSEAIHHALAAGDA-QLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEV  428 (903)
T ss_pred             HHHHCCCHHHHHHHHHHCCCH-HHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHH
Confidence            344556666665555444321 0000111222333455677777777776653211111222334455566778999999


Q ss_pred             HHHHHHHHhCCC------CCC--hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----hhHHHHHHHHHhcCCHH
Q 043999          230 KMLFRKIGELGL------VAT--QHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSL----YTYNCLIHEYCNEGKVS  297 (574)
Q Consensus       230 ~~~~~~~~~~~~------~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~----~~~~~li~~~~~~g~~~  297 (574)
                      ...+......-.      .+.  ......+...+...|++++|...+++....-...+.    ...+.+...+...|+++
T Consensus       429 ~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~  508 (903)
T PRK04841        429 NTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELA  508 (903)
T ss_pred             HHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHH
Confidence            999887654211      111  112223345566789999999999988763111121    23455666778899999


Q ss_pred             HHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC--C-ChhhHHHHHHHHHhcCC
Q 043999          298 EGFKLFDEMRHR----EV-ACNVVTYNTLICGLCKEMRVQEAERLLDQMKMA----GIS--P-NVITYNKLIDGFCDAGE  365 (574)
Q Consensus       298 ~A~~~~~~m~~~----~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~----g~~--~-~~~~~~~li~~~~~~g~  365 (574)
                      +|...+++....    |. .+...++..+...+...|++++|...+++....    +..  + ....+..+...+...|+
T Consensus       509 ~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~  588 (903)
T PRK04841        509 RALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWAR  588 (903)
T ss_pred             HHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcC
Confidence            999998887642    11 111234555667788899999999998886542    211  1 22334555667778899


Q ss_pred             HHHHHHHHHHHHHCC--CCC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-CCHhHH-----HHHHHHHHhcCC
Q 043999          366 TDKAFRLFNQLKSNG--QSP--SVVTYNVLIRAFSKAGNSKMASDLVREMEERGIT-PSEVTY-----TILIDSFVRSDD  435 (574)
Q Consensus       366 ~~~A~~~~~~~~~~g--~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~~~~~-----~~li~~~~~~g~  435 (574)
                      +++|...+++.....  ..+  ....+..+...+...|+.++|...+.+....... .....+     ...+..+...|+
T Consensus       589 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~  668 (903)
T PRK04841        589 LDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGD  668 (903)
T ss_pred             HHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCC
Confidence            999999988875431  112  2334444566778899999999998887542111 011111     112234456789


Q ss_pred             HHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHH
Q 043999          436 MEKAFEMYSLMQKSGFSPDV---YTYGVLIHGLCMKGNMKEASKLFNSMWET----KLEP-NDVVYNMMIFGYCKEGNSY  507 (574)
Q Consensus       436 ~~~A~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~p-~~~~~~~li~~~~~~g~~~  507 (574)
                      .+.|...+............   ..+..+...+...|+.++|...+++....    +..+ ...+...+..++.+.|+.+
T Consensus       669 ~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~  748 (903)
T PRK04841        669 KEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKS  748 (903)
T ss_pred             HHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHH
Confidence            99999887765432211111   11345667788899999999999988753    2222 2345667778888999999


Q ss_pred             HHHHHHHHHHHC
Q 043999          508 RALRLLGEMNEK  519 (574)
Q Consensus       508 ~A~~~~~~m~~~  519 (574)
                      +|...+.+..+.
T Consensus       749 ~A~~~L~~Al~l  760 (903)
T PRK04841        749 EAQRVLLEALKL  760 (903)
T ss_pred             HHHHHHHHHHHH
Confidence            999999999875

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.00  E-value=8.1e-06  Score=81.85  Aligned_cols=211  Identities=15%  Similarity=0.188  Sum_probs=121.2

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHh-CC--------CCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCC
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLD-SG--------VRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELD  174 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~g--------~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~  174 (574)
                      .+..+|..|.+++.+.++++-|.-.+-.|.. +|        -.|+ .+-..+...-...|..++|..+|++.+.     
T Consensus       755 kS~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR-----  828 (1416)
T KOG3617|consen  755 KSDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKR-----  828 (1416)
T ss_pred             hhhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH-----
Confidence            4557899999999998888766555444421 11        0121 1212222333467888888888888764     


Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHH----------HhCCC---
Q 043999          175 VYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKI----------GELGL---  241 (574)
Q Consensus       175 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----------~~~~~---  241 (574)
                         |..|-+.|-..|.+++|.++-+.-.+-.   =..||..-..-+-..+|.+.|++.|++.          +...+   
T Consensus       829 ---~DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~  902 (1416)
T KOG3617|consen  829 ---YDLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQI  902 (1416)
T ss_pred             ---HHHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHH
Confidence               4556667777888888888876533221   1235555666666678888888777653          11111   


Q ss_pred             ------CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH
Q 043999          242 ------VATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNV  315 (574)
Q Consensus       242 ------~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~  315 (574)
                            ..|...|.-....+-..|+.+.|+.+|.....         |.++++..|-.|+.++|-++-++-.      |.
T Consensus       903 e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~esg------d~  967 (1416)
T KOG3617|consen  903 EQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEESG------DK  967 (1416)
T ss_pred             HHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHhcc------cH
Confidence                  11233333344444556777777777665542         3445555555566666655544321      44


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          316 VTYNTLICGLCKEMRVQEAERLLDQM  341 (574)
Q Consensus       316 ~~~~~li~~~~~~~~~~~A~~~~~~m  341 (574)
                      .....+...|-..|++.+|..+|.+.
T Consensus       968 AAcYhlaR~YEn~g~v~~Av~FfTrA  993 (1416)
T KOG3617|consen  968 AACYHLARMYENDGDVVKAVKFFTRA  993 (1416)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            44455555666666666666655443

>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=7.9e-08  Score=89.31  Aligned_cols=247  Identities=15%  Similarity=0.158  Sum_probs=128.3

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 043999          256 FKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAE  335 (574)
Q Consensus       256 ~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~  335 (574)
                      .-.|.+..++.-.+ ........+.....-+.+++...|+.+.++   .++.+.. .|.......+...+....+-+.+.
T Consensus        12 fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l   86 (290)
T PF04733_consen   12 FYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKESAL   86 (290)
T ss_dssp             HCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHH
T ss_pred             HHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHHH
Confidence            34455555554433 111111112333444556666666655433   3332222 445555444444443334444444


Q ss_pred             HHHHHHHHCCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 043999          336 RLLDQMKMAGISP-NVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEER  414 (574)
Q Consensus       336 ~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  414 (574)
                      .-+++.......+ +..........+...|++++|+++++..      .+.......+..|.+.++++.|.+.++.|.+.
T Consensus        87 ~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~  160 (290)
T PF04733_consen   87 EELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQI  160 (290)
T ss_dssp             HHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC
T ss_pred             HHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            4444433332221 2222222233455567777777766432      24555566667777777777777777777654


Q ss_pred             CCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH
Q 043999          415 GITPSEVTYTILIDSFVR----SDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPND  490 (574)
Q Consensus       415 ~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~  490 (574)
                        . +..+...+..++..    .+.+.+|..+|+++.+. +++++.+.+.+..++...|++++|.+++.+..+.+.. ++
T Consensus       161 --~-eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~-~~  235 (290)
T PF04733_consen  161 --D-EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPN-DP  235 (290)
T ss_dssp             --S-CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC-HH
T ss_pred             --C-CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC-CH
Confidence              2 22334444444322    23577777777776554 4566777777777777777777777777777665433 55


Q ss_pred             HHHHHHHHHHHhcCCH-HHHHHHHHHHHH
Q 043999          491 VVYNMMIFGYCKEGNS-YRALRLLGEMNE  518 (574)
Q Consensus       491 ~~~~~li~~~~~~g~~-~~A~~~~~~m~~  518 (574)
                      .+...++.+....|+. +.+.+++.++..
T Consensus       236 d~LaNliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  236 DTLANLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             HHHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            5666666666666666 556667777665

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

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.94  E-value=2.1e-05  Score=71.17  Aligned_cols=369  Identities=10%  Similarity=0.067  Sum_probs=213.2

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHH-HHHHH
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSN-TFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVY-SFGIL  181 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~l  181 (574)
                      .++.-..-|...+...|++.+|+.-|...++.+  |+.+ ++-.-...|...|+..-|+.-+.++.+. +||.. +.---
T Consensus        36 advekhlElGk~lla~~Q~sDALt~yHaAve~d--p~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel-KpDF~~ARiQR  112 (504)
T KOG0624|consen   36 ADVEKHLELGKELLARGQLSDALTHYHAAVEGD--PNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL-KPDFMAARIQR  112 (504)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCC--chhHHHHHHHHHHHhhhcCCccchhhHHHHHhc-CccHHHHHHHh
Confidence            344556678888899999999999999998753  4332 3333456788889999998888887765 55543 33444


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCHH----hH------------HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCh
Q 043999          182 IKGCCEAGDLNKAFEVLNQLEEMGFSPNVV----IY------------TSLIDGCCKNGDIERAKMLFRKIGELGLVATQ  245 (574)
Q Consensus       182 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----~~------------~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~  245 (574)
                      ...+.+.|++++|..=|+.+++..  |+..    .+            ...+..+...|+...|+.+...+++..+ -|.
T Consensus       113 g~vllK~Gele~A~~DF~~vl~~~--~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~-Wda  189 (504)
T KOG0624|consen  113 GVVLLKQGELEQAEADFDQVLQHE--PSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQP-WDA  189 (504)
T ss_pred             chhhhhcccHHHHHHHHHHHHhcC--CCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCc-chh
Confidence            567889999999999999998764  3211    11            1112223334555555555555544322 144


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 043999          246 HTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGL  325 (574)
Q Consensus       246 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~  325 (574)
                      ..|..-..+|...|++..|+.-++...+.. ..+..++.-+-..+...|+.+.++...++.++.++  |-...      |
T Consensus       190 ~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKldp--dHK~C------f  260 (504)
T KOG0624|consen  190 SLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKLDP--DHKLC------F  260 (504)
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccCc--chhhH------H
Confidence            444444455555555555544444433321 12333334444444445555555555444444321  11000      0


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH---HHHHHHHHHhcCChH
Q 043999          326 CKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVT---YNVLIRAFSKAGNSK  402 (574)
Q Consensus       326 ~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~---~~~li~~~~~~g~~~  402 (574)
                      ..-.++.+..+.++.|                ......+++.++++..+...+.........   +..+-.++...|++.
T Consensus       261 ~~YKklkKv~K~les~----------------e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~  324 (504)
T KOG0624|consen  261 PFYKKLKKVVKSLESA----------------EQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFG  324 (504)
T ss_pred             HHHHHHHHHHHHHHHH----------------HHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHH
Confidence            0000111111111111                223456788888888888877643322333   334445667789999


Q ss_pred             HHHHHHHHHHHCCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          403 MASDLVREMEERGITP-SEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSM  481 (574)
Q Consensus       403 ~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  481 (574)
                      +|++...+..+.  .| |..++.--..+|.-...++.|+.-|+...+.+ +.+...         +.| .+.|.++....
T Consensus       325 eAiqqC~evL~~--d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n-~sn~~~---------reG-le~Akrlkkqs  391 (504)
T KOG0624|consen  325 EAIQQCKEVLDI--DPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELN-ESNTRA---------REG-LERAKRLKKQS  391 (504)
T ss_pred             HHHHHHHHHHhc--CchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC-cccHHH---------HHH-HHHHHHHHHHh
Confidence            999999999876  34 47888888899999999999999999998864 222221         111 35555554443


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 043999          482 WETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNI  525 (574)
Q Consensus       482 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  525 (574)
                      -++    |  -|.+|.  --+.-.-.+..+.+++|..+ ..||.
T Consensus       392 ~kR----D--YYKILG--VkRnAsKqEI~KAYRKlAqk-WHPDN  426 (504)
T KOG0624|consen  392 GKR----D--YYKILG--VKRNASKQEITKAYRKLAQK-WHPDN  426 (504)
T ss_pred             ccc----h--HHHHhh--hcccccHHHHHHHHHHHHHh-cCCcc
Confidence            221    2  233322  23445566777788888776 66664

>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=98.94  E-value=7.3e-08  Score=89.54  Aligned_cols=250  Identities=17%  Similarity=0.104  Sum_probs=127.2

Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHH
Q 043999          115 AHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKA  194 (574)
Q Consensus       115 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  194 (574)
                      -+.-.|++..++.-.+ ........+......+.+++...|+++.++   .++....+|.......+...+...++-+.+
T Consensus        10 n~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~~~~l~av~~la~y~~~~~~~e~~   85 (290)
T PF04733_consen   10 NQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSSSPELQAVRLLAEYLSSPSDKESA   85 (290)
T ss_dssp             HHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTSSCCCHHHHHHHHHHCTSTTHHCH
T ss_pred             HHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCCChhHHHHHHHHHHHhCccchHHH
Confidence            3344567776665554 222111112333344556666667655433   333333355555555555444443444455


Q ss_pred             HHHHHHHHHCCCC-CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          195 FEVLNQLEEMGFS-PNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQL  273 (574)
Q Consensus       195 ~~~~~~m~~~g~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  273 (574)
                      +.-+++....+.. .+..........+...|++++|++++.+.      .+.......+..|.+.++++.|.+.++.|.+
T Consensus        86 l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~  159 (290)
T PF04733_consen   86 LEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQ  159 (290)
T ss_dssp             HHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5444443322222 12222233334455567777777666432      2455566666777777777777777777765


Q ss_pred             CCCCCCHhhHHHHHHHHH----hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 043999          274 NGVSPSLYTYNCLIHEYC----NEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPN  349 (574)
Q Consensus       274 ~g~~p~~~~~~~li~~~~----~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~  349 (574)
                      .  ..| .+...+..++.    ..+.+.+|..+|+++.++ ..+++.+.|.+..+....|++++|..++.+....+ +-+
T Consensus       160 ~--~eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~  234 (290)
T PF04733_consen  160 I--DED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PND  234 (290)
T ss_dssp             C--SCC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCH
T ss_pred             c--CCc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCC
Confidence            4  223 22333333322    233567777777776544 44466666777777777777777777777765543 334


Q ss_pred             hhhHHHHHHHHHhcCCH-HHHHHHHHHHHHC
Q 043999          350 VITYNKLIDGFCDAGET-DKAFRLFNQLKSN  379 (574)
Q Consensus       350 ~~~~~~li~~~~~~g~~-~~A~~~~~~~~~~  379 (574)
                      ..+...++.+....|+. +.+.+++.++...
T Consensus       235 ~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  235 PDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             HHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            55555566555555655 5555666666543

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=98.92  E-value=4.4e-06  Score=85.52  Aligned_cols=417  Identities=12%  Similarity=-0.021  Sum_probs=233.4

Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 043999          122 SDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQL  201 (574)
Q Consensus       122 ~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  201 (574)
                      ...|+..|-+.++..+. =...|..|...|+...+...|.+.|+..-+..+.+..++....+.|++..+++.|..+.-..
T Consensus       474 ~~~al~ali~alrld~~-~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~  552 (1238)
T KOG1127|consen  474 SALALHALIRALRLDVS-LAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRA  552 (1238)
T ss_pred             HHHHHHHHHHHHhcccc-hhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHH
Confidence            66777777776665321 24567777777777777777888887777666677777777888888888888877774333


Q ss_pred             HHCCC-CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 043999          202 EEMGF-SPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSL  280 (574)
Q Consensus       202 ~~~g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~  280 (574)
                      .+... ..-...|..+.-.|.+.++..+|..-|+...+.++. |...|..+..+|...|++..|++.|.+....  +|+.
T Consensus       553 ~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s  629 (1238)
T KOG1127|consen  553 AQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLS  629 (1238)
T ss_pred             hhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHh
Confidence            22110 001112333444566677777777777777766554 6777777777777777777777777776653  3332


Q ss_pred             h-hHHHHHHHHHhcCCHHHHHHHHHHHHhCC------CCCCHHHHHHHHHHHHhcCCH-------HHHHHHHHHHHHCCC
Q 043999          281 Y-TYNCLIHEYCNEGKVSEGFKLFDEMRHRE------VACNVVTYNTLICGLCKEMRV-------QEAERLLDQMKMAGI  346 (574)
Q Consensus       281 ~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~------~~~~~~~~~~li~~~~~~~~~-------~~A~~~~~~m~~~g~  346 (574)
                      . .-.-..-..|..|++.+|...+..+...-      ...-..++-.+...+.-.|-.       +++++.|.-......
T Consensus       630 ~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~  709 (1238)
T KOG1127|consen  630 KYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSL  709 (1238)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhh
Confidence            1 11222334566777777777766654321      111122222222222222222       222222222222211


Q ss_pred             CCChhhHHHHHH-------------------H----HHhcCCH---H---HHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 043999          347 SPNVITYNKLID-------------------G----FCDAGET---D---KAFRLFNQLKSNGQSPSVVTYNVLIRAFSK  397 (574)
Q Consensus       347 ~~~~~~~~~li~-------------------~----~~~~g~~---~---~A~~~~~~~~~~g~~~~~~~~~~li~~~~~  397 (574)
                      ..+...|-.+.+                   .    .-+.+..   |   -+.+.+-.-.+  ...+..+|..++..|.+
T Consensus       710 ~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hls--l~~~~~~WyNLGinylr  787 (1238)
T KOG1127|consen  710 QSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLS--LAIHMYPWYNLGINYLR  787 (1238)
T ss_pred             hhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHH--HhhccchHHHHhHHHHH
Confidence            112222211111                   1    1111111   1   11111111111  11234455555554433


Q ss_pred             ----c----CChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 043999          398 ----A----GNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKG  469 (574)
Q Consensus       398 ----~----g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  469 (574)
                          .    .+...|...+.+.++.. ..+..+|+.|.-. ...|.+.-|...|-+-.... +....+|..+.-.+.+..
T Consensus       788 ~f~~l~et~~~~~~Ai~c~KkaV~L~-ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~  864 (1238)
T KOG1127|consen  788 YFLLLGETMKDACTAIRCCKKAVSLC-ANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQ  864 (1238)
T ss_pred             HHHHcCCcchhHHHHHHHHHHHHHHh-hccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecc
Confidence                1    12246777777777652 3366677766544 66677777777776555443 556678888888888999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH----HCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 043999          470 NMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMN----EKGLVPNIASYSSTIGVLCQDGKWPEAE  545 (574)
Q Consensus       470 ~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~----~~g~~p~~~~~~~l~~~~~~~g~~~~A~  545 (574)
                      +++.|...|.......+. |...|-.........|+.-++..+|..--    ..|-.|+...|..........|+.++-+
T Consensus       865 d~E~A~~af~~~qSLdP~-nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I  943 (1238)
T KOG1127|consen  865 DFEHAEPAFSSVQSLDPL-NLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESI  943 (1238)
T ss_pred             cHHHhhHHHHhhhhcCch-hhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHH
Confidence            999999999988775332 56666665555667888888888887622    2244455555555555555666665544


Q ss_pred             HHH
Q 043999          546 VLL  548 (574)
Q Consensus       546 ~~~  548 (574)
                      ...
T Consensus       944 ~t~  946 (1238)
T KOG1127|consen  944 NTA  946 (1238)
T ss_pred             HHh
Confidence            433

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.91  E-value=1.3e-05  Score=80.37  Aligned_cols=386  Identities=15%  Similarity=0.147  Sum_probs=196.6

Q ss_pred             chhHHHHHHH--HHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHccc---------C-CC
Q 043999          105 KSRLYESIID--AHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRC---------K-VE  172 (574)
Q Consensus       105 ~~~~~~~li~--~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~---------~-~~  172 (574)
                      |..+-.++++  .|...|+.+.|.+-.+.+.      +...|..+.+++.+..+.+-|.-.+-.|..         . ..
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~  798 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQN  798 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhC
Confidence            4455555553  3556677777776655443      345677777777777777666554443321         0 11


Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHH
Q 043999          173 LDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLI  252 (574)
Q Consensus       173 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  252 (574)
                      ++ .+-......-.+.|.+++|..++++..+         |..|=..|...|.+++|.++-+.-.+..   -..||....
T Consensus       799 ~~-e~eakvAvLAieLgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA  865 (1416)
T KOG3617|consen  799 GE-EDEAKVAVLAIELGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYA  865 (1416)
T ss_pred             Cc-chhhHHHHHHHHHhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHH
Confidence            11 2222222333466777777777777664         3334455666778888877665432222   233555556


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHC----------C---------CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 043999          253 CGLFKNGLQKDGFEFYEKMQLN----------G---------VSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVAC  313 (574)
Q Consensus       253 ~~~~~~g~~~~a~~~~~~~~~~----------g---------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~  313 (574)
                      ..+-..++.+.|++.|++....          .         -..|...|.-....+-..|+.+.|+.+|.....     
T Consensus       866 ~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D-----  940 (1416)
T KOG3617|consen  866 KYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD-----  940 (1416)
T ss_pred             HHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh-----
Confidence            6666667777777776653211          0         011222233333333345555555555554432     


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043999          314 NVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIR  393 (574)
Q Consensus       314 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~  393 (574)
                          |-.++...|-.|+.++|-++-++   .|   |....-.|...|-..|++.+|...|.+...         +..-|+
T Consensus       941 ----~fs~VrI~C~qGk~~kAa~iA~e---sg---d~AAcYhlaR~YEn~g~v~~Av~FfTrAqa---------fsnAIR 1001 (1416)
T KOG3617|consen  941 ----YFSMVRIKCIQGKTDKAARIAEE---SG---DKAACYHLARMYENDGDVVKAVKFFTRAQA---------FSNAIR 1001 (1416)
T ss_pred             ----hhhheeeEeeccCchHHHHHHHh---cc---cHHHHHHHHHHhhhhHHHHHHHHHHHHHHH---------HHHHHH
Confidence                34455555566666666655443   22   555566677777777777777777766543         222222


Q ss_pred             HHHhcC---------------ChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHH--------HH--H
Q 043999          394 AFSKAG---------------NSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSL--------MQ--K  448 (574)
Q Consensus       394 ~~~~~g---------------~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~--------~~--~  448 (574)
                      .|-.++               +.-.|-.+|++   .|..     +...+..|-+.|.+.+|+++--+        ++  +
T Consensus      1002 lcKEnd~~d~L~nlal~s~~~d~v~aArYyEe---~g~~-----~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~D 1073 (1416)
T KOG3617|consen 1002 LCKENDMKDRLANLALMSGGSDLVSAARYYEE---LGGY-----AHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKD 1073 (1416)
T ss_pred             HHHhcCHHHHHHHHHhhcCchhHHHHHHHHHH---cchh-----hhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHh
Confidence            221111               11112222222   1110     11223335555555555543211        11  1


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-CCCCCCH--
Q 043999          449 SGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNE-KGLVPNI--  525 (574)
Q Consensus       449 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~p~~--  525 (574)
                      .....|+...+--.+.++...++++|..++....+         |.-.+. +|...+..--.++-+.|.- ++-.|+.  
T Consensus      1074 Ld~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~---------~~~Alq-lC~~~nv~vtee~aE~mTp~Kd~~~~e~~ 1143 (1416)
T KOG3617|consen 1074 LDAGSDPKLLRRCADFFENNQQYEKAVNLLCLARE---------FSGALQ-LCKNRNVRVTEEFAELMTPTKDDMPNEQE 1143 (1416)
T ss_pred             cCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHH---------HHHHHH-HHhcCCCchhHHHHHhcCcCcCCCccHHH
Confidence            12234555666666666777777777777665543         222222 2333333333333333321 1122332  


Q ss_pred             --HHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          526 --ASYSSTIGVLCQDGKWPEAEVLLNQM  551 (574)
Q Consensus       526 --~~~~~l~~~~~~~g~~~~A~~~~~~m  551 (574)
                        .....+...|.++|.+..|.+-|.++
T Consensus      1144 R~~vLeqvae~c~qQG~Yh~AtKKfTQA 1171 (1416)
T KOG3617|consen 1144 RKQVLEQVAELCLQQGAYHAATKKFTQA 1171 (1416)
T ss_pred             HHHHHHHHHHHHHhccchHHHHHHHhhh
Confidence              34566677888889888887766544

>PLN02789 farnesyltranstransferase

Probab=98.90  E-value=2.1e-06  Score=80.96  Aligned_cols=219  Identities=10%  Similarity=-0.008  Sum_probs=101.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHHHcccCCCCCHHHHHHHHHHHH
Q 043999          108 LYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSC-SFDKGWLFFSENRCKVELDVYSFGILIKGCC  186 (574)
Q Consensus       108 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~  186 (574)
                      +++.+-..+...++.++|+.+..++++.. +-+..+|+.-..++.+.| ++++++..++++....+.+..+|+.....+.
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~  117 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAE  117 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHH
Confidence            34444444555555666666666655542 112334444444444444 3455555555555444445555554444444


Q ss_pred             hcCCh--hHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcC---CH
Q 043999          187 EAGDL--NKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNG---LQ  261 (574)
Q Consensus       187 ~~g~~--~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~  261 (574)
                      +.|+.  +++++.++++.+... -|..+|+...-++.+.|+++++++.++++++.++. +..+|+.....+.+.+   ..
T Consensus       118 ~l~~~~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~  195 (320)
T PLN02789        118 KLGPDAANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGL  195 (320)
T ss_pred             HcCchhhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccc
Confidence            44432  344444444444322 24444544444444555555555555555444433 3334443333322221   00


Q ss_pred             HHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----CCHHHHHHH
Q 043999          262 KDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKE----MRVQEAERL  337 (574)
Q Consensus       262 ~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~----~~~~~A~~~  337 (574)
                      +                               ...++..+...+++...+. |...|+-+...+...    ++..+|...
T Consensus       196 ~-------------------------------~~~e~el~y~~~aI~~~P~-N~SaW~Yl~~ll~~~~~~l~~~~~~~~~  243 (320)
T PLN02789        196 E-------------------------------AMRDSELKYTIDAILANPR-NESPWRYLRGLFKDDKEALVSDPEVSSV  243 (320)
T ss_pred             c-------------------------------ccHHHHHHHHHHHHHhCCC-CcCHHHHHHHHHhcCCcccccchhHHHH
Confidence            0                               0123344444454444443 555565555555442    233446566


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHh
Q 043999          338 LDQMKMAGISPNVITYNKLIDGFCD  362 (574)
Q Consensus       338 ~~~m~~~g~~~~~~~~~~li~~~~~  362 (574)
                      +.+....+ +.+......|++.|+.
T Consensus       244 ~~~~~~~~-~~s~~al~~l~d~~~~  267 (320)
T PLN02789        244 CLEVLSKD-SNHVFALSDLLDLLCE  267 (320)
T ss_pred             HHHhhccc-CCcHHHHHHHHHHHHh
Confidence            65555432 3345556666666654

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.86  E-value=0.00011  Score=70.72  Aligned_cols=411  Identities=10%  Similarity=0.093  Sum_probs=250.7

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHH
Q 043999          138 RPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLI  217 (574)
Q Consensus       138 ~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li  217 (574)
                      +-|..+|+.||.-+... .++++++.++++...+|.....|..-|....+..+++...++|.+.+..-  .+...|..-+
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkv--LnlDLW~lYl   93 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKV--LNLDLWKLYL   93 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH--hhHhHHHHHH
Confidence            55899999999877655 99999999999999999999999999999999999999999999988653  3566777766


Q ss_pred             HHHHh-cCCHHHHH----HHHHHH-HhCCCCC-ChhhHHHHHHHH---------HhcCCHHHHHHHHHHHHHCCCCCCHh
Q 043999          218 DGCCK-NGDIERAK----MLFRKI-GELGLVA-TQHTYTVLICGL---------FKNGLQKDGFEFYEKMQLNGVSPSLY  281 (574)
Q Consensus       218 ~~~~~-~g~~~~A~----~~~~~~-~~~~~~~-~~~~~~~li~~~---------~~~g~~~~a~~~~~~~~~~g~~p~~~  281 (574)
                      +--.+ .|+...+.    +.|+-. .+.|..+ +...|+..+..+         ..+.+.+...+++.+++...+.-=..
T Consensus        94 ~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlEk  173 (656)
T KOG1914|consen   94 SYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLEK  173 (656)
T ss_pred             HHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHHH
Confidence            54433 34433322    223322 2334332 233455555432         33445566677777777542211111


Q ss_pred             hH------HHHHHHH-------HhcCCHHHHHHHHHHHHh--CCCCCCHH---------------HHHHHHHHHHhcC--
Q 043999          282 TY------NCLIHEY-------CNEGKVSEGFKLFDEMRH--REVACNVV---------------TYNTLICGLCKEM--  329 (574)
Q Consensus       282 ~~------~~li~~~-------~~~g~~~~A~~~~~~m~~--~~~~~~~~---------------~~~~li~~~~~~~--  329 (574)
                      .|      ..=|+..       -+...+..|.++++++..  +|......               .|..+|..=-.++  
T Consensus       174 LW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL~  253 (656)
T KOG1914|consen  174 LWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPLR  253 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCcc
Confidence            22      1111111       122345667777776642  23221111               1333333211111  


Q ss_pred             ----CH--HHHHHHHHH-HHHCCCCCChhhH-H----HHHHHHHhcCC-------HHHHHHHHHHHHHCCCCCCHHHHHH
Q 043999          330 ----RV--QEAERLLDQ-MKMAGISPNVITY-N----KLIDGFCDAGE-------TDKAFRLFNQLKSNGQSPSVVTYNV  390 (574)
Q Consensus       330 ----~~--~~A~~~~~~-m~~~g~~~~~~~~-~----~li~~~~~~g~-------~~~A~~~~~~~~~~g~~~~~~~~~~  390 (574)
                          ..  ....-.+++ +.-.+..|+..-. .    ..-+.+...|+       -+++..+++...+.-...+..+|..
T Consensus       254 t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~~  333 (656)
T KOG1914|consen  254 TLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYFA  333 (656)
T ss_pred             cccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                11  111122222 1222333332111 1    11123333444       3455566665554322223333333


Q ss_pred             HHHHHHhc---CChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHH
Q 043999          391 LIRAFSKA---GNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSP-DVYTYGVLIHGLC  466 (574)
Q Consensus       391 li~~~~~~---g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~li~~~~  466 (574)
                      +...--..   ...+.....++++...-..--..+|..+++.-.+..-+..|..+|.+..+.+..+ ++.++++++.-||
T Consensus       334 ~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c  413 (656)
T KOG1914|consen  334 LADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC  413 (656)
T ss_pred             HHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh
Confidence            33221111   1245555666666543222223568888888888888999999999999887777 7788889988776


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCHHHH
Q 043999          467 MKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNI--ASYSSTIGVLCQDGKWPEA  544 (574)
Q Consensus       467 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~l~~~~~~~g~~~~A  544 (574)
                      . ++.+-|.++|+--+.+ ..-++.--...+.-+...++-..|..+|++.+..++.||.  ..|..++.--..-|+...+
T Consensus       414 s-kD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si  491 (656)
T KOG1914|consen  414 S-KDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSI  491 (656)
T ss_pred             c-CChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHH
Confidence            4 6788999999976664 2224444567788888899999999999999998777664  7899999999999999999


Q ss_pred             HHHHHHHHH
Q 043999          545 EVLLNQMLK  553 (574)
Q Consensus       545 ~~~~~~m~~  553 (574)
                      .++-+++..
T Consensus       492 ~~lekR~~~  500 (656)
T KOG1914|consen  492 LKLEKRRFT  500 (656)
T ss_pred             HHHHHHHHH
Confidence            999888874

>PLN02789 farnesyltranstransferase

Probab=98.86  E-value=3.1e-06  Score=79.81  Aligned_cols=185  Identities=8%  Similarity=-0.040  Sum_probs=130.0

Q ss_pred             CcchhHHHHHHHHHHhcC-ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh--hHHHHHHHHcccCCCCCHHHHH
Q 043999          103 VTKSRLYESIIDAHLKSR-LSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSF--DKGWLFFSENRCKVELDVYSFG  179 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~--~~A~~~~~~~~~~~~~~~~~~~  179 (574)
                      |.+..+|+.--..+.+.| .+++++..++++++.+ +.+..+|+.....+.+.|+.  ++++.+++++....+.|..+|+
T Consensus        68 P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dpkNy~AW~  146 (320)
T PLN02789         68 PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDAKNYHAWS  146 (320)
T ss_pred             chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCcccHHHHH
Confidence            345567777777777777 6899999999999875 33566788777677777763  6789999899888888999999


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhc---CCH----HHHHHHHHHHHhCCCCCChhhHHHHH
Q 043999          180 ILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKN---GDI----ERAKMLFRKIGELGLVATQHTYTVLI  252 (574)
Q Consensus       180 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~---g~~----~~A~~~~~~~~~~~~~~~~~~~~~li  252 (574)
                      ...-.+...|+++++++.++++++.++. |..+|+.....+.+.   |+.    +++++...+.+...+. +...|+-+.
T Consensus       147 ~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~-N~SaW~Yl~  224 (320)
T PLN02789        147 HRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPR-NESPWRYLR  224 (320)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCC-CcCHHHHHH
Confidence            9999999999999999999999987654 677888877766554   222    3556666666665543 666777766


Q ss_pred             HHHHhc----CCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHH
Q 043999          253 CGLFKN----GLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYC  291 (574)
Q Consensus       253 ~~~~~~----g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~  291 (574)
                      ..+...    +...+|.+.+.+....+ ..+......|++.|+
T Consensus       225 ~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~  266 (320)
T PLN02789        225 GLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLC  266 (320)
T ss_pred             HHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHH
Confidence            666552    22344555555544432 123444455555554

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.84  E-value=8.7e-07  Score=85.48  Aligned_cols=218  Identities=16%  Similarity=0.116  Sum_probs=95.9

Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHH
Q 043999          186 CEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGF  265 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  265 (574)
                      .+.|++.+|.-.|+...+... -+...|..|...-..+++-..|+..+++..+.++. +......|.-.|...|.-.+|+
T Consensus       296 m~nG~L~~A~LafEAAVkqdP-~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~~Al  373 (579)
T KOG1125|consen  296 MKNGDLSEAALAFEAAVKQDP-QHAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQNQAL  373 (579)
T ss_pred             HhcCCchHHHHHHHHHHhhCh-HHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHHHHH
Confidence            344444444444444444321 13344444444444444444444444444444322 3444444444444444444444


Q ss_pred             HHHHHHHHCCCC--------CCHhhHHHHHHHHHhcCCHHHHHHHHHHH-HhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 043999          266 EFYEKMQLNGVS--------PSLYTYNCLIHEYCNEGKVSEGFKLFDEM-RHREVACNVVTYNTLICGLCKEMRVQEAER  336 (574)
Q Consensus       266 ~~~~~~~~~g~~--------p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  336 (574)
                      +++++-+...++        ++...-..  ..+.....+....++|-++ ...+..+|+..+..|.-.|.-.|.++.|..
T Consensus       374 ~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiD  451 (579)
T KOG1125|consen  374 KMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVD  451 (579)
T ss_pred             HHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHH
Confidence            444444322100        00000000  1111112222333333333 222323455555555555555555555555


Q ss_pred             HHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHH
Q 043999          337 LLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPS-VVTYNVLIRAFSKAGNSKMASDLVRE  410 (574)
Q Consensus       337 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~  410 (574)
                      .|+.++... |.|...||.|...++...+.++|+..|++..+.  .|. +.+...|.-.|...|.+++|.+.|-+
T Consensus       452 cf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~  523 (579)
T KOG1125|consen  452 CFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLE  523 (579)
T ss_pred             HHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHH
Confidence            555555442 334455555555555555555555555555553  333 22333344455555555555555544

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

Probab=98.82  E-value=3.5e-06  Score=89.16  Aligned_cols=239  Identities=11%  Similarity=0.072  Sum_probs=165.3

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCC-----CHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 043999          127 FYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVEL-----DVYSFGILIKGCCEAGDLNKAFEVLNQL  201 (574)
Q Consensus       127 ~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m  201 (574)
                      +-|++.+... +.+...|-..+......++.++|++++++++....+     -...|.++++....-|.-+...++|+++
T Consensus      1445 eDferlvrss-PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRA 1523 (1710)
T KOG1070|consen 1445 EDFERLVRSS-PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERA 1523 (1710)
T ss_pred             HHHHHHHhcC-CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHH
Confidence            3455555542 335667888888888888888888888887765322     2235777777777778778888888888


Q ss_pred             HHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--
Q 043999          202 EEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPS--  279 (574)
Q Consensus       202 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~--  279 (574)
                      .+.  .-....|..|...|.+.+++++|.++++.|.+.= ......|...+..+.++++.+.|..++.+.++.  -|.  
T Consensus      1524 cqy--cd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~e 1598 (1710)
T KOG1070|consen 1524 CQY--CDAYTVHLKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQE 1598 (1710)
T ss_pred             HHh--cchHHHHHHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhh
Confidence            764  2234567788888888888888888888887642 236677888888888888888888888887764  232  


Q ss_pred             -HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh--hhHHHH
Q 043999          280 -LYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNV--ITYNKL  356 (574)
Q Consensus       280 -~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~--~~~~~l  356 (574)
                       +....-.+..-.+.|+.+.+..+|+......++ -...|+..++.-.++|+.+.+..+|+++...++.|-.  +.|...
T Consensus      1599 Hv~~IskfAqLEFk~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkw 1677 (1710)
T KOG1070|consen 1599 HVEFISKFAQLEFKYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKW 1677 (1710)
T ss_pred             hHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHH
Confidence             223344455556788888888888887776554 5677888888888888888888888888877665543  345555


Q ss_pred             HHHHHhcCCHHHHHHH
Q 043999          357 IDGFCDAGETDKAFRL  372 (574)
Q Consensus       357 i~~~~~~g~~~~A~~~  372 (574)
                      +..=-..|+-..+..+
T Consensus      1678 LeyEk~~Gde~~vE~V 1693 (1710)
T KOG1070|consen 1678 LEYEKSHGDEKNVEYV 1693 (1710)
T ss_pred             HHHHHhcCchhhHHHH
Confidence            5554455554444333

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.81  E-value=2.5e-05  Score=77.49  Aligned_cols=190  Identities=17%  Similarity=0.229  Sum_probs=95.2

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHH
Q 043999          219 GCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSE  298 (574)
Q Consensus       219 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~  298 (574)
                      +.....++.+|+.+++.+..+..  -...|..+..-|...|+++.|.++|.+.-         .++..|.+|.+.|+|++
T Consensus       741 aai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~d  809 (1636)
T KOG3616|consen  741 AAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWED  809 (1636)
T ss_pred             HHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHH
Confidence            33344555556666655554321  22334555566666666666666665421         23445566666666666


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          299 GFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKS  378 (574)
Q Consensus       299 A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  378 (574)
                      |.++-.+..  |++.....|-+-..-+-+.|++.+|.++|-.+-    .|+.     -|.+|-+.|..+..+++.++-..
T Consensus       810 a~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~~-----aiqmydk~~~~ddmirlv~k~h~  878 (1636)
T KOG3616|consen  810 AFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPDK-----AIQMYDKHGLDDDMIRLVEKHHG  878 (1636)
T ss_pred             HHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----CchH-----HHHHHHhhCcchHHHHHHHHhCh
Confidence            666554432  333344455555555556666666666553321    2332     34556666666666555544321


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHH
Q 043999          379 NGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEM  442 (574)
Q Consensus       379 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  442 (574)
                      .   .-..|...+..-+-..|+...|..-|-+..         -|.+-++.|-..+-+++|.++
T Consensus       879 d---~l~dt~~~f~~e~e~~g~lkaae~~flea~---------d~kaavnmyk~s~lw~dayri  930 (1636)
T KOG3616|consen  879 D---HLHDTHKHFAKELEAEGDLKAAEEHFLEAG---------DFKAAVNMYKASELWEDAYRI  930 (1636)
T ss_pred             h---hhhHHHHHHHHHHHhccChhHHHHHHHhhh---------hHHHHHHHhhhhhhHHHHHHH
Confidence            1   112333444455555566666655443322         134444555555555555544

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.81  E-value=0.00028  Score=72.18  Aligned_cols=226  Identities=12%  Similarity=0.004  Sum_probs=145.4

Q ss_pred             HhccCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhhhccCChHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhCCC
Q 043999           19 RMAKLPPLKAFSLFNWASRQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPS   98 (574)
Q Consensus        19 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   98 (574)
                      .+-..+..+|+.....+.++  .|+ ..|..++.+|.- .+.|+.++|..+++..-                        
T Consensus        19 ~ld~~qfkkal~~~~kllkk--~Pn-~~~a~vLkaLsl-~r~gk~~ea~~~Le~~~------------------------   70 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKK--HPN-ALYAKVLKALSL-FRLGKGDEALKLLEALY------------------------   70 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHH--CCC-cHHHHHHHHHHH-HHhcCchhHHHHHhhhc------------------------
Confidence            33345667788888877664  233 335566665541 22778888876554331                        


Q ss_pred             CCCCCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHH
Q 043999           99 SSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSF  178 (574)
Q Consensus        99 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  178 (574)
                       ..+..|..+...+-.+|...|+.++|..+|++..+.  .|+..-...+..+|++.+++.+-.+.--++-+.+|.+.+.|
T Consensus        71 -~~~~~D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyf  147 (932)
T KOG2053|consen   71 -GLKGTDDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYF  147 (932)
T ss_pred             -cCCCCchHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchH
Confidence             112347788999999999999999999999999875  46777777778888888887754444444444455566666


Q ss_pred             HHHHHHHHhcCC----------hhHHHHHHHHHHHCC-CCCCHHhHHHHHHHHHhcCCHHHHHHHHH-HHHhCCCCCChh
Q 043999          179 GILIKGCCEAGD----------LNKAFEVLNQLEEMG-FSPNVVIYTSLIDGCCKNGDIERAKMLFR-KIGELGLVATQH  246 (574)
Q Consensus       179 ~~li~~~~~~g~----------~~~A~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~~~-~~~~~~~~~~~~  246 (574)
                      =++++...+.-.          ..-|.+.++.+.+.+ .--+..-...-...+-..|++++|++++. ...+.-...+..
T Consensus       148 WsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~  227 (932)
T KOG2053|consen  148 WSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLY  227 (932)
T ss_pred             HHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchH
Confidence            666666554321          234556666666543 11122223333455567888999999884 344433333444


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          247 TYTVLICGLFKNGLQKDGFEFYEKMQLNG  275 (574)
Q Consensus       247 ~~~~li~~~~~~g~~~~a~~~~~~~~~~g  275 (574)
                      .-+.-+..+...+++.+..++-.++...|
T Consensus       228 l~~~~~dllk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  228 LENKKLDLLKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHHHhC
Confidence            44566777888889999988888888875

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.79  E-value=9.3e-07  Score=85.29  Aligned_cols=253  Identities=14%  Similarity=0.059  Sum_probs=177.2

Q ss_pred             HHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHH
Q 043999          149 IFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIER  228 (574)
Q Consensus       149 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  228 (574)
                      .-+.+.|++.+|.-.|+......|.+..+|..|......+++-..|+..+++..+... -|......|.-.|...|.-.+
T Consensus       293 ~~lm~nG~L~~A~LafEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP-~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  293 CNLMKNGDLSEAALAFEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCLELDP-TNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCC-ccHHHHHHHHHHHhhhhhHHH
Confidence            3455778888888888887777788888888888888888888888888888887532 256677777778888888888


Q ss_pred             HHHHHHHHHhCCCC--------CChhhHHHHHHHHHhcCCHHHHHHHHHHHH-HCCCCCCHhhHHHHHHHHHhcCCHHHH
Q 043999          229 AKMLFRKIGELGLV--------ATQHTYTVLICGLFKNGLQKDGFEFYEKMQ-LNGVSPSLYTYNCLIHEYCNEGKVSEG  299 (574)
Q Consensus       229 A~~~~~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~a~~~~~~~~-~~g~~p~~~~~~~li~~~~~~g~~~~A  299 (574)
                      |.+.+++.+...++        ++...-..  ..+.....+....++|-++. ..+..+|......|.-.|--.|++++|
T Consensus       372 Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            88888876543311        00000000  12222333445555555554 444446777778888888888999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          300 FKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPN-VITYNKLIDGFCDAGETDKAFRLFNQLKS  378 (574)
Q Consensus       300 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~  378 (574)
                      .+.|+..+...+. |...||.|...++...+.++|+..|.+.++.  .|+ +.+...|.-.|...|.+++|.+.|-..+.
T Consensus       450 iDcf~~AL~v~Pn-d~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  450 VDCFEAALQVKPN-DYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHHHhcCCc-hHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            9999998887666 8889999999999999999999999998876  455 34445566678888999999888876543


Q ss_pred             C---------CCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 043999          379 N---------GQSPSVVTYNVLIRAFSKAGNSKMASDL  407 (574)
Q Consensus       379 ~---------g~~~~~~~~~~li~~~~~~g~~~~A~~~  407 (574)
                      .         +..++...|.+|=.++.-.++.|-+...
T Consensus       527 mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  527 MQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             hhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            2         1223456777777777777777655443

>PF12854 PPR_1: PPR repeat

Probab=98.75  E-value=1.3e-08  Score=59.98  Aligned_cols=32  Identities=47%  Similarity=0.926  Sum_probs=20.4

Q ss_pred             CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          205 GFSPNVVIYTSLIDGCCKNGDIERAKMLFRKI  236 (574)
Q Consensus       205 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  236 (574)
                      |+.||..+|++||++||+.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            55666666666666666666666666666655

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

Probab=98.75  E-value=1.1e-05  Score=85.45  Aligned_cols=228  Identities=13%  Similarity=0.136  Sum_probs=161.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCC---ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 043999          314 NVVTYNTLICGLCKEMRVQEAERLLDQMKMA-GISP---NVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYN  389 (574)
Q Consensus       314 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~-g~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~  389 (574)
                      ....|-..+....+.++.++|.++.++++.. ++.-   -.-.|.++++.-..-|.-+...++|+++.+.  ......|.
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V~~ 1534 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTVHL 1534 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHHHH
Confidence            5567777777777888888888888887643 1111   1235666666666677778888888888774  22345577


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHH
Q 043999          390 VLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPD---VYTYGVLIHGLC  466 (574)
Q Consensus       390 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~  466 (574)
                      .|...|.+.+..++|.++++.|.++ +.-....|...++.+.+.++-++|..++.+..+.  -|.   .....-.+..-.
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLEF 1611 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLEF 1611 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHHh
Confidence            7888888888888888888888876 2346677888888888888888888888887764  233   344555566667


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCHHHH
Q 043999          467 MKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNI--ASYSSTIGVLCQDGKWPEA  544 (574)
Q Consensus       467 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~l~~~~~~~g~~~~A  544 (574)
                      +.|+.+.+..+|+..+...++ ....|+.+++.-.++|+.+.+..+|++..+.++.|-.  ..|...+.---..|+-+.+
T Consensus      1612 k~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~v 1690 (1710)
T KOG1070|consen 1612 KYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNV 1690 (1710)
T ss_pred             hcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhH
Confidence            888888888888888876444 5677888888888888888888888888888776643  4455555555555665444


Q ss_pred             HHH
Q 043999          545 EVL  547 (574)
Q Consensus       545 ~~~  547 (574)
                      ..+
T Consensus      1691 E~V 1693 (1710)
T KOG1070|consen 1691 EYV 1693 (1710)
T ss_pred             HHH
Confidence            433

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.74  E-value=1.6e-06  Score=79.44  Aligned_cols=186  Identities=11%  Similarity=-0.025  Sum_probs=131.3

Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHH---
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRS---NTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVY---  176 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~---~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~---  176 (574)
                      +.....+..+...+.+.|++++|...|+++++.. +.+.   .++..+..++.+.|++++|...++++....|.+..   
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~  108 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADY  108 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHH
Confidence            4556788899999999999999999999998753 2222   46677888999999999999999999876444443   


Q ss_pred             HHHHHHHHHHhc--------CChhHHHHHHHHHHHCCCCCCHH-hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhh
Q 043999          177 SFGILIKGCCEA--------GDLNKAFEVLNQLEEMGFSPNVV-IYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHT  247 (574)
Q Consensus       177 ~~~~li~~~~~~--------g~~~~A~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  247 (574)
                      ++..+...+.+.        |+.++|.+.++++.+..  |+.. .+..+.....    ...      ...        ..
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~----~~~------~~~--------~~  168 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDY----LRN------RLA--------GK  168 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHH----HHH------HHH--------HH
Confidence            566666777655        78889999999988753  4332 2222211100    000      000        11


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043999          248 YTVLICGLFKNGLQKDGFEFYEKMQLNGV--SPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHR  309 (574)
Q Consensus       248 ~~~li~~~~~~g~~~~a~~~~~~~~~~g~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  309 (574)
                      ...+...+.+.|++++|...+++..+...  +.....+..+...+.+.|++++|...++.+..+
T Consensus       169 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       169 ELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            22456678888999999999988886521  123467888888999999999999988887665

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).

>PF12854 PPR_1: PPR repeat

Probab=98.72  E-value=1.9e-08  Score=59.31  Aligned_cols=32  Identities=56%  Similarity=1.103  Sum_probs=16.9

Q ss_pred             CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          275 GVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEM  306 (574)
Q Consensus       275 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  306 (574)
                      |+.||..||++||++||+.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            44555555555555555555555555555544

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

Probab=98.70  E-value=1.6e-06  Score=85.94  Aligned_cols=215  Identities=17%  Similarity=0.116  Sum_probs=141.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 043999          317 TYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFS  396 (574)
Q Consensus       317 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~  396 (574)
                      .-..+...+...|-...|..+++++.         .|...+.+|+..|+..+|..+..+..++  +||...|..+.+...
T Consensus       400 ~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~  468 (777)
T KOG1128|consen  400 LQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLH  468 (777)
T ss_pred             HHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhcc
Confidence            33445566667777777777777654         3445667777777777777777766663  567777777777666


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 043999          397 KAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASK  476 (574)
Q Consensus       397 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  476 (574)
                      ...-+++|.++.+....+       .-..+.......++++++.+.|+.-.+.+ +.-..+|-.+..+..+.++++.|.+
T Consensus       469 d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~  540 (777)
T KOG1128|consen  469 DPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVK  540 (777)
T ss_pred             ChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHH
Confidence            666667777776654322       11111111233577777777777766654 4455667677777777777777777


Q ss_pred             HHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          477 LFNSMWETKLEP-NDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       477 ~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      .|......  .| +...||.+-.+|.+.|+-.+|...+++..+.+ .-+...|....-...+.|.+++|.+.+.++.+
T Consensus       541 aF~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  541 AFHRCVTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHHHHhhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            77777664  34 45667777777777777777777777777765 33445566666666777777777777777763

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.67  E-value=4.6e-06  Score=76.35  Aligned_cols=186  Identities=8%  Similarity=-0.015  Sum_probs=125.3

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCH---HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH--HhHH
Q 043999          140 RSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDV---YSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNV--VIYT  214 (574)
Q Consensus       140 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~  214 (574)
                      ....+-.+...+.+.|++++|...|+++....|.+.   .++..+...+.+.|++++|...++++.+.......  .++.
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~  111 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYY  111 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHH
Confidence            445566677778888888888888888776644443   46677888888888888888888888775321111  1344


Q ss_pred             HHHHHHHhc--------CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHH
Q 043999          215 SLIDGCCKN--------GDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCL  286 (574)
Q Consensus       215 ~li~~~~~~--------g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~l  286 (574)
                      .+..++.+.        |+.++|.+.|+++.+..+. +...+..+.....    ...      ..        ......+
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~~~----~~~------~~--------~~~~~~~  172 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRMDY----LRN------RL--------AGKELYV  172 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHHHH----HHH------HH--------HHHHHHH
Confidence            455555544        6778888888888765433 2222222211100    000      00        0011256


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          287 IHEYCNEGKVSEGFKLFDEMRHREVA--CNVVTYNTLICGLCKEMRVQEAERLLDQMKMA  344 (574)
Q Consensus       287 i~~~~~~g~~~~A~~~~~~m~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  344 (574)
                      ...|.+.|++++|...++...+..+.  .....+..+...+.+.|++++|..+++.+...
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            67789999999999999999876432  24578899999999999999999999988765

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.66  E-value=5.3e-06  Score=72.81  Aligned_cols=156  Identities=12%  Similarity=0.089  Sum_probs=118.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCCh
Q 043999          112 IIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDL  191 (574)
Q Consensus       112 li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  191 (574)
                      -+..|...|+++.+....+++...   ..         -+...++.+++...++......|.|...|..+...|...|++
T Consensus        22 ~~~~Y~~~g~~~~v~~~~~~~~~~---~~---------~~~~~~~~~~~i~~l~~~L~~~P~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         22 CVGSYLLSPKWQAVRAEYQRLADP---LH---------QFASQQTPEAQLQALQDKIRANPQNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHHcchHHHHHHHHHHHhCc---cc---------cccCchhHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCH
Confidence            356788889988875554333221   01         111356777888888888777788999999999999999999


Q ss_pred             hHHHHHHHHHHHCCCCCCHHhHHHHHHHH-HhcCC--HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 043999          192 NKAFEVLNQLEEMGFSPNVVIYTSLIDGC-CKNGD--IERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFY  268 (574)
Q Consensus       192 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~-~~~g~--~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  268 (574)
                      ++|...+++..+... .+...+..+..++ ...|+  .++|.+++++..+.++. +..++..+...+.+.|++++|+..|
T Consensus        90 ~~A~~a~~~Al~l~P-~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~  167 (198)
T PRK10370         90 DNALLAYRQALQLRG-ENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELW  167 (198)
T ss_pred             HHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999999888653 3677777777764 67777  58999999999888765 7788888888999999999999999


Q ss_pred             HHHHHCCCCCCHhh
Q 043999          269 EKMQLNGVSPSLYT  282 (574)
Q Consensus       269 ~~~~~~g~~p~~~~  282 (574)
                      +++.+.. +|+..-
T Consensus       168 ~~aL~l~-~~~~~r  180 (198)
T PRK10370        168 QKVLDLN-SPRVNR  180 (198)
T ss_pred             HHHHhhC-CCCccH
Confidence            9988763 444443

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

Probab=98.65  E-value=3e-06  Score=84.02  Aligned_cols=238  Identities=13%  Similarity=0.097  Sum_probs=181.8

Q ss_pred             CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHH
Q 043999          207 SPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCL  286 (574)
Q Consensus       207 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~l  286 (574)
                      +|--..-..+...+.+.|-...|..+|+++.         .|...|.+|+..|+..+|..+..+..++  +||...|..+
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~L  463 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLL  463 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHh
Confidence            3444445668888999999999999998865         4777899999999999999999888874  7899999988


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCH
Q 043999          287 IHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGET  366 (574)
Q Consensus       287 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  366 (574)
                      .+......-+++|.++++....+       .-..+..-..+.++++++.+.|+.-.+.. +-...+|-.+..+..+.+++
T Consensus       464 GDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~  535 (777)
T KOG1128|consen  464 GDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKE  535 (777)
T ss_pred             hhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhh
Confidence            88877777789999988876433       11122222334789999999999877664 44667888888888899999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          367 DKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLM  446 (574)
Q Consensus       367 ~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  446 (574)
                      +.|.+.|....... +-+...||.+-.+|.+.++-.+|...+.+..+.+ .-+...|...+....+.|.+++|.+.+.++
T Consensus       536 q~av~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rl  613 (777)
T KOG1128|consen  536 QAAVKAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRL  613 (777)
T ss_pred             HHHHHHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHH
Confidence            99999999988752 2256789999999999999999999999999876 335556666777778999999999999888


Q ss_pred             HHCCC-CCCHHHHHHHHHHH
Q 043999          447 QKSGF-SPDVYTYGVLIHGL  465 (574)
Q Consensus       447 ~~~~~-~~~~~~~~~li~~~  465 (574)
                      .+... ..|..+...++...
T Consensus       614 l~~~~~~~d~~vl~~iv~~~  633 (777)
T KOG1128|consen  614 LDLRKKYKDDEVLLIIVRTV  633 (777)
T ss_pred             HHhhhhcccchhhHHHHHHH
Confidence            65311 12444444444443

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.64  E-value=8.4e-06  Score=71.56  Aligned_cols=119  Identities=8%  Similarity=0.142  Sum_probs=57.0

Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HhcCC--HHHH
Q 043999          398 AGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGL-CMKGN--MKEA  474 (574)
Q Consensus       398 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~-~~~g~--~~~A  474 (574)
                      .++.+++...+++..+.. +.|...|..+...|...|++++|...|++..+.. +.+...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            344444444444444432 2244445555555555555555555555555443 33444444444432 34444  2555


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          475 SKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEK  519 (574)
Q Consensus       475 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  519 (574)
                      .+++++..+.++. +..++..+...+.+.|++++|+..|+++.+.
T Consensus       130 ~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        130 REMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            5555555544322 4444555555555555555555555555543

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.62  E-value=2.1e-05  Score=82.79  Aligned_cols=221  Identities=15%  Similarity=0.085  Sum_probs=126.6

Q ss_pred             CCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH-HHHHHHHHHhcCChhHHHHHHHHcccCCCCCH-----
Q 043999          102 PVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNT-FNSLLIFVIKSCSFDKGWLFFSENRCKVELDV-----  175 (574)
Q Consensus       102 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~-~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~-----  175 (574)
                      ++.+...|..|+..|...+++++|.++.++.++.  .|+... |-.+...+.+.++.+++..+  .+....+.+.     
T Consensus        27 ~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~~~~~~~v  102 (906)
T PRK14720         27 SLSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--NLIDSFSQNLKWAIV  102 (906)
T ss_pred             CcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--hhhhhcccccchhHH
Confidence            4567789999999999999999999999988775  455433 33333456677776666554  3332222222     


Q ss_pred             --------------HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 043999          176 --------------YSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGL  241 (574)
Q Consensus       176 --------------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~  241 (574)
                                    .++..++.+|-+.|+.++|..+++++.+.. +-|+.+.|.+...|... ++++|++++.+....  
T Consensus       103 e~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~--  178 (906)
T PRK14720        103 EHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR--  178 (906)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH--
Confidence                          455555566666666666666666666654 23555666666666666 666666666555442  


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHH
Q 043999          242 VATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHR-EVACNVVTYNT  320 (574)
Q Consensus       242 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~~~~~~~~~  320 (574)
                                   +....++.++.+++.++....  |+               +++.-.++.+.+... |..--+.++-.
T Consensus       179 -------------~i~~kq~~~~~e~W~k~~~~~--~~---------------d~d~f~~i~~ki~~~~~~~~~~~~~~~  228 (906)
T PRK14720        179 -------------FIKKKQYVGIEEIWSKLVHYN--SD---------------DFDFFLRIERKVLGHREFTRLVGLLED  228 (906)
T ss_pred             -------------HHhhhcchHHHHHHHHHHhcC--cc---------------cchHHHHHHHHHHhhhccchhHHHHHH
Confidence                         344445555555555555431  11               122222222222221 11113344455


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 043999          321 LICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFC  361 (574)
Q Consensus       321 li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~  361 (574)
                      +-..|-..+++++++.+++.+.+.. +-|.....-++..|.
T Consensus       229 l~~~y~~~~~~~~~i~iLK~iL~~~-~~n~~a~~~l~~~y~  268 (906)
T PRK14720        229 LYEPYKALEDWDEVIYILKKILEHD-NKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHhhhhhhhHHHHHHHHHHhcC-CcchhhHHHHHHHHH
Confidence            5556666677777777777777654 334455555555554

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.61  E-value=1.4e-05  Score=70.00  Aligned_cols=159  Identities=14%  Similarity=0.061  Sum_probs=117.0

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcC
Q 043999          145 NSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNG  224 (574)
Q Consensus       145 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  224 (574)
                      ..+-..+...|+-+.+..+........+.|....+..++...+.|++..|...|.+..... ++|...|+.+.-+|.+.|
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~G  148 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLG  148 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHcc
Confidence            4455666677777777777777666666677777778888888888888888888877643 567778888888888888


Q ss_pred             CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 043999          225 DIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFD  304 (574)
Q Consensus       225 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  304 (574)
                      ++++|..-|.+..+..+. ++...+.+.-.+.-.|+.+.|..++......+. -|...-..+.......|++++|.++-.
T Consensus       149 r~~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         149 RFDEARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ChhHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            888888888887775433 556677777777778888888888877776542 266666677777777888888877665


Q ss_pred             HH
Q 043999          305 EM  306 (574)
Q Consensus       305 ~m  306 (574)
                      .-
T Consensus       227 ~e  228 (257)
T COG5010         227 QE  228 (257)
T ss_pred             cc
Confidence            43

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.60  E-value=1.6e-05  Score=69.56  Aligned_cols=159  Identities=14%  Similarity=0.097  Sum_probs=90.0

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 043999          389 NVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMK  468 (574)
Q Consensus       389 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  468 (574)
                      ..+-..+...|+-+....+..+..... +.|.......+....+.|++..|...+++..... ++|...|+.+.-+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            334444555555555555555543321 2244444455566666666666666666665543 56666666666666666


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 043999          469 GNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLL  548 (574)
Q Consensus       469 g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~  548 (574)
                      |++++|..-|.+..+.... ++..+|.+...|.-.|+.+.|..++......+ .-|..+-..+..+....|++++|.++.
T Consensus       148 Gr~~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         148 GRFDEARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             cChhHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHHhhc
Confidence            6666666666666654222 44555666666666666666666666666542 224445555555566666666666554


Q ss_pred             HHH
Q 043999          549 NQM  551 (574)
Q Consensus       549 ~~m  551 (574)
                      ..-
T Consensus       226 ~~e  228 (257)
T COG5010         226 VQE  228 (257)
T ss_pred             ccc
Confidence            433

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.56  E-value=3.4e-05  Score=80.40  Aligned_cols=147  Identities=8%  Similarity=-0.035  Sum_probs=104.0

Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHH
Q 043999          137 VRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSL  216 (574)
Q Consensus       137 ~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  216 (574)
                      ...++..+-.|..+....|.+++|..+++.+....|.+...+..++..+.+.+++++|+...++...... -+......+
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p-~~~~~~~~~  160 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGS-SSAREILLE  160 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCC-CCHHHHHHH
Confidence            3445666777777777778888888888877777777777777778888888888888888887776542 245566677


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHH
Q 043999          217 IDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCL  286 (574)
Q Consensus       217 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~l  286 (574)
                      ..++.+.|++++|..+|+++...++. +..++..+...+...|+.++|...|++..+.- .|....|+.+
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p~-~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~  228 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHPE-FENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRR  228 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHH
Confidence            77777788888888888887764332 46777777777778888888888887777542 3344444443

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.56  E-value=0.00011  Score=70.03  Aligned_cols=198  Identities=13%  Similarity=0.029  Sum_probs=120.7

Q ss_pred             hhHHHHHHHHcccC---CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHH
Q 043999          157 FDKGWLFFSENRCK---VELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLF  233 (574)
Q Consensus       157 ~~~A~~~~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  233 (574)
                      +.++...-+.++..   ..|+...+...+.+......-..+...+.+-.+.   -.....--..-.+...|++++|+..+
T Consensus       253 Ia~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~---~~~aa~YG~A~~~~~~~~~d~A~~~l  329 (484)
T COG4783         253 IADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSKR---GGLAAQYGRALQTYLAGQYDEALKLL  329 (484)
T ss_pred             HHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhCc---cchHHHHHHHHHHHHhcccchHHHHH
Confidence            33444455555433   4556666666666555444333333333332221   11122222233344677778888888


Q ss_pred             HHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 043999          234 RKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPS-LYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVA  312 (574)
Q Consensus       234 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  312 (574)
                      +.+...-+. |+..+......+.+.++.++|.+.++++...  .|+ ......+..+|.+.|+..+|+.+++......+.
T Consensus       330 ~~L~~~~P~-N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p~  406 (484)
T COG4783         330 QPLIAAQPD-NPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPE  406 (484)
T ss_pred             HHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Confidence            777665432 5556666667777778888888888777765  444 455566777777778887887777777666555


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          313 CNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSN  379 (574)
Q Consensus       313 ~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  379 (574)
                       |+..|..|..+|...|+..++..-..+                  .|...|+++.|...+....+.
T Consensus       407 -dp~~w~~LAqay~~~g~~~~a~~A~AE------------------~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         407 -DPNGWDLLAQAYAELGNRAEALLARAE------------------GYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             -CchHHHHHHHHHHHhCchHHHHHHHHH------------------HHHhCCCHHHHHHHHHHHHHh
Confidence             777788788777777777766554433                  344567777777777666654

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.55  E-value=7.9e-05  Score=78.55  Aligned_cols=240  Identities=9%  Similarity=0.005  Sum_probs=150.6

Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH-HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHH
Q 043999          171 VELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNV-VIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYT  249 (574)
Q Consensus       171 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  249 (574)
                      .+.+...+..|+..+...+++++|.++.+...+.  .|+. ..|-.+...+.+.++.+++..+  .+.            
T Consensus        27 ~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l------------   90 (906)
T PRK14720         27 SLSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--NLI------------   90 (906)
T ss_pred             CcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--hhh------------
Confidence            4667778888888888888888888888866664  3433 3344444466666766665544  222            


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 043999          250 VLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEM  329 (574)
Q Consensus       250 ~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~  329 (574)
                         .......++.-...+...+...  .-+...+..+..+|-+.|+.++|..+++++++..+. |+.+.|.+...|... 
T Consensus        91 ---~~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~-n~~aLNn~AY~~ae~-  163 (906)
T PRK14720         91 ---DSFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKADRD-NPEIVKKLATSYEEE-  163 (906)
T ss_pred             ---hhcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHh-
Confidence               2222233333333333444443  224457777888888888888888888888887754 778888888888877 


Q ss_pred             CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 043999          330 RVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVR  409 (574)
Q Consensus       330 ~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  409 (574)
                      +.++|.+++.+....               +...+++..+.++|.++...... +...+..+.                +
T Consensus       164 dL~KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~~-d~d~f~~i~----------------~  211 (906)
T PRK14720        164 DKEKAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNSD-DFDFFLRIE----------------R  211 (906)
T ss_pred             hHHHHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCcc-cchHHHHHH----------------H
Confidence            888888888776653               55666788888888888775221 222222222                2


Q ss_pred             HHHHC-CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 043999          410 EMEER-GITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLC  466 (574)
Q Consensus       410 ~m~~~-~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  466 (574)
                      .+... |..--..++-.+-..|...++++++..+++.+.+.. +.|.....-++.+|.
T Consensus       212 ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~-~~n~~a~~~l~~~y~  268 (906)
T PRK14720        212 KVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHD-NKNNKAREELIRFYK  268 (906)
T ss_pred             HHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcC-CcchhhHHHHHHHHH
Confidence            22211 222233455566667777888888888888888764 445556666666654

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.50  E-value=0.00026  Score=62.12  Aligned_cols=250  Identities=14%  Similarity=0.041  Sum_probs=137.1

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhH
Q 043999          114 DAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNK  193 (574)
Q Consensus       114 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  193 (574)
                      +-|.-.|++..++..-......  +.++..-..+-.+|...|++....   .+++..-.+.......+.......++.++
T Consensus        16 Rn~fY~Gnyq~~ine~~~~~~~--~~~~e~d~y~~raylAlg~~~~~~---~eI~~~~~~~lqAvr~~a~~~~~e~~~~~   90 (299)
T KOG3081|consen   16 RNYFYLGNYQQCINEAEKFSSS--KTDVELDVYMYRAYLALGQYQIVI---SEIKEGKATPLQAVRLLAEYLELESNKKS   90 (299)
T ss_pred             HHHHHhhHHHHHHHHHHhhccc--cchhHHHHHHHHHHHHcccccccc---cccccccCChHHHHHHHHHHhhCcchhHH
Confidence            4444567777776655544322  123333334445566666554332   22222222333444444444444444444


Q ss_pred             HH-HHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          194 AF-EVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQ  272 (574)
Q Consensus       194 A~-~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  272 (574)
                      -. ++.+.+.......+......-...|++.|++++|++......      +......=+..+.+..+.+-|.+.+++|.
T Consensus        91 ~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq  164 (299)
T KOG3081|consen   91 ILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQ  164 (299)
T ss_pred             HHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33 333444433333333334444456777888888877766521      23333344455667777777777777777


Q ss_pred             HCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 043999          273 LNGVSPSLYTYNCLIHEYCN----EGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISP  348 (574)
Q Consensus       273 ~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~  348 (574)
                      +.   .+..|.+.|..++.+    .+++.+|.-+|++|-++ ..|++.+.+-...++...|++++|..+++...... ..
T Consensus       165 ~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd-~~  239 (299)
T KOG3081|consen  165 QI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD-AK  239 (299)
T ss_pred             cc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc-CC
Confidence            64   255566656555544    34577777777777654 45577777777777777788888888877777664 33


Q ss_pred             ChhhHHHHHHHHHhcCCH-HHHHHHHHHHHHC
Q 043999          349 NVITYNKLIDGFCDAGET-DKAFRLFNQLKSN  379 (574)
Q Consensus       349 ~~~~~~~li~~~~~~g~~-~~A~~~~~~~~~~  379 (574)
                      ++.+...++..-...|.. +...+.+.++...
T Consensus       240 dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  240 DPETLANLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             CHHHHHHHHHHHHHhCCChHHHHHHHHHHHhc
Confidence            455555555444444443 3344555555543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.49  E-value=2.2e-05  Score=81.85  Aligned_cols=162  Identities=12%  Similarity=0.030  Sum_probs=133.1

Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHH
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPR-SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGIL  181 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l  181 (574)
                      +.++..+-.|.....+.|.+++|..+++...+.  .|+ ......+..++.+.+++++|+..+++.....|.+....+.+
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~  160 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLE  160 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHH
Confidence            456888999999999999999999999999986  454 66777888999999999999999999999989999999999


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCH
Q 043999          182 IKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQ  261 (574)
Q Consensus       182 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  261 (574)
                      ..++.+.|++++|.++|+++...+ +-+..++..+...+.+.|+.++|...|++..+.-- +....|+.++      ++.
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~-~~~~~~~~~~------~~~  232 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIG-DGARKLTRRL------VDL  232 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhC-cchHHHHHHH------HHH
Confidence            999999999999999999999843 23478999999999999999999999999876522 2334444433      233


Q ss_pred             HHHHHHHHHHHHC
Q 043999          262 KDGFEFYEKMQLN  274 (574)
Q Consensus       262 ~~a~~~~~~~~~~  274 (574)
                      ..-..+++++.-.
T Consensus       233 ~~~~~~~~~~~~~  245 (694)
T PRK15179        233 NADLAALRRLGVE  245 (694)
T ss_pred             HHHHHHHHHcCcc
Confidence            4445566665533

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.49  E-value=1.6e-05  Score=65.86  Aligned_cols=91  Identities=9%  Similarity=-0.112  Sum_probs=42.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 043999          426 LIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGN  505 (574)
Q Consensus       426 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  505 (574)
                      +...+...|++++|...|+...... +.+...|..+...+...|++++|...|+.+....+. +...+..+..++...|+
T Consensus        30 ~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~-~~~a~~~lg~~l~~~g~  107 (144)
T PRK15359         30 SGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDAS-HPEPVYQTGVCLKMMGE  107 (144)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHHcCC
Confidence            3334444445555555444444432 333444444444444455555555555544443221 34444444444444555


Q ss_pred             HHHHHHHHHHHHH
Q 043999          506 SYRALRLLGEMNE  518 (574)
Q Consensus       506 ~~~A~~~~~~m~~  518 (574)
                      +++|+..|++..+
T Consensus       108 ~~eAi~~~~~Al~  120 (144)
T PRK15359        108 PGLAREAFQTAIK  120 (144)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555554444

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.48  E-value=3.8e-05  Score=67.21  Aligned_cols=219  Identities=16%  Similarity=0.120  Sum_probs=137.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHH-HHHHHcccC-CCCCHHHHHHHHHHHHhc
Q 043999          111 SIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGW-LFFSENRCK-VELDVYSFGILIKGCCEA  188 (574)
Q Consensus       111 ~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~-~~~~~~~~~-~~~~~~~~~~li~~~~~~  188 (574)
                      -+-++|...|++...+.   +... |-.|.......+-..+..-++.++-+ ++.+.+... ...+......-...|+..
T Consensus        46 y~~raylAlg~~~~~~~---eI~~-~~~~~lqAvr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~  121 (299)
T KOG3081|consen   46 YMYRAYLALGQYQIVIS---EIKE-GKATPLQAVRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHD  121 (299)
T ss_pred             HHHHHHHHccccccccc---cccc-ccCChHHHHHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcC
Confidence            34455666665543332   1211 11233333333333333333433333 233333333 334444555556678888


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh----cCCHHHH
Q 043999          189 GDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFK----NGLQKDG  264 (574)
Q Consensus       189 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a  264 (574)
                      |++++|++......      +......=+..+.+..+++-|.+.+++|.+.+   +..|.+-|..++.+    .+...+|
T Consensus       122 ~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~ggek~qdA  192 (299)
T KOG3081|consen  122 GDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLATGGEKIQDA  192 (299)
T ss_pred             CChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhccchhhhhH
Confidence            99999988877622      34444444556778888999999999998753   55666666666655    4568889


Q ss_pred             HHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHH
Q 043999          265 FEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRV-QEAERLLDQMKM  343 (574)
Q Consensus       265 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~-~~A~~~~~~m~~  343 (574)
                      +-+|++|-++ .+|+..+.+....++...|++++|..++++.+.+... ++.+...++..-...|.. +...+.+.++..
T Consensus       193 fyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  193 FYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             HHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            9999998864 5788888888888899999999999999999888666 666666666555555554 445556666665


Q ss_pred             C
Q 043999          344 A  344 (574)
Q Consensus       344 ~  344 (574)
                      .
T Consensus       271 ~  271 (299)
T KOG3081|consen  271 S  271 (299)
T ss_pred             c
Confidence            4

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.48  E-value=1.2e-05  Score=66.66  Aligned_cols=116  Identities=9%  Similarity=-0.045  Sum_probs=95.5

Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          441 EMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKG  520 (574)
Q Consensus       441 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  520 (574)
                      .++++..+.  .|+.  +..+...+...|++++|...|+......+. +...|..+..++...|++++|+..|++..+.+
T Consensus        14 ~~~~~al~~--~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         14 DILKQLLSV--DPET--VYASGYASWQEGDYSRAVIDFSWLVMAQPW-SWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHHHc--CHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            355555553  3443  556778889999999999999999986543 78889999999999999999999999999863


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 043999          521 LVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYN  564 (574)
Q Consensus       521 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  564 (574)
                       +.+...+..+..++...|+.++|...+++.++.  .|+...|.
T Consensus        89 -p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~--~p~~~~~~  129 (144)
T PRK15359         89 -ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKM--SYADASWS  129 (144)
T ss_pred             -CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHH
Confidence             446788899999999999999999999999975  67765444

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.43  E-value=0.00048  Score=65.91  Aligned_cols=111  Identities=14%  Similarity=0.118  Sum_probs=61.9

Q ss_pred             hcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-HHhHHHHHHHHHhcCCHHHHHH
Q 043999          153 KSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPN-VVIYTSLIDGCCKNGDIERAKM  231 (574)
Q Consensus       153 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~  231 (574)
                      ..|++++|+..++.+....|.|++.+......+.+.++.++|.+.++++...  .|+ ......+..+|.+.|++.+|+.
T Consensus       318 ~~~~~d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~  395 (484)
T COG4783         318 LAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIR  395 (484)
T ss_pred             HhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHH
Confidence            4555566666665555555555555555556666666666666666655553  233 3444555555556666666666


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 043999          232 LFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFE  266 (574)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  266 (574)
                      ++++.....+. |+..|..|..+|...|+..++..
T Consensus       396 ~L~~~~~~~p~-dp~~w~~LAqay~~~g~~~~a~~  429 (484)
T COG4783         396 ILNRYLFNDPE-DPNGWDLLAQAYAELGNRAEALL  429 (484)
T ss_pred             HHHHHhhcCCC-CchHHHHHHHHHHHhCchHHHHH
Confidence            55555544433 55555555555555555554444

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.42  E-value=1.3e-05  Score=66.11  Aligned_cols=105  Identities=15%  Similarity=0.025  Sum_probs=64.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 043999          456 YTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVL  535 (574)
Q Consensus       456 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  535 (574)
                      .....+...+...|++++|.+.++.+...+.. +...|..+...+...|++++|..++++..+.+ +.+...+..+...+
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~   95 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYDPY-NSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            44455555666666777777766666654322 55666666666666677777777666666542 33455555666666


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 043999          536 CQDGKWPEAEVLLNQMLKLGLKPSVSLYN  564 (574)
Q Consensus       536 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  564 (574)
                      ...|++++|...+++.++.  .|+...+.
T Consensus        96 ~~~g~~~~A~~~~~~al~~--~p~~~~~~  122 (135)
T TIGR02552        96 LALGEPESALKALDLAIEI--CGENPEYS  122 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHh--ccccchHH
Confidence            6667777777777666654  45554433

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=98.37  E-value=0.00047  Score=60.10  Aligned_cols=187  Identities=16%  Similarity=0.129  Sum_probs=99.0

Q ss_pred             cCCHHHHHHHHHHHHH---CC-CCCChhh-HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChH
Q 043999          328 EMRVQEAERLLDQMKM---AG-ISPNVIT-YNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSK  402 (574)
Q Consensus       328 ~~~~~~A~~~~~~m~~---~g-~~~~~~~-~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  402 (574)
                      ..+.++..+++.++..   .| ..++..+ |..++-+....|+.+.|...++++... ++-+...-..-.-.+-..|+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhchh
Confidence            4456666666666543   22 3333332 333444455566666666666666554 2112111111111233456666


Q ss_pred             HHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          403 MASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMW  482 (574)
Q Consensus       403 ~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  482 (574)
                      +|.++++.+.+.+ +.|.+++--=+...-..|+--+|++-+....+. +..|...|.-+...|...|++++|.-.+++++
T Consensus       104 ~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~l  181 (289)
T KOG3060|consen  104 EAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELL  181 (289)
T ss_pred             hHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            6777666666554 334555554444455555555666655555544 45666666666666666666666666666666


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHH
Q 043999          483 ETKLEPNDVVYNMMIFGYCKEG---NSYRALRLLGEMNE  518 (574)
Q Consensus       483 ~~~~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~  518 (574)
                      -..+. ++..+..+...+.-.|   +.+-|.+++.+.++
T Consensus       182 l~~P~-n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alk  219 (289)
T KOG3060|consen  182 LIQPF-NPLYFQRLAEVLYTQGGAENLELARKYYERALK  219 (289)
T ss_pred             HcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            53211 3444444554433333   44556666666666

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.28  E-value=4.1e-05  Score=63.10  Aligned_cols=91  Identities=12%  Similarity=0.052  Sum_probs=37.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCH
Q 043999          147 LLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDI  226 (574)
Q Consensus       147 ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  226 (574)
                      +...+.+.|++++|...|+.+....+.+...+..+...+.+.|++++|...+++..+.+ +.+...+..+...+...|++
T Consensus        23 ~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~  101 (135)
T TIGR02552        23 LAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLALGEP  101 (135)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHcCCH
Confidence            33334444444444444444433333344444444444444444444444444443322 11233333334444444444


Q ss_pred             HHHHHHHHHHHh
Q 043999          227 ERAKMLFRKIGE  238 (574)
Q Consensus       227 ~~A~~~~~~~~~  238 (574)
                      ++|...|++..+
T Consensus       102 ~~A~~~~~~al~  113 (135)
T TIGR02552       102 ESALKALDLAIE  113 (135)
T ss_pred             HHHHHHHHHHHH
Confidence            444444444433

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=98.28  E-value=0.00075  Score=58.90  Aligned_cols=188  Identities=14%  Similarity=0.075  Sum_probs=123.2

Q ss_pred             cCChHHHHHHHHHHHh---CC-CCCCHHH-HHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhH
Q 043999          119 SRLSDQALFYFHQMLD---SG-VRPRSNT-FNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNK  193 (574)
Q Consensus       119 ~g~~~~A~~~~~~~~~---~g-~~p~~~~-~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  193 (574)
                      ..++++.++++.+++.   .| ..++..+ +..+.-+....|+.+.|...++++..++|.+.-.-..-...+-..|.+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhh
Confidence            4567788888887763   23 3344433 44455666678888888888888877765544443333444556788888


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          194 AFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQL  273 (574)
Q Consensus       194 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  273 (574)
                      |.++++.+.+.. +.|.+++-.-+...-..|+--+|++-+.+..+. +..|...|.-+...|...|++++|.-.++++.-
T Consensus       105 A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  105 AIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             HHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            888888888765 345666766666677777777777777776654 334778888888888888888888888888776


Q ss_pred             CCCCCCHhhHHHHHHHHHhcC---CHHHHHHHHHHHHhC
Q 043999          274 NGVSPSLYTYNCLIHEYCNEG---KVSEGFKLFDEMRHR  309 (574)
Q Consensus       274 ~g~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~  309 (574)
                      .. +.+...+..+.+.+.-.|   ++.-|.+.|....+.
T Consensus       183 ~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  183 IQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             cC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            52 223334444444443333   355566677766665

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.21  E-value=2.4e-06  Score=51.21  Aligned_cols=35  Identities=31%  Similarity=0.563  Sum_probs=32.6

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRS  141 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~  141 (574)
                      ++||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            37999999999999999999999999999999973

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.19  E-value=0.012  Score=60.74  Aligned_cols=222  Identities=13%  Similarity=0.070  Sum_probs=128.6

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHH
Q 043999          118 KSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIF--VIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAF  195 (574)
Q Consensus       118 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~--~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  195 (574)
                      ..+++.+|+....++++.  .|+.. |..++.+  +.+.|+.++|..+++......+.|..|...+-..|...|+.++|.
T Consensus        21 d~~qfkkal~~~~kllkk--~Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~   97 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKK--HPNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAV   97 (932)
T ss_pred             hhHHHHHHHHHHHHHHHH--CCCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHH
Confidence            456777888877777765  24432 2234443  457788888887777766554557777888888888888888888


Q ss_pred             HHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcC-C---------HHHHH
Q 043999          196 EVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNG-L---------QKDGF  265 (574)
Q Consensus       196 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~---------~~~a~  265 (574)
                      .++++....  .|+......+..+|.+.+++.+-.+.--++-+. .+...+.+=++++...+.- .         ..-|.
T Consensus        98 ~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~  174 (932)
T KOG2053|consen   98 HLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAE  174 (932)
T ss_pred             HHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHH
Confidence            888877764  466666777777777777665433333333221 1123344334444443321 1         12344


Q ss_pred             HHHHHHHHCC-CCCCHhhHHHHHHHHHhcCCHHHHHHHH-HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          266 EFYEKMQLNG-VSPSLYTYNCLIHEYCNEGKVSEGFKLF-DEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKM  343 (574)
Q Consensus       266 ~~~~~~~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~~-~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  343 (574)
                      +.++.+.+.+ .--...-.......+-..|++++|.+++ ....+.-...+...-+.-+..+...+++.+..++-.++..
T Consensus       175 ~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~  254 (932)
T KOG2053|consen  175 KMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLE  254 (932)
T ss_pred             HHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHH
Confidence            5555555443 1111111222233445567788888777 3333333333455555666667777777777777777777


Q ss_pred             CC
Q 043999          344 AG  345 (574)
Q Consensus       344 ~g  345 (574)
                      .|
T Consensus       255 k~  256 (932)
T KOG2053|consen  255 KG  256 (932)
T ss_pred             hC
Confidence            65

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.17  E-value=0.00015  Score=60.45  Aligned_cols=116  Identities=14%  Similarity=0.105  Sum_probs=70.4

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHH
Q 043999          433 SDDMEKAFEMYSLMQKSGFSPDV---YTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPN--DVVYNMMIFGYCKEGNSY  507 (574)
Q Consensus       433 ~g~~~~A~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~  507 (574)
                      .++...+...++.+.+.. +.+.   ...-.+...+...|++++|...|+.+......|+  ......+...+...|+++
T Consensus        24 ~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d  102 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYD  102 (145)
T ss_pred             CCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            566666766676666542 2221   2233345666777777777777777776543322  223444566677777777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          508 RALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQM  551 (574)
Q Consensus       508 ~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m  551 (574)
                      +|+..++.....  ......+....+++.+.|++++|...|++.
T Consensus       103 ~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  103 EALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            777777654332  223445566667777777777777777654

>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=98.10  E-value=9.5e-05  Score=71.29  Aligned_cols=127  Identities=13%  Similarity=0.112  Sum_probs=102.5

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      -..-.+|+..+...++++.|+++|+++.+..  |+.  ...+...+...++-.+|.+++++.....|.+......-.+.+
T Consensus       169 NyLv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fL  244 (395)
T PF09295_consen  169 NYLVDTLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFL  244 (395)
T ss_pred             hHHHHHHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3555666777777889999999999998864  553  334777777788888999999888877777888888888889


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 043999          186 CEAGDLNKAFEVLNQLEEMGFSPN-VVIYTSLIDGCCKNGDIERAKMLFRKIGE  238 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~  238 (574)
                      .+.++++.|+++.+++.+.  .|+ ..+|..|..+|.+.|++++|+..+..+.-
T Consensus       245 l~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  245 LSKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             HhcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            9999999999999998885  344 45899999999999999999988887754

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=98.08  E-value=0.00014  Score=60.56  Aligned_cols=25  Identities=20%  Similarity=0.165  Sum_probs=10.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHh
Q 043999          109 YESIIDAHLKSRLSDQALFYFHQMLD  134 (574)
Q Consensus       109 ~~~li~~~~~~g~~~~A~~~~~~~~~  134 (574)
                      |..++..+ ..++...+...++.+.+
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~   39 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAK   39 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHH
Confidence            33444333 24444444444444443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.07  E-value=7e-06  Score=48.76  Aligned_cols=33  Identities=33%  Similarity=0.574  Sum_probs=31.3

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLDSGVRP  139 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p  139 (574)
                      ++|+.++++|++.|+++.|.++|++|.+.|+.|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            589999999999999999999999999999887

>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=98.07  E-value=0.0003  Score=67.95  Aligned_cols=122  Identities=17%  Similarity=0.185  Sum_probs=74.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcC
Q 043999          355 KLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSD  434 (574)
Q Consensus       355 ~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  434 (574)
                      .|+..+...++++.|..+++++.+..  |+.  ...++..+...++-.+|.+++++..+.. +-+...+..-...+.+.+
T Consensus       174 ~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  174 TLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcC
Confidence            34445555667777777777776652  333  3345566666666667777777666542 224444555555566677


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          435 DMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMW  482 (574)
Q Consensus       435 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  482 (574)
                      +.+.|.++.+++.... +-+-.+|..|..+|.+.|++++|+-.++.+.
T Consensus       249 ~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  249 KYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            7777777777766652 3333467777777777777777776666554

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.07  E-value=7.1e-06  Score=49.12  Aligned_cols=33  Identities=36%  Similarity=0.706  Sum_probs=20.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Q 043999          527 SYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPS  559 (574)
Q Consensus       527 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~  559 (574)
                      +|++++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            456666666666666666666666666666655

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.

>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=97.97  E-value=0.00012  Score=55.72  Aligned_cols=94  Identities=14%  Similarity=0.109  Sum_probs=62.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhc
Q 043999          109 YESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEA  188 (574)
Q Consensus       109 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~  188 (574)
                      |..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|.+.|+......+.+..++..+...+...
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHH
Confidence            5566677777788888888888777653 223455566666666677777777777766655455556666666666667


Q ss_pred             CChhHHHHHHHHHHH
Q 043999          189 GDLNKAFEVLNQLEE  203 (574)
Q Consensus       189 g~~~~A~~~~~~m~~  203 (574)
                      |++++|.+.++...+
T Consensus        82 ~~~~~a~~~~~~~~~   96 (100)
T cd00189          82 GKYEEALEAYEKALE   96 (100)
T ss_pred             HhHHHHHHHHHHHHc
Confidence            777777766666554

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.97  E-value=1.6e-05  Score=47.13  Aligned_cols=32  Identities=25%  Similarity=0.444  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 043999          527 SYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKP  558 (574)
Q Consensus       527 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p  558 (574)
                      +|+.++.+|.+.|+++.|..++++|.+.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            45555555555555555555555555555554

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.94  E-value=0.029  Score=56.32  Aligned_cols=106  Identities=9%  Similarity=0.079  Sum_probs=48.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHH
Q 043999          212 IYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYC  291 (574)
Q Consensus       212 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~  291 (574)
                      .++.+.+.+.....+++|.+.|..-..         ....+.++.+...+++-..+-+.+     +-|....-.+..++.
T Consensus       798 A~r~ig~~fa~~~~We~A~~yY~~~~~---------~e~~~ecly~le~f~~LE~la~~L-----pe~s~llp~~a~mf~  863 (1189)
T KOG2041|consen  798 AFRNIGETFAEMMEWEEAAKYYSYCGD---------TENQIECLYRLELFGELEVLARTL-----PEDSELLPVMADMFT  863 (1189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccc---------hHhHHHHHHHHHhhhhHHHHHHhc-----CcccchHHHHHHHHH
Confidence            445555555555555555555443211         112333444444443333332222     234445556666666


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          292 NEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQ  340 (574)
Q Consensus       292 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  340 (574)
                      ..|.-++|.+.|-+-   +.+      ...+..|...+++.+|.++-+.
T Consensus       864 svGMC~qAV~a~Lr~---s~p------kaAv~tCv~LnQW~~avelaq~  903 (1189)
T KOG2041|consen  864 SVGMCDQAVEAYLRR---SLP------KAAVHTCVELNQWGEAVELAQR  903 (1189)
T ss_pred             hhchHHHHHHHHHhc---cCc------HHHHHHHHHHHHHHHHHHHHHh
Confidence            666666666655332   111      1233445555555555555443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.93  E-value=1.3e-05  Score=46.44  Aligned_cols=31  Identities=29%  Similarity=0.402  Sum_probs=28.1

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLDSGV  137 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~  137 (574)
                      ++|++|+++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4799999999999999999999999998774

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.90  E-value=0.00022  Score=69.09  Aligned_cols=124  Identities=15%  Similarity=0.214  Sum_probs=86.0

Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC--CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 043999          380 GQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEER--GITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYT  457 (574)
Q Consensus       380 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  457 (574)
                      +.+.+......+++.+....+.+.+..++.+....  ....-..|..+++..|.+.|..++++.+++.=...|+-||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            33446666677777777777777777777777654  2222334556777777777877888877777777777788888


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 043999          458 YGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKE  503 (574)
Q Consensus       458 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~  503 (574)
                      ++.|++.+.+.|++..|.++..+|...+...+..|+..-+.+|.+.
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            8888888888888888887777777665555666666656555544

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 [].

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.85  E-value=0.00094  Score=57.50  Aligned_cols=96  Identities=10%  Similarity=0.022  Sum_probs=76.5

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHH
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPR--SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGIL  181 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~--~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l  181 (574)
                      .....|..+...|.+.|++++|+..|++.++.+..+.  ...+..+...+.+.|++++|...+++.....+.+...+..+
T Consensus        33 ~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l  112 (172)
T PRK02603         33 KEAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNI  112 (172)
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHH
Confidence            4457789999999999999999999999987543332  45777888889999999999999999887767778888888


Q ss_pred             HHHHHhcCChhHHHHHHH
Q 043999          182 IKGCCEAGDLNKAFEVLN  199 (574)
Q Consensus       182 i~~~~~~g~~~~A~~~~~  199 (574)
                      ...+...|+...+..-++
T Consensus       113 g~~~~~~g~~~~a~~~~~  130 (172)
T PRK02603        113 AVIYHKRGEKAEEAGDQD  130 (172)
T ss_pred             HHHHHHcCChHhHhhCHH
Confidence            888888887655544433

>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=97.85  E-value=0.00036  Score=52.88  Aligned_cols=94  Identities=21%  Similarity=0.145  Sum_probs=56.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 043999          458 YGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQ  537 (574)
Q Consensus       458 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~  537 (574)
                      +..+...+...|++++|...++++.+.... +...+..+...+...|++++|.+.+++..+.. +.+..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPD-NADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            334455556666666666666666554221 33555566666666666777777766666542 2233455666666666


Q ss_pred             cCCHHHHHHHHHHHHH
Q 043999          538 DGKWPEAEVLLNQMLK  553 (574)
Q Consensus       538 ~g~~~~A~~~~~~m~~  553 (574)
                      .|++++|...+++..+
T Consensus        81 ~~~~~~a~~~~~~~~~   96 (100)
T cd00189          81 LGKYEEALEAYEKALE   96 (100)
T ss_pred             HHhHHHHHHHHHHHHc
Confidence            6777777776666653

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.84  E-value=0.00038  Score=67.50  Aligned_cols=125  Identities=12%  Similarity=0.177  Sum_probs=105.4

Q ss_pred             CCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHh
Q 043999          344 AGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSN--GQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEV  421 (574)
Q Consensus       344 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  421 (574)
                      .+.+.+......+++.+....+++.+..++.+....  ....-..|..++++.|.+.|..++++.+++.=...|+.||..
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~  139 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNF  139 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChh
Confidence            345667888888999998889999999999988765  222233456799999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 043999          422 TYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMK  468 (574)
Q Consensus       422 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  468 (574)
                      +++.|++.+.+.|++..|.++...|...+...+..++..-+.+|.+.
T Consensus       140 s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  140 SFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            99999999999999999999999998777667777776666666665

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 [].

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.82  E-value=0.00062  Score=54.45  Aligned_cols=98  Identities=14%  Similarity=0.026  Sum_probs=56.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--CCHHHHHHHH
Q 043999          457 TYGVLIHGLCMKGNMKEASKLFNSMWETKLE--PNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLV--PNIASYSSTI  532 (574)
Q Consensus       457 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p~~~~~~~l~  532 (574)
                      ++..+...+.+.|++++|.+.|+++.+....  .....+..+..++.+.|++++|.+.++++......  .....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            3444555566666666666666666654211  01234555666666667777777777666653111  1133455556


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc
Q 043999          533 GVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       533 ~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      .++.+.|+.++|.+.++++++.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            6666667777777777766654

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.81  E-value=4.7e-05  Score=56.52  Aligned_cols=81  Identities=12%  Similarity=0.177  Sum_probs=45.3

Q ss_pred             cCChHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 043999          119 SRLSDQALFYFHQMLDSGVR-PRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEV  197 (574)
Q Consensus       119 ~g~~~~A~~~~~~~~~~g~~-p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  197 (574)
                      +|+++.|+.+|+++.+.... |+...+-.+..++.+.|++++|..+++. ....+.+......+..++.+.|++++|+++
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            46677777777777765321 1333344456666677777777776666 222223334444556666666666666666


Q ss_pred             HHH
Q 043999          198 LNQ  200 (574)
Q Consensus       198 ~~~  200 (574)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            654

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.76  E-value=0.00049  Score=64.23  Aligned_cols=130  Identities=12%  Similarity=0.101  Sum_probs=82.2

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCChhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIK-SCSFDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      .+|..+++..-+.+..+.|+.+|.+.++.+ ..+...|-.....-.. .++.+.|.++|+.....++.+...|..-++.+
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            467788888888888888888888887543 1223333333333223 35555577777777777777777777777777


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCH---HhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 043999          186 CEAGDLNKAFEVLNQLEEMGFSPNV---VIYTSLIDGCCKNGDIERAKMLFRKIGE  238 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~g~~p~~---~~~~~li~~~~~~g~~~~A~~~~~~~~~  238 (574)
                      .+.|+.+.|+.+|++.... +.++.   ..|...+..=.+.|+++.+.++.+++.+
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            7777777777777777654 22222   3666666666667777777776666655

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.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.76  E-value=0.0014  Score=52.37  Aligned_cols=98  Identities=12%  Similarity=0.061  Sum_probs=60.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHH
Q 043999          422 TYTILIDSFVRSDDMEKAFEMYSLMQKSGF--SPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEP--NDVVYNMMI  497 (574)
Q Consensus       422 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p--~~~~~~~li  497 (574)
                      ++..+...+.+.|++++|.+.+..+.....  +.....+..+...+.+.|++++|.+.|+.+....+..  ....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            344555566667777777777777665421  0112345556667777777777777777776542221  244566666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHC
Q 043999          498 FGYCKEGNSYRALRLLGEMNEK  519 (574)
Q Consensus       498 ~~~~~~g~~~~A~~~~~~m~~~  519 (574)
                      .++.+.|+.++|.+.++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            6777777777777777777765

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.75  E-value=0.00082  Score=62.74  Aligned_cols=129  Identities=13%  Similarity=0.140  Sum_probs=60.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHH-HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 043999          387 TYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDS-FVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGL  465 (574)
Q Consensus       387 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~-~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  465 (574)
                      +|..+++..-+.+..+.|..+|.+..+.+ ..+..+|...... +...++.+.|.++|+...+. ++.+...|...++.+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            45555555555555555666665555322 1122233332222 22234444455555555543 344455555555555


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          466 CMKGNMKEASKLFNSMWETKLEPN---DVVYNMMIFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       466 ~~~g~~~~A~~~~~~~~~~~~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      .+.++.+.|..+|++.+.. +.++   ...|...+.-=.+.|+.+.+.++.+++.+
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5555555555555555543 1111   12455555555555555555555555555

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.75  E-value=0.00065  Score=58.25  Aligned_cols=81  Identities=10%  Similarity=0.049  Sum_probs=61.1

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRP--RSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIK  183 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p--~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  183 (574)
                      ...|..+...+...|++++|+..|++.+.....|  ...++..+...+.+.|++++|+..+++.....+....++..+..
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            4667888888888999999999999987653222  23467777788888888888888888877665556666777766


Q ss_pred             HHH
Q 043999          184 GCC  186 (574)
Q Consensus       184 ~~~  186 (574)
                      .+.
T Consensus       115 i~~  117 (168)
T CHL00033        115 ICH  117 (168)
T ss_pred             HHH
Confidence            666

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.73  E-value=0.0015  Score=56.22  Aligned_cols=87  Identities=17%  Similarity=0.123  Sum_probs=53.2

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 043999          421 VTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPD--VYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIF  498 (574)
Q Consensus       421 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~  498 (574)
                      ..+..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+++..+.... +...+..+..
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~  114 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHH
Confidence            3455566666777777777777777765432221  345666666777777777777777777664322 4555556666


Q ss_pred             HHHhcCCHHH
Q 043999          499 GYCKEGNSYR  508 (574)
Q Consensus       499 ~~~~~g~~~~  508 (574)
                      .+...|+...
T Consensus       115 ~~~~~g~~~~  124 (172)
T PRK02603        115 IYHKRGEKAE  124 (172)
T ss_pred             HHHHcCChHh
Confidence            6666665433

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.73  E-value=0.001  Score=64.44  Aligned_cols=103  Identities=17%  Similarity=0.064  Sum_probs=79.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 043999          426 LIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGN  505 (574)
Q Consensus       426 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  505 (574)
                      -...+...|++++|...|+++++.. +.+...|..+..+|.+.|++++|+..++++++.... +...|..+..+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~-~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELDPS-LAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhCC
Confidence            3455677889999999999988765 556777888888888999999999999998876432 67778888888889999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 043999          506 SYRALRLLGEMNEKGLVPNIASYSSTI  532 (574)
Q Consensus       506 ~~~A~~~~~~m~~~g~~p~~~~~~~l~  532 (574)
                      +++|+..|++.++.  .|+.......+
T Consensus        86 ~~eA~~~~~~al~l--~P~~~~~~~~l  110 (356)
T PLN03088         86 YQTAKAALEKGASL--APGDSRFTKLI  110 (356)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            99999999998884  55544443333

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.72  E-value=6.6e-05  Score=55.73  Aligned_cols=80  Identities=25%  Similarity=0.289  Sum_probs=48.4

Q ss_pred             cCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHH
Q 043999          468 KGNMKEASKLFNSMWETKLE-PNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVP-NIASYSSTIGVLCQDGKWPEAE  545 (574)
Q Consensus       468 ~g~~~~A~~~~~~~~~~~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~  545 (574)
                      .|+++.|+.+++++.+.... |+...+-.+..+|.+.|++++|++++++ .+.  .| +......+..++.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~--~~~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKL--DPSNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTH--HHCHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCC--CCCCHHHHHHHHHHHHHhCCHHHHH
Confidence            46677777777777765331 2344455567777777777777777776 221  22 2233334566777777777777


Q ss_pred             HHHHH
Q 043999          546 VLLNQ  550 (574)
Q Consensus       546 ~~~~~  550 (574)
                      +.+++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            77765

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.72  E-value=0.00085  Score=50.82  Aligned_cols=76  Identities=17%  Similarity=0.275  Sum_probs=49.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhcC--------CHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 043999          496 MIFGYCKEGNSYRALRLLGEMNEKGL-VPNIASYSSTIGVLCQDG--------KWPEAEVLLNQMLKLGLKPSVSLYNIL  566 (574)
Q Consensus       496 li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~l~~~~~~~g--------~~~~A~~~~~~m~~~g~~p~~~~~~~l  566 (574)
                      .|..+...|++.....+|+.+.+.|+ .|+..+|+.++.+.++..        +.-+.+.++++|+..+++|+..||+++
T Consensus        31 ~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYniv  110 (120)
T PF08579_consen   31 NINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIV  110 (120)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHH
Confidence            34444555666666666666666666 666666666666555432        334566777888877788888888887


Q ss_pred             Hhhhh
Q 043999          567 YRAKN  571 (574)
Q Consensus       567 ~~~~~  571 (574)
                      +....
T Consensus       111 l~~Ll  115 (120)
T PF08579_consen  111 LGSLL  115 (120)
T ss_pred             HHHHH
Confidence            77654

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 [, , ].

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.72  E-value=0.00049  Score=61.77  Aligned_cols=103  Identities=17%  Similarity=0.227  Sum_probs=83.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 043999          429 SFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYR  508 (574)
Q Consensus       429 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  508 (574)
                      -..+.+++++|+..|.+.++.. +.|.+-|..-..+|++.|.++.|++-.+..+..+.. -..+|..|..+|...|++++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~-yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPH-YSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChH-HHHHHHHHHHHHHccCcHHH
Confidence            3678899999999999998874 566777778888999999999999988888875322 36689999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 043999          509 ALRLLGEMNEKGLVPNIASYSSTIGVL  535 (574)
Q Consensus       509 A~~~~~~m~~~g~~p~~~~~~~l~~~~  535 (574)
                      |++.|++.++  +.|+..+|..-+...
T Consensus       168 A~~aykKaLe--ldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  168 AIEAYKKALE--LDPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHHHhhhc--cCCCcHHHHHHHHHH
Confidence            9999999988  678887776655443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.72  E-value=3.7e-05  Score=44.41  Aligned_cols=29  Identities=34%  Similarity=0.827  Sum_probs=15.1

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 043999          177 SFGILIKGCCEAGDLNKAFEVLNQLEEMG  205 (574)
Q Consensus       177 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g  205 (574)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555555555555555555555555443

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.70  E-value=0.013  Score=48.88  Aligned_cols=101  Identities=11%  Similarity=0.021  Sum_probs=42.9

Q ss_pred             CCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHH
Q 043999          418 PSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLE-PNDVVYNMM  496 (574)
Q Consensus       418 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-p~~~~~~~l  496 (574)
                      |+...-..|..+..+.|+..+|...|++...--+-.|....-.+.++....++..+|...++++.+..+. -++.+.-.+
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll~  166 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLLF  166 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHHH
Confidence            3333334444444444444444444444443333344444444444444444444444444444433110 011122233


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH
Q 043999          497 IFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       497 i~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      ...|...|++..|..-|+....
T Consensus       167 aR~laa~g~~a~Aesafe~a~~  188 (251)
T COG4700         167 ARTLAAQGKYADAESAFEVAIS  188 (251)
T ss_pred             HHHHHhcCCchhHHHHHHHHHH
Confidence            3444444444444444444444

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.69  E-value=0.0014  Score=63.53  Aligned_cols=93  Identities=8%  Similarity=-0.071  Sum_probs=78.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 043999          391 LIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGN  470 (574)
Q Consensus       391 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  470 (574)
                      -...+...|++++|+..|+++++... .+...|..+..+|.+.|++++|...++++++.. +.+...|..+..+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCC
Confidence            34567788999999999999988743 367778888889999999999999999998875 4567788888899999999


Q ss_pred             HHHHHHHHHHHHhCC
Q 043999          471 MKEASKLFNSMWETK  485 (574)
Q Consensus       471 ~~~A~~~~~~~~~~~  485 (574)
                      +++|+..|++.++..
T Consensus        86 ~~eA~~~~~~al~l~  100 (356)
T PLN03088         86 YQTAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHHHhC
Confidence            999999999998753

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.69  E-value=0.00064  Score=61.05  Aligned_cols=102  Identities=19%  Similarity=0.180  Sum_probs=85.5

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 043999          392 IRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNM  471 (574)
Q Consensus       392 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  471 (574)
                      .+-+.+.+++.+|+..|.+.++... -|.+-|..-..+|++.|.++.|++-.+..+... +-...+|..|..+|...|++
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI~l~P-~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAIELDP-TNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhcCC-CcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcH
Confidence            3457789999999999999999843 378888899999999999999999998888764 33457899999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHH
Q 043999          472 KEASKLFNSMWETKLEPNDVVYNMMI  497 (574)
Q Consensus       472 ~~A~~~~~~~~~~~~~p~~~~~~~li  497 (574)
                      ++|++.|++.++  +.|+..+|..=+
T Consensus       166 ~~A~~aykKaLe--ldP~Ne~~K~nL  189 (304)
T KOG0553|consen  166 EEAIEAYKKALE--LDPDNESYKSNL  189 (304)
T ss_pred             HHHHHHHHhhhc--cCCCcHHHHHHH
Confidence            999999999987  577766664433

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.68  E-value=0.013  Score=53.34  Aligned_cols=66  Identities=18%  Similarity=0.121  Sum_probs=39.1

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHH-h---HHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 043999          175 VYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVV-I---YTSLIDGCCKNGDIERAKMLFRKIGELGLV  242 (574)
Q Consensus       175 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~---~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  242 (574)
                      ...+-.....+.+.|++++|.+.|+++...-  |+.. .   .-.++.++.+.+++++|...+++..+..+.
T Consensus        32 ~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~y--P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~  101 (243)
T PRK10866         32 PSEIYATAQQKLQDGNWKQAITQLEALDNRY--PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPT  101 (243)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcC
Confidence            3333344555566777777777777776642  2221 1   134556667777777777777777665544

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.68  E-value=0.0025  Score=50.27  Aligned_cols=105  Identities=22%  Similarity=0.110  Sum_probs=64.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHH
Q 043999          461 LIHGLCMKGNMKEASKLFNSMWETKLEPN--DVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPN----IASYSSTIGV  534 (574)
Q Consensus       461 li~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~~~~~l~~~  534 (574)
                      +..++-..|+.++|+.+|++....|+...  ...+..+...+...|++++|..++++....  .|+    ......+..+
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~--~p~~~~~~~l~~f~Al~   84 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEE--FPDDELNAALRVFLALA   84 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCccccHHHHHHHHHH
Confidence            34455667777777777777777665543  335556667777777777777777777664  233    1222223346


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHhhhh
Q 043999          535 LCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRAKN  571 (574)
Q Consensus       535 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~  571 (574)
                      +...|+.++|..++-..+.    ++...|.-=|..|+
T Consensus        85 L~~~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   85 LYNLGRPKEALEWLLEALA----ETLPRYRRAIRFYA  117 (120)
T ss_pred             HHHCCCHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            6667777777777766552    34446666666654

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.68  E-value=0.016  Score=54.34  Aligned_cols=20  Identities=25%  Similarity=0.116  Sum_probs=10.7

Q ss_pred             HHHHhcCChhHHHHHHHHHH
Q 043999          183 KGCCEAGDLNKAFEVLNQLE  202 (574)
Q Consensus       183 ~~~~~~g~~~~A~~~~~~m~  202 (574)
                      ..|-..|++++|.+.|.+..
T Consensus        43 ~~fk~~~~~~~A~~ay~kAa   62 (282)
T PF14938_consen   43 NCFKLAKDWEKAAEAYEKAA   62 (282)
T ss_dssp             HHHHHTT-CHHHHHHHHHHH
T ss_pred             HHHHHHhccchhHHHHHHHH
Confidence            44555566666666665543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.68  E-value=0.0025  Score=50.31  Aligned_cols=108  Identities=14%  Similarity=0.078  Sum_probs=74.8

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChhHHHHHHHHcccCCCC---CHHHHHHHHHH
Q 043999          110 ESIIDAHLKSRLSDQALFYFHQMLDSGVRPR--SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVEL---DVYSFGILIKG  184 (574)
Q Consensus       110 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~--~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~~~~li~~  184 (574)
                      -.+..++-..|+.++|+.+|++.+..|....  ...+-.+.+.+...|++++|..++++.....|.   +......+..+
T Consensus         5 ~~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~   84 (120)
T PF12688_consen    5 YELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALA   84 (120)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHH
Confidence            3455677788999999999999999886543  334555667788889999999888887765443   34444445567


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHH
Q 043999          185 CCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCC  221 (574)
Q Consensus       185 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  221 (574)
                      +...|+.++|++.+-....    ++...|.--|..|.
T Consensus        85 L~~~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   85 LYNLGRPKEALEWLLEALA----ETLPRYRRAIRFYA  117 (120)
T ss_pred             HHHCCCHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            7778888888888766554    23335555554443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.68  E-value=0.008  Score=56.48  Aligned_cols=276  Identities=13%  Similarity=0.084  Sum_probs=127.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 043999          250 VLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEM  329 (574)
Q Consensus       250 ~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~  329 (574)
                      .....+.+..++.+|+..+...++.... +..-|..-+..+...|++++|.--.+.-.+.... ....+.-.-.++...+
T Consensus        54 ~~gn~~yk~k~Y~nal~~yt~Ai~~~pd-~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~-~~k~~~r~~~c~~a~~  131 (486)
T KOG0550|consen   54 EEGNAFYKQKTYGNALKNYTFAIDMCPD-NASYYSNRAATLMMLGRFEEALGDARQSVRLKDG-FSKGQLREGQCHLALS  131 (486)
T ss_pred             hhcchHHHHhhHHHHHHHHHHHHHhCcc-chhhhchhHHHHHHHHhHhhcccchhhheecCCC-ccccccchhhhhhhhH
Confidence            3456677777777788777777776422 3445555566666667777776555444333211 2223333334444444


Q ss_pred             CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHH-HHHHhcCChHHHHHH
Q 043999          330 RVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQ-SPSVVTYNVLI-RAFSKAGNSKMASDL  407 (574)
Q Consensus       330 ~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~-~~~~~~~~~li-~~~~~~g~~~~A~~~  407 (574)
                      ...+|...++.-.         .+           ....++..++....... +|...+|..+- .++.-.|+.++|.+.
T Consensus       132 ~~i~A~~~~~~~~---------~~-----------~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~e  191 (486)
T KOG0550|consen  132 DLIEAEEKLKSKQ---------AY-----------KAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSE  191 (486)
T ss_pred             HHHHHHHHhhhhh---------hh-----------HHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHH
Confidence            4445554444111         00           01111112222211111 12233333322 223445556666555


Q ss_pred             HHHHHHCCCCCCHhHHHHHHH--HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH-------------HHHHHhcCCHH
Q 043999          408 VREMEERGITPSEVTYTILID--SFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVL-------------IHGLCMKGNMK  472 (574)
Q Consensus       408 ~~~m~~~~~~p~~~~~~~li~--~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l-------------i~~~~~~g~~~  472 (574)
                      -....+.... +  .+...++  ++--.++.+.|...|++.++.  .|+...-..+             ..-..+.|++.
T Consensus       192 a~~ilkld~~-n--~~al~vrg~~~yy~~~~~ka~~hf~qal~l--dpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~  266 (486)
T KOG0550|consen  192 AIDILKLDAT-N--AEALYVRGLCLYYNDNADKAINHFQQALRL--DPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYR  266 (486)
T ss_pred             HHHHHhcccc-h--hHHHHhcccccccccchHHHHHHHhhhhcc--ChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchh
Confidence            5544443211 1  1222222  223345555666666555543  2333221111             12234566666


Q ss_pred             HHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHH
Q 043999          473 EASKLFNSMWET---KLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPN-IASYSSTIGVLCQDGKWPEAEVLL  548 (574)
Q Consensus       473 ~A~~~~~~~~~~---~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~  548 (574)
                      +|.+.+.+.+..   ..+|+...|.....+..+.|+..+|+.--++..+.  .|. ...|..-..++...++|++|.+-+
T Consensus       267 ~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i--D~syikall~ra~c~l~le~~e~AV~d~  344 (486)
T KOG0550|consen  267 KAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI--DSSYIKALLRRANCHLALEKWEEAVEDY  344 (486)
T ss_pred             HHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc--CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666653   22334445555555556666666666666666552  111 012222223333456666666666


Q ss_pred             HHHHHc
Q 043999          549 NQMLKL  554 (574)
Q Consensus       549 ~~m~~~  554 (574)
                      ++..+.
T Consensus       345 ~~a~q~  350 (486)
T KOG0550|consen  345 EKAMQL  350 (486)
T ss_pred             HHHHhh
Confidence            666543

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.67  E-value=0.0018  Score=53.01  Aligned_cols=87  Identities=11%  Similarity=0.030  Sum_probs=39.1

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 043999          430 FVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRA  509 (574)
Q Consensus       430 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  509 (574)
                      +...|++++|.++|+.+.... +.+..-|..|.-++-..|++++|+..|.......+. |+..+-.+..++...|+.+.|
T Consensus        45 ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~c~L~lG~~~~A  122 (157)
T PRK15363         45 LMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAECYLACDNVCYA  122 (157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHHHcCCHHHH
Confidence            344444444444444444432 223333444444444444444444444444443322 344444444444444444444


Q ss_pred             HHHHHHHHH
Q 043999          510 LRLLGEMNE  518 (574)
Q Consensus       510 ~~~~~~m~~  518 (574)
                      .+.|+..+.
T Consensus       123 ~~aF~~Ai~  131 (157)
T PRK15363        123 IKALKAVVR  131 (157)
T ss_pred             HHHHHHHHH
Confidence            444444443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.66  E-value=0.0039  Score=51.13  Aligned_cols=90  Identities=10%  Similarity=-0.097  Sum_probs=40.8

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 043999          391 LIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGN  470 (574)
Q Consensus       391 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  470 (574)
                      +...+...|++++|..+|+-+...... +..-|..|.-++-..|++++|+..|....... +.|+..+-.+..++...|+
T Consensus        41 ~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~lG~  118 (157)
T PRK15363         41 YAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLACDN  118 (157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcCC
Confidence            333344445555555555444443211 33334444444444455555555554444443 2344444444444555555


Q ss_pred             HHHHHHHHHHHH
Q 043999          471 MKEASKLFNSMW  482 (574)
Q Consensus       471 ~~~A~~~~~~~~  482 (574)
                      .+.|.+.|+..+
T Consensus       119 ~~~A~~aF~~Ai  130 (157)
T PRK15363        119 VCYAIKALKAVV  130 (157)
T ss_pred             HHHHHHHHHHHH
Confidence            555555544444

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.65  E-value=0.00077  Score=51.04  Aligned_cols=75  Identities=15%  Similarity=0.258  Sum_probs=39.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcC--------CHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 043999          287 IHEYCNEGKVSEGFKLFDEMRHREV-ACNVVTYNTLICGLCKEM--------RVQEAERLLDQMKMAGISPNVITYNKLI  357 (574)
Q Consensus       287 i~~~~~~g~~~~A~~~~~~m~~~~~-~~~~~~~~~li~~~~~~~--------~~~~A~~~~~~m~~~g~~~~~~~~~~li  357 (574)
                      |..+...+++...-.+|+.+++.|+ .|++.+|+.++.+.++..        ++-+.+.+|++|+..+++|+..+|+.++
T Consensus        32 I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl  111 (120)
T PF08579_consen   32 INSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVL  111 (120)
T ss_pred             HHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHH
Confidence            3334444555555555555555555 555555555555544322        2234455555565555666666666555


Q ss_pred             HHHH
Q 043999          358 DGFC  361 (574)
Q Consensus       358 ~~~~  361 (574)
                      ..+.
T Consensus       112 ~~Ll  115 (120)
T PF08579_consen  112 GSLL  115 (120)
T ss_pred             HHHH
Confidence            5543

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 [, , ].

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.64  E-value=0.0041  Score=63.12  Aligned_cols=143  Identities=16%  Similarity=0.119  Sum_probs=74.7

Q ss_pred             CCCCCHHHHHHHHHHHHhc--C---ChHHHHHHHHHHHHCCCCCC-HhHHHHHHHHHHhcC--------CHHHHHHHHHH
Q 043999          380 GQSPSVVTYNVLIRAFSKA--G---NSKMASDLVREMEERGITPS-EVTYTILIDSFVRSD--------DMEKAFEMYSL  445 (574)
Q Consensus       380 g~~~~~~~~~~li~~~~~~--g---~~~~A~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g--------~~~~A~~~~~~  445 (574)
                      ..+.+...|...+.+....  +   ....|..+|++..+.  .|+ ...+..+..++....        ++..+.+....
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            3456777777777764432  2   255777777777775  333 334444333332211        12223333333


Q ss_pred             HHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 043999          446 MQKS-GFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPN  524 (574)
Q Consensus       446 ~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  524 (574)
                      .... ..+.+...|.++.-.....|++++|...++++++.  .|+...|..+...+...|+.++|.+.+++...  +.|.
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~--L~P~  485 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYSTAFN--LRPG  485 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCC
Confidence            2221 12233455555544455556666666666666654  34555666666666666666666666666665  3444


Q ss_pred             HHHH
Q 043999          525 IASY  528 (574)
Q Consensus       525 ~~~~  528 (574)
                      ..+|
T Consensus       486 ~pt~  489 (517)
T PRK10153        486 ENTL  489 (517)
T ss_pred             CchH
Confidence            4443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.60  E-value=0.018  Score=54.15  Aligned_cols=153  Identities=14%  Similarity=0.004  Sum_probs=75.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHH--HHHhcCCHHHHHHHHHHHHHCCCCCCHHH-------------H
Q 043999          324 GLCKEMRVQEAERLLDQMKMAGISPNVITYNKLID--GFCDAGETDKAFRLFNQLKSNGQSPSVVT-------------Y  388 (574)
Q Consensus       324 ~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~--~~~~~g~~~~A~~~~~~~~~~g~~~~~~~-------------~  388 (574)
                      ++...|++++|.+.--..++.. ..+.  +..+++  ++.-.++.+.|...|++.+..+  |+...             +
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld-~~n~--~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~  252 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLD-ATNA--EALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVK  252 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhcc-cchh--HHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHH
Confidence            3344555555555555544432 1111  111221  2233455566666666555432  22211             1


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHC---CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH--HHHHHH
Q 043999          389 NVLIRAFSKAGNSKMASDLVREMEER---GITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYT--YGVLIH  463 (574)
Q Consensus       389 ~~li~~~~~~g~~~~A~~~~~~m~~~---~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~--~~~li~  463 (574)
                      ..-.+-..+.|++..|.+.+.+.+..   +..|+...|........+.|+.++|+.--+...+..   +..+  |..-..
T Consensus       253 k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD---~syikall~ra~  329 (486)
T KOG0550|consen  253 KERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID---SSYIKALLRRAN  329 (486)
T ss_pred             HhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC---HHHHHHHHHHHH
Confidence            11123345667777777777776643   233444555555556666777777776666665421   1122  222223


Q ss_pred             HHHhcCCHHHHHHHHHHHHhC
Q 043999          464 GLCMKGNMKEASKLFNSMWET  484 (574)
Q Consensus       464 ~~~~~g~~~~A~~~~~~~~~~  484 (574)
                      ++.-.++|++|.+-+++..+.
T Consensus       330 c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  330 CHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHhh
Confidence            344456677777766666654

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.59  E-value=0.075  Score=50.89  Aligned_cols=203  Identities=15%  Similarity=0.155  Sum_probs=101.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH-------HHHHHHh----cCChHHHHHHHHHHHHCCCCCC
Q 043999          351 ITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNV-------LIRAFSK----AGNSKMASDLVREMEERGITPS  419 (574)
Q Consensus       351 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~-------li~~~~~----~g~~~~A~~~~~~m~~~~~~p~  419 (574)
                      .++..++....+.++...|...+.-+...  .|+...-..       +-+..+.    .-+...=+.++++....++  |
T Consensus       299 ~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l--dp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~Di--D  374 (549)
T PF07079_consen  299 DRFGNLLSFKVKQVQTEEAKQYLALLKIL--DPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDI--D  374 (549)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHhc--CCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcc--c
Confidence            45566666666777777777766665543  233221111       1111110    1112233344444444332  2


Q ss_pred             Hh-HHHHHH---HHHHhcCC-HHHHHHHHHHHHHCCCCCCHHHHHHHHH----HHHh---cCCHHHHHHHHHHHHhCCCC
Q 043999          420 EV-TYTILI---DSFVRSDD-MEKAFEMYSLMQKSGFSPDVYTYGVLIH----GLCM---KGNMKEASKLFNSMWETKLE  487 (574)
Q Consensus       420 ~~-~~~~li---~~~~~~g~-~~~A~~~~~~~~~~~~~~~~~~~~~li~----~~~~---~g~~~~A~~~~~~~~~~~~~  487 (574)
                      .. ....|+   .-+.+.|. -++|.++++.+.+-. +-|...-|.+..    .|.+   ...+..-..+-+-+.+.|+.
T Consensus       375 rqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft-~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~  453 (549)
T PF07079_consen  375 RQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFT-NYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLT  453 (549)
T ss_pred             HHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCC
Confidence            11 111122   22344454 677777777776642 233333222211    1211   11233333333333445655


Q ss_pred             CC----HHHHHHHHHH--HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH
Q 043999          488 PN----DVVYNMMIFG--YCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVS  561 (574)
Q Consensus       488 p~----~~~~~~li~~--~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  561 (574)
                      |-    ...-|.|.++  +..+|++.++.-.-.-+.+  +.|++.+|..+.-++....++++|..++.++     .|+..
T Consensus       454 ~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~L-----P~n~~  526 (549)
T PF07079_consen  454 PITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKL-----PPNER  526 (549)
T ss_pred             cccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhC-----CCchh
Confidence            52    3344555544  4457788777765555555  6778888877777777778888888877765     45555


Q ss_pred             HHHH
Q 043999          562 LYNI  565 (574)
Q Consensus       562 ~~~~  565 (574)
                      +++.
T Consensus       527 ~~ds  530 (549)
T PF07079_consen  527 MRDS  530 (549)
T ss_pred             hHHH
Confidence            5543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.56  E-value=0.02  Score=52.14  Aligned_cols=56  Identities=7%  Similarity=0.039  Sum_probs=30.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          286 LIHEYCNEGKVSEGFKLFDEMRHRE--VACNVVTYNTLICGLCKEMRVQEAERLLDQM  341 (574)
Q Consensus       286 li~~~~~~g~~~~A~~~~~~m~~~~--~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m  341 (574)
                      +.+.|.+.|.+..|..-++.+.+.=  .+........++.+|.+.|..++|......+
T Consensus       181 ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        181 VAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            4455666666666666666665541  1222334445555666666666665555443

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.54  E-value=0.089  Score=50.29  Aligned_cols=443  Identities=14%  Similarity=0.133  Sum_probs=215.0

Q ss_pred             CCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHH
Q 043999          102 PVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGIL  181 (574)
Q Consensus       102 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l  181 (574)
                      -|.|..+|-.||.-|..+|.+++..+++++|... ++--..+|...+++-...+++.....+|.+.... ..+...|..-
T Consensus        38 NPtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~p-fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k-~l~ldLW~lY  115 (660)
T COG5107          38 NPTNILSYFQLIQYLETQESMDAEREMYEQLSSP-FPIMEHAWRLYMSGELARKDFRSVESLFGRCLKK-SLNLDLWMLY  115 (660)
T ss_pred             CchhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC-CccccHHHHHHhcchhhhhhHHHHHHHHHHHHhh-hccHhHHHHH
Confidence            3567899999999999999999999999999764 3334567888888887888899999999887765 3346666666


Q ss_pred             HHHHHhcCCh------hHHHHHHHHHHH-CCCCCCH-HhHHHHHHHH---HhcC------CHHHHHHHHHHHHhCCCCCC
Q 043999          182 IKGCCEAGDL------NKAFEVLNQLEE-MGFSPNV-VIYTSLIDGC---CKNG------DIERAKMLFRKIGELGLVAT  244 (574)
Q Consensus       182 i~~~~~~g~~------~~A~~~~~~m~~-~g~~p~~-~~~~~li~~~---~~~g------~~~~A~~~~~~~~~~~~~~~  244 (574)
                      +.--.+.+..      ....+.|+-... .++.|-. ..|+..+.-+   -..|      ++|...+.+.+++.-.+..-
T Consensus       116 l~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~ral~tP~~nl  195 (660)
T COG5107         116 LEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYMRALQTPMGNL  195 (660)
T ss_pred             HHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHcCccccH
Confidence            6544443311      112233433332 3444433 3444444332   2233      34455556666655322211


Q ss_pred             hhhHHHH------HHHHH-h------cCCHHHHHHHHHHHHH--CCCC----CCHhhHHH-----------HHHHHHhcC
Q 043999          245 QHTYTVL------ICGLF-K------NGLQKDGFEFYEKMQL--NGVS----PSLYTYNC-----------LIHEYCNEG  294 (574)
Q Consensus       245 ~~~~~~l------i~~~~-~------~g~~~~a~~~~~~~~~--~g~~----p~~~~~~~-----------li~~~~~~g  294 (574)
                      ...|+-.      ++-.. +      .--+..|...+++...  .|.+    .+..+++-           .|..-...|
T Consensus       196 eklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~WlNwIkwE~en~  275 (660)
T COG5107         196 EKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSNWLNWIKWEMENG  275 (660)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccchhhhHhhHhhcCC
Confidence            1122211      00000 0      0112233444444331  1221    11112221           111000000


Q ss_pred             -----C-HH-HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHH
Q 043999          295 -----K-VS-EGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETD  367 (574)
Q Consensus       295 -----~-~~-~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  367 (574)
                           + .. ...-++++.... +.-....|----..+...++-+.|++..+.-...  .|+..  -.+-..|.-..+-+
T Consensus       276 l~L~~~~~~qRi~y~~~q~~~y-~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~--spsL~--~~lse~yel~nd~e  350 (660)
T COG5107         276 LKLGGRPHEQRIHYIHNQILDY-FYYAEEVWFDYSEYLIGISDKQKALKTVERGIEM--SPSLT--MFLSEYYELVNDEE  350 (660)
T ss_pred             cccCCCcHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccC--CCchh--eeHHHHHhhcccHH
Confidence                 0 00 000011111100 0001112222222223344444555444332221  22211  11222333334444


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHh---cCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHH
Q 043999          368 KAFRLFNQLKSNGQSPSVVTYNVLIRAFSK---AGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYS  444 (574)
Q Consensus       368 ~A~~~~~~~~~~g~~~~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  444 (574)
                      .....|+...+.     ...-...+..-..   -|+++.-.+++-+-    ...-..+|...++...+..-++.|..+|-
T Consensus       351 ~v~~~fdk~~q~-----L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr----~~k~t~v~C~~~N~v~r~~Gl~aaR~~F~  421 (660)
T COG5107         351 AVYGCFDKCTQD-----LKRKYSMGESESASKVDNNFEYSKELLLKR----INKLTFVFCVHLNYVLRKRGLEAARKLFI  421 (660)
T ss_pred             HHhhhHHHHHHH-----HHHHHhhhhhhhhccccCCccccHHHHHHH----HhhhhhHHHHHHHHHHHHhhHHHHHHHHH
Confidence            444444433220     0000001110000   11121111111110    11123456677777777777788888888


Q ss_pred             HHHHCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 043999          445 LMQKSG-FSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVY-NMMIFGYCKEGNSYRALRLLGEMNEKGLV  522 (574)
Q Consensus       445 ~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~g~~  522 (574)
                      +..+.+ ..+++.++++++..++ .|+..-|.++|+--+..  -||...| +..+.-+..-++-+.|..+|+..+++ +.
T Consensus       422 k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~kyl~fLi~inde~naraLFetsv~r-~~  497 (660)
T COG5107         422 KLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYLLFLIRINDEENARALFETSVER-LE  497 (660)
T ss_pred             HHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHHH-HH
Confidence            887776 5677777777777555 45667777777765543  3343333 44555666777778888888866654 33


Q ss_pred             CC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 043999          523 PN--IASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNIL  566 (574)
Q Consensus       523 p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  566 (574)
                      .+  ...|..+|+--..-|+...+..+=++|.+.  -|-..+....
T Consensus       498 ~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF  541 (660)
T COG5107         498 KTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVF  541 (660)
T ss_pred             HhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHH
Confidence            33  467777777777778887777777777654  4444443333

>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=97.53  E-value=0.00035  Score=49.32  Aligned_cols=62  Identities=27%  Similarity=0.371  Sum_probs=34.5

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 043999          502 KEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNIL  566 (574)
Q Consensus       502 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  566 (574)
                      +.|++++|+++|+++.+.. +.+...+..+..+|.+.|++++|..+++++...  .|+...|..+
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l   64 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQL   64 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHH
Confidence            4566666666666665541 224455555666666666666666666666644  4554444443

...

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.52  E-value=0.0054  Score=62.26  Aligned_cols=63  Identities=14%  Similarity=0.131  Sum_probs=33.9

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043999          245 QHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHR  309 (574)
Q Consensus       245 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  309 (574)
                      ...|..+.-.....|++++|...+++....  .|+...|..+...+...|+.++|.+.+++....
T Consensus       420 ~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        420 PRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            344444444444455555555555555554  244555555555555556666665555555444

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.48  E-value=0.0029  Score=54.25  Aligned_cols=94  Identities=15%  Similarity=0.112  Sum_probs=52.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043999          456 YTYGVLIHGLCMKGNMKEASKLFNSMWETKLEP--NDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIG  533 (574)
Q Consensus       456 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  533 (574)
                      ..|..+...+...|++++|+..|++.+.....|  ...+|..+...+...|++++|+..+++..+.. +....++..+..
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~  114 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHH
Confidence            344555555666677777777777666542222  12356666666777777777777777766531 222344444444


Q ss_pred             HHH-------hcCCHHHHHHHHHH
Q 043999          534 VLC-------QDGKWPEAEVLLNQ  550 (574)
Q Consensus       534 ~~~-------~~g~~~~A~~~~~~  550 (574)
                      .+.       ..|++++|...+++
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHH
Confidence            444       66666655444443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.45  E-value=0.0016  Score=60.78  Aligned_cols=285  Identities=13%  Similarity=0.053  Sum_probs=142.0

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCh----hhHHHHHHHHHhcCCHHHHHHHHHHHH--HC--CC-CCCHhhHHHHHH
Q 043999          218 DGCCKNGDIERAKMLFRKIGELGLVATQ----HTYTVLICGLFKNGLQKDGFEFYEKMQ--LN--GV-SPSLYTYNCLIH  288 (574)
Q Consensus       218 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~~~--~~--g~-~p~~~~~~~li~  288 (574)
                      .-+|+.|+......+|+..++.|.. |.    ..|..|.++|.-.+++++|+++...=+  .+  |- .-...+...|.+
T Consensus        25 ERLck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGN  103 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGN  103 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccc
Confidence            3478888888888888888777644 32    335555566666677777776543211  00  00 001222233444


Q ss_pred             HHHhcCCHHHHHHHHHHH----HhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc
Q 043999          289 EYCNEGKVSEGFKLFDEM----RHREVA-CNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDA  363 (574)
Q Consensus       289 ~~~~~g~~~~A~~~~~~m----~~~~~~-~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~  363 (574)
                      .+--.|.+++|.-...+-    .+.|-. .....+..+...|...|+.-...    .-.+.|-.++.++           
T Consensus       104 tlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~----~pee~g~f~~ev~-----------  168 (639)
T KOG1130|consen  104 TLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLE----APEEKGAFNAEVT-----------  168 (639)
T ss_pred             hhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCC----ChhhcccccHHHH-----------
Confidence            444455666655433221    121110 01222333333443333210000    0000010111100           


Q ss_pred             CCHHHHHHHHHHHHH----CCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHH----HCCCC-CCHhHHHHHHHHHHhc
Q 043999          364 GETDKAFRLFNQLKS----NGQ-SPSVVTYNVLIRAFSKAGNSKMASDLVREME----ERGIT-PSEVTYTILIDSFVRS  433 (574)
Q Consensus       364 g~~~~A~~~~~~~~~----~g~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~----~~~~~-p~~~~~~~li~~~~~~  433 (574)
                      ..++.|.++|.+-.+    .|- -.-...|..|.+.|.-.|+++.|+...+.-.    +-|-. .....+..+.+++.-.
T Consensus       169 ~al~~Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hifl  248 (639)
T KOG1130|consen  169 SALENAVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFL  248 (639)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhh
Confidence            012333344332111    110 0112345555566666777777776654422    22211 1234566777778888


Q ss_pred             CCHHHHHHHHHHHH----HCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CCCCCHHHHHHHHHHHHhc
Q 043999          434 DDMEKAFEMYSLMQ----KSGF-SPDVYTYGVLIHGLCMKGNMKEASKLFNSMWET-----KLEPNDVVYNMMIFGYCKE  503 (574)
Q Consensus       434 g~~~~A~~~~~~~~----~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~~p~~~~~~~li~~~~~~  503 (574)
                      |+++.|.+.|+...    +.|- .....+..+|...|.-..++++|+.++.+-+..     +..-....+.+|..+|...
T Consensus       249 g~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~al  328 (639)
T KOG1130|consen  249 GNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNAL  328 (639)
T ss_pred             cccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh
Confidence            88888888777643    2221 223345667777777777788888777754321     1122456777888888888


Q ss_pred             CCHHHHHHHHHHHHH
Q 043999          504 GNSYRALRLLGEMNE  518 (574)
Q Consensus       504 g~~~~A~~~~~~m~~  518 (574)
                      |..++|+.+.+.-++
T Consensus       329 g~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  329 GEHRKALYFAELHLR  343 (639)
T ss_pred             hhHHHHHHHHHHHHH
Confidence            888888777666543

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.41  E-value=0.0042  Score=53.45  Aligned_cols=36  Identities=14%  Similarity=0.220  Sum_probs=27.4

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 043999          470 NMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGN  505 (574)
Q Consensus       470 ~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  505 (574)
                      +-+-|++++++|...|+-||..++..+++.+.+.+.
T Consensus       118 Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  118 QQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            345678888888888888888888888888865543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.40  E-value=0.003  Score=59.09  Aligned_cols=133  Identities=12%  Similarity=0.025  Sum_probs=95.3

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHH----HCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCCH
Q 043999          421 VTYTILIDSFVRSDDMEKAFEMYSLMQ----KSGFS-PDVYTYGVLIHGLCMKGNMKEASKLFNSMWET----KL-EPND  490 (574)
Q Consensus       421 ~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~-~p~~  490 (574)
                      ..|..|.+.|.-.|+++.|+...+.-.    +.|-. .....+..+..++.-.|+++.|.+.|+.....    |- ....
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            456777777888899999998776532    22321 12346778889999999999999998875432    21 2234


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          491 VVYNMMIFGYCKEGNSYRALRLLGEMNEK-----GLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       491 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      ...-+|.+.|.-..++++|+.++.+-+.-     ...-....+.++..++...|..++|..+.+.-++
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            45567888888888999999988764321     1112456788999999999999999998877764

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.40  E-value=0.0083  Score=56.30  Aligned_cols=27  Identities=15%  Similarity=0.161  Sum_probs=19.1

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHH
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQML  133 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~  133 (574)
                      ..|....+.|-..|++++|.+.|.+..
T Consensus        36 ~~y~~Aa~~fk~~~~~~~A~~ay~kAa   62 (282)
T PF14938_consen   36 DLYEKAANCFKLAKDWEKAAEAYEKAA   62 (282)
T ss_dssp             HHHHHHHHHHHHTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccchhHHHHHHHH
Confidence            457777777777788888877777764

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.40  E-value=0.19  Score=50.79  Aligned_cols=155  Identities=12%  Similarity=0.008  Sum_probs=74.0

Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 043999          189 GDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGEL-GLVATQHTYTVLICGLFKNGLQKDGFEF  267 (574)
Q Consensus       189 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~  267 (574)
                      |++++|.+++-+|.++.         ..|..+.+.||+-...++++.-... +-..-..+|+.+...+.....+++|.++
T Consensus       748 g~feeaek~yld~drrD---------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~y  818 (1189)
T KOG2041|consen  748 GEFEEAEKLYLDADRRD---------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKY  818 (1189)
T ss_pred             cchhHhhhhhhccchhh---------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666665554421         2344555566665555554321100 0001133555555555555556666555


Q ss_pred             HHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 043999          268 YEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGIS  347 (574)
Q Consensus       268 ~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~  347 (574)
                      |..-..         -...+.+|.+...+++-+.+-..+     +-+....-.+...+.+.|.-++|.+.|-+-   + .
T Consensus       819 Y~~~~~---------~e~~~ecly~le~f~~LE~la~~L-----pe~s~llp~~a~mf~svGMC~qAV~a~Lr~---s-~  880 (1189)
T KOG2041|consen  819 YSYCGD---------TENQIECLYRLELFGELEVLARTL-----PEDSELLPVMADMFTSVGMCDQAVEAYLRR---S-L  880 (1189)
T ss_pred             HHhccc---------hHhHHHHHHHHHhhhhHHHHHHhc-----CcccchHHHHHHHHHhhchHHHHHHHHHhc---c-C
Confidence            544221         112344444444444433333222     224444555666677777777776665332   1 1


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          348 PNVITYNKLIDGFCDAGETDKAFRLFNQ  375 (574)
Q Consensus       348 ~~~~~~~~li~~~~~~g~~~~A~~~~~~  375 (574)
                      |.     .-+..|...+++.+|.++-+.
T Consensus       881 pk-----aAv~tCv~LnQW~~avelaq~  903 (1189)
T KOG2041|consen  881 PK-----AAVHTCVELNQWGEAVELAQR  903 (1189)
T ss_pred             cH-----HHHHHHHHHHHHHHHHHHHHh
Confidence            11     233445555666666655443

>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=97.38  E-value=0.00045  Score=48.76  Aligned_cols=49  Identities=12%  Similarity=0.062  Sum_probs=18.6

Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcc
Q 043999          119 SRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENR  168 (574)
Q Consensus       119 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~  168 (574)
                      .|++++|++.|+++.+.. +-+...+..+..++.+.|++++|..+++++.
T Consensus         4 ~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~   52 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLL   52 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCH
T ss_pred             ccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344444444444444332 1133333333344444444444444444433

...

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.37  E-value=0.0011  Score=46.31  Aligned_cols=57  Identities=18%  Similarity=0.232  Sum_probs=31.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043999          497 IFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       497 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      ...+...|++++|.+.|+++++.. +-+...+..+..++.+.|++++|..+++++++.
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344555566666666666666542 223455555555666666666666666666543

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.34  E-value=0.0049  Score=53.04  Aligned_cols=103  Identities=21%  Similarity=0.325  Sum_probs=57.4

Q ss_pred             CHHHHHHHHHHHHh-----cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 043999          314 NVVTYNTLICGLCK-----EMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTY  388 (574)
Q Consensus       314 ~~~~~~~li~~~~~-----~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~  388 (574)
                      +..+|..++..|.+     .|.++=....+..|.+.|+.-|..+|+.|++.+=+ |.+- -..+|+.+            
T Consensus        46 ~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~------------  111 (228)
T PF06239_consen   46 DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAE------------  111 (228)
T ss_pred             cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHH------------
Confidence            45555555555543     45566666666777777777777777777776654 2211 01111111            


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCC
Q 043999          389 NVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDD  435 (574)
Q Consensus       389 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  435 (574)
                         ..-|  -.+-+-|++++++|...|+-||..++..+++.+.+.+.
T Consensus       112 ---F~hy--p~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  112 ---FMHY--PRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             ---hccC--cHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence               1001  12334566777777777777777777777777755443

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.30  E-value=0.013  Score=53.26  Aligned_cols=119  Identities=14%  Similarity=0.120  Sum_probs=87.2

Q ss_pred             HHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhc---CCHHHHHHHHHHHHhCCC
Q 043999          165 SENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKN---GDIERAKMLFRKIGELGL  241 (574)
Q Consensus       165 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~---g~~~~A~~~~~~~~~~~~  241 (574)
                      +.-....|.|...|-.|...|...|+++.|...|.+..+.. .+|...+..+..++...   .+..++..+|+++...+.
T Consensus       146 e~~L~~nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~  224 (287)
T COG4235         146 ETHLQQNPGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDP  224 (287)
T ss_pred             HHHHHhCCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCC
Confidence            33333457889999999999999999999999999888753 24666666666665543   245688888998888765


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHH
Q 043999          242 VATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLI  287 (574)
Q Consensus       242 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li  287 (574)
                      . ++.+...|...+...|++.+|...|+.|++..  |....+..+|
T Consensus       225 ~-~iral~lLA~~afe~g~~~~A~~~Wq~lL~~l--p~~~~rr~~i  267 (287)
T COG4235         225 A-NIRALSLLAFAAFEQGDYAEAAAAWQMLLDLL--PADDPRRSLI  267 (287)
T ss_pred             c-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC--CCCCchHHHH
Confidence            4 67777778888888899999999988888763  3333444444

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.30  E-value=0.0011  Score=46.29  Aligned_cols=52  Identities=10%  Similarity=0.098  Sum_probs=22.5

Q ss_pred             HHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHH
Q 043999          151 VIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLE  202 (574)
Q Consensus       151 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  202 (574)
                      +.+.|++++|.+.|+++....|.+...+..+..++.+.|++++|...|+++.
T Consensus         7 ~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    7 LYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3344444444444444444433344444444444444444444444444443

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.29  E-value=0.019  Score=52.23  Aligned_cols=100  Identities=15%  Similarity=0.098  Sum_probs=46.3

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCCCHHHH
Q 043999          452 SPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEG---NSYRALRLLGEMNEKGLVPNIASY  528 (574)
Q Consensus       452 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~g~~p~~~~~  528 (574)
                      +-|...|-.|...|...|+++.|..-|.+..+... +++..+..+..++....   ...++.++|++++..+ +-|..+.
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g-~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAG-DNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHH
Confidence            34445555555555555555555555555544321 13444444444433221   2334555555555432 1133334


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          529 SSTIGVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       529 ~~l~~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      ..+...+...|++.+|...|+.|++
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~  255 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLD  255 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHh
Confidence            4444455555555555555555553

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.27  E-value=0.18  Score=47.83  Aligned_cols=79  Identities=18%  Similarity=0.230  Sum_probs=35.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 043999          427 IDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNS  506 (574)
Q Consensus       427 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  506 (574)
                      +.-+...|+...|.++-.+..    .||...|...+.+++..++|++-.++-..      +-.+.-|...+.+|.+.|+.
T Consensus       184 i~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~  253 (319)
T PF04840_consen  184 IRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNK  253 (319)
T ss_pred             HHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCH
Confidence            333444444444444433332    34444455555555555555544443221      11224444555555555555


Q ss_pred             HHHHHHHHH
Q 043999          507 YRALRLLGE  515 (574)
Q Consensus       507 ~~A~~~~~~  515 (574)
                      .+|..+..+
T Consensus       254 ~eA~~yI~k  262 (319)
T PF04840_consen  254 KEASKYIPK  262 (319)
T ss_pred             HHHHHHHHh
Confidence            555544443

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

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.26  E-value=0.2  Score=48.17  Aligned_cols=243  Identities=14%  Similarity=0.219  Sum_probs=141.8

Q ss_pred             CCCCHh-hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh
Q 043999          276 VSPSLY-TYNCLIHEYCNEGKVSEGFKLFDEMRHREVAC----NVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNV  350 (574)
Q Consensus       276 ~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~----~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~  350 (574)
                      +.|+-. ....+...+.+  +.+++..+.+.+....+.+    =..+|..++....+.++...|.+.+.-+...  .|+.
T Consensus       256 v~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l--dp~~  331 (549)
T PF07079_consen  256 VHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKIL--DPRI  331 (549)
T ss_pred             cCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc--CCcc
Confidence            445433 22334444433  5555555555543332111    3567888888999999999999998887654  3443


Q ss_pred             hhH-------HHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHH---HHHHhcCC-hHHHHHHHHHHHHCC
Q 043999          351 ITY-------NKLIDGFCD----AGETDKAFRLFNQLKSNGQSPSVVTYNVLI---RAFSKAGN-SKMASDLVREMEERG  415 (574)
Q Consensus       351 ~~~-------~~li~~~~~----~g~~~~A~~~~~~~~~~g~~~~~~~~~~li---~~~~~~g~-~~~A~~~~~~m~~~~  415 (574)
                      ..-       ..+-+..+.    .-+..+=+.+|+.....++... ..-..|+   .-+-+.|. -++|+.+++...+-.
T Consensus       332 svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDrq-QLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft  410 (549)
T PF07079_consen  332 SVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDRQ-QLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFT  410 (549)
T ss_pred             hhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccHH-HHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhc
Confidence            321       233344441    1223344556666665533311 1112222   23445555 788999999887642


Q ss_pred             CCCCHhHHHHH----HHHHH---hcCCHHHHHHHHHHHHHCCCCCCHH----HHHHHHHH--HHhcCCHHHHHHHHHHHH
Q 043999          416 ITPSEVTYTIL----IDSFV---RSDDMEKAFEMYSLMQKSGFSPDVY----TYGVLIHG--LCMKGNMKEASKLFNSMW  482 (574)
Q Consensus       416 ~~p~~~~~~~l----i~~~~---~~g~~~~A~~~~~~~~~~~~~~~~~----~~~~li~~--~~~~g~~~~A~~~~~~~~  482 (574)
                       .-|...-+.+    =..|.   ....+..-..+-+.+.+.|++|-..    .-|.|.++  +...|++.++.-.-.=..
T Consensus       411 -~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~  489 (549)
T PF07079_consen  411 -NYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLT  489 (549)
T ss_pred             -cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence             1133222222    22232   2234555555656667788777543    33444433  457899998876544443


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 043999          483 ETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSST  531 (574)
Q Consensus       483 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  531 (574)
                      +  +.|++.+|..++-++....++++|..++..     ++|+..++++-
T Consensus       490 ~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~-----LP~n~~~~dsk  531 (549)
T PF07079_consen  490 K--IAPSPQAYRLLGLCLMENKRYQEAWEYLQK-----LPPNERMRDSK  531 (549)
T ss_pred             H--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHh-----CCCchhhHHHH
Confidence            3  689999999999999999999999999876     56777776553

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.24  E-value=0.088  Score=46.59  Aligned_cols=62  Identities=18%  Similarity=0.105  Sum_probs=34.4

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCC--CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 043999          179 GILIKGCCEAGDLNKAFEVLNQLEEMGFS--PNVVIYTSLIDGCCKNGDIERAKMLFRKIGELG  240 (574)
Q Consensus       179 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  240 (574)
                      -.....+...|++++|.+.|+.+...-..  --....-.++.++.+.|++++|...+++..+..
T Consensus         9 Y~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~y   72 (203)
T PF13525_consen    9 YQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLY   72 (203)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            33445556667777777777776654211  112344456666667777777777777766544

>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=97.24  E-value=0.0015  Score=46.17  Aligned_cols=63  Identities=17%  Similarity=0.130  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q 043999          490 DVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDG-KWPEAEVLLNQMLK  553 (574)
Q Consensus       490 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g-~~~~A~~~~~~m~~  553 (574)
                      ..+|..+...+...|++++|+..|++.++.+ +.+...|..+..++.+.| ++++|.+.+++.++
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            3445555555555555555555555555531 123344555555555555 45555555555543

...

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.23  E-value=0.2  Score=47.50  Aligned_cols=111  Identities=17%  Similarity=0.206  Sum_probs=83.5

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 043999          281 YTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGF  360 (574)
Q Consensus       281 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~  360 (574)
                      .+.+..+.-+...|+...|.++-.+.   .+ ||..-|...+.+++..+++++-.++...      +-++.-|..++..+
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~F---kv-~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~  247 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEF---KV-PDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEAC  247 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHc---CC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHH
Confidence            35556677777889888888876654   33 4888899999999999999887775432      22457788899999


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 043999          361 CDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREM  411 (574)
Q Consensus       361 ~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  411 (574)
                      .+.|+..+|..+...+          .+..-+..|.+.|++.+|.+.-.+.
T Consensus       248 ~~~~~~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  248 LKYGNKKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HHCCCHHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHHHHc
Confidence            9999999999888662          1245677888999999987765443

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.21  E-value=0.0019  Score=45.63  Aligned_cols=64  Identities=19%  Similarity=0.190  Sum_probs=57.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q 043999          454 DVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEG-NSYRALRLLGEMNE  518 (574)
Q Consensus       454 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~  518 (574)
                      +..+|..+...+...|++++|+..|++.++.... +...|..+..+|...| ++++|++.+++.++
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~-~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPN-NAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            4678889999999999999999999999997543 6888999999999999 79999999999887

...

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=97.20  E-value=0.3  Score=48.86  Aligned_cols=411  Identities=12%  Similarity=0.093  Sum_probs=209.3

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHH
Q 043999          105 KSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSN-TFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIK  183 (574)
Q Consensus       105 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  183 (574)
                      +...|++||..--...+.+.+..++..++..  -|..+ -|.....--.+.|..+.+.++|++....++-.+..|.....
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~aip~SvdlW~~Y~~  121 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQAIPLSVDLWLSYLA  121 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            4456888887766666677778888888754  34433 35555555668899999999999998888888888887776


Q ss_pred             HHHh-cCChhHHHHHHHHHHHC-CCC-CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh---
Q 043999          184 GCCE-AGDLNKAFEVLNQLEEM-GFS-PNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFK---  257 (574)
Q Consensus       184 ~~~~-~g~~~~A~~~~~~m~~~-g~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~---  257 (574)
                      .++. .|+.+...+.|+..... |.. -....|...|.---.++++.....+++++++..    ...++....-|.+   
T Consensus       122 f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRileiP----~~~~~~~f~~f~~~l~  197 (577)
T KOG1258|consen  122 FLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEIP----LHQLNRHFDRFKQLLN  197 (577)
T ss_pred             HHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhhh----hhHhHHHHHHHHHHHh
Confidence            6654 57777888888887753 321 134567778887788899999999999988742    2223332222221   


Q ss_pred             c------CCHHHHHHHHHHHHHC---C-CCCCHhhHHHHHHHHHh-cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 043999          258 N------GLQKDGFEFYEKMQLN---G-VSPSLYTYNCLIHEYCN-EGKVSEGFKLFDEMRHREVACNVVTYNTLICGLC  326 (574)
Q Consensus       258 ~------g~~~~a~~~~~~~~~~---g-~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  326 (574)
                      .      ...+++.++-......   + ..+.......-++--.. .+..+++.....+....           .-..+-
T Consensus       198 ~~~~~~l~~~d~~~~l~~~~~~~~~~~~~~~~~e~~~~~v~~~~~~s~~l~~~~~~l~~~~~~-----------~~~~~~  266 (577)
T KOG1258|consen  198 QNEEKILLSIDELIQLRSDVAERSKITHSQEPLEELEIGVKDSTDPSKSLTEEKTILKRIVSI-----------HEKVYQ  266 (577)
T ss_pred             cCChhhhcCHHHHHHHhhhHHhhhhcccccChhHHHHHHHhhccCccchhhHHHHHHHHHHHH-----------HHHHHH
Confidence            1      1122222222111110   0 00011111111110000 01111111111111000           001111


Q ss_pred             hcCCHHHHHHHHHHHHHCC-------CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 043999          327 KEMRVQEAERLLDQMKMAG-------ISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAG  399 (574)
Q Consensus       327 ~~~~~~~A~~~~~~m~~~g-------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g  399 (574)
                      ......+....|+.-++..       .+++..+|...++.-.+.|+.+.+.-.|+...-- +..=...|-..+.-....|
T Consensus       267 ~s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~  345 (577)
T KOG1258|consen  267 KSEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSG  345 (577)
T ss_pred             hhHhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcC
Confidence            1222222233333322211       1233456666666777777777777777766431 1111223333344444447


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHhHHHHHHHHH-HhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHH--
Q 043999          400 NSKMASDLVREMEERGITPSEVTYTILIDSF-VRSDDMEKAFEMYSLMQKSGFSPDV-YTYGVLIHGLCMKGNMKEAS--  475 (574)
Q Consensus       400 ~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~-~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~--  475 (574)
                      +.+-|..++....+--.+ +......+-..+ -..|++..|..+++.+...-  |.. ..-..-+....+.|+.+.+.  
T Consensus       346 ~~~~~~~~~~~~~~i~~k-~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~~~  422 (577)
T KOG1258|consen  346 DVSLANNVLARACKIHVK-KTPIIHLLEARFEESNGNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDANYK  422 (577)
T ss_pred             chhHHHHHHHhhhhhcCC-CCcHHHHHHHHHHHhhccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhhHH
Confidence            777666666555443222 222222222222 33467777777777776542  332 22233344555666666666  


Q ss_pred             -HHHHHHHhCCCCCCHHHHHHHHHH-----HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 043999          476 -KLFNSMWETKLEPNDVVYNMMIFG-----YCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDG  539 (574)
Q Consensus       476 -~~~~~~~~~~~~p~~~~~~~li~~-----~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g  539 (574)
                       +++........  +......+.--     +.-.++.+.|..++.++.+. .+++...|..+++.+...+
T Consensus       423 ~~l~s~~~~~~~--~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  423 NELYSSIYEGKE--NNGILEKLYVKFARLRYKIREDADLARIILLEANDI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHHHHHhccccc--CcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCC
Confidence             33333222111  21222222211     22356777777777777775 5556666777776665544

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.13  E-value=0.12  Score=43.22  Aligned_cols=64  Identities=11%  Similarity=0.034  Sum_probs=29.0

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHcccC-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 043999          140 RSNTFNSLLIFVIKSCSFDKGWLFFSENRCK-VELDVYSFGILIKGCCEAGDLNKAFEVLNQLEE  203 (574)
Q Consensus       140 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  203 (574)
                      ++.---.|...+...|+..||...|++.... +..|....-.+.++....+++..|...++.+.+
T Consensus        88 Tvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e  152 (251)
T COG4700          88 TVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLME  152 (251)
T ss_pred             hHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhh
Confidence            3333333444444444444444444444444 344444444444444444444444444444443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.08  E-value=0.024  Score=52.09  Aligned_cols=96  Identities=11%  Similarity=0.069  Sum_probs=51.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHH
Q 043999          458 YGVLIHGLCMKGNMKEASKLFNSMWETKLEPN--DVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPN---IASYSSTI  532 (574)
Q Consensus       458 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~l~  532 (574)
                      |...+..+.+.|++++|...|+.+++..+...  ...+-.+...|...|++++|...|+.+.+. .+.+   ...+..+.
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~-yP~s~~~~dAl~klg  224 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKN-YPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-CCCCcchhHHHHHHH
Confidence            33333333445666666666666665422211  234555666666666666666666666653 1111   23333444


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc
Q 043999          533 GVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       533 ~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      ..+...|+.++|..++++.++.
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            5555666666666666666654

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.06  E-value=0.28  Score=46.17  Aligned_cols=291  Identities=13%  Similarity=0.100  Sum_probs=159.2

Q ss_pred             HHHHHHHHHHh--cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH--HhcCChhHHHHHHHHcccCCCCCHHHHHHHHH
Q 043999          108 LYESIIDAHLK--SRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFV--IKSCSFDKGWLFFSENRCKVELDVYSFGILIK  183 (574)
Q Consensus       108 ~~~~li~~~~~--~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~--~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  183 (574)
                      -|.+|-.++..  .|+-..|.++-.+..+. +..|....-.|+.+.  .-.|++++|.+-|+.|..    |..+-..=++
T Consensus        84 gyqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~----dPEtRllGLR  158 (531)
T COG3898          84 GYQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD----DPETRLLGLR  158 (531)
T ss_pred             HHHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc----ChHHHHHhHH
Confidence            46666655554  46777777776665432 334555555565443  356888889888888876    4444333333


Q ss_pred             HH----HhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCChh--hHHHHHHHHH
Q 043999          184 GC----CEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELG-LVATQH--TYTVLICGLF  256 (574)
Q Consensus       184 ~~----~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~--~~~~li~~~~  256 (574)
                      ++    -+.|+.+.|...-++.-+.- +.-...+...+...|..|+++.|+++.+.-.... +.++..  .-..|+.+-.
T Consensus       159 gLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA  237 (531)
T COG3898         159 GLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKA  237 (531)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHH
Confidence            33    35688888888877766542 1134577788888888888888888887654432 222322  1122222111


Q ss_pred             ---hcCCHHHHHHHHHHHHHCCCCCCHhhH-HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 043999          257 ---KNGLQKDGFEFYEKMQLNGVSPSLYTY-NCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQ  332 (574)
Q Consensus       257 ---~~g~~~~a~~~~~~~~~~g~~p~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~  332 (574)
                         -..+...|.+.-.+..+  +.||..-- ..-...+.+.|++.++-.+++.+-+..+.|+..    .+..+.+.|+. 
T Consensus       238 ~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia----~lY~~ar~gdt-  310 (531)
T COG3898         238 MSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIA----LLYVRARSGDT-  310 (531)
T ss_pred             HHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHH----HHHHHhcCCCc-
Confidence               12234444444444433  24554322 233456777777777777777777765554431    22223344442 


Q ss_pred             HHHHHHHHHHHC-CCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-hcCChHHHHHHHH
Q 043999          333 EAERLLDQMKMA-GISP-NVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFS-KAGNSKMASDLVR  409 (574)
Q Consensus       333 ~A~~~~~~m~~~-g~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~-~~g~~~~A~~~~~  409 (574)
                       ++.-+++..+. ..+| +....-.+..+-...|++..|..--+.....  .|....|..|.+.-. ..|+-.++...+.
T Consensus       311 -a~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~--~pres~~lLlAdIeeAetGDqg~vR~wlA  387 (531)
T COG3898         311 -ALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAARE--APRESAYLLLADIEEAETGDQGKVRQWLA  387 (531)
T ss_pred             -HHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhh--CchhhHHHHHHHHHhhccCchHHHHHHHH
Confidence             22222221110 1122 3444455556666667776666555555443  455555555554432 3466666666666


Q ss_pred             HHHHC
Q 043999          410 EMEER  414 (574)
Q Consensus       410 ~m~~~  414 (574)
                      +..+.
T Consensus       388 qav~A  392 (531)
T COG3898         388 QAVKA  392 (531)
T ss_pred             HHhcC
Confidence            66554

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.98  E-value=0.37  Score=46.28  Aligned_cols=408  Identities=11%  Similarity=0.034  Sum_probs=215.7

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhH--H----HHHHHHcccC---CCCCHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDK--G----WLFFSENRCK---VELDVY  176 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~--A----~~~~~~~~~~---~~~~~~  176 (574)
                      +.+|..-+.+=....++.....+|.+.+...  .+...|...+.-..+.+..-+  +    .+.|+-....   .+....
T Consensus        76 ~~aw~ly~s~ELA~~df~svE~lf~rCL~k~--l~ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~  153 (660)
T COG5107          76 EHAWRLYMSGELARKDFRSVESLFGRCLKKS--LNLDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSEN  153 (660)
T ss_pred             cHHHHHHhcchhhhhhHHHHHHHHHHHHhhh--ccHhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccc
Confidence            4678888988888899999999999998764  356677777766555443221  1    1223322221   334455


Q ss_pred             HHHHHHHHHHh---cC------ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHh---------cC----CHHHHHHHHH
Q 043999          177 SFGILIKGCCE---AG------DLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCK---------NG----DIERAKMLFR  234 (574)
Q Consensus       177 ~~~~li~~~~~---~g------~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~---------~g----~~~~A~~~~~  234 (574)
                      .|+..+..+-.   .|      ++|..++.+.+|+...+..=...|+-.-.--..         .|    -+-.|.+.++
T Consensus       154 ~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~ral~tP~~nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yq  233 (660)
T COG5107         154 YWDEYGLFLEYIEELGKWEEQQRIDKIRNGYMRALQTPMGNLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQ  233 (660)
T ss_pred             hHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHcCccccHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHH
Confidence            66666655432   23      455666677777654222112233321111000         01    1334555555


Q ss_pred             HHHh--CCCCC----ChhhHHH-----------HHHHHHhcC-----C-HHHHH-HHHHHHHHCCCCCCHhhHHHHHHHH
Q 043999          235 KIGE--LGLVA----TQHTYTV-----------LICGLFKNG-----L-QKDGF-EFYEKMQLNGVSPSLYTYNCLIHEY  290 (574)
Q Consensus       235 ~~~~--~~~~~----~~~~~~~-----------li~~~~~~g-----~-~~~a~-~~~~~~~~~g~~p~~~~~~~li~~~  290 (574)
                      ++..  .|+..    +..+++-           .|..-...|     + ..+-+ -+++..... +.-....|.---..+
T Consensus       234 e~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~WlNwIkwE~en~l~L~~~~~~qRi~y~~~q~~~y-~~~~~evw~dys~Y~  312 (660)
T COG5107         234 EIQNLTRGLSVKNPINLRTANKAARTSDSNWLNWIKWEMENGLKLGGRPHEQRIHYIHNQILDY-FYYAEEVWFDYSEYL  312 (660)
T ss_pred             HHHHHhccccccCchhhhhhccccccccchhhhHhhHhhcCCcccCCCcHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHH
Confidence            5432  23211    1112221           111111110     0 00000 011111110 011122222222333


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH---hcCCHH
Q 043999          291 CNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFC---DAGETD  367 (574)
Q Consensus       291 ~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~---~~g~~~  367 (574)
                      ...++-..|++....    |.+..+..--.+...|.-.++-++....|+.....     ...--..+..-+   ..|+++
T Consensus       313 ~~isd~q~al~tv~r----g~~~spsL~~~lse~yel~nd~e~v~~~fdk~~q~-----L~r~ys~~~s~~~s~~D~N~e  383 (660)
T COG5107         313 IGISDKQKALKTVER----GIEMSPSLTMFLSEYYELVNDEEAVYGCFDKCTQD-----LKRKYSMGESESASKVDNNFE  383 (660)
T ss_pred             hhccHHHHHHHHHHh----cccCCCchheeHHHHHhhcccHHHHhhhHHHHHHH-----HHHHHhhhhhhhhccccCCcc
Confidence            445555666555433    33322222222333444455555555556554321     000000011000   123332


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          368 KAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERG-ITPSEVTYTILIDSFVRSDDMEKAFEMYSLM  446 (574)
Q Consensus       368 ~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  446 (574)
                      ..-+++-+-.    ..-...|...++.-.+..-.+.|..+|-+..+.+ +.+++..+++++..++ .|+...|..+|+.-
T Consensus       384 ~~~Ell~kr~----~k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelG  458 (660)
T COG5107         384 YSKELLLKRI----NKLTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELG  458 (660)
T ss_pred             ccHHHHHHHH----hhhhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHH
Confidence            2222221111    1235667888888888888999999999999888 6678888999998665 57788899999876


Q ss_pred             HHCCCCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 043999          447 QKSGFSPDVYT-YGVLIHGLCMKGNMKEASKLFNSMWETKLEPN--DVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVP  523 (574)
Q Consensus       447 ~~~~~~~~~~~-~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  523 (574)
                      ..+  -||... -+..+.-+...++-+.|..+|+..+.+ +..+  ...|..+|.--..-|+...+..+-++|.+  ..|
T Consensus       459 l~~--f~d~~~y~~kyl~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e--~~p  533 (660)
T COG5107         459 LLK--FPDSTLYKEKYLLFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE--LVP  533 (660)
T ss_pred             HHh--CCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcC
Confidence            654  344433 345666778889999999999976653 2223  56789999988899999999998888887  355


Q ss_pred             CHHHHHHHHHHH
Q 043999          524 NIASYSSTIGVL  535 (574)
Q Consensus       524 ~~~~~~~l~~~~  535 (574)
                      ...+.....+-|
T Consensus       534 Qen~~evF~Sry  545 (660)
T COG5107         534 QENLIEVFTSRY  545 (660)
T ss_pred             cHhHHHHHHHHH
Confidence            554444444433

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.97  E-value=0.21  Score=44.20  Aligned_cols=60  Identities=20%  Similarity=0.200  Sum_probs=35.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCC--CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          215 SLIDGCCKNGDIERAKMLFRKIGELGLV--ATQHTYTVLICGLFKNGLQKDGFEFYEKMQLN  274 (574)
Q Consensus       215 ~li~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  274 (574)
                      .....+...|++++|.+.|+++....+.  --....-.++.++.+.|++++|...+++.++.
T Consensus        10 ~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   10 QKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3444556677777777777777665322  11334455666777777777777777776654

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.96  E-value=0.25  Score=43.93  Aligned_cols=28  Identities=18%  Similarity=0.192  Sum_probs=18.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLD  134 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~  134 (574)
                      ..|+.=+..+.+-..+++|..-++...+
T Consensus        70 q~wT~r~~~l~kLR~~~~a~~EL~~f~~   97 (366)
T KOG2796|consen   70 QLWTVRLALLVKLRLFQNAEMELEPFGN   97 (366)
T ss_pred             HHHHHHHHHHHHHhhhHHHHhhhhhhcc
Confidence            4566667777777777777665555543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.91  E-value=0.016  Score=53.19  Aligned_cols=25  Identities=12%  Similarity=-0.108  Sum_probs=11.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHH
Q 043999          178 FGILIKGCCEAGDLNKAFEVLNQLE  202 (574)
Q Consensus       178 ~~~li~~~~~~g~~~~A~~~~~~m~  202 (574)
                      +..+...|...|++++|...|+.+.
T Consensus       183 ~y~LG~~y~~~g~~~~A~~~f~~vv  207 (263)
T PRK10803        183 NYWLGQLNYNKGKKDDAAYYFASVV  207 (263)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3334444444444444444444444

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.85  E-value=0.31  Score=43.31  Aligned_cols=143  Identities=14%  Similarity=0.049  Sum_probs=94.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH-----H
Q 043999          388 YNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVL-----I  462 (574)
Q Consensus       388 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l-----i  462 (574)
                      -+.++..+...|.+.-...++++.++...+.++.....|...-.+.|+.+.|...|++..+..-..|..+.+.+     .
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            44566666667777777788888887766667777777777778888888888888876654223333333333     2


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043999          463 HGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIG  533 (574)
Q Consensus       463 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  533 (574)
                      ..|.-.+++-+|...+++....+.. |+...|.-.-+..-.|+...|++.++.|++.  .|...+-++++-
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es~~~  327 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHESVLF  327 (366)
T ss_pred             hheecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhhHHH
Confidence            3455567778888888887776433 5555555444555568888888888888874  555555544443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.82  E-value=0.28  Score=47.02  Aligned_cols=95  Identities=16%  Similarity=0.083  Sum_probs=60.3

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCC---CCCCHHhHHHHHHHHHh---cCCHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 043999          180 ILIKGCCEAGDLNKAFEVLNQLEEMG---FSPNVVIYTSLIDGCCK---NGDIERAKMLFRKIGELGLVATQHTYTVLIC  253 (574)
Q Consensus       180 ~li~~~~~~g~~~~A~~~~~~m~~~g---~~p~~~~~~~li~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  253 (574)
                      .++-.|....+++..+++.+.+....   +.-....-....-++-+   .|+.++|++++..+......+++.+|..+..
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GR  225 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGR  225 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            34445777888888888888887641   11122222334445556   7888899988888666656677888887776


Q ss_pred             HHHh---------cCCHHHHHHHHHHHHHC
Q 043999          254 GLFK---------NGLQKDGFEFYEKMQLN  274 (574)
Q Consensus       254 ~~~~---------~g~~~~a~~~~~~~~~~  274 (574)
                      .|-.         ....++|++.|.+.-+.
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~  255 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGFEI  255 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHHcC
Confidence            6643         12355666666665543

>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=96.82  E-value=0.043  Score=45.67  Aligned_cols=72  Identities=21%  Similarity=0.248  Sum_probs=52.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-----HcCCCCCHHHHH
Q 043999          492 VYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQML-----KLGLKPSVSLYN  564 (574)
Q Consensus       492 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~-----~~g~~p~~~~~~  564 (574)
                      +...++..+...|++++|.++.+.+.... +-|...|..++.+|...|+..+|.+.|+++.     +.|+.|+..+-.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            45667777888999999999999998862 4467889999999999999999999998875     359999887643

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.81  E-value=0.01  Score=42.44  Aligned_cols=55  Identities=24%  Similarity=0.211  Sum_probs=28.8

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043999          499 GYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       499 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      .|.+.+++++|.++++.+.+.+ +.+...|.....++.+.|++++|...+++.++.
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            4455555555555555555531 223344445555555555555555555555543

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.80  E-value=0.35  Score=48.60  Aligned_cols=54  Identities=13%  Similarity=0.201  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          386 VTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQK  448 (574)
Q Consensus       386 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  448 (574)
                      .+...+..-+-+...+.-|.++|.+|-+.         ..+++.....+++++|..+-+...+
T Consensus       748 e~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe  801 (1081)
T KOG1538|consen  748 EPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPE  801 (1081)
T ss_pred             hHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCcc
Confidence            33333334444455556666666655322         3445556666777777766665544

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.80  E-value=0.2  Score=50.18  Aligned_cols=55  Identities=24%  Similarity=0.311  Sum_probs=33.7

Q ss_pred             HHHHHHHHhcCCh--hHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          179 GILIKGCCEAGDL--NKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKI  236 (574)
Q Consensus       179 ~~li~~~~~~g~~--~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  236 (574)
                      +..-++|.+-.+.  -+.+.-++++.+.|-.|+...   +...++-.|++.+|-++|.+-
T Consensus       602 ~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~  658 (1081)
T KOG1538|consen  602 ETARKAYIRVRDLRYLELISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKRS  658 (1081)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHc
Confidence            3333444444333  334445667777887777654   455667778888888888653

>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=96.79  E-value=0.039  Score=45.89  Aligned_cols=125  Identities=18%  Similarity=0.241  Sum_probs=67.4

Q ss_pred             hHHHHHHH---HHHhcCChHHHHHHHHHHHhC--C-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHH
Q 043999          107 RLYESIID---AHLKSRLSDQALFYFHQMLDS--G-VRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGI  180 (574)
Q Consensus       107 ~~~~~li~---~~~~~g~~~~A~~~~~~~~~~--g-~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  180 (574)
                      ..|..++.   .....|+.+.+.+.++++...  | +-|+...          ..-.......++..      -..+...
T Consensus         4 ~~F~~~~~~a~~~~~~~~~~~~~~~~~~al~ly~G~~l~~~~~----------~~W~~~~r~~l~~~------~~~~~~~   67 (146)
T PF03704_consen    4 DRFEALVREARAAARAGDPEEAIELLEEALALYRGDFLPDLDD----------EEWVEPERERLREL------YLDALER   67 (146)
T ss_dssp             HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHTT--SSTTGGGTT----------STTHHHHHHHHHHH------HHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhCCCCCCCCCc----------cHHHHHHHHHHHHH------HHHHHHH
Confidence            34555533   335678888898888888753  2 2222111          00011111122221      1234555


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH-----hCCCCCChhhH
Q 043999          181 LIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIG-----ELGLVATQHTY  248 (574)
Q Consensus       181 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~~~  248 (574)
                      ++..+...|++++|.+..+.+.... +-+...|..+|.+|...|+..+|.+.|+++.     +.|+.|+..+-
T Consensus        68 l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   68 LAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            6667777788888888877777653 2366677778888888888888887777653     34777766543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.66  E-value=0.013  Score=41.90  Aligned_cols=56  Identities=14%  Similarity=0.051  Sum_probs=36.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          463 HGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEK  519 (574)
Q Consensus       463 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  519 (574)
                      ..|.+.+++++|.++++.++..++. +...|......+.+.|++++|.+.+++..+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            3456666777777777776665433 5555666666677777777777777777663

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.61  E-value=1.2  Score=46.60  Aligned_cols=179  Identities=16%  Similarity=0.132  Sum_probs=122.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHH
Q 043999          109 YESIIDAHLKSRLSDQALFYFHQMLDSGVRPR--SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCC  186 (574)
Q Consensus       109 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~--~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~  186 (574)
                      ..+-+..+++...++-|+.+...-   +..++  ........+-+.+.|++++|...|-+......|.     .+|.-|.
T Consensus       337 le~kL~iL~kK~ly~~Ai~LAk~~---~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~le~s-----~Vi~kfL  408 (933)
T KOG2114|consen  337 LETKLDILFKKNLYKVAINLAKSQ---HLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFLEPS-----EVIKKFL  408 (933)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHhc---CCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccCChH-----HHHHHhc
Confidence            456778888899999998876543   22222  1223334455678999999998887766554443     3556677


Q ss_pred             hcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 043999          187 EAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFE  266 (574)
Q Consensus       187 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  266 (574)
                      ...++..-..+++.+.+.|+. +...-..|+.+|.+.++.++-.+..+... .|..  ..-....+..+.+.+-.++|..
T Consensus       409 daq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~  484 (933)
T KOG2114|consen  409 DAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAEL  484 (933)
T ss_pred             CHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHH
Confidence            888888888999999999876 66777889999999999999888776654 2211  1124455666677777777766


Q ss_pred             HHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          267 FYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMR  307 (574)
Q Consensus       267 ~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  307 (574)
                      +-.+...     .......++   -..+++++|++.+..+.
T Consensus       485 LA~k~~~-----he~vl~ill---e~~~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  485 LATKFKK-----HEWVLDILL---EDLHNYEEALRYISSLP  517 (933)
T ss_pred             HHHHhcc-----CHHHHHHHH---HHhcCHHHHHHHHhcCC
Confidence            6554432     233334443   34688999998887763

>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=96.58  E-value=0.0072  Score=43.90  Aligned_cols=61  Identities=20%  Similarity=0.191  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCC---CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          492 VYNMMIFGYCKEGNSYRALRLLGEMNEK--GLV---PN-IASYSSTIGVLCQDGKWPEAEVLLNQML  552 (574)
Q Consensus       492 ~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~---p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~  552 (574)
                      +|+.+...|...|++++|++.+++..+.  ...   |+ ..++..+..++...|++++|.+++++..
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4455555555555555555555554432  011   11 2344555555556666666666655554

...

>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=96.52  E-value=0.0087  Score=43.47  Aligned_cols=63  Identities=17%  Similarity=0.184  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC-CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          456 YTYGVLIHGLCMKGNMKEASKLFNSMWET----KLE-PN-DVVYNMMIFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       456 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~-p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      .+++.+...|...|++++|++.|++.++.    |.. |+ ..+++.+..+|...|++++|++++++..+
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            45677777777788888888777776643    111 22 45677777888888888888888877654

...

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.51  E-value=0.77  Score=43.43  Aligned_cols=251  Identities=16%  Similarity=0.121  Sum_probs=169.1

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH----HHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCCh
Q 043999          116 HLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIF----VIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDL  191 (574)
Q Consensus       116 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~----~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  191 (574)
                      -.-.|+++.|.+-|+.|+.     |+.+-..=+.+    -.+.|..+.|+..-++.-..-+.-...+...+...|..|++
T Consensus       130 al~eG~~~~Ar~kfeAMl~-----dPEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdW  204 (531)
T COG3898         130 ALLEGDYEDARKKFEAMLD-----DPETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDW  204 (531)
T ss_pred             HHhcCchHHHHHHHHHHhc-----ChHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCCh
Confidence            3457999999999999986     33443222222    34778999999888887766666678899999999999999


Q ss_pred             hHHHHHHHHHHHCC-CCCCHHh--HHHHHHHHH---hcCCHHHHHHHHHHHHhCCCCCChh-hHHHHHHHHHhcCCHHHH
Q 043999          192 NKAFEVLNQLEEMG-FSPNVVI--YTSLIDGCC---KNGDIERAKMLFRKIGELGLVATQH-TYTVLICGLFKNGLQKDG  264 (574)
Q Consensus       192 ~~A~~~~~~m~~~g-~~p~~~~--~~~li~~~~---~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~a  264 (574)
                      +.|+++++.-.+.. +.+++.-  -..|+.+-.   -.-+...|...-.+..+  +.||.. .-..-...+.+.|+..++
T Consensus       205 d~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg  282 (531)
T COG3898         205 DGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKG  282 (531)
T ss_pred             HHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhh
Confidence            99999999876543 3444432  222332221   12345556655555544  334433 233445788999999999


Q ss_pred             HHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHH--H--HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          265 FEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEG--F--KLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQ  340 (574)
Q Consensus       265 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A--~--~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  340 (574)
                      -.+++.+-+....|+..    .+..+.+.|+....  .  +-++.|+.+    +..+--.+..+-...|++..|..--+.
T Consensus       283 ~~ilE~aWK~ePHP~ia----~lY~~ar~gdta~dRlkRa~~L~slk~n----naes~~~va~aAlda~e~~~ARa~Aea  354 (531)
T COG3898         283 SKILETAWKAEPHPDIA----LLYVRARSGDTALDRLKRAKKLESLKPN----NAESSLAVAEAALDAGEFSAARAKAEA  354 (531)
T ss_pred             hhHHHHHHhcCCChHHH----HHHHHhcCCCcHHHHHHHHHHHHhcCcc----chHHHHHHHHHHHhccchHHHHHHHHH
Confidence            99999999885555532    22334455553221  1  123334333    666777778888889999988887777


Q ss_pred             HHHCCCCCChhhHHHHHHHHHhc-CCHHHHHHHHHHHHHCCCCC
Q 043999          341 MKMAGISPNVITYNKLIDGFCDA-GETDKAFRLFNQLKSNGQSP  383 (574)
Q Consensus       341 m~~~g~~~~~~~~~~li~~~~~~-g~~~~A~~~~~~~~~~g~~~  383 (574)
                      ....  .|....|..|.+.-... |+-.++...+.+..+.-..|
T Consensus       355 a~r~--~pres~~lLlAdIeeAetGDqg~vR~wlAqav~APrdP  396 (531)
T COG3898         355 AARE--APRESAYLLLADIEEAETGDQGKVRQWLAQAVKAPRDP  396 (531)
T ss_pred             Hhhh--CchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCCCCC
Confidence            7664  67788888777765544 99999999999988764444

>PRK15331 chaperone protein SicA; Provisional

Probab=96.47  E-value=0.11  Score=42.95  Aligned_cols=87  Identities=10%  Similarity=-0.011  Sum_probs=58.9

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 043999          430 FVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRA  509 (574)
Q Consensus       430 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  509 (574)
                      +...|++++|..+|..+...+ +.+..-+..|..++-..+++++|+..|......+.. |+..+-....+|...|+.+.|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~-dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKN-DYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC-CCCccchHHHHHHHhCCHHHH
Confidence            456777777777777776654 344555666677777777777777777766554332 444455566777777777777


Q ss_pred             HHHHHHHHH
Q 043999          510 LRLLGEMNE  518 (574)
Q Consensus       510 ~~~~~~m~~  518 (574)
                      ...|+...+
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            777777776

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.44  E-value=1.4  Score=45.50  Aligned_cols=102  Identities=7%  Similarity=0.062  Sum_probs=60.8

Q ss_pred             hCCCCCCHHHHHH-----HHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCCh--hHHHHHHHHHHHCCC
Q 043999          134 DSGVRPRSNTFNS-----LLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDL--NKAFEVLNQLEEMGF  206 (574)
Q Consensus       134 ~~g~~p~~~~~~~-----ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~--~~A~~~~~~m~~~g~  206 (574)
                      .-|++.+..-|..     +++-+...+.+..|+++-..+......+...|.....-+.+..+.  +++.+..++=...-.
T Consensus       425 ~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~  504 (829)
T KOG2280|consen  425 RIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQGDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKL  504 (829)
T ss_pred             ccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccccHHHHHHHHHHHhccCccchHHHHHHHHHhcccC
Confidence            3455555444443     467777888888888888777654222256666666777665432  223332222222112


Q ss_pred             CCCHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          207 SPNVVIYTSLIDGCCKNGDIERAKMLFRKI  236 (574)
Q Consensus       207 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  236 (574)
                       ....+|..+..-....|+.+-|..+++.=
T Consensus       505 -~~~iSy~~iA~~Ay~~GR~~LA~kLle~E  533 (829)
T KOG2280|consen  505 -TPGISYAAIARRAYQEGRFELARKLLELE  533 (829)
T ss_pred             -CCceeHHHHHHHHHhcCcHHHHHHHHhcC
Confidence             24456777777777888888888877643

>PRK15331 chaperone protein SicA; Provisional

Probab=96.35  E-value=0.41  Score=39.76  Aligned_cols=90  Identities=13%  Similarity=0.019  Sum_probs=60.2

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 043999          392 IRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNM  471 (574)
Q Consensus       392 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  471 (574)
                      ..-+...|++++|..+|+-+...+.- +..-|..|..++-..+++++|...|......+ ..|+..+-....+|...|+.
T Consensus        44 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         44 AYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCH
Confidence            33455677888888777777655432 44456666666777777888888777665543 34444455566777778888


Q ss_pred             HHHHHHHHHHHh
Q 043999          472 KEASKLFNSMWE  483 (574)
Q Consensus       472 ~~A~~~~~~~~~  483 (574)
                      ++|...|...++
T Consensus       122 ~~A~~~f~~a~~  133 (165)
T PRK15331        122 AKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHh
Confidence            888888777766

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.19  E-value=0.82  Score=46.28  Aligned_cols=116  Identities=18%  Similarity=0.073  Sum_probs=66.8

Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHHHHHHH-HHHHHhcCChhHHHHHHHHcccC----CCCCHHHHHHHHHHHHhcCChhH
Q 043999          119 SRLSDQALFYFHQMLDSGVRPRSNTFNSL-LIFVIKSCSFDKGWLFFSENRCK----VELDVYSFGILIKGCCEAGDLNK  193 (574)
Q Consensus       119 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~l-l~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~~li~~~~~~g~~~~  193 (574)
                      ....+.|.++++.+.+.  -|+...|... ...+...|++++|++.|++....    .+.....+--+.-.+.-.+++++
T Consensus       246 ~~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~  323 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEE  323 (468)
T ss_pred             CCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHH
Confidence            45677888888888875  4666555443 34566778888888888865431    12223334444555666677777


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHH-HHHHhcCCH-------HHHHHHHHHHH
Q 043999          194 AFEVLNQLEEMGFSPNVVIYTSLI-DGCCKNGDI-------ERAKMLFRKIG  237 (574)
Q Consensus       194 A~~~~~~m~~~g~~p~~~~~~~li-~~~~~~g~~-------~~A~~~~~~~~  237 (574)
                      |.+.|.++.+.+- .+..+|.-+. .++...|+.       ++|.++|.+..
T Consensus       324 A~~~f~~L~~~s~-WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  324 AAEYFLRLLKESK-WSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHHHHhccc-cHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            7777777766431 1222333222 223345555       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.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.18  E-value=1.3  Score=42.61  Aligned_cols=31  Identities=23%  Similarity=0.149  Sum_probs=18.1

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          419 SEVTYTILIDSFVRSDDMEKAFEMYSLMQKS  449 (574)
Q Consensus       419 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  449 (574)
                      +...+.+++.+..-.|+.++|.+..++|.+.
T Consensus       304 dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  304 DYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            4444555556666666666666666666554

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.05  E-value=0.066  Score=51.95  Aligned_cols=99  Identities=20%  Similarity=0.105  Sum_probs=74.3

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 043999          452 SPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPND----VVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIAS  527 (574)
Q Consensus       452 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  527 (574)
                      +.+...++.+..+|.+.|++++|+..|++.++.  .|+.    .+|..+..+|...|+.++|++.+++.++.+ .|   .
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALels-n~---~  145 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDY-NL---K  145 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-ch---h
Confidence            455778999999999999999999999999986  4553    469999999999999999999999999852 22   2


Q ss_pred             HHHHHH--HHHhcCCHHHHHHHHHHHHHcCC
Q 043999          528 YSSTIG--VLCQDGKWPEAEVLLNQMLKLGL  556 (574)
Q Consensus       528 ~~~l~~--~~~~~g~~~~A~~~~~~m~~~g~  556 (574)
                      |..+..  .+....+.++..++++.+.+-|.
T Consensus       146 f~~i~~DpdL~plR~~pef~eLlee~rk~G~  176 (453)
T PLN03098        146 FSTILNDPDLAPFRASPEFKELQEEARKGGE  176 (453)
T ss_pred             HHHHHhCcchhhhcccHHHHHHHHHHHHhCC
Confidence            322111  11222344577788888887664

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.97  E-value=0.11  Score=50.40  Aligned_cols=65  Identities=11%  Similarity=0.059  Sum_probs=57.4

Q ss_pred             CCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043999          418 PSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDV----YTYGVLIHGLCMKGNMKEASKLFNSMWET  484 (574)
Q Consensus       418 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~  484 (574)
                      .+...++.+..+|.+.|++++|+..|++.++.  .|+.    .+|..+..+|.+.|+.++|++.++++++.
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            45678999999999999999999999999886  4553    35899999999999999999999999874

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=95.94  E-value=0.16  Score=40.66  Aligned_cols=83  Identities=16%  Similarity=0.252  Sum_probs=60.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---------------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          454 DVYTYGVLIHGLCMKGNMKEASKLFNSMWET---------------KLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       454 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---------------~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      |..++..++.++++.|+++....+++..-.-               ...|+..+..+++.+|+..|++..|+++.+...+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            4567888999999999999999988875321               2346677777777777777778888777777765


Q ss_pred             C-CCCCCHHHHHHHHHHHH
Q 043999          519 K-GLVPNIASYSSTIGVLC  536 (574)
Q Consensus       519 ~-g~~p~~~~~~~l~~~~~  536 (574)
                      . +++-+..+|..|+.-+.
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             HcCCCCCHHHHHHHHHHHH
Confidence            4 45556677777775443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=95.90  E-value=0.15  Score=40.70  Aligned_cols=85  Identities=13%  Similarity=0.091  Sum_probs=67.8

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHHHHH---------------CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 043999          419 SEVTYTILIDSFVRSDDMEKAFEMYSLMQK---------------SGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWE  483 (574)
Q Consensus       419 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---------------~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  483 (574)
                      |..++..++.++++.|+++....+.+..=.               ....|+..+..+++.+|+..|++..|+++.+...+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            457888999999999999999988877521               12457888999999999999999999999999876


Q ss_pred             C-CCCCCHHHHHHHHHHHHhc
Q 043999          484 T-KLEPNDVVYNMMIFGYCKE  503 (574)
Q Consensus       484 ~-~~~p~~~~~~~li~~~~~~  503 (574)
                      . +++-+..+|..|+.-....
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~~v~  101 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWAYVL  101 (126)
T ss_pred             HcCCCCCHHHHHHHHHHHHHh
Confidence            5 6666788888888654443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.89  E-value=0.7  Score=40.77  Aligned_cols=55  Identities=15%  Similarity=0.216  Sum_probs=30.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCC---CCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 043999          318 YNTLICGLCKEMRVQEAERLLDQMKMAG---ISPNVITYNKLIDGFCDAGETDKAFRLF  373 (574)
Q Consensus       318 ~~~li~~~~~~~~~~~A~~~~~~m~~~g---~~~~~~~~~~li~~~~~~g~~~~A~~~~  373 (574)
                      |-..|-.+.-..++..|.+.++.-.+.+   -+-+..+...|+.+| ..|+.+++.++.
T Consensus       193 ~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  193 YVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHH
Confidence            3344444555667777777777644332   123445566666665 356666655544

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.86  E-value=2.4  Score=42.98  Aligned_cols=175  Identities=18%  Similarity=0.124  Sum_probs=98.0

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCC-CCCH------HHHHHHHHHHHh----cCChhHH
Q 043999          126 LFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKV-ELDV------YSFGILIKGCCE----AGDLNKA  194 (574)
Q Consensus       126 ~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~-~~~~------~~~~~li~~~~~----~g~~~~A  194 (574)
                      .-+|.-++.. +||   ....++..+.-.|+-+.+++.+.+..... -..+      -.|...+..++.    ....+.|
T Consensus       177 ~G~f~L~lSl-LPp---~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a  252 (468)
T PF10300_consen  177 FGLFNLVLSL-LPP---KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEA  252 (468)
T ss_pred             HHHHHHHHHh-CCH---HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHH
Confidence            3445555443 333   34456666666677777777776654431 0111      224444444443    3466778


Q ss_pred             HHHHHHHHHCCCCCCHHhHHHH-HHHHHhcCCHHHHHHHHHHHHhCC--C-CCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          195 FEVLNQLEEMGFSPNVVIYTSL-IDGCCKNGDIERAKMLFRKIGELG--L-VATQHTYTVLICGLFKNGLQKDGFEFYEK  270 (574)
Q Consensus       195 ~~~~~~m~~~g~~p~~~~~~~l-i~~~~~~g~~~~A~~~~~~~~~~~--~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~  270 (574)
                      .++++.+.+.  -|+...|... ...+...|++++|++.|++.....  . +.....+--+.-.+.-.+++++|.+.|..
T Consensus       253 ~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~  330 (468)
T PF10300_consen  253 EELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLR  330 (468)
T ss_pred             HHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHH
Confidence            8888887764  4565554433 345556788888888887654311  1 11233444455667777888888888888


Q ss_pred             HHHCCCCCCHhhHHHH-HHHHHhcCCH-------HHHHHHHHHHH
Q 043999          271 MQLNGVSPSLYTYNCL-IHEYCNEGKV-------SEGFKLFDEMR  307 (574)
Q Consensus       271 ~~~~g~~p~~~~~~~l-i~~~~~~g~~-------~~A~~~~~~m~  307 (574)
                      +.+..- -...+|.-+ ..++...|+.       ++|.++|.++.
T Consensus       331 L~~~s~-WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  331 LLKESK-WSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHhccc-cHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            876531 122333322 2334456666       77777777663

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.86  E-value=0.13  Score=40.19  Aligned_cols=92  Identities=16%  Similarity=0.156  Sum_probs=67.5

Q ss_pred             HHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHH---hHHHHHHHHHhcCC
Q 043999          149 IFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVV---IYTSLIDGCCKNGD  225 (574)
Q Consensus       149 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~---~~~~li~~~~~~g~  225 (574)
                      .+++..|+.+.|++.|.+.....|.....||.-..++--.|+.++|++=+++..+..-.....   .|..-...|...|+
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            356678888888888888887777888889988888888899999988888877642111222   33334455667788


Q ss_pred             HHHHHHHHHHHHhCC
Q 043999          226 IERAKMLFRKIGELG  240 (574)
Q Consensus       226 ~~~A~~~~~~~~~~~  240 (574)
                      .+.|..-|+...+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            888888887776665

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.84  E-value=0.14  Score=48.65  Aligned_cols=91  Identities=8%  Similarity=-0.069  Sum_probs=50.9

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhC-----CCCC---------CHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHH
Q 043999          113 IDAHLKSRLSDQALFYFHQMLDS-----GVRP---------RSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSF  178 (574)
Q Consensus       113 i~~~~~~g~~~~A~~~~~~~~~~-----g~~p---------~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  178 (574)
                      .+.|.+.|++..|...|++.+..     +.++         -..+++.+.-++.|.+.+.+|++..+..+...++|+-+.
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KAL  294 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKAL  294 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHH
Confidence            45788999999999999886542     1111         011223333444555555555555555555445555555


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHH
Q 043999          179 GILIKGCCEAGDLNKAFEVLNQLEE  203 (574)
Q Consensus       179 ~~li~~~~~~g~~~~A~~~~~~m~~  203 (574)
                      ..-..++...|+++.|+..|+++.+
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k  319 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALK  319 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHH
Confidence            5555555555555555555555554

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.84  E-value=1.3  Score=39.72  Aligned_cols=55  Identities=16%  Similarity=0.149  Sum_probs=24.4

Q ss_pred             HhcCChhHHHHHHHHHHHCCC--CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 043999          186 CEAGDLNKAFEVLNQLEEMGF--SPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELG  240 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  240 (574)
                      .+.|++++|.+.|+.+....+  +-...+.-.++-++.+.+++++|+...++.....
T Consensus        45 L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~ly  101 (254)
T COG4105          45 LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLY  101 (254)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhC
Confidence            344555555555555543211  0112233334444445555555555555544443

>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=95.78  E-value=0.25  Score=49.14  Aligned_cols=130  Identities=15%  Similarity=0.143  Sum_probs=61.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHh
Q 043999          108 LYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCE  187 (574)
Q Consensus       108 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~  187 (574)
                      -.+.+++.+-+.|.++.|+++..         |+.+   -.....+.|+++.|.+..++..     +...|..|.+...+
T Consensus       297 ~~~~i~~fL~~~G~~e~AL~~~~---------D~~~---rFeLAl~lg~L~~A~~~a~~~~-----~~~~W~~Lg~~AL~  359 (443)
T PF04053_consen  297 QGQSIARFLEKKGYPELALQFVT---------DPDH---RFELALQLGNLDIALEIAKELD-----DPEKWKQLGDEALR  359 (443)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHSS----------HHH---HHHHHHHCT-HHHHHHHCCCCS-----THHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHhhcC---------ChHH---HhHHHHhcCCHHHHHHHHHhcC-----cHHHHHHHHHHHHH
Confidence            35555555566666666655422         2111   1222335555555555443332     44556666666666


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 043999          188 AGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEF  267 (574)
Q Consensus       188 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  267 (574)
                      .|+++-|.+.|.+...         +..|+-.|.-.|+.+.-.++.+....+|      -++....++.-.|+.++..++
T Consensus       360 ~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~------~~n~af~~~~~lgd~~~cv~l  424 (443)
T PF04053_consen  360 QGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERG------DINIAFQAALLLGDVEECVDL  424 (443)
T ss_dssp             TTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHH
T ss_pred             cCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHcc------CHHHHHHHHHHcCCHHHHHHH
Confidence            6666666665554432         4445555555555555555554444433      133444444444555555444


Q ss_pred             HH
Q 043999          268 YE  269 (574)
Q Consensus       268 ~~  269 (574)
                      +.
T Consensus       425 L~  426 (443)
T PF04053_consen  425 LI  426 (443)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

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=95.76  E-value=0.77  Score=37.73  Aligned_cols=126  Identities=16%  Similarity=0.183  Sum_probs=74.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhc
Q 043999          109 YESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEA  188 (574)
Q Consensus       109 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~  188 (574)
                      -..+|..+.+.+.+.....+++.+...+ +.+....+.++..|++.+ ..+....+..     ..+.+....+++.|.+.
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~-----~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN-----KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh-----ccccCCHHHHHHHHHHc
Confidence            4567777777888899999999888776 356777888888887653 3344444442     12333344466666666


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhc-CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 043999          189 GDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKN-GDIERAKMLFRKIGELGLVATQHTYTVLICGLF  256 (574)
Q Consensus       189 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  256 (574)
                      +-++++.-++.++..         +...+..+... ++++.|.+.+.+-      .+...|..++..+.
T Consensus        83 ~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l  136 (140)
T smart00299       83 KLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALL  136 (140)
T ss_pred             CcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHH
Confidence            666666666665532         22233333333 6666666665541      14445555555443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.75  E-value=0.19  Score=47.72  Aligned_cols=140  Identities=15%  Similarity=-0.017  Sum_probs=89.2

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 043999          390 VLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKG  469 (574)
Q Consensus       390 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  469 (574)
                      .-.+.|.+.|++..|...|++.... +.            +...-+.++.....        ..-..++..+..+|.+.+
T Consensus       213 e~Gn~~fK~gk~~~A~~~Yerav~~-l~------------~~~~~~~ee~~~~~--------~~k~~~~lNlA~c~lKl~  271 (397)
T KOG0543|consen  213 ERGNVLFKEGKFKLAKKRYERAVSF-LE------------YRRSFDEEEQKKAE--------ALKLACHLNLAACYLKLK  271 (397)
T ss_pred             HhhhHHHhhchHHHHHHHHHHHHHH-hh------------ccccCCHHHHHHHH--------HHHHHHhhHHHHHHHhhh
Confidence            3456677778888777777775532 00            01111111111111        122345667778888999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-hcCC-HHHHHHH
Q 043999          470 NMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLC-QDGK-WPEAEVL  547 (574)
Q Consensus       470 ~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~-~~g~-~~~A~~~  547 (574)
                      ++.+|++.-++.+..+. +|....--=..+|...|+++.|+..|+++++  +.|+...-..=+..|. +... .+...++
T Consensus       272 ~~~~Ai~~c~kvLe~~~-~N~KALyRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~~~el~~l~~k~~~~~~kekk~  348 (397)
T KOG0543|consen  272 EYKEAIESCNKVLELDP-NNVKALYRRGQALLALGEYDLARDDFQKALK--LEPSNKAARAELIKLKQKIREYEEKEKKM  348 (397)
T ss_pred             hHHHHHHHHHHHHhcCC-CchhHHHHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999998888653 3777777778888889999999999999988  5676655444444443 3333 3344778


Q ss_pred             HHHHHH
Q 043999          548 LNQMLK  553 (574)
Q Consensus       548 ~~~m~~  553 (574)
                      |..|..
T Consensus       349 y~~mF~  354 (397)
T KOG0543|consen  349 YANMFA  354 (397)
T ss_pred             HHHHhh
Confidence            888874

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.73  E-value=0.26  Score=38.71  Aligned_cols=91  Identities=19%  Similarity=0.114  Sum_probs=51.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHhcCC
Q 043999          464 GLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNI---ASYSSTIGVLCQDGK  540 (574)
Q Consensus       464 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~---~~~~~l~~~~~~~g~  540 (574)
                      ++...|+++.|++.|.+.+..-++ ....||.-..++.-+|+.++|++=+++.++..-.-..   ..|..-...|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P~-raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAPE-RASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhccc-chHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            345566666666666666654222 5566666666666666666666666666653111111   122233345555666


Q ss_pred             HHHHHHHHHHHHHcC
Q 043999          541 WPEAEVLLNQMLKLG  555 (574)
Q Consensus       541 ~~~A~~~~~~m~~~g  555 (574)
                      .+.|..=|+..-+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            666666666655544

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.71  E-value=1.1  Score=43.95  Aligned_cols=60  Identities=17%  Similarity=0.128  Sum_probs=34.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          459 GVLIHGLCMKGNMKEASKLFNSMWETKLE-PNDVVYNMMIFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       459 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      ..+..++-+.|+.++|++.++++.+.... -+......|+.++...+.+.++..++.+--+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            44555556666666666666666543211 1233455566666666666666666666543

The molecular function of this protein is uncertain.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.57  E-value=3.5  Score=42.72  Aligned_cols=112  Identities=15%  Similarity=0.146  Sum_probs=83.5

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 043999          419 SEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIF  498 (574)
Q Consensus       419 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~  498 (574)
                      ...+.+--+..+...|+..+|.++-.+..    -||-..|-.-+.+++..+++++-+++-+...      .+.-|.....
T Consensus       683 ~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe  752 (829)
T KOG2280|consen  683 VDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVE  752 (829)
T ss_pred             ccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHH
Confidence            33445556666778888889988877665    6888888888899999999988777655542      2556778888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 043999          499 GYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLN  549 (574)
Q Consensus       499 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  549 (574)
                      +|.+.|+.++|.+++-+...     .    .-...+|.+.|++.+|.+..-
T Consensus       753 ~c~~~~n~~EA~KYiprv~~-----l----~ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  753 ACLKQGNKDEAKKYIPRVGG-----L----QEKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             HHHhcccHHHHhhhhhccCC-----h----HHHHHHHHHhccHHHHHHHHH
Confidence            99999999999998865432     1    146677888888888876643

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.54  E-value=0.27  Score=44.28  Aligned_cols=96  Identities=17%  Similarity=0.136  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC---CHHHHHHH
Q 043999          457 TYGVLIHGLCMKGNMKEASKLFNSMWETKLE--PNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVP---NIASYSST  531 (574)
Q Consensus       457 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~~~~~l  531 (574)
                      .|+.-+. +.+.|++.+|..-|...++..+.  -....+-.|+.++...|++++|..+|..+.+. .+.   -+..+.-+
T Consensus       144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~-~P~s~KApdallKl  221 (262)
T COG1729         144 LYNAALD-LYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKD-YPKSPKAPDALLKL  221 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHh-CCCCCCChHHHHHH
Confidence            3444443 34556677777777776665221  12334555667777777777777777776654 111   12445556


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHc
Q 043999          532 IGVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       532 ~~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      .....+.|+.++|...|++..+.
T Consensus       222 g~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         222 GVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHH
Confidence            66666677777777777777654

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=95.54  E-value=2.1  Score=40.03  Aligned_cols=61  Identities=13%  Similarity=0.085  Sum_probs=29.9

Q ss_pred             HHHHHHHHHhcCCH---HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          283 YNCLIHEYCNEGKV---SEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMA  344 (574)
Q Consensus       283 ~~~li~~~~~~g~~---~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  344 (574)
                      +..++.+|...+..   ++|.++++.+.+.... .+..+-.-+..+.+.++.+++.+.+.+|...
T Consensus        87 L~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   87 LRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence            34455555555543   3344444444333222 2334444444454556666666666666554

It is also involved in sporulation [].

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.42  E-value=1.8  Score=39.69  Aligned_cols=118  Identities=13%  Similarity=0.029  Sum_probs=51.0

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCC-HHHHHHHHHHHHhcCChhHH
Q 043999          116 HLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELD-VYSFGILIKGCCEAGDLNKA  194 (574)
Q Consensus       116 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A  194 (574)
                      ....|++.+|...|...+... +-+....-.+..+|...|+++.|..++..+......+ ......-|..+.+.....+.
T Consensus       144 ~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~  222 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEI  222 (304)
T ss_pred             hhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCH
Confidence            344555555555555555432 1123333444555555555555555555554431111 11112223333333333333


Q ss_pred             HHHHHHHHHCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          195 FEVLNQLEEMGFSP-NVVIYTSLIDGCCKNGDIERAKMLFRKIG  237 (574)
Q Consensus       195 ~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~  237 (574)
                      ..+-.+.-..   | |...-..+...+...|+.++|.+.+-.+.
T Consensus       223 ~~l~~~~aad---Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l  263 (304)
T COG3118         223 QDLQRRLAAD---PDDVEAALALADQLHLVGRNEAALEHLLALL  263 (304)
T ss_pred             HHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3333333321   2 33444444555555555555554444443

>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=95.34  E-value=0.8  Score=45.68  Aligned_cols=131  Identities=16%  Similarity=0.216  Sum_probs=68.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 043999          387 TYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLC  466 (574)
Q Consensus       387 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  466 (574)
                      ..+.++.-+-+.|.++.|+.+...-..            -.+...+.|+++.|.++.+.      .++...|..|.+...
T Consensus       297 ~~~~i~~fL~~~G~~e~AL~~~~D~~~------------rFeLAl~lg~L~~A~~~a~~------~~~~~~W~~Lg~~AL  358 (443)
T PF04053_consen  297 QGQSIARFLEKKGYPELALQFVTDPDH------------RFELALQLGNLDIALEIAKE------LDDPEKWKQLGDEAL  358 (443)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHSS-HHH------------HHHHHHHCT-HHHHHHHCCC------CSTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHhhcCChHH------------HhHHHHhcCCHHHHHHHHHh------cCcHHHHHHHHHHHH
Confidence            355566666666666666655433211            12233456666666654322      335556667777777


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 043999          467 MKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEV  546 (574)
Q Consensus       467 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~  546 (574)
                      +.|+++-|++.|.+..+         |..|+-.|.-.|+.+.-.++.+.....|   +   ++....++.-.|+.++..+
T Consensus       359 ~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~---~---~n~af~~~~~lgd~~~cv~  423 (443)
T PF04053_consen  359 RQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERG---D---INIAFQAALLLGDVEECVD  423 (443)
T ss_dssp             HTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHH
T ss_pred             HcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHcc---C---HHHHHHHHHHcCCHHHHHH
Confidence            77777777776665532         4555555666666666666666655554   1   2333334444455555555


Q ss_pred             HHHH
Q 043999          547 LLNQ  550 (574)
Q Consensus       547 ~~~~  550 (574)
                      ++.+
T Consensus       424 lL~~  427 (443)
T PF04053_consen  424 LLIE  427 (443)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5433

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.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.32  E-value=4.1  Score=44.60  Aligned_cols=103  Identities=15%  Similarity=0.190  Sum_probs=52.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH--HHHHHHHHHhc
Q 043999          321 LICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVT--YNVLIRAFSKA  398 (574)
Q Consensus       321 li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~--~~~li~~~~~~  398 (574)
                      ...-+.+..++++|--.|+..-+.         .--+.+|..+|++.+|..+..++...   .|...  -..|+.-+...
T Consensus       945 ya~hL~~~~~~~~Aal~Ye~~Gkl---------ekAl~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~ 1012 (1265)
T KOG1920|consen  945 YADHLREELMSDEAALMYERCGKL---------EKALKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQ 1012 (1265)
T ss_pred             HHHHHHHhccccHHHHHHHHhccH---------HHHHHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHc
Confidence            333344455666665555543221         12345566666776666666555321   12221  24556666677


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHH
Q 043999          399 GNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMY  443 (574)
Q Consensus       399 g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  443 (574)
                      +++-+|-++..+....        ..-.+..+|+...+++|..+-
T Consensus      1013 ~kh~eAa~il~e~~sd--------~~~av~ll~ka~~~~eAlrva 1049 (1265)
T KOG1920|consen 1013 RKHYEAAKILLEYLSD--------PEEAVALLCKAKEWEEALRVA 1049 (1265)
T ss_pred             ccchhHHHHHHHHhcC--------HHHHHHHHhhHhHHHHHHHHH
Confidence            7777776666655432        122233345555555555544

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.30  E-value=2  Score=38.38  Aligned_cols=198  Identities=17%  Similarity=0.111  Sum_probs=82.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHH-HH
Q 043999          353 YNKLIDGFCDAGETDKAFRLFNQLKSN-GQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILID-SF  430 (574)
Q Consensus       353 ~~~li~~~~~~g~~~~A~~~~~~~~~~-g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~-~~  430 (574)
                      +......+...+++..+...+...... ........+......+...++...+...+.........+ ......... .+
T Consensus        62 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~  140 (291)
T COG0457          62 LLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALGAL  140 (291)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHHHH
Confidence            333344444444444444444443321 112223333333344444444444444444444332221 111111111 34


Q ss_pred             HhcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 043999          431 VRSDDMEKAFEMYSLMQKSGF--SPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYR  508 (574)
Q Consensus       431 ~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  508 (574)
                      ...|+++.|...+........  ......+......+...++.+++...+.+............+..+...+...++++.
T Consensus       141 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  220 (291)
T COG0457         141 YELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEE  220 (291)
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccHHH
Confidence            455555555555555433110  011222222223344455555555555555543111023445555555555555555


Q ss_pred             HHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          509 ALRLLGEMNEKGLVPN-IASYSSTIGVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       509 A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      |...+......  .|+ ...+......+...|..+++...+++...
T Consensus       221 a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         221 ALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             HHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55555555553  222 22333333333344555555555555553

>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=95.29  E-value=1.1  Score=35.38  Aligned_cols=59  Identities=19%  Similarity=0.198  Sum_probs=25.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          286 LIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAG  345 (574)
Q Consensus       286 li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g  345 (574)
                      .++.+.+.|+-+.-.+++.++.+ +-.+++...-.+..+|.+.|+..++..++.++-+.|
T Consensus        92 ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   92 ALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            33444445555555555554443 222344444444555555555555555555554444

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PRK11906 transcriptional regulator; Provisional

Probab=95.28  E-value=1.3  Score=43.49  Aligned_cols=113  Identities=11%  Similarity=0.065  Sum_probs=82.2

Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHH
Q 043999          120 RLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLN  199 (574)
Q Consensus       120 g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  199 (574)
                      ....+|.++.++.++.+ +-|..+...+..++.-.|+++.|..+|++.....|....+|......+.-+|+.++|.+.++
T Consensus       318 ~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~  396 (458)
T PRK11906        318 LAAQKALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICID  396 (458)
T ss_pred             HHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            45567888888888876 44788877777777888889999999999888777777888888777888899999999999


Q ss_pred             HHHHCCCCCC---HHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          200 QLEEMGFSPN---VVIYTSLIDGCCKNGDIERAKMLFRKI  236 (574)
Q Consensus       200 ~m~~~g~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~~  236 (574)
                      +..+..  |.   .......++.|+.. .+++|+++|-+-
T Consensus       397 ~alrLs--P~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~  433 (458)
T PRK11906        397 KSLQLE--PRRRKAVVIKECVDMYVPN-PLKNNIKLYYKE  433 (458)
T ss_pred             HHhccC--chhhHHHHHHHHHHHHcCC-chhhhHHHHhhc
Confidence            876643  33   22333344455543 467777766543

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.27  E-value=0.57  Score=43.28  Aligned_cols=162  Identities=11%  Similarity=0.046  Sum_probs=115.0

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHH----HHHHHHHHhcCCH
Q 043999          361 CDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTY----TILIDSFVRSDDM  436 (574)
Q Consensus       361 ~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~----~~li~~~~~~g~~  436 (574)
                      -..|+..+|...++++.+. .+.|...++--=.+|.-.|+.+.-...+++.... ..||...|    ..+.-++...|-+
T Consensus       114 ~~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             hccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccc
Confidence            3467888888888888876 5668888888888999999999999999888754 23344333    2333455688999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHH
Q 043999          437 EKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLE---PNDVVYNMMIFGYCKEGNSYRALRLL  513 (574)
Q Consensus       437 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~---p~~~~~~~li~~~~~~g~~~~A~~~~  513 (574)
                      ++|.+.-++..+.+ +.|.....+..+.+-..|+.+++.++..+-...--.   .-...|....-.+...+.++.|+++|
T Consensus       192 ~dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  192 DDAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             hhHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            99999999888776 667777788888888999999999988765432101   11223444455566778999999999


Q ss_pred             HHH-HHCCCCCCH
Q 043999          514 GEM-NEKGLVPNI  525 (574)
Q Consensus       514 ~~m-~~~g~~p~~  525 (574)
                      +.= ..+--+.|.
T Consensus       271 D~ei~k~l~k~Da  283 (491)
T KOG2610|consen  271 DREIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHHhhccch
Confidence            864 443233344

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.23  E-value=0.81  Score=37.08  Aligned_cols=71  Identities=20%  Similarity=0.208  Sum_probs=32.1

Q ss_pred             HHhcCChhHHHHHHHHHHHCCC--CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 043999          185 CCEAGDLNKAFEVLNQLEEMGF--SPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGL  255 (574)
Q Consensus       185 ~~~~g~~~~A~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  255 (574)
                      ..+.|++++|.+.|+.+...-.  +-...+.-.|+.+|.+.+++++|...+++.++.++.....-|...+.++
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL   92 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGL   92 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHH
Confidence            3444555555555555544310  0012233445555555555555555555555544433333444444443

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.20  E-value=1.5  Score=40.17  Aligned_cols=123  Identities=15%  Similarity=0.104  Sum_probs=57.4

Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHH
Q 043999          184 GCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKD  263 (574)
Q Consensus       184 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  263 (574)
                      .....|++.+|..+|+........ +...--.++.+|...|+++.|..++..+....-.........-|..+.+.....+
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            344555666666666555543221 2344445555666666666666666555432211111111122233333333333


Q ss_pred             HHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043999          264 GFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHR  309 (574)
Q Consensus       264 a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  309 (574)
                      ..++-.+.-..  +-|...-..+...+...|+.++|.+.+-.+.++
T Consensus       222 ~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~  265 (304)
T COG3118         222 IQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRR  265 (304)
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            33333333322  124445555666666666666666655554443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.15  E-value=0.5  Score=43.62  Aligned_cols=153  Identities=10%  Similarity=0.036  Sum_probs=100.0

Q ss_pred             HHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhH----HHHHHHHHhcCCH
Q 043999          151 VIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIY----TSLIDGCCKNGDI  226 (574)
Q Consensus       151 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~----~~li~~~~~~g~~  226 (574)
                      +...|.+.+|-..++++....|-|..+++..=++|.-.|+.+.-...++++... ..||...|    ..+.-++..+|-+
T Consensus       113 ~~~~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  113 LWGRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             hhccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccc
Confidence            346678888888888888888888888888888888888888888888887753 12333222    2333445578888


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HhhHHHHHHHHHhcCCHHHHHHHH
Q 043999          227 ERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPS---LYTYNCLIHEYCNEGKVSEGFKLF  303 (574)
Q Consensus       227 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~---~~~~~~li~~~~~~g~~~~A~~~~  303 (574)
                      ++|++.-++..+.+.. |.-+-.++.+.+..+|+..++.++..+-...--..+   ..-|=-..-.+...+.++.|+++|
T Consensus       192 ~dAEk~A~ralqiN~~-D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  192 DDAEKQADRALQINRF-DCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             hhHHHHHHhhccCCCc-chHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            8888888887776543 566666777778888888888887665432210000   011111222344456777777777


Q ss_pred             HH
Q 043999          304 DE  305 (574)
Q Consensus       304 ~~  305 (574)
                      +.
T Consensus       271 D~  272 (491)
T KOG2610|consen  271 DR  272 (491)
T ss_pred             HH
Confidence            64

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.05  E-value=0.35  Score=43.59  Aligned_cols=95  Identities=15%  Similarity=0.080  Sum_probs=55.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH---HHHHHHHHHHhcCChhHHHHHHHHcccC---CCCCHHHHHHH
Q 043999          108 LYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSN---TFNSLLIFVIKSCSFDKGWLFFSENRCK---VELDVYSFGIL  181 (574)
Q Consensus       108 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~---~~~~ll~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~~l  181 (574)
                      .|+.-+..| +.|++..|...|...++.. +-+.+   ++--|..++...|++++|...|..+...   .+--+.+.--|
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~~Y-P~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKl  221 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQAFIKKY-PNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKL  221 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcC-CCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHH
Confidence            466666654 6677888888888877653 22222   2223556666666666666666665544   22233455555


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHC
Q 043999          182 IKGCCEAGDLNKAFEVLNQLEEM  204 (574)
Q Consensus       182 i~~~~~~g~~~~A~~~~~~m~~~  204 (574)
                      .....+.|+.++|..+|+++.+.
T Consensus       222 g~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         222 GVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHH
Confidence            55666666666666666666553

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.93  E-value=0.75  Score=37.26  Aligned_cols=73  Identities=10%  Similarity=0.100  Sum_probs=44.5

Q ss_pred             HHhcCChhHHHHHHHHcccCCCCC---HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhc
Q 043999          151 VIKSCSFDKGWLFFSENRCKVELD---VYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKN  223 (574)
Q Consensus       151 ~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  223 (574)
                      ..+.|++++|.+.|+.+..+.|..   ..+.-.++.+|.+.+++++|...+++.++.......+-|...+.+++.-
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~   95 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYY   95 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHH
Confidence            345666666666666666653332   3345567777888888888888888877754332234455555555443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.84  E-value=1.8  Score=35.44  Aligned_cols=123  Identities=14%  Similarity=0.110  Sum_probs=53.5

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCC
Q 043999          181 LIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGL  260 (574)
Q Consensus       181 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  260 (574)
                      ++..+.+.+........++.+...+. .+....+.++..|++.+ .++..+.++.      ..+......++..|.+.+.
T Consensus        13 vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~~l   84 (140)
T smart00299       13 VVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKAKL   84 (140)
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHcCc
Confidence            34444444455555555555544432 34445555555555432 2222222221      0122333344555555555


Q ss_pred             HHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhc-CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 043999          261 QKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNE-GKVSEGFKLFDEMRHREVACNVVTYNTLICGLC  326 (574)
Q Consensus       261 ~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  326 (574)
                      ++++.-++.++..         +...+..+... ++.+.|.+.+.+-  .    +...|..++..+.
T Consensus        85 ~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~~--~----~~~lw~~~~~~~l  136 (140)
T smart00299       85 YEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVKQ--N----NPELWAEVLKALL  136 (140)
T ss_pred             HHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHhC--C----CHHHHHHHHHHHH
Confidence            5555555544421         11122222222 5555555555541  1    4455555555544

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.82  E-value=6.3  Score=41.51  Aligned_cols=218  Identities=12%  Similarity=0.071  Sum_probs=131.1

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHH----hCC----------C--CCCHHHHHHHHHHHHhcCChhHHHHHHHHcccC
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQML----DSG----------V--RPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCK  170 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~----~~g----------~--~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~  170 (574)
                      .+.+.++.+|...+++-.=.-+++...    ..+          +  ....-+...-|..+++...++-|+.+...-...
T Consensus       284 ss~~~i~~~~d~~n~~v~ys~vl~~l~d~l~~w~~~~~vltsdg~~~~L~ek~le~kL~iL~kK~ly~~Ai~LAk~~~~d  363 (933)
T KOG2114|consen  284 SSSNRIFKAYDLRNRYVLYSSVLEDLSDNLIEWSFDCLVLTSDGVVHELIEKDLETKLDILFKKNLYKVAINLAKSQHLD  363 (933)
T ss_pred             cchhheeehhhhcCcccchHHhHHHHHHHHHhcCCcEEEEecCCceeeeeeccHHHHHHHHHHhhhHHHHHHHHHhcCCC
Confidence            456777777777776543333333322    212          0  001122444677788888888888887665432


Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHH
Q 043999          171 VELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTV  250 (574)
Q Consensus       171 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  250 (574)
                      ...-......-.+.+.+.|++++|...+-+-+.. ++|.     .+|.-|....++.+-...++.+.+.|.. +...-..
T Consensus       364 ~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttl  436 (933)
T KOG2114|consen  364 EDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTL  436 (933)
T ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHH
Confidence            1111122333445566789999998888776543 2332     3556666677777778888888888876 6777788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 043999          251 LICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMR  330 (574)
Q Consensus       251 li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  330 (574)
                      |+.+|.+.++.++-.++.+.-. .|..  ..-....+..+-+.+-.++|..+-.....     +......+   +-..++
T Consensus       437 LLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~il---le~~~n  505 (933)
T KOG2114|consen  437 LLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELLATKFKK-----HEWVLDIL---LEDLHN  505 (933)
T ss_pred             HHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHHH---HHHhcC
Confidence            9999999999888777666544 2221  11233455556666666666655444322     23333333   335678


Q ss_pred             HHHHHHHHHHHH
Q 043999          331 VQEAERLLDQMK  342 (574)
Q Consensus       331 ~~~A~~~~~~m~  342 (574)
                      +++|++.+..+.
T Consensus       506 y~eAl~yi~slp  517 (933)
T KOG2114|consen  506 YEEALRYISSLP  517 (933)
T ss_pred             HHHHHHHHhcCC
Confidence            889988887653

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.77  E-value=0.29  Score=43.97  Aligned_cols=104  Identities=17%  Similarity=0.264  Sum_probs=64.0

Q ss_pred             CHHHHHHHHHHHHh-----cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 043999          314 NVVTYNTLICGLCK-----EMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTY  388 (574)
Q Consensus       314 ~~~~~~~li~~~~~-----~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~  388 (574)
                      |-.+|-+.+..+..     .+.++-....++.|.+.|+..|..+|+.|++.+-+..-.                |.. .+
T Consensus        66 dK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfi----------------P~n-vf  128 (406)
T KOG3941|consen   66 DKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFI----------------PQN-VF  128 (406)
T ss_pred             cHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccc----------------cHH-HH
Confidence            66666666665543     345555566666677777777777777777665443221                111 11


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCH
Q 043999          389 NVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDM  436 (574)
Q Consensus       389 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  436 (574)
                      ....-.|-  .+-+-+++++++|...|+.||..+-..+++++.+.+-.
T Consensus       129 Q~~F~HYP--~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  129 QKVFLHYP--QQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HHHHhhCc--hhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence            11111111  12345788999999999999999999999998877653

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.72  E-value=0.31  Score=43.79  Aligned_cols=51  Identities=14%  Similarity=0.079  Sum_probs=32.4

Q ss_pred             CCCHHHHHHHHHHHHh-----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 043999          452 SPDVYTYGVLIHGLCM-----KGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCK  502 (574)
Q Consensus       452 ~~~~~~~~~li~~~~~-----~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~  502 (574)
                      +-|-.+|...+..+..     .+.++-....++.|.+.|+.-|..+|+.|++.+=+
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPK  119 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPK  119 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcc
Confidence            3455566666655543     34566666667777777777777777777776644

>PRK11906 transcriptional regulator; Provisional

Probab=94.60  E-value=2.1  Score=42.05  Aligned_cols=147  Identities=12%  Similarity=0.099  Sum_probs=104.2

Q ss_pred             ChHHHHHHHHHHHH-CCCCCC-HhHHHHHHHHHHh---------cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 043999          400 NSKMASDLVREMEE-RGITPS-EVTYTILIDSFVR---------SDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMK  468 (574)
Q Consensus       400 ~~~~A~~~~~~m~~-~~~~p~-~~~~~~li~~~~~---------~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  468 (574)
                      ..+.|..+|.+... ....|+ ...|..+..++..         .....+|.+.-++..+.+ +.|......+...+...
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhh
Confidence            45678889999882 223444 3445555444322         234567778888888877 77888888888888888


Q ss_pred             CCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHhcCCHHHH
Q 043999          469 GNMKEASKLFNSMWETKLEPN-DVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNI---ASYSSTIGVLCQDGKWPEA  544 (574)
Q Consensus       469 g~~~~A~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~---~~~~~l~~~~~~~g~~~~A  544 (574)
                      ++++.|...|++....  .|| ..+|......+.-.|+.++|.+.+++..+  ..|..   ......++.|+.. ..++|
T Consensus       352 ~~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alr--LsP~~~~~~~~~~~~~~~~~~-~~~~~  426 (458)
T PRK11906        352 GQAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICIDKSLQ--LEPRRRKAVVIKECVDMYVPN-PLKNN  426 (458)
T ss_pred             cchhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhc--cCchhhHHHHHHHHHHHHcCC-chhhh
Confidence            9999999999999885  454 56677777777889999999999999887  45543   3334445566664 46788


Q ss_pred             HHHHHHHH
Q 043999          545 EVLLNQML  552 (574)
Q Consensus       545 ~~~~~~m~  552 (574)
                      .+++-+-.
T Consensus       427 ~~~~~~~~  434 (458)
T PRK11906        427 IKLYYKET  434 (458)
T ss_pred             HHHHhhcc
Confidence            88775544

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=94.51  E-value=6.1  Score=39.96  Aligned_cols=407  Identities=14%  Similarity=0.047  Sum_probs=221.8

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHH
Q 043999          140 RSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDG  219 (574)
Q Consensus       140 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  219 (574)
                      +...|..++.---...+.+.+..++..+....|.----|......-.+.|..+.+.++|++-.. |++-.+..|.....-
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~~fL~kyPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~-aip~SvdlW~~Y~~f  122 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYDIFLSKYPLCYGYWKKFADYEYKLGNAENSVKVFERGVQ-AIPLSVDLWLSYLAF  122 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHHHHHhhCccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH-hhhhHHHHHHHHHHH
Confidence            3344555553333333445666777777766565555677777777788999999999999885 466666677666655


Q ss_pred             HH-hcCCHHHHHHHHHHHHhC-CCC-CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHH---hc
Q 043999          220 CC-KNGDIERAKMLFRKIGEL-GLV-ATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYC---NE  293 (574)
Q Consensus       220 ~~-~~g~~~~A~~~~~~~~~~-~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~---~~  293 (574)
                      ++ ..|+.+...+.|++.... |.. .+...|...|..-..++++.....++++.++.    ...-++....-|.   +.
T Consensus       123 ~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRilei----P~~~~~~~f~~f~~~l~~  198 (577)
T KOG1258|consen  123 LKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEI----PLHQLNRHFDRFKQLLNQ  198 (577)
T ss_pred             HhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhh----hhhHhHHHHHHHHHHHhc
Confidence            44 467788888888887653 221 24557888888888888999999999998864    2233333332222   11


Q ss_pred             ------CCHHHHHHHHHHHHhC----CCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 043999          294 ------GKVSEGFKLFDEMRHR----EVACNVVTYNTLICGLCK-EMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCD  362 (574)
Q Consensus       294 ------g~~~~A~~~~~~m~~~----~~~~~~~~~~~li~~~~~-~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~  362 (574)
                            ...+++.++-.....+    ...+....+..-+..-.. .+..+++.....+..           +.--.++-.
T Consensus       199 ~~~~~l~~~d~~~~l~~~~~~~~~~~~~~~~~e~~~~~v~~~~~~s~~l~~~~~~l~~~~-----------~~~~~~~~~  267 (577)
T KOG1258|consen  199 NEEKILLSIDELIQLRSDVAERSKITHSQEPLEELEIGVKDSTDPSKSLTEEKTILKRIV-----------SIHEKVYQK  267 (577)
T ss_pred             CChhhhcCHHHHHHHhhhHHhhhhcccccChhHHHHHHHhhccCccchhhHHHHHHHHHH-----------HHHHHHHHh
Confidence                  1223332222222111    000011111111111000 111111111111110           001112222


Q ss_pred             cCCHHHHHHHHHHHHHC---CC----CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCC
Q 043999          363 AGETDKAFRLFNQLKSN---GQ----SPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDD  435 (574)
Q Consensus       363 ~g~~~~A~~~~~~~~~~---g~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  435 (574)
                      .....+....|+.-++.   .+    .++..+|...+.--.+.|+.+.+.-++++..-. +..=...|--.+.-....|+
T Consensus       268 s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~  346 (577)
T KOG1258|consen  268 SEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGD  346 (577)
T ss_pred             hHhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCc
Confidence            23333333444443332   11    235678888888889999999999999887532 11122334444555555599


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCCHHHHH---
Q 043999          436 MEKAFEMYSLMQKSGFSPDVYTYGVLIHG-LCMKGNMKEASKLFNSMWETKLEPNDV-VYNMMIFGYCKEGNSYRAL---  510 (574)
Q Consensus       436 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~~~A~~~~~~~~~~~~~p~~~-~~~~li~~~~~~g~~~~A~---  510 (574)
                      .+-|..++....+.-++..+.+ ..+-.. .-..|+++.|..+++...+.-  |+.. .-..-+....+.|+.+.+.   
T Consensus       347 ~~~~~~~~~~~~~i~~k~~~~i-~L~~a~f~e~~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~~~~  423 (577)
T KOG1258|consen  347 VSLANNVLARACKIHVKKTPII-HLLEARFEESNGNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDANYKN  423 (577)
T ss_pred             hhHHHHHHHhhhhhcCCCCcHH-HHHHHHHHHhhccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhhHHH
Confidence            9888888877665543333222 222222 334679999999999998753  5533 2223344556778888877   


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHH-----HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHhh
Q 043999          511 RLLGEMNEKGLVPNIASYSSTIG-----VLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRA  569 (574)
Q Consensus       511 ~~~~~m~~~g~~p~~~~~~~l~~-----~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~  569 (574)
                      +++....+.  +-+......+.-     .+.-.++.+.|..++.+|.+. +.++...|..++..
T Consensus       424 ~l~s~~~~~--~~~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~  484 (577)
T KOG1258|consen  424 ELYSSIYEG--KENNGILEKLYVKFARLRYKIREDADLARIILLEANDI-LPDCKVLYLELIRF  484 (577)
T ss_pred             HHHHHhccc--ccCcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHH
Confidence            333333322  112222222222     223358899999999999865 34445566665543

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.39  E-value=3.1  Score=36.15  Aligned_cols=63  Identities=17%  Similarity=0.089  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 043999          141 SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEE  203 (574)
Q Consensus       141 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  203 (574)
                      +..||.+.--+...|+++.|.+.|+...+..|...++...-.-.+.--|++.-|.+-|...-+
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ  161 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDDLLAFYQ  161 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHhhHHHHHHHHh
Confidence            334555554455555555555555555444333333333333333334555555544444433

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.34  E-value=0.17  Score=31.64  Aligned_cols=38  Identities=11%  Similarity=0.109  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHH
Q 043999          108 LYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNS  146 (574)
Q Consensus       108 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~  146 (574)
                      +|..+...|.+.|++++|.++|++.++.. +-|...+..
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~-P~~~~a~~~   40 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALD-PDDPEAWRA   40 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCCHHHHHH
Confidence            56777888888888888888888888763 224444443

>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=94.33  E-value=4.6  Score=37.80  Aligned_cols=61  Identities=11%  Similarity=0.145  Sum_probs=27.3

Q ss_pred             HHHHHHHHHhcCCHH---HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 043999          353 YNKLIDGFCDAGETD---KAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEER  414 (574)
Q Consensus       353 ~~~li~~~~~~g~~~---~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  414 (574)
                      ...++.+|...+..+   +|.++++.+...... .+..+..-+..+.+.++.+++.+.+.+|+..
T Consensus        87 L~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   87 LRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence            344455555544433   333344444332111 2333333344444455566666666666544

It is also involved in sporulation [].

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=94.30  E-value=3.8  Score=36.81  Aligned_cols=54  Identities=15%  Similarity=0.138  Sum_probs=26.9

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCCH---hHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          392 IRAFSKAGNSKMASDLVREMEERGITPSE---VTYTILIDSFVRSDDMEKAFEMYSLM  446 (574)
Q Consensus       392 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~---~~~~~li~~~~~~g~~~~A~~~~~~~  446 (574)
                      .+-|.+.|.+..|..-+++|++. .+-..   ..+-.+..+|...|-.++|.+.-.-+
T Consensus       174 aryY~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl  230 (254)
T COG4105         174 ARYYLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVL  230 (254)
T ss_pred             HHHHHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHH
Confidence            34455666666666666666554 11111   22334445555555555555544433

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.28  E-value=0.12  Score=32.42  Aligned_cols=36  Identities=8%  Similarity=-0.151  Sum_probs=16.5

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHH
Q 043999          145 NSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGI  180 (574)
Q Consensus       145 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  180 (574)
                      ..+...+...|++++|.++|+++....|.|...|..
T Consensus         5 ~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~   40 (44)
T PF13428_consen    5 LALARAYRRLGQPDEAERLLRRALALDPDDPEAWRA   40 (44)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHH
Confidence            334444444444444444444444444444444433

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.21  E-value=8.2  Score=40.23  Aligned_cols=178  Identities=17%  Similarity=0.137  Sum_probs=98.8

Q ss_pred             hhHHHHHHHHHHHCCCCCCHHhHHHHH----HH-HHhcCCHHHHHHHHHHHHh-------CCCCCChhhHHHHHHHHHhc
Q 043999          191 LNKAFEVLNQLEEMGFSPNVVIYTSLI----DG-CCKNGDIERAKMLFRKIGE-------LGLVATQHTYTVLICGLFKN  258 (574)
Q Consensus       191 ~~~A~~~~~~m~~~g~~p~~~~~~~li----~~-~~~~g~~~~A~~~~~~~~~-------~~~~~~~~~~~~li~~~~~~  258 (574)
                      ...|.+.++...+.|   +......+.    .+ +....+.+.|+..|+...+       .+   .......+..+|.+.
T Consensus       228 ~~~a~~~~~~~a~~g---~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g  301 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLG---HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhc---chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcC
Confidence            457888888877765   333322222    22 4456788889988888766       44   334566666666664


Q ss_pred             C-----CHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHh-cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH----hc
Q 043999          259 G-----LQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCN-EGKVSEGFKLFDEMRHREVACNVVTYNTLICGLC----KE  328 (574)
Q Consensus       259 g-----~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~----~~  328 (574)
                      .     +.+.|+.++.+..+.|. |+.......+..... ..+...|.++|....+.|..   ..+-.+..+|.    ..
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~---~A~~~la~~y~~G~gv~  377 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAELGN-PDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI---LAIYRLALCYELGLGVE  377 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcCC-chHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh---HHHHHHHHHHHhCCCcC
Confidence            3     55668888887777663 344433333322222 24567788888877777643   22222222221    23


Q ss_pred             CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          329 MRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNG  380 (574)
Q Consensus       329 ~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g  380 (574)
                      .+.+.|..++.+..+.| .|....-...+..+.. +.++.+.-.+..+.+.|
T Consensus       378 r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g  427 (552)
T KOG1550|consen  378 RNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELG  427 (552)
T ss_pred             CCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhh
Confidence            45677777777777776 2222222222233333 56666665555555544

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.20  E-value=3.9  Score=36.46  Aligned_cols=201  Identities=18%  Similarity=0.066  Sum_probs=108.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH-
Q 043999          316 VTYNTLICGLCKEMRVQEAERLLDQMKMA-GISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIR-  393 (574)
Q Consensus       316 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~-g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~-  393 (574)
                      ..+......+...+....+...+...... ........+......+...++...+.+.+.........+ ......... 
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  138 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALG  138 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHH
Confidence            44444445555555555555555554431 112333444444455555555556666665555432222 111111222 


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCC--CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCC
Q 043999          394 AFSKAGNSKMASDLVREMEERGI--TPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSP-DVYTYGVLIHGLCMKGN  470 (574)
Q Consensus       394 ~~~~~g~~~~A~~~~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~  470 (574)
                      .+...|+++.|...+.+......  ......+......+...++.+.+...+....... +. ....+..+...+...++
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  217 (291)
T COG0457         139 ALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLN-PDDDAEALLNLGLLYLKLGK  217 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhC-cccchHHHHHhhHHHHHccc
Confidence            45666666666666666644211  0122233333333556677777777777776653 22 35666677777777777


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          471 MKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEK  519 (574)
Q Consensus       471 ~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  519 (574)
                      +++|...+......... ....+..+...+...|..+++...+.+....
T Consensus       218 ~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         218 YEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             HHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            88888887777764221 2344444555555666778888777777764

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=93.86  E-value=10  Score=40.06  Aligned_cols=86  Identities=7%  Similarity=0.109  Sum_probs=32.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCChhhHHHHHHHHHh---c
Q 043999          288 HEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAG-ISPNVITYNKLIDGFCD---A  363 (574)
Q Consensus       288 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g-~~~~~~~~~~li~~~~~---~  363 (574)
                      ..+.-.|.++.|.+.+-.  ..+...|.+++...+..|.-.+-.+...   ..+.... -.|....+..||..|.+   .
T Consensus       266 ~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F~~  340 (613)
T PF04097_consen  266 QVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSFEI  340 (613)
T ss_dssp             HHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTTTT
T ss_pred             HHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHHhc
Confidence            344456777777777665  1222234444444443332211111111   2222111 01111456666666665   3


Q ss_pred             CCHHHHHHHHHHHHH
Q 043999          364 GETDKAFRLFNQLKS  378 (574)
Q Consensus       364 g~~~~A~~~~~~~~~  378 (574)
                      .++.+|.+++--+..
T Consensus       341 td~~~Al~Y~~li~~  355 (613)
T PF04097_consen  341 TDPREALQYLYLICL  355 (613)
T ss_dssp             T-HHHHHHHHHGGGG
T ss_pred             cCHHHHHHHHHHHHH
Confidence            466666666655544

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.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.73  E-value=3.6  Score=34.42  Aligned_cols=122  Identities=11%  Similarity=0.096  Sum_probs=51.9

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH-HH--HHHHHHHHhcCCHH
Q 043999          432 RSDDMEKAFEMYSLMQKSGFSPDVYT-YGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDV-VY--NMMIFGYCKEGNSY  507 (574)
Q Consensus       432 ~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~-~~--~~li~~~~~~g~~~  507 (574)
                      +.+..++|+.-|..+.+.|...-+.. ..-........|+...|...|+++-.....|... -.  ---...+...|.++
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            34445555555555554443221111 1111222344555555555555554432222211 00  11112234455555


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          508 RALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       508 ~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      ....-.+-+...+-+.....-..|.-+-.+.|++.+|.++|+.+..
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            5555554444333222223334444455555666666666655553

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.73  E-value=7.9  Score=38.39  Aligned_cols=61  Identities=18%  Similarity=0.165  Sum_probs=37.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          284 NCLIHEYCNEGKVSEGFKLFDEMRHREVA-CNVVTYNTLICGLCKEMRVQEAERLLDQMKMA  344 (574)
Q Consensus       284 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~-~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  344 (574)
                      ..+..+.-+.|+.++|++.|++|.+..+. ........|+.++...+.+.++..++.+-.+.
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi  324 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDI  324 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccc
Confidence            34555555667777777777777654322 13345566777777777777777777665443

The molecular function of this protein is uncertain.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.63  E-value=3.7  Score=34.31  Aligned_cols=133  Identities=14%  Similarity=0.063  Sum_probs=82.5

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCChhHHHHHHHHcccC-CCCCHH-H--HHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRS-NTFNSLLIFVIKSCSFDKGWLFFSENRCK-VELDVY-S--FGI  180 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~ll~~~~~~g~~~~A~~~~~~~~~~-~~~~~~-~--~~~  180 (574)
                      ...|..-++. .+.|..++|+.-|..+.+.|...-+ .............|+..+|...|.++-.. ..|-+. -  --.
T Consensus        59 gd~flaAL~l-A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlr  137 (221)
T COG4649          59 GDAFLAALKL-AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLR  137 (221)
T ss_pred             hHHHHHHHHH-HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHH
Confidence            3445555543 4778899999999999887654211 12222334567788888888888887655 222222 1  111


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043999          181 LIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGEL  239 (574)
Q Consensus       181 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  239 (574)
                      -.-.+...|.++......+.+...+-+.....-..|.-+-.+.|++.+|.+.|..+...
T Consensus       138 aa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         138 AAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence            12234567778777777776665443334445556666667788888888888777653

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.59  E-value=5  Score=35.66  Aligned_cols=208  Identities=13%  Similarity=0.101  Sum_probs=115.7

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      ...|..-..+|....++++|...+.+..+. ...|...|.       ....++.|.-+.+++... +.-+..|+--...|
T Consensus        31 as~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfh-------AAKayEqaamLake~~kl-sEvvdl~eKAs~lY  101 (308)
T KOG1585|consen   31 ASLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFH-------AAKAYEQAAMLAKELSKL-SEVVDLYEKASELY  101 (308)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHH-------HHHHHHHHHHHHHHHHHh-HHHHHHHHHHHHHH
Confidence            355777778888888999988877776632 122222222       223344555555554432 22344566667788


Q ss_pred             HhcCChhHHHHHHHHHHHC--CCCCCH--HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCH
Q 043999          186 CEAGDLNKAFEVLNQLEEM--GFSPNV--VIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQ  261 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~--g~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  261 (574)
                      ..+|..+.|-..+++.-+.  ++.|+.  ..|..-+...-..++...|.++               +....+.+.+..++
T Consensus       102 ~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el---------------~gk~sr~lVrl~kf  166 (308)
T KOG1585|consen  102 VECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFEL---------------YGKCSRVLVRLEKF  166 (308)
T ss_pred             HHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHH---------------HHHhhhHhhhhHHh
Confidence            8999988888887775541  233332  1233233333333333333333               33344566677777


Q ss_pred             HHHHHHHHHHHHC----CCCCCH-hhHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCCHHH
Q 043999          262 KDGFEFYEKMQLN----GVSPSL-YTYNCLIHEYCNEGKVSEGFKLFDEMRHR---EVACNVVTYNTLICGLCKEMRVQE  333 (574)
Q Consensus       262 ~~a~~~~~~~~~~----g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~---~~~~~~~~~~~li~~~~~~~~~~~  333 (574)
                      ++|-..+.+-...    .--++. ..|...|-.|.-..++..|.+.++.--+.   .-.-+..+...|+.+| ..|+.++
T Consensus       167 ~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~  245 (308)
T KOG1585|consen  167 TEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEE  245 (308)
T ss_pred             hHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHH
Confidence            7766555443211    001122 23455555666677899999998874333   2222567777788877 4677777


Q ss_pred             HHHHH
Q 043999          334 AERLL  338 (574)
Q Consensus       334 A~~~~  338 (574)
                      +.++.
T Consensus       246 ~~kvl  250 (308)
T KOG1585|consen  246 IKKVL  250 (308)
T ss_pred             HHHHH
Confidence            66554

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.54  E-value=0.17  Score=30.00  Aligned_cols=26  Identities=15%  Similarity=0.168  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHH
Q 043999          108 LYESIIDAHLKSRLSDQALFYFHQML  133 (574)
Q Consensus       108 ~~~~li~~~~~~g~~~~A~~~~~~~~  133 (574)
                      +|+.|.+.|.+.|++++|+++|++.+
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            46788888888888888888888854

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=93.50  E-value=1.8  Score=40.59  Aligned_cols=164  Identities=13%  Similarity=0.089  Sum_probs=85.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCC---ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC-----CCCCHhhH
Q 043999          213 YTSLIDGCCKNGDIERAKMLFRKIGEL-GLVA---TQHTYTVLICGLFKNGLQKDGFEFYEKMQLNG-----VSPSLYTY  283 (574)
Q Consensus       213 ~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g-----~~p~~~~~  283 (574)
                      |..+..++-+..++.+++.+-+.-... |..|   .-....++..++...+.++++++.|+...+..     ......++
T Consensus        86 ~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvc  165 (518)
T KOG1941|consen   86 YLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVC  165 (518)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehh
Confidence            444444444445555555444433221 1111   01223334555666666777777777665421     11123456


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHH----HhCCCCCCH-HHH-----HHHHHHHHhcCCHHHHHHHHHHHH----HCCCCC-
Q 043999          284 NCLIHEYCNEGKVSEGFKLFDEM----RHREVACNV-VTY-----NTLICGLCKEMRVQEAERLLDQMK----MAGISP-  348 (574)
Q Consensus       284 ~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~-~~~-----~~li~~~~~~~~~~~A~~~~~~m~----~~g~~~-  348 (574)
                      -.|-..|.+..++++|.-...+.    ..-++. |. ..|     ..|.-++...|+..+|.+.-++..    ..|-.+ 
T Consensus       166 v~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~-d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~  244 (518)
T KOG1941|consen  166 VSLGSLFAQLKDYEKALFFPCKAAELVNSYGLK-DWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRAL  244 (518)
T ss_pred             hhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcC-chhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHH
Confidence            67777777777777766444333    222322 22 112     223345666777777766666543    334211 


Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          349 NVITYNKLIDGFCDAGETDKAFRLFNQLK  377 (574)
Q Consensus       349 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~  377 (574)
                      -......+.+.|...|+.+.|+.-|++..
T Consensus       245 ~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  245 QARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence            12233456677888888888887777654

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.20  E-value=1.2  Score=40.84  Aligned_cols=79  Identities=14%  Similarity=0.181  Sum_probs=50.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCHHHHH
Q 043999          455 VYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNE-----KGLVPNIASYS  529 (574)
Q Consensus       455 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~~~~  529 (574)
                      ..++..++..+...|+++.+.+.+++.....+. +...|..++.+|.+.|+...|+..|+++.+     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~-~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDPY-DEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            445566666677777777777777777665433 666677777777777777777777766654     36666655554


Q ss_pred             HHHHH
Q 043999          530 STIGV  534 (574)
Q Consensus       530 ~l~~~  534 (574)
                      .....
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            44433

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.13  E-value=1.2  Score=40.96  Aligned_cols=79  Identities=11%  Similarity=0.135  Sum_probs=56.7

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHHHH
Q 043999          420 EVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWE-----TKLEPNDVVYN  494 (574)
Q Consensus       420 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~p~~~~~~  494 (574)
                      ..++..++..+...|+.+.+...++++.... +-+...|..++.+|.+.|+...|+..|+++.+     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            3456667777777888888888888877764 56677788888888888888888888877664     36777666655


Q ss_pred             HHHHH
Q 043999          495 MMIFG  499 (574)
Q Consensus       495 ~li~~  499 (574)
                      .....
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            54444

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=93.01  E-value=4  Score=38.44  Aligned_cols=128  Identities=14%  Similarity=0.032  Sum_probs=56.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCC-----CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCCCHHHHH--
Q 043999          391 LIRAFSKAGNSKMASDLVREMEERGI-----TPSEVTYTILIDSFVRSDDMEKAFEMYSLMQK----SGFSPDVYTYG--  459 (574)
Q Consensus       391 li~~~~~~g~~~~A~~~~~~m~~~~~-----~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~~~~--  459 (574)
                      +..++...+.++++++.|+...+.-.     .....++..|...|.+..++++|.-+..+..+    .++..-..-|.  
T Consensus       128 ~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~  207 (518)
T KOG1941|consen  128 MGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAM  207 (518)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHH
Confidence            44444455555666665555443211     11223455555556666666665554444322    22111111121  


Q ss_pred             ---HHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          460 ---VLIHGLCMKGNMKEASKLFNSMWET----KLEP-NDVVYNMMIFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       460 ---~li~~~~~~g~~~~A~~~~~~~~~~----~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  518 (574)
                         .+.-++-..|++-.|.+.-++..+.    |-.| .......+.+.|...|+.+.|..-+++...
T Consensus       208 ~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  208 SLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHHH
Confidence               1223344555555555555554321    2111 122233445555555555555555555443

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=92.95  E-value=3.9  Score=32.51  Aligned_cols=63  Identities=17%  Similarity=0.150  Sum_probs=31.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 043999          493 YNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGL  556 (574)
Q Consensus       493 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  556 (574)
                      .+..+..+...|+-+.-.++..++.+. -.+++.....+..+|.+.|+..++..++.++.++|+
T Consensus        89 vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   89 VDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            344445555556555555555555432 244555555556666666666666666666665554

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=92.66  E-value=5.2  Score=33.24  Aligned_cols=107  Identities=15%  Similarity=0.084  Sum_probs=52.0

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 043999          431 VRSDDMEKAFEMYSLMQKSGFSPDVY-TYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRA  509 (574)
Q Consensus       431 ~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  509 (574)
                      .+.++.+++..++..+.-.  .|... .-..-...+...|++.+|+.+|+++.+..  |....-..|+..|....+-..=
T Consensus        21 l~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~~~D~~W   96 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYALGDPSW   96 (160)
T ss_pred             HccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHcCChHH
Confidence            4566777777777776654  23322 11222233567777777777777766542  2322233334333333333333


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 043999          510 LRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEA  544 (574)
Q Consensus       510 ~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  544 (574)
                      ..+-+++.+.+-.|+..   .++..+....+...|
T Consensus        97 r~~A~evle~~~d~~a~---~Lv~~Ll~~~~~~~a  128 (160)
T PF09613_consen   97 RRYADEVLESGADPDAR---ALVRALLARADLEPA  128 (160)
T ss_pred             HHHHHHHHhcCCChHHH---HHHHHHHHhccccch
Confidence            44445555543333322   344444444443333

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.44  E-value=0.34  Score=28.70  Aligned_cols=23  Identities=17%  Similarity=0.210  Sum_probs=10.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHH
Q 043999          493 YNMMIFGYCKEGNSYRALRLLGE  515 (574)
Q Consensus       493 ~~~li~~~~~~g~~~~A~~~~~~  515 (574)
                      |+.|...|.+.|++++|++++++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            33444444444444444444444

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=91.90  E-value=0.14  Score=29.88  Aligned_cols=23  Identities=17%  Similarity=0.205  Sum_probs=11.0

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHH
Q 043999          172 ELDVYSFGILIKGCCEAGDLNKA  194 (574)
Q Consensus       172 ~~~~~~~~~li~~~~~~g~~~~A  194 (574)
                      |.|..+|+.+...|...|++++|
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhh
Confidence            44444444444444444444444

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=91.89  E-value=2.6  Score=36.19  Aligned_cols=96  Identities=15%  Similarity=0.054  Sum_probs=53.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC---CCCCCHHHHHHH
Q 043999          457 TYGVLIHGLCMKGNMKEASKLFNSMWETKLEPN--DVVYNMMIFGYCKEGNSYRALRLLGEMNEK---GLVPNIASYSST  531 (574)
Q Consensus       457 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~p~~~~~~~l  531 (574)
                      .+..+...|++.|+.++|.+.|.++.+....|.  ...+-.+|......|++..+.....+....   |-.++...--..
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            455666677777777777777777666533332  334556666666677777776666665432   111111111111


Q ss_pred             HH--HHHhcCCHHHHHHHHHHHH
Q 043999          532 IG--VLCQDGKWPEAEVLLNQML  552 (574)
Q Consensus       532 ~~--~~~~~g~~~~A~~~~~~m~  552 (574)
                      ..  .+...|++.+|-+.|-+..
T Consensus       118 ~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  118 YEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHhchHHHHHHHHHccC
Confidence            11  2234577777777766654

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.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.66  E-value=6.2  Score=39.88  Aligned_cols=99  Identities=17%  Similarity=0.194  Sum_probs=44.9

Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHH
Q 043999          186 CEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGF  265 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  265 (574)
                      .+.|+++.|.++..+..      +..-|..|.++..+.|++..|.+-|.+...         |..|+-.+...|+.+-..
T Consensus       648 l~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~  712 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLA  712 (794)
T ss_pred             hhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHH
Confidence            34455555555544322      344455555555555555555555544322         334444444444444333


Q ss_pred             HHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          266 EFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDE  305 (574)
Q Consensus       266 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  305 (574)
                      .+-....+.|.. |     .-.-+|...|+++++.+++.+
T Consensus       713 ~la~~~~~~g~~-N-----~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  713 VLASLAKKQGKN-N-----LAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             HHHHHHHhhccc-c-----hHHHHHHHcCCHHHHHHHHHh
Confidence            333333333321 1     122233445555555555443

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=91.59  E-value=0.25  Score=28.81  Aligned_cols=21  Identities=29%  Similarity=0.341  Sum_probs=10.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHHH
Q 043999          489 NDVVYNMMIFGYCKEGNSYRA  509 (574)
Q Consensus       489 ~~~~~~~li~~~~~~g~~~~A  509 (574)
                      +..+|+.+...|...|++++|
T Consensus        12 n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhh
Confidence            344455555555555555444

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.50  E-value=2.8  Score=38.59  Aligned_cols=46  Identities=22%  Similarity=0.387  Sum_probs=23.6

Q ss_pred             hHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          401 SKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLM  446 (574)
Q Consensus       401 ~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  446 (574)
                      +++++.++..=++.|+.||.++++.+++.+.+.+++.+|.++...|
T Consensus       116 pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~  161 (418)
T KOG4570|consen  116 PQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEV  161 (418)
T ss_pred             hHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHH
Confidence            4455555554455555555555555555555555555555444443

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=91.41  E-value=3.2  Score=35.66  Aligned_cols=61  Identities=20%  Similarity=0.305  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC--HHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          177 SFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPN--VVIYTSLIDGCCKNGDIERAKMLFRKIG  237 (574)
Q Consensus       177 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~  237 (574)
                      .+..++..|++.|+.+.|.+.+.++.+....+.  ...+-.+|......+++..+.....+..
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            466677777777777777777777766433332  3345566666666777777666666553

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.

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=91.26  E-value=8.1  Score=32.54  Aligned_cols=36  Identities=22%  Similarity=0.345  Sum_probs=22.1

Q ss_pred             HHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHH
Q 043999          196 EVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKM  231 (574)
Q Consensus       196 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  231 (574)
                      +.++.+.+.+++|+...+..+++.+.+.|++....+
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~q   50 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQ   50 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            444455556666666677777777777766554433

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=91.12  E-value=22  Score=37.16  Aligned_cols=244  Identities=12%  Similarity=0.077  Sum_probs=113.7

Q ss_pred             hcCCHHHHHHHHHHHHh-------CCCCCCHHHHHHHHHHHHhcC-----CHHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 043999          292 NEGKVSEGFKLFDEMRH-------REVACNVVTYNTLICGLCKEM-----RVQEAERLLDQMKMAGISPNVITYNKLIDG  359 (574)
Q Consensus       292 ~~g~~~~A~~~~~~m~~-------~~~~~~~~~~~~li~~~~~~~-----~~~~A~~~~~~m~~~g~~~~~~~~~~li~~  359 (574)
                      ...+.+.|+..|+.+.+       .+   ++.....+..+|.+..     +.+.|..++....+.| .|+....  +...
T Consensus       261 ~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~g-~~~a~~~--lg~~  334 (552)
T KOG1550|consen  261 VTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAELG-NPDAQYL--LGVL  334 (552)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCccccHHHHHHHHHHHHhcC-CchHHHH--HHHH
Confidence            33445555555555444       33   2233444445554422     4556677776666665 2333222  2222


Q ss_pred             HHh---cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----hcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHh
Q 043999          360 FCD---AGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFS----KAGNSKMASDLVREMEERGITPSEVTYTILIDSFVR  432 (574)
Q Consensus       360 ~~~---~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~----~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~  432 (574)
                      +..   ..+...|.++|....+.|.. +  .+-.+..+|.    -..+...|..++++.-+.| .|...--...+..+..
T Consensus       335 ~~~g~~~~d~~~A~~yy~~Aa~~G~~-~--A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~  410 (552)
T KOG1550|consen  335 YETGTKERDYRRAFEYYSLAAKAGHI-L--AIYRLALCYELGLGVERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV  410 (552)
T ss_pred             HHcCCccccHHHHHHHHHHHHHcCCh-H--HHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc
Confidence            222   23456777777777666532 1  1111111111    2235566777777776665 2221111222222333


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH-H---HHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-
Q 043999          433 SDDMEKAFEMYSLMQKSGFSPDVYTYGVLIH-G---LCM----KGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKE-  503 (574)
Q Consensus       433 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~-~---~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~-  503 (574)
                       ++.+.+.-.+..+...|.+ ...+-...+. .   ...    ..+.+.+...+......|   +......+...|... 
T Consensus       411 -~~~~~~~~~~~~~a~~g~~-~~q~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~a~~~lgd~y~~g~  485 (552)
T KOG1550|consen  411 -GRYDTALALYLYLAELGYE-VAQSNAAYLLDQSEEDLFSRGVISTLERAFSLYSRAAAQG---NADAILKLGDYYYYGL  485 (552)
T ss_pred             -ccccHHHHHHHHHHHhhhh-HHhhHHHHHHHhccccccccccccchhHHHHHHHHHHhcc---CHHHHhhhcceeeecC
Confidence             5666666555555554422 1111111111 0   001    224555666666655433   455555555555432 


Q ss_pred             ---CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----hcCCHHHHHHHHHHHHHcC
Q 043999          504 ---GNSYRALRLLGEMNEKGLVPNIASYSSTIGVLC----QDGKWPEAEVLLNQMLKLG  555 (574)
Q Consensus       504 ---g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~----~~g~~~~A~~~~~~m~~~g  555 (574)
                         .+++.|...+....+.+   ....| .+...+-    ... +..|.+++++..+.+
T Consensus       486 g~~~d~~~a~~~y~~a~~~~---~~~~~-nlg~~~e~g~g~~~-~~~a~~~~~~~~~~~  539 (552)
T KOG1550|consen  486 GTGRDPEKAAAQYARASEQG---AQALF-NLGYMHEHGEGIKV-LHLAKRYYDQASEED  539 (552)
T ss_pred             CCCCChHHHHHHHHHHHHhh---hHHHh-hhhhHHhcCcCcch-hHHHHHHHHHHHhcC
Confidence               24677777777776654   22222 2222221    123 677888888777543

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=91.06  E-value=14  Score=34.82  Aligned_cols=126  Identities=16%  Similarity=0.267  Sum_probs=59.4

Q ss_pred             HHHHHHHHHHHCCCCCCHhhHHHHHHHHHh--cC----CHHHHHHHHHHHHhCCC---CCCHHHHHHHHHHHHhcCC---
Q 043999          263 DGFEFYEKMQLNGVSPSLYTYNCLIHEYCN--EG----KVSEGFKLFDEMRHREV---ACNVVTYNTLICGLCKEMR---  330 (574)
Q Consensus       263 ~a~~~~~~~~~~g~~p~~~~~~~li~~~~~--~g----~~~~A~~~~~~m~~~~~---~~~~~~~~~li~~~~~~~~---  330 (574)
                      +.+++++.|.+.|++-+..+|.+..-....  ..    ...+|..+|+.|++..+   .++..++..++..  ..++   
T Consensus        80 ~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e~  157 (297)
T PF13170_consen   80 EVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVEE  157 (297)
T ss_pred             HHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHHH
Confidence            344566777777776666555443222222  11    24556677777766543   2233444444433  2222   


Q ss_pred             -HHHHHHHHHHHHHCCCCCChh--hHHHHHHHHHhcCC--HHHHHHHHHHHHHCCCCCCHHHHHH
Q 043999          331 -VQEAERLLDQMKMAGISPNVI--TYNKLIDGFCDAGE--TDKAFRLFNQLKSNGQSPSVVTYNV  390 (574)
Q Consensus       331 -~~~A~~~~~~m~~~g~~~~~~--~~~~li~~~~~~g~--~~~A~~~~~~~~~~g~~~~~~~~~~  390 (574)
                       .+.++.+|+.+.+.|+..+..  ..+.++........  ...+.++++.+.+.|+++....|..
T Consensus       158 l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~  222 (297)
T PF13170_consen  158 LAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPT  222 (297)
T ss_pred             HHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccH
Confidence             244555666666655543322  22222222211111  2345555666666665555544443

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=91.00  E-value=8.6  Score=32.39  Aligned_cols=27  Identities=22%  Similarity=0.356  Sum_probs=13.3

Q ss_pred             HHHhCCCCCChhhHHHHHHHHHhcCCH
Q 043999          235 KIGELGLVATQHTYTVLICGLFKNGLQ  261 (574)
Q Consensus       235 ~~~~~~~~~~~~~~~~li~~~~~~g~~  261 (574)
                      .+.+.++.|+...+..+++.+.+.|++
T Consensus        19 Sl~~~~i~~~~~L~~lli~lLi~~~~~   45 (167)
T PF07035_consen   19 SLNQHNIPVQHELYELLIDLLIRNGQF   45 (167)
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHHcCCH
Confidence            333444445555555555555555543

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=90.79  E-value=0.66  Score=26.81  Aligned_cols=23  Identities=22%  Similarity=0.161  Sum_probs=8.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHH
Q 043999          530 STIGVLCQDGKWPEAEVLLNQML  552 (574)
Q Consensus       530 ~l~~~~~~~g~~~~A~~~~~~m~  552 (574)
                      .+..++...|++++|+..+++.+
T Consensus         6 ~~g~~~~~~~~~~~A~~~~~~al   28 (34)
T PF00515_consen    6 NLGNAYFQLGDYEEALEYYQRAL   28 (34)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCchHHHHHHHHHH
Confidence            33334444444444444444443

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 ....

>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=90.52  E-value=5.1  Score=33.93  Aligned_cols=59  Identities=15%  Similarity=0.171  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcC-----------CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 043999          473 EASKLFNSMWETKLEPN-DVVYNMMIFGYCKEG-----------NSYRALRLLGEMNEKGLVPNIASYSSTIGVL  535 (574)
Q Consensus       473 ~A~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g-----------~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  535 (574)
                      +|+.-|++.+.  +.|+ ..++..+..+|...+           .+++|.+.|++..+  ..|+..+|+.-+...
T Consensus        53 dAisK~eeAL~--I~P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~--~~P~ne~Y~ksLe~~  123 (186)
T PF06552_consen   53 DAISKFEEALK--INPNKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVD--EDPNNELYRKSLEMA  123 (186)
T ss_dssp             HHHHHHHHHHH--H-TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH--H-TT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHh--cCCchHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHh--cCCCcHHHHHHHHHH
Confidence            33444444444  2343 355666666655433           24455555555555  467777777666554

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.

>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=90.50  E-value=9.2  Score=31.83  Aligned_cols=13  Identities=15%  Similarity=0.087  Sum_probs=5.1

Q ss_pred             CChHHHHHHHHHH
Q 043999          120 RLSDQALFYFHQM  132 (574)
Q Consensus       120 g~~~~A~~~~~~~  132 (574)
                      ++.+++..++..+
T Consensus        24 ~~~~D~e~lL~AL   36 (160)
T PF09613_consen   24 GDPDDAEALLDAL   36 (160)
T ss_pred             CChHHHHHHHHHH
Confidence            3333333333333

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=90.10  E-value=2.5  Score=31.40  Aligned_cols=49  Identities=18%  Similarity=0.223  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          471 MKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEK  519 (574)
Q Consensus       471 ~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  519 (574)
                      .=++.+-++.+...++.|++....+.+++|.+.+++..|.++|+-...+
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K   71 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK   71 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3355555666666666777777777777777777777777777766643

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.

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=90.03  E-value=0.0081  Score=49.85  Aligned_cols=83  Identities=16%  Similarity=0.277  Sum_probs=51.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCCh
Q 043999          112 IIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDL  191 (574)
Q Consensus       112 li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  191 (574)
                      +|..+.+.+.+.....+++.+...+...+....+.++..|++.++.++..++++....      +-...+++.|.+.|.+
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~------yd~~~~~~~c~~~~l~   86 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN------YDLDKALRLCEKHGLY   86 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS------S-CTHHHHHHHTTTSH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc------cCHHHHHHHHHhcchH
Confidence            4566667778888888888887665455677777888888888777777766652221      2233455555566666


Q ss_pred             hHHHHHHHH
Q 043999          192 NKAFEVLNQ  200 (574)
Q Consensus       192 ~~A~~~~~~  200 (574)
                      ++|.-++.+
T Consensus        87 ~~a~~Ly~~   95 (143)
T PF00637_consen   87 EEAVYLYSK   95 (143)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHHH
Confidence            666555544

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.

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.02  E-value=28  Score=36.68  Aligned_cols=22  Identities=18%  Similarity=0.443  Sum_probs=14.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHH
Q 043999          286 LIHEYCNEGKVSEGFKLFDEMR  307 (574)
Q Consensus       286 li~~~~~~g~~~~A~~~~~~m~  307 (574)
                      |+..|...+++..|.+++-...
T Consensus       511 La~LYl~d~~Y~~Al~~ylklk  532 (846)
T KOG2066|consen  511 LAHLYLYDNKYEKALPIYLKLQ  532 (846)
T ss_pred             HHHHHHHccChHHHHHHHHhcc
Confidence            6666666677777766665544

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=89.95  E-value=1.1  Score=25.89  Aligned_cols=32  Identities=25%  Similarity=0.266  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 043999          491 VVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPN  524 (574)
Q Consensus       491 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  524 (574)
                      .+|..++..|...|++++|+..|++.++  +.|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~--~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALE--LDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH--HSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHH--HCcC
Confidence            5788999999999999999999999998  4554

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 ....

>PRK09687 putative lyase; Provisional

Probab=89.79  E-value=17  Score=33.92  Aligned_cols=59  Identities=15%  Similarity=0.129  Sum_probs=24.9

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          453 PDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       453 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      ++..+-...+.++.+.|+ ..|...+-+..+.+   +  .....+.++...|.. +|...+.++.+
T Consensus       204 ~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~-~a~p~L~~l~~  262 (280)
T PRK09687        204 KNEEIRIEAIIGLALRKD-KRVLSVLIKELKKG---T--VGDLIIEAAGELGDK-TLLPVLDTLLY  262 (280)
T ss_pred             CChHHHHHHHHHHHccCC-hhHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH-hHHHHHHHHHh
Confidence            344444444555555554 23443333333321   1  122344444444442 34444444444

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=89.76  E-value=20  Score=34.71  Aligned_cols=66  Identities=14%  Similarity=0.104  Sum_probs=46.4

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC---CHhHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          383 PSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITP---SEVTYTILIDSFVRSDDMEKAFEMYSLMQK  448 (574)
Q Consensus       383 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  448 (574)
                      ....+|..+...+.+.|.++.|...+.++...+...   ++.....-.......|+..+|...++....
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345677788888888888888888888887653221   233444445566777888888888877776

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=89.72  E-value=0.91  Score=26.10  Aligned_cols=22  Identities=23%  Similarity=0.178  Sum_probs=8.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHH
Q 043999          531 TIGVLCQDGKWPEAEVLLNQML  552 (574)
Q Consensus       531 l~~~~~~~g~~~~A~~~~~~m~  552 (574)
                      +...+.+.|++++|++.+++.+
T Consensus         7 lg~~~~~~~~~~~A~~~~~~al   28 (34)
T PF07719_consen    7 LGQAYYQLGNYEEAIEYFEKAL   28 (34)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHH
Confidence            3334444444444444444443

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=89.66  E-value=1.1  Score=25.81  Aligned_cols=32  Identities=25%  Similarity=0.309  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 043999          491 VVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPN  524 (574)
Q Consensus       491 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  524 (574)
                      ..|..+...+...|++++|++.+++..+  +.|+
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~--l~p~   33 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALE--LDPN   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH--HSTT
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHH--HCcC
Confidence            4677889999999999999999999988  3454

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 ....

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=89.49  E-value=7  Score=29.46  Aligned_cols=47  Identities=17%  Similarity=0.274  Sum_probs=23.6

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          473 EASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEK  519 (574)
Q Consensus       473 ~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  519 (574)
                      +..+-++.+...++.|++.+..+.+.+|.+..++..|+++|+-...+
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            34444444444555555566666666666666666666666555543

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 ....

>PRK09687 putative lyase; Provisional

Probab=89.48  E-value=18  Score=33.77  Aligned_cols=233  Identities=16%  Similarity=0.080  Sum_probs=137.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCH----HHHHHHHHHHHHCCCCCCHHHHH
Q 043999          314 NVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGET----DKAFRLFNQLKSNGQSPSVVTYN  389 (574)
Q Consensus       314 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~----~~A~~~~~~~~~~g~~~~~~~~~  389 (574)
                      |.......+..+...|.. ++...+..+...   +|...-...+.++...|+.    +++...+..+...  .++...-.
T Consensus        36 d~~vR~~A~~aL~~~~~~-~~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~  109 (280)
T PRK09687         36 NSLKRISSIRVLQLRGGQ-DVFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRA  109 (280)
T ss_pred             CHHHHHHHHHHHHhcCcc-hHHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHH
Confidence            444444444455444432 222333333322   2444444445555555542    3556666555333  34555555


Q ss_pred             HHHHHHHhcCCh-----HHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 043999          390 VLIRAFSKAGNS-----KMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHG  464 (574)
Q Consensus       390 ~li~~~~~~g~~-----~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  464 (574)
                      ..+.++...+..     ..+...+.....   .++..+-...+.++.+.++ +++...+-.+.+   .+|..+-...+.+
T Consensus       110 ~A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~---d~~~~VR~~A~~a  182 (280)
T PRK09687        110 SAINATGHRCKKNPLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVIND-EAAIPLLINLLK---DPNGDVRNWAAFA  182 (280)
T ss_pred             HHHHHHhcccccccccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCC-HHHHHHHHHHhc---CCCHHHHHHHHHH
Confidence            555555444321     223333333332   2366666677777877776 566666666665   4555666666666


Q ss_pred             HHhcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 043999          465 LCMKG-NMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPE  543 (574)
Q Consensus       465 ~~~~g-~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~  543 (574)
                      +.+.+ +-.++...+..+..   .++..+-...+.++.+.|+ ..|+..+-+..+.+   +  .....+.++...|.. +
T Consensus       183 Lg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~-~  252 (280)
T PRK09687        183 LNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKD-KRVLSVLIKELKKG---T--VGDLIIEAAGELGDK-T  252 (280)
T ss_pred             HhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHHHHHccCC-hhHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH-h
Confidence            66653 24567777777764   4577778888899999888 56777777777653   3  345778889999985 7


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHhhhh
Q 043999          544 AEVLLNQMLKLGLKPSVSLYNILYRAKN  571 (574)
Q Consensus       544 A~~~~~~m~~~g~~p~~~~~~~l~~~~~  571 (574)
                      |...+.++.+.  .||...-...+.++.
T Consensus       253 a~p~L~~l~~~--~~d~~v~~~a~~a~~  278 (280)
T PRK09687        253 LLPVLDTLLYK--FDDNEIITKAIDKLK  278 (280)
T ss_pred             HHHHHHHHHhh--CCChhHHHHHHHHHh
Confidence            99999999865  567776666666554

>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=89.15  E-value=3.8  Score=34.64  Aligned_cols=62  Identities=13%  Similarity=0.101  Sum_probs=38.3

Q ss_pred             HHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcC-----------CHHHHHHHHHHHHHcCCCCCHHHHHHHHhhhh
Q 043999          506 SYRALRLLGEMNEKGLVPNI-ASYSSTIGVLCQDG-----------KWPEAEVLLNQMLKLGLKPSVSLYNILYRAKN  571 (574)
Q Consensus       506 ~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~g-----------~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~  571 (574)
                      +++|+.-|++.+.  +.|+. .++..+..++...+           .+++|...|++..+.  +|+...|+.-+....
T Consensus        51 iedAisK~eeAL~--I~P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~~--~P~ne~Y~ksLe~~~  124 (186)
T PF06552_consen   51 IEDAISKFEEALK--INPNKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVDE--DPNNELYRKSLEMAA  124 (186)
T ss_dssp             HHHHHHHHHHHHH--H-TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH---TT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh--cCCchHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHhc--CCCcHHHHHHHHHHH
Confidence            3445555666666  56765 67777777776543           256677777777755  899999988776543

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.74  E-value=6  Score=36.58  Aligned_cols=103  Identities=16%  Similarity=0.194  Sum_probs=68.8

Q ss_pred             CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 043999          415 GITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSG---FSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDV  491 (574)
Q Consensus       415 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  491 (574)
                      |......+...++..-....+++.+...+-++....   ..|+...+ ..+. ++-.=+.++++.++..-++.|+-||..
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~ir-lllky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIR-LLLKYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHH-HHHccChHHHHHHHhCcchhccccchh
Confidence            344445556666666666778888888777776431   11221111 2222 233345678888888888888888999


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          492 VYNMMIFGYCKEGNSYRALRLLGEMNEK  519 (574)
Q Consensus       492 ~~~~li~~~~~~g~~~~A~~~~~~m~~~  519 (574)
                      +++.+++.+.+.+++.+|.++.-.|...
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            9999999999999988888887777654

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=88.64  E-value=22  Score=33.53  Aligned_cols=49  Identities=18%  Similarity=0.359  Sum_probs=24.6

Q ss_pred             hHHHHHHHHHHHCCCCCCHHhHHHHHHHHHh--cC----CHHHHHHHHHHHHhCC
Q 043999          192 NKAFEVLNQLEEMGFSPNVVIYTSLIDGCCK--NG----DIERAKMLFRKIGELG  240 (574)
Q Consensus       192 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~--~g----~~~~A~~~~~~~~~~~  240 (574)
                      ++..++++.|.+.|++.+..+|-+.......  ..    ...+|..+|+.|.+..
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H  133 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKH  133 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhC
Confidence            3445566666666666665544442222222  11    2345556666665544

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=88.46  E-value=16  Score=31.94  Aligned_cols=76  Identities=17%  Similarity=0.066  Sum_probs=48.0

Q ss_pred             HHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 043999          164 FSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELG  240 (574)
Q Consensus       164 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  240 (574)
                      |.+.....|.-+..||-+.--+...|+++.|.+.|+...+....-+-...|.-|. +.--|++.-|.+-+...-+.+
T Consensus        88 ftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~-~YY~gR~~LAq~d~~~fYQ~D  163 (297)
T COG4785          88 FSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIA-LYYGGRYKLAQDDLLAFYQDD  163 (297)
T ss_pred             hhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhcccee-eeecCchHhhHHHHHHHHhcC
Confidence            3333333355567888888888899999999999998887543322222333332 223677888877666665543

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=88.20  E-value=8.9  Score=28.94  Aligned_cols=60  Identities=13%  Similarity=0.130  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHh
Q 043999          508 RALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYR  568 (574)
Q Consensus       508 ~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  568 (574)
                      +..+-++.+....+.|++.+..+.+.+|.+.+++..|.++++-...+ ..+....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHH
Confidence            44455555555566666666666677777777777777776666643 1222225555543

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 ....

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=87.14  E-value=10  Score=32.71  Aligned_cols=90  Identities=16%  Similarity=0.066  Sum_probs=62.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCH-----HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 043999          428 DSFVRSDDMEKAFEMYSLMQKSGFSPDV-----YTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCK  502 (574)
Q Consensus       428 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~-----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~  502 (574)
                      +-+.+.|++++|..-|...+..- ++..     ..|..-..++.+.+.++.|++-..+.++.++. ......--..+|-+
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeayek  180 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYEK  180 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHHh
Confidence            34778889999999888888763 3332     23444455677888888888888888775432 22333333556777


Q ss_pred             cCCHHHHHHHHHHHHHC
Q 043999          503 EGNSYRALRLLGEMNEK  519 (574)
Q Consensus       503 ~g~~~~A~~~~~~m~~~  519 (574)
                      ..++++|++=++++.+.
T Consensus       181 ~ek~eealeDyKki~E~  197 (271)
T KOG4234|consen  181 MEKYEEALEDYKKILES  197 (271)
T ss_pred             hhhHHHHHHHHHHHHHh
Confidence            88888888888888885

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=86.98  E-value=5.4  Score=29.69  Aligned_cols=45  Identities=4%  Similarity=0.013  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          438 KAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMW  482 (574)
Q Consensus       438 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  482 (574)
                      ++.+-++.+......|++.+..+.+++|-+.+++.-|.++|+...
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            333334444444444444444444555555555555555444443

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=86.50  E-value=1.5  Score=26.59  Aligned_cols=28  Identities=14%  Similarity=0.172  Sum_probs=22.8

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLD  134 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~  134 (574)
                      .+++.|...|...|++++|..++++.++
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            4678889999999999999999988764

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=86.48  E-value=48  Score=35.18  Aligned_cols=168  Identities=17%  Similarity=0.160  Sum_probs=98.0

Q ss_pred             cchhHHHHHHHHHH-hcCChHHHHHHHHHHHhCCCCCCHH----H-HHHHHHHHHhcCChhHHHHHHHHcccCC-----C
Q 043999          104 TKSRLYESIIDAHL-KSRLSDQALFYFHQMLDSGVRPRSN----T-FNSLLIFVIKSCSFDKGWLFFSENRCKV-----E  172 (574)
Q Consensus       104 ~~~~~~~~li~~~~-~~g~~~~A~~~~~~~~~~g~~p~~~----~-~~~ll~~~~~~g~~~~A~~~~~~~~~~~-----~  172 (574)
                      ....++-.+...|. ...+++.|...+++.....-.++..    . -..++..+.+.+... |....++.....     .
T Consensus        57 ~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~  135 (608)
T PF10345_consen   57 QEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHS  135 (608)
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCch
Confidence            34577788888887 6688999999999875432222221    1 223455666666655 888887765541     1


Q ss_pred             CCHHHHHHH-HHHHHhcCChhHHHHHHHHHHHCC---CCCCHHhHHHHHHHHH--hcCCHHHHHHHHHHHHhCC------
Q 043999          173 LDVYSFGIL-IKGCCEAGDLNKAFEVLNQLEEMG---FSPNVVIYTSLIDGCC--KNGDIERAKMLFRKIGELG------  240 (574)
Q Consensus       173 ~~~~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~g---~~p~~~~~~~li~~~~--~~g~~~~A~~~~~~~~~~~------  240 (574)
                      +-...|..+ +..+...++...|.+.++.+...-   ..|-..++-.++.+..  +.+..+++.+..+++....      
T Consensus       136 ~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~  215 (608)
T PF10345_consen  136 AWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLD  215 (608)
T ss_pred             hHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccC
Confidence            223334444 333334479999999998876532   2344445555555443  4565677777777663211      


Q ss_pred             ---CCCChhhHHHHHHHH--HhcCCHHHHHHHHHHHH
Q 043999          241 ---LVATQHTYTVLICGL--FKNGLQKDGFEFYEKMQ  272 (574)
Q Consensus       241 ---~~~~~~~~~~li~~~--~~~g~~~~a~~~~~~~~  272 (574)
                         ..|-..+|..+++.+  ...|+++.+.+.++++.
T Consensus       216 ~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq  252 (608)
T PF10345_consen  216 PSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQ  252 (608)
T ss_pred             CCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence               123445666666554  45677666665555543

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 [].

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=86.45  E-value=37  Score=33.87  Aligned_cols=242  Identities=10%  Similarity=0.053  Sum_probs=132.3

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhc------CCHHHHHHHHHHHHHCC-CCC-ChhhHHHHHHHHHhcCCHHHHH
Q 043999          299 GFKLFDEMRHREVACNVVTYNTLICGLCKE------MRVQEAERLLDQMKMAG-ISP-NVITYNKLIDGFCDAGETDKAF  370 (574)
Q Consensus       299 A~~~~~~m~~~~~~~~~~~~~~li~~~~~~------~~~~~A~~~~~~m~~~g-~~~-~~~~~~~li~~~~~~g~~~~A~  370 (574)
                      ...+|++..+.  -|+...|+..|..|...      ........+++...+.+ ..+ ....|..+.-.++......++.
T Consensus       301 ~~~v~ee~v~~--l~t~sm~e~YI~~~lE~~~~~r~~~I~h~~~~~~~~~~~~~l~~~~~~~ys~~~l~~~t~~~~r~~a  378 (568)
T KOG2396|consen  301 CCAVYEEAVKT--LPTESMWECYITFCLERFTFLRGKRILHTMCVFRKAHELKLLSECLYKQYSVLLLCLNTLNEAREVA  378 (568)
T ss_pred             HHHHHHHHHHH--hhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHhccchHhHHH
Confidence            33555555432  23555566666655432      23455556666655433 222 2344555555555555443332


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcC-ChHH-HHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCC-HHHH--HHHHHH
Q 043999          371 RLFNQLKSNGQSPSVVTYNVLIRAFSKAG-NSKM-ASDLVREMEERGITPSEVTYTILIDSFVRSDD-MEKA--FEMYSL  445 (574)
Q Consensus       371 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g-~~~~-A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~-~~~A--~~~~~~  445 (574)
                      ..+   ...++..+...|-.-+....+.. +.+- -..++......-..+-...|+...     .++ ....  ..++..
T Consensus       379 ~~l---~~e~f~~s~k~~~~kl~~~~~s~sD~q~~f~~l~n~~r~~~~s~~~~~w~s~~-----~~dsl~~~~~~~Ii~a  450 (568)
T KOG2396|consen  379 VKL---TTELFRDSGKMWQLKLQVLIESKSDFQMLFEELFNHLRKQVCSELLISWASAS-----EGDSLQEDTLDLIISA  450 (568)
T ss_pred             HHh---hHHHhcchHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHhcchhHHHHHHHh-----hccchhHHHHHHHHHH
Confidence            222   22223346666655555544322 1111 112222333221222223333333     122 2211  123333


Q ss_pred             HHHCCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHCCCC
Q 043999          446 MQKSGFSPDVYTY-GVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCK--EGNSYRALRLLGEMNEKGLV  522 (574)
Q Consensus       446 ~~~~~~~~~~~~~-~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~--~g~~~~A~~~~~~m~~~g~~  522 (574)
                      ....+ .|+..++ +.++..+.+.|-.++|...+..+... ++|+...|..+|..=..  .-+..-+.++++.|... +-
T Consensus       451 ~~s~~-~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~l-pp~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~-fg  527 (568)
T KOG2396|consen  451 LLSVI-GADSVTLKSKYLDWAYESGGYKKARKVYKSLQEL-PPFSLDLFRKMIQFEKEQESCNLANIREYYDRALRE-FG  527 (568)
T ss_pred             HHHhc-CCceeehhHHHHHHHHHhcchHHHHHHHHHHHhC-CCccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHH-hC
Confidence            44443 4555544 56778888899999999999998775 45677788877754322  22377888899988865 23


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          523 PNIASYSSTIGVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       523 p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      .|+..|.-....-...|..+.+-.++.++.+
T Consensus       528 ~d~~lw~~y~~~e~~~g~~en~~~~~~ra~k  558 (568)
T KOG2396|consen  528 ADSDLWMDYMKEELPLGRPENCGQIYWRAMK  558 (568)
T ss_pred             CChHHHHHHHHhhccCCCcccccHHHHHHHH
Confidence            6888888888777788999998888887765

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=86.26  E-value=2  Score=25.99  Aligned_cols=26  Identities=31%  Similarity=0.317  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          492 VYNMMIFGYCKEGNSYRALRLLGEMN  517 (574)
Q Consensus       492 ~~~~li~~~~~~g~~~~A~~~~~~m~  517 (574)
                      +++.|...|...|++++|..++++..
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            44555555555555555555555544

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.13  E-value=50  Score=34.98  Aligned_cols=54  Identities=15%  Similarity=0.034  Sum_probs=25.5

Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCC---CHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 043999          183 KGCCEAGDLNKAFEVLNQLEEMGFSP---NVVIYTSLIDGCCKNGDIERAKMLFRKIGE  238 (574)
Q Consensus       183 ~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  238 (574)
                      +.+.+.+.+++|+++.+....  ..|   -.......|+.+...|++++|-...-+|..
T Consensus       364 ~Wll~~k~yeeAl~~~k~~~~--~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~g  420 (846)
T KOG2066|consen  364 DWLLEKKKYEEALDAAKASIG--NEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLG  420 (846)
T ss_pred             HHHHHhhHHHHHHHHHHhccC--CccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhc
Confidence            334455555555555444322  122   123444555555555555555555555543

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=85.88  E-value=4.3  Score=37.85  Aligned_cols=93  Identities=12%  Similarity=0.038  Sum_probs=56.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 043999          428 DSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSY  507 (574)
Q Consensus       428 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  507 (574)
                      +.|.++|.+++|+.+|....... +-+.+++..-..+|.+..++..|+.-...++..+-. -...|.--+.+-...|+..
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~-P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~-Y~KAYSRR~~AR~~Lg~~~  182 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVY-PHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKL-YVKAYSRRMQARESLGNNM  182 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccC-CCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHH-HHHHHHHHHHHHHHHhhHH
Confidence            34888888888888887776642 337777777777888888888777766666543100 1222333333333345555


Q ss_pred             HHHHHHHHHHHCCCCCC
Q 043999          508 RALRLLGEMNEKGLVPN  524 (574)
Q Consensus       508 ~A~~~~~~m~~~g~~p~  524 (574)
                      +|.+-++..++  +.|+
T Consensus       183 EAKkD~E~vL~--LEP~  197 (536)
T KOG4648|consen  183 EAKKDCETVLA--LEPK  197 (536)
T ss_pred             HHHHhHHHHHh--hCcc
Confidence            55555555555  4555

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=85.81  E-value=22  Score=30.65  Aligned_cols=88  Identities=14%  Similarity=0.095  Sum_probs=45.0

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH-----HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 043999          463 HGLCMKGNMKEASKLFNSMWETKLEPNDVVY-----NMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQ  537 (574)
Q Consensus       463 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~-----~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~  537 (574)
                      ..+..+|++++|+.-++..+..   |....+     --|.......|.+++|+..++...+.++.  ......-.+.+..
T Consensus        97 k~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~--~~~~elrGDill~  171 (207)
T COG2976          97 KAEVEANNLDKAEAQLKQALAQ---TKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWA--AIVAELRGDILLA  171 (207)
T ss_pred             HHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHH--HHHHHHhhhHHHH
Confidence            4455566666666666655432   122222     22334455566666666666555543321  1122333456666


Q ss_pred             cCCHHHHHHHHHHHHHcC
Q 043999          538 DGKWPEAEVLLNQMLKLG  555 (574)
Q Consensus       538 ~g~~~~A~~~~~~m~~~g  555 (574)
                      .|+-++|+.-|++.++.+
T Consensus       172 kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         172 KGDKQEARAAYEKALESD  189 (207)
T ss_pred             cCchHHHHHHHHHHHHcc
Confidence            666666666666666553

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=85.73  E-value=53  Score=34.90  Aligned_cols=438  Identities=15%  Similarity=0.134  Sum_probs=223.6

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHh-CCCCCC--HHHHHHHHHHHH-hcCChhHHHHHHHHcccCC-CCCH---
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLD-SGVRPR--SNTFNSLLIFVI-KSCSFDKGWLFFSENRCKV-ELDV---  175 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~g~~p~--~~~~~~ll~~~~-~~g~~~~A~~~~~~~~~~~-~~~~---  175 (574)
                      ....-|..||..         |+..++-+.+ ..++|.  ..++-.+...+. ...++++|...+++..... .++.   
T Consensus        28 ~~l~~Y~kLI~~---------ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~   98 (608)
T PF10345_consen   28 EQLKQYYKLIAT---------AIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDL   98 (608)
T ss_pred             hhHHHHHHHHHH---------HHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHH
Confidence            345667777765         5666666663 333443  334555666665 7889999999999764431 1222   


Q ss_pred             --HHHHHHHHHHHhcCChhHHHHHHHHHHHCC----CCCCHHhHHHH-HHHHHhcCCHHHHHHHHHHHHhCC---CCCCh
Q 043999          176 --YSFGILIKGCCEAGDLNKAFEVLNQLEEMG----FSPNVVIYTSL-IDGCCKNGDIERAKMLFRKIGELG---LVATQ  245 (574)
Q Consensus       176 --~~~~~li~~~~~~g~~~~A~~~~~~m~~~g----~~p~~~~~~~l-i~~~~~~g~~~~A~~~~~~~~~~~---~~~~~  245 (574)
                        .....+++.+.+.+... |...+++.++.-    ..+-...+.-+ +..+...++...|.+.++.+...-   ..|-.
T Consensus        99 k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~  177 (608)
T PF10345_consen   99 KFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAV  177 (608)
T ss_pred             HHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHH
Confidence              22446677777777666 999888876531    11223333444 333434489999999999886532   22334


Q ss_pred             hhHHHHHHHHH--hcCCHHHHHHHHHHHHHCC---------CCCCHhhHHHHHHHH--HhcCCHHHHHHHHHHHHh----
Q 043999          246 HTYTVLICGLF--KNGLQKDGFEFYEKMQLNG---------VSPSLYTYNCLIHEY--CNEGKVSEGFKLFDEMRH----  308 (574)
Q Consensus       246 ~~~~~li~~~~--~~g~~~~a~~~~~~~~~~g---------~~p~~~~~~~li~~~--~~~g~~~~A~~~~~~m~~----  308 (574)
                      ..+..++.+..  +.+..+++.+...++....         ..|-..+|..+++.+  ...|+++.+...++++.+    
T Consensus       178 ~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq~~~~~  257 (608)
T PF10345_consen  178 FVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQQFLDE  257 (608)
T ss_pred             HHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            44445554443  4566677777777664321         123455666666554  457777677666555421    


Q ss_pred             ---CC----------CC-------------CCHHHH---------HHHHHH--HHhcCCHHHHHHHHHH-------HH-H
Q 043999          309 ---RE----------VA-------------CNVVTY---------NTLICG--LCKEMRVQEAERLLDQ-------MK-M  343 (574)
Q Consensus       309 ---~~----------~~-------------~~~~~~---------~~li~~--~~~~~~~~~A~~~~~~-------m~-~  343 (574)
                         ..          ++             +....|         .-++.+  .+..+..+.|.+++++       .. .
T Consensus       258 ~~~~~~w~~~~~d~~i~l~~~~~~~~~~~~~~~f~wl~~~~l~~L~y~lS~l~~~~~~~~~ks~k~~~k~l~~i~~~~~~  337 (608)
T PF10345_consen  258 IKKSPSWPSWDEDGSIPLNIGEGSSNSGGTPLVFSWLPKEELYALVYFLSGLHNLYKGSMDKSEKFLEKALKQIEKLKIK  337 (608)
T ss_pred             hhcCccCCCcCCCeeEEeecccccccCCCceeEEeecCHHHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHHhhcc
Confidence               11          00             111111         111222  2334444455555544       44 1


Q ss_pred             CCCCCCh--------hhHHHHHH---------HHHhcCCHHHHHHHHHHHHHCCC-CC-----CHHHHHHHHHH--HHhc
Q 043999          344 AGISPNV--------ITYNKLID---------GFCDAGETDKAFRLFNQLKSNGQ-SP-----SVVTYNVLIRA--FSKA  398 (574)
Q Consensus       344 ~g~~~~~--------~~~~~li~---------~~~~~g~~~~A~~~~~~~~~~g~-~~-----~~~~~~~li~~--~~~~  398 (574)
                      ....+..        ..|...+.         ..+-.+++..|....+.+.+... .|     ....+..++.+  +...
T Consensus       338 ~~~~~~~sl~~~~~~~~~~~~l~~~~~~y~~~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~  417 (608)
T PF10345_consen  338 SPSAPSESLSEASERIQWLRYLQCYLLFYQIWCNFIRGDWSKATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQST  417 (608)
T ss_pred             CCCCCCcCHHHHHHhHHHHHHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHc
Confidence            1111111        11211111         22346889899999988875421 11     12233333333  4457


Q ss_pred             CChHHHHHHHH--------HHHHCCCCCCHhHHHHH--HHHHH--hcCCHHH--HHHHHHHHHHC-CCCC--CHHHHHHH
Q 043999          399 GNSKMASDLVR--------EMEERGITPSEVTYTIL--IDSFV--RSDDMEK--AFEMYSLMQKS-GFSP--DVYTYGVL  461 (574)
Q Consensus       399 g~~~~A~~~~~--------~m~~~~~~p~~~~~~~l--i~~~~--~~g~~~~--A~~~~~~~~~~-~~~~--~~~~~~~l  461 (574)
                      |+.+.|...|.        .....+...+..++..+  +-.+.  .....++  +.++++.+... .-.|  +..++..+
T Consensus       418 g~l~~A~~~y~~~~~~~~~~~~~~~~~~El~ila~LNl~~I~~~~~~~~~~~~~~~~l~~~i~p~~~~~~~~~~~~a~~~  497 (608)
T PF10345_consen  418 GDLEAALYQYQKPRFLLCEAANRKSKFRELYILAALNLAIILQYESSRDDSESELNELLEQIEPLCSNSPNSYNRTAYCL  497 (608)
T ss_pred             CCHHHHHHHHhhhHHhhhhhhccCCcchHHHHHHHHHHHHHhHhhcccchhhhHHHHHHHhcCccccCCccHHHHHHHHH
Confidence            99999999997        44444444444444332  11122  2222223  66777666432 1122  22333333


Q ss_pred             -HHHHHhcC--CHHHHHHHHHHHHhCC---CCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CC--CHHHHH
Q 043999          462 -IHGLCMKG--NMKEASKLFNSMWETK---LEP---NDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGL-VP--NIASYS  529 (574)
Q Consensus       462 -i~~~~~~g--~~~~A~~~~~~~~~~~---~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p--~~~~~~  529 (574)
                       +.++....  ...++...+.+..+.-   ...   -..+++.+...+. .|+..+..+.........- .|  ....|.
T Consensus       498 ~~~~~~~~~~~~~ne~k~~l~~~L~~~~~~~~n~~l~~~~L~lm~~~lf-~~~~~e~~~~s~~a~~~A~k~~d~~~~LW~  576 (608)
T PF10345_consen  498 VLATYNTFEPFSSNEAKRHLQEALKMANNKLGNSQLLAILLNLMGHRLF-EGDVGEQAKKSARAFQLAKKSSDYSDQLWH  576 (608)
T ss_pred             HHHHHhhCCccccHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHHHHhhhhhhhHHHH
Confidence             33332211  2234444444333211   111   1233444444444 6777776555544332111 12  335564


Q ss_pred             HHH-----HHHHhcCCHHHHHHHHHHHH
Q 043999          530 STI-----GVLCQDGKWPEAEVLLNQML  552 (574)
Q Consensus       530 ~l~-----~~~~~~g~~~~A~~~~~~m~  552 (574)
                      .+.     ..+...|+.++|.....+..
T Consensus       577 ~v~~~~l~~~~~~~G~~~ka~~~~~~~~  604 (608)
T PF10345_consen  577 LVASGMLADSYEVQGDRDKAEEARQQLD  604 (608)
T ss_pred             HHHHHHHHHHHHHcCcHHHHHHHHHHHH
Confidence            443     34667899999998887765

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 [].

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=85.13  E-value=12  Score=32.26  Aligned_cols=91  Identities=12%  Similarity=0.015  Sum_probs=62.8

Q ss_pred             HHhcCChhHHHHHHHHcccCCCCC-----HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCC
Q 043999          151 VIKSCSFDKGWLFFSENRCKVELD-----VYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGD  225 (574)
Q Consensus       151 ~~~~g~~~~A~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  225 (574)
                      +.+.|++++|.+-|......+|+.     ...|..-..++.+.+.++.|++-..+.++.+.. .......-..+|-+...
T Consensus       105 ~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeayek~ek  183 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYEKMEK  183 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHHhhhh
Confidence            456777788777777766654433     234555667778888888888888888875421 22333344567888888


Q ss_pred             HHHHHHHHHHHHhCCCC
Q 043999          226 IERAKMLFRKIGELGLV  242 (574)
Q Consensus       226 ~~~A~~~~~~~~~~~~~  242 (574)
                      +++|+.-|+++.+..+.
T Consensus       184 ~eealeDyKki~E~dPs  200 (271)
T KOG4234|consen  184 YEEALEDYKKILESDPS  200 (271)
T ss_pred             HHHHHHHHHHHHHhCcc
Confidence            99999999988886543

>PRK11619 lytic murein transglycosylase; Provisional

Probab=85.09  E-value=57  Score=34.74  Aligned_cols=232  Identities=13%  Similarity=0.007  Sum_probs=123.3

Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHH--HHHHHcccCCCCCHHHHHH
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGW--LFFSENRCKVELDVYSFGI  180 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~--~~~~~~~~~~~~~~~~~~~  180 (574)
                      +.+...-.....+....|+.++|....+.+-..|. ..+..++.++..+.+.|......  +-++.+..  ..+...-..
T Consensus       126 p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g~-~~p~~cd~l~~~~~~~g~lt~~d~w~R~~~al~--~~~~~lA~~  202 (644)
T PRK11619        126 PKPVEARCNYYYAKWATGQQQEAWQGAKELWLTGK-SLPNACDKLFSVWQQSGKQDPLAYLERIRLAMK--AGNTGLVTY  202 (644)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCC-CCChHHHHHHHHHHHcCCCCHHHHHHHHHHHHH--CCCHHHHHH
Confidence            45556667777888888998888888888877763 35668888888888777665432  22222221  122222222


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHH---------CCCCCCHHhHHHHHHHHH--hcCCHHHHHHHHHHHHhCC-CCCC--hh
Q 043999          181 LIKGCCEAGDLNKAFEVLNQLEE---------MGFSPNVVIYTSLIDGCC--KNGDIERAKMLFRKIGELG-LVAT--QH  246 (574)
Q Consensus       181 li~~~~~~g~~~~A~~~~~~m~~---------~g~~p~~~~~~~li~~~~--~~g~~~~A~~~~~~~~~~~-~~~~--~~  246 (574)
                      +...+.  .+.....+.+..+..         ..++|+...-..++.++.  ...+.+.|..++.+..... ..+.  ..
T Consensus       203 l~~~l~--~~~~~~a~a~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~l~Rlar~d~~~A~~~~~~~~~~~~~~~~~~~~  280 (644)
T PRK11619        203 LAKQLP--ADYQTIASALIKLQNDPNTVETFARTTGPTDFTRQMAAVAFASVARQDAENARLMIPSLVRAQKLNEDQRQE  280 (644)
T ss_pred             HHHhcC--hhHHHHHHHHHHHHHCHHHHHHHhhccCCChhhHHHHHHHHHHHHHhCHHHHHHHHHHHHHhcCCCHHHHHH
Confidence            222210  000000011111110         011123221221222222  3456688888888764433 2111  22


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 043999          247 TYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLC  326 (574)
Q Consensus       247 ~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  326 (574)
                      .+..+.......+...++.+.+.......  .|......-+..-.+.++++.+...+..|....-. ...-..-+..++.
T Consensus       281 ~~~~lA~~~a~~~~~~~a~~w~~~~~~~~--~~~~~~e~r~r~Al~~~dw~~~~~~i~~L~~~~~~-~~rw~YW~aRa~~  357 (644)
T PRK11619        281 LRDIVAWRLMGNDVTDEQAKWRDDVIMRS--QSTSLLERRVRMALGTGDRRGLNTWLARLPMEAKE-KDEWRYWQADLLL  357 (644)
T ss_pred             HHHHHHHHHHhccCCHHHHHHHHhccccc--CCcHHHHHHHHHHHHccCHHHHHHHHHhcCHhhcc-CHhhHHHHHHHHH
Confidence            34444444444433566777766654332  23444445555555788888888888887543221 3334445666666


Q ss_pred             hcCCHHHHHHHHHHHH
Q 043999          327 KEMRVQEAERLLDQMK  342 (574)
Q Consensus       327 ~~~~~~~A~~~~~~m~  342 (574)
                      ..|+.++|...|+.+.
T Consensus       358 ~~g~~~~A~~~~~~~a  373 (644)
T PRK11619        358 EQGRKAEAEEILRQLM  373 (644)
T ss_pred             HcCCHHHHHHHHHHHh
Confidence            7899999988888864

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=84.95  E-value=5.6  Score=37.18  Aligned_cols=88  Identities=11%  Similarity=0.030  Sum_probs=46.8

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChh
Q 043999          114 DAHLKSRLSDQALFYFHQMLDSGVRP-RSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLN  192 (574)
Q Consensus       114 ~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  192 (574)
                      +-|+++|.+++|++.|...+..  .| |.+++..-..+|.+..++..|..-.+........-+-+|..-+.+--..|...
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~~~  182 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGNNM  182 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhhHH
Confidence            4566777777777777766553  33 56666666666777666666655444443321112223333333333344555


Q ss_pred             HHHHHHHHHHH
Q 043999          193 KAFEVLNQLEE  203 (574)
Q Consensus       193 ~A~~~~~~m~~  203 (574)
                      +|.+=.+..++
T Consensus       183 EAKkD~E~vL~  193 (536)
T KOG4648|consen  183 EAKKDCETVLA  193 (536)
T ss_pred             HHHHhHHHHHh
Confidence            55555555444

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=84.55  E-value=33  Score=31.62  Aligned_cols=73  Identities=14%  Similarity=0.094  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-----HcCCCCCHHHHHH
Q 043999          492 VYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQML-----KLGLKPSVSLYNI  565 (574)
Q Consensus       492 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~-----~~g~~p~~~~~~~  565 (574)
                      +++.....|..+|.+.+|.++-++....+ +.+...|-.++..+...|+--.|.+.++++.     +.|+.-|...++.
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsieew  358 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSIEEW  358 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhHHHH
Confidence            45556678899999999999999998853 4577888889999999999888888888875     4588888777654

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=84.53  E-value=74  Score=35.59  Aligned_cols=20  Identities=10%  Similarity=0.041  Sum_probs=9.6

Q ss_pred             HHHHHHHhcCChHHHHHHHH
Q 043999          111 SIIDAHLKSRLSDQALFYFH  130 (574)
Q Consensus       111 ~li~~~~~~g~~~~A~~~~~  130 (574)
                      +.++-++...++.+|+++.+
T Consensus       682 a~vr~~l~~~~y~~AF~~~R  701 (1265)
T KOG1920|consen  682 AKVRTLLDRLRYKEAFEVMR  701 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            34444455555555544433

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=84.45  E-value=26  Score=30.26  Aligned_cols=127  Identities=13%  Similarity=0.048  Sum_probs=81.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHH--HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH-----
Q 043999          387 TYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTI--LIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYG-----  459 (574)
Q Consensus       387 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~--li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-----  459 (574)
                      .|..++.... .+.+ +......++..........++..  +...+...+++++|...++.....   |....+.     
T Consensus        56 ~Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~l  130 (207)
T COG2976          56 QYQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQ---TKDENLKALAAL  130 (207)
T ss_pred             HHHHHHHHHh-cCCc-hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHH
Confidence            3444444432 3333 45555566665432222222222  345678899999999999887753   2222333     


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          460 VLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKG  520 (574)
Q Consensus       460 ~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  520 (574)
                      -|.......|.+|+|+..++...+.+.  .......-.+.+...|+-++|+.-|++.++.+
T Consensus       131 RLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         131 RLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            345667889999999999998765432  23334555688999999999999999999875

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=84.29  E-value=11  Score=32.60  Aligned_cols=21  Identities=14%  Similarity=0.091  Sum_probs=9.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHH
Q 043999          524 NIASYSSTIGVLCQDGKWPEA  544 (574)
Q Consensus       524 ~~~~~~~l~~~~~~~g~~~~A  544 (574)
                      |+..+.+|+..+.+.|+++.|
T Consensus       177 n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  177 NPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             CHHHHHHHHHHHHHhcchhhh
Confidence            344444444444444444444

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=84.19  E-value=22  Score=29.19  Aligned_cols=16  Identities=25%  Similarity=0.468  Sum_probs=6.6

Q ss_pred             hcCChhHHHHHHHHHH
Q 043999          187 EAGDLNKAFEVLNQLE  202 (574)
Q Consensus       187 ~~g~~~~A~~~~~~m~  202 (574)
                      ..|++++|.++|+++.
T Consensus        56 ~rg~w~eA~rvlr~l~   71 (153)
T TIGR02561        56 ARGNYDEAARILRELL   71 (153)
T ss_pred             HcCCHHHHHHHHHhhh
Confidence            3344444444444443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.16  E-value=17  Score=37.01  Aligned_cols=100  Identities=24%  Similarity=0.262  Sum_probs=50.2

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHH
Q 043999          361 CDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAF  440 (574)
Q Consensus       361 ~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~  440 (574)
                      .+.|+++.|.++..+..      +..-|..|..+..+.+++..|.+.|.+..+         |..|+-.+...|+-+...
T Consensus       648 l~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~  712 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLA  712 (794)
T ss_pred             hhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHH
Confidence            44566666655544332      444566666666666666666665554432         333444445555554444


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          441 EMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSM  481 (574)
Q Consensus       441 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  481 (574)
                      .+-....+.| ..+..     .-+|...|+++++.+++.+-
T Consensus       713 ~la~~~~~~g-~~N~A-----F~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  713 VLASLAKKQG-KNNLA-----FLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             HHHHHHHhhc-ccchH-----HHHHHHcCCHHHHHHHHHhc
Confidence            4444444444 22221     12344556666666655543

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=83.98  E-value=7.4  Score=34.03  Aligned_cols=77  Identities=17%  Similarity=0.101  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHH
Q 043999          457 TYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKG--LVPNIASYSSTIGV  534 (574)
Q Consensus       457 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~p~~~~~~~l~~~  534 (574)
                      |.+.-++.+.+.+++++|+...++-++..+. |..+-..++..||-.|++++|..-++-.-+..  ..+-..+|..+|.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            3445566777888899999888887776433 55566777888899999999988777666531  22234556655544

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=83.33  E-value=2.3  Score=24.42  Aligned_cols=23  Identities=17%  Similarity=0.030  Sum_probs=9.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHH
Q 043999          495 MMIFGYCKEGNSYRALRLLGEMN  517 (574)
Q Consensus       495 ~li~~~~~~g~~~~A~~~~~~m~  517 (574)
                      .+...|...|++++|.+.|++..
T Consensus         6 ~lg~~y~~~~~~~~A~~~~~~a~   28 (34)
T PF13181_consen    6 NLGKIYEQLGDYEEALEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHTTSHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHH
Confidence            33334444444444444444433

...

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=82.84  E-value=7.2  Score=34.07  Aligned_cols=49  Identities=10%  Similarity=0.097  Sum_probs=21.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHH
Q 043999          112 IIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGW  161 (574)
Q Consensus       112 li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~  161 (574)
                      .+..+.+.++..+|+.+.++-++.. +.|..+-..+++.||-.|++++|.
T Consensus         7 t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl   55 (273)
T COG4455           7 TISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKAL   55 (273)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHH
Confidence            3444444455555555444444432 223334444444444444444443

>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=82.39  E-value=15  Score=31.82  Aligned_cols=80  Identities=15%  Similarity=0.037  Sum_probs=62.7

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCCH
Q 043999          430 FVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWET---KLEPNDVVYNMMIFGYCKEGNS  506 (574)
Q Consensus       430 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~p~~~~~~~li~~~~~~g~~  506 (574)
                      +.+.|+ ++|.+.|-.+...+.-.++.....|...|. ..+.+++..++.++++.   +-.+|+..+..|+..|.+.|++
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            445565 788888888888776666776666666555 67899999999998864   3367899999999999999999


Q ss_pred             HHHHH
Q 043999          507 YRALR  511 (574)
Q Consensus       507 ~~A~~  511 (574)
                      +.|.-
T Consensus       195 e~AYi  199 (203)
T PF11207_consen  195 EQAYI  199 (203)
T ss_pred             hhhhh
Confidence            98853

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=82.36  E-value=15  Score=36.14  Aligned_cols=88  Identities=7%  Similarity=0.054  Sum_probs=44.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 043999          254 GLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQE  333 (574)
Q Consensus       254 ~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~  333 (574)
                      .+...|+++.+...+...... +.....+...+++...+.|++++|...-+.|+...++ ++..........-..|-+++
T Consensus       332 i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~  409 (831)
T PRK15180        332 IFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDK  409 (831)
T ss_pred             HHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHH
Confidence            344556666666555444322 2223445555566666666666666666666555444 33333332333334455556


Q ss_pred             HHHHHHHHHH
Q 043999          334 AERLLDQMKM  343 (574)
Q Consensus       334 A~~~~~~m~~  343 (574)
                      +...|+++..
T Consensus       410 ~~~~wk~~~~  419 (831)
T PRK15180        410 SYHYWKRVLL  419 (831)
T ss_pred             HHHHHHHHhc
Confidence            6655555544

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=82.21  E-value=50  Score=31.94  Aligned_cols=67  Identities=18%  Similarity=0.102  Sum_probs=51.9

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 043999          348 PNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSP---SVVTYNVLIRAFSKAGNSKMASDLVREMEER  414 (574)
Q Consensus       348 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  414 (574)
                      ....+|..+...+.+.|.++.|...+..+...+...   ++.....-...+-..|+..+|+..+++..+.
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~  213 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC  213 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            345678888999999999999999999988754221   3344445567777889999999999988873

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=81.86  E-value=2.3  Score=22.82  Aligned_cols=22  Identities=18%  Similarity=0.052  Sum_probs=14.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHH
Q 043999          109 YESIIDAHLKSRLSDQALFYFH  130 (574)
Q Consensus       109 ~~~li~~~~~~g~~~~A~~~~~  130 (574)
                      ...+...+...|++++|..+++
T Consensus         4 ~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    4 RLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHh
Confidence            4456666667777777766654

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

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=81.17  E-value=80  Score=33.54  Aligned_cols=213  Identities=17%  Similarity=0.128  Sum_probs=86.6

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-------hhHHHHHHHHcccC-CCCCHH---HHH
Q 043999          111 SIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCS-------FDKGWLFFSENRCK-VELDVY---SFG  179 (574)
Q Consensus       111 ~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~-------~~~A~~~~~~~~~~-~~~~~~---~~~  179 (574)
                      .+|-.+.|+|.+++|.++..+..+. .......+...+..+....+       -++...-|++.... ...|++   .|.
T Consensus       116 a~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s~~~~l~~~~~~~l~~ey~~~~r~~~~~DpyK~AvY~  194 (613)
T PF04097_consen  116 ALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASSPDRRLPPELRDKLKLEYNQRIRNSTDGDPYKRAVYK  194 (613)
T ss_dssp             HHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTTTSS---TCCCHHHHHHHHHHTTT-TTS-HHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhcCCCCCChHHHHHHH
Confidence            5677788999999999998655443 34455667777877766432       12344445544433 222443   233


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCCHH--hHHHHHHHHHhcCC-----------HHHHHHHHHHHHhCCCCCChh
Q 043999          180 ILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVV--IYTSLIDGCCKNGD-----------IERAKMLFRKIGELGLVATQH  246 (574)
Q Consensus       180 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--~~~~li~~~~~~g~-----------~~~A~~~~~~~~~~~~~~~~~  246 (574)
                      ++..+=.......   ++         ..+..  .|-.|.  +.+...           +++-.+...+..+....+ ..
T Consensus       195 ilg~cD~~~~~~~---~V---------~~tiED~LW~~L~--~vr~~~~~~~~~~e~~~L~~LQ~~i~~~Ge~~F~~-~~  259 (613)
T PF04097_consen  195 ILGRCDLSRRHLP---EV---------ARTIEDWLWLQLS--LVREDERSSSSAYERYTLEDLQKLILKYGESHFNA-GS  259 (613)
T ss_dssp             HHHT--CCC-S-T---TC-----------SHHHHHHHHHH--H---TTSSSSSSS----HHHHHHHHHHH-GGGCTT---
T ss_pred             HHhcCCccccchH---HH---------hCcHHHHHHHHHH--hhccCCCccccccccccHHHHHHHHHHhchhhccc-ch
Confidence            3311111001110   00         01111  122221  111111           122222222332322322 11


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHH
Q 043999          247 TYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREV-ACNVVTYNTLICGL  325 (574)
Q Consensus       247 ~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~~~~~~~~~li~~~  325 (574)
                      ..-.....+.-.|+++.|++++-+-  .+...|.+.+...+..|   |-+......-..+..... .|...-+..||..|
T Consensus       260 ~p~~Yf~~LlLtgqFE~AI~~L~~~--~~~~~dAVH~AIaL~~~---gLL~~~~~~~~~lls~~~~~~~~ln~arLI~~Y  334 (613)
T PF04097_consen  260 NPLLYFQVLLLTGQFEAAIEFLYRN--EFNRVDAVHFAIALAYY---GLLRVSDSSSAPLLSVDPGDPPPLNFARLIGQY  334 (613)
T ss_dssp             ----HHHHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHT---T------------------------HHHHHHHH
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHhh--ccCcccHHHHHHHHHHc---CCCCCCCccccceeeecCCCCCCcCHHHHHHHH
Confidence            2223345667789999999988771  12233444444433332   322222211132222211 11125577788888


Q ss_pred             Hh---cCCHHHHHHHHHHHHHC
Q 043999          326 CK---EMRVQEAERLLDQMKMA  344 (574)
Q Consensus       326 ~~---~~~~~~A~~~~~~m~~~  344 (574)
                      ++   ..+..+|.++|-.+...
T Consensus       335 ~~~F~~td~~~Al~Y~~li~~~  356 (613)
T PF04097_consen  335 TRSFEITDPREALQYLYLICLF  356 (613)
T ss_dssp             HHTTTTT-HHHHHHHHHGGGGS
T ss_pred             HHHHhccCHHHHHHHHHHHHHc
Confidence            75   56778888888776654

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.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=80.97  E-value=30  Score=28.45  Aligned_cols=49  Identities=22%  Similarity=0.340  Sum_probs=27.9

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043999          432 RSDDMEKAFEMYSLMQKSGFSPD---VYTYGVLIHGLCMKGNMKEASKLFNSMWET  484 (574)
Q Consensus       432 ~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  484 (574)
                      ..++.+++..+++.|.-.  .|+   ..++..  ..+...|++++|.++|++..+.
T Consensus        22 ~~~d~~D~e~lLdALrvL--rP~~~e~d~~dg--~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVL--RPNLKELDMFDG--WLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             hcCCHHHHHHHHHHHHHh--CCCccccchhHH--HHHHHcCCHHHHHHHHHhhhcc
Confidence            356666777666666543  222   222222  2345667777777777776654

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	574
4g24_A	501	Crystal Structure Of Proteinaceous Rnase P 1 (Prorp		1e-09
4g23_A	501	Crystal Structure Of Proteinaceous Rnase P 1 (Prorp		7e-08

>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From A. Thaliana With Mn Length = 501

Iteration: 1
 Score = 61.6 bits (148), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 46/152 (30%), Positives = 71/152 (46%), Gaps = 12/152 (7%)
Query: 334 AERLLDQMKMAGI--SPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVL 391
           +E L  + K   I  SP  +   KL D     G+  +A RL+++ + NG   S   YNVL
Sbjct: 9   SENLSRKAKKKAIQQSPEALLKQKL-DMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVL 67
Query: 392 IRAFSKAGNSKMAS---------DLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEM 442
           +   S A  +  +S         D+ ++M    + P+E T+T      V  DD E AF+M
Sbjct: 68  LYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDM 127
Query: 443 YSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEA 474
              M+  G  P + +YG  + G C KG+  +A
Sbjct: 128 VKQMKAFGIQPRLRSYGPALFGFCRKGDADKA 159

>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From A. Thaliana With Mn Length = 501

Iteration: 1
 Score = 55.5 bits (132), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 43/152 (28%), Positives = 68/152 (44%), Gaps = 12/152 (7%)
Query: 334 AERLLDQMKMAGI--SPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVL 391
           +E L  + K   I  SP  +   KL D     G+  +A RL+++ + NG   S   YNVL
Sbjct: 9   SENLSRKAKKKAIQQSPEALLKQKL-DXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVL 67
Query: 392 IRAFSKAGNSKMAS---------DLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEM 442
           +   S A  +  +S         D+ ++     + P+E T+T      V  DD E AF+ 
Sbjct: 68  LYVCSLAEAATESSPNPGLSRGFDIFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDX 127
Query: 443 YSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEA 474
               +  G  P + +YG  + G C KG+  +A
Sbjct: 128 VKQXKAFGIQPRLRSYGPALFGFCRKGDADKA 159

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	574
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-20
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-20
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-19
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-18
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-16
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-16
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-13
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-11
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	1e-04
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	8e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 95.3 bits (235), Expect = 1e-20
 Identities = 25/196 (12%), Positives = 59/196 (30%), Gaps = 4/196 (2%)

Query: 327 KEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKS---NGQSP 383
            ++ +   +    Q   A +S                 +   A  L           +  
Sbjct: 104 GKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLL 163

Query: 384 SVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMY 443
           ++  YN ++  +++ G  K    ++  +++ G+TP  ++Y   +    R D      E  
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERC 223

Query: 444 -SLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCK 502
              M + G         VL+        +K   K+  +       P  V  + ++     
Sbjct: 224 LEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYA 283

Query: 503 EGNSYRALRLLGEMNE 518
           +       +L   +  
Sbjct: 284 KDGRVSYPKLHLPLKT 299

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 93.0 bits (229), Expect = 7e-20
 Identities = 23/184 (12%), Positives = 56/184 (30%), Gaps = 4/184 (2%)

Query: 269 EKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMR---HREVACNVVTYNTLICGL 325
            +     +S                 ++     L         +     +  YN ++ G 
Sbjct: 116 GQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGW 175

Query: 326 CKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAF-RLFNQLKSNGQSPS 384
            ++   +E   +L  +K AG++P++++Y   +       +      R   Q+   G    
Sbjct: 176 ARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQ 235

Query: 385 VVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYS 444
            +   VL+    +A   K    +          P  V  + L+      D      +++ 
Sbjct: 236 ALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHL 295

Query: 445 LMQK 448
            ++ 
Sbjct: 296 PLKT 299

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 89.9 bits (221), Expect = 8e-19
 Identities = 23/216 (10%), Positives = 63/216 (29%), Gaps = 4/216 (1%)

Query: 332 QEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVL 391
           Q A  L D  + A  SP      +L+         D       Q      S         
Sbjct: 74  QMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAF 133

Query: 392 IRAFSKAGNSKMASDLV---REMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQK 448
            +         +A  L+       ++    +   Y  ++  + R    ++   +  +++ 
Sbjct: 134 FKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKD 193

Query: 449 SGFSPDVYTYGVLIHGLCMKGNMKEA-SKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSY 507
           +G +PD+ +Y   +  +  +        +    M +  L+   +   +++    +     
Sbjct: 194 AGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLK 253

Query: 508 RALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPE 543
              ++    +    +P   + S  +  +        
Sbjct: 254 AVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVS 289

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 87.2 bits (214), Expect = 5e-18
 Identities = 37/331 (11%), Positives = 88/331 (26%), Gaps = 41/331 (12%)

Query: 190 DLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYT 249
            L+       Q  +   S       +    C     +  A  L                 
Sbjct: 107 SLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVV-------------- 152

Query: 250 VLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHR 309
                             +   +      +L  YN ++  +  +G   E   +   ++  
Sbjct: 153 ------------------HHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDA 194

Query: 310 EVACNVVTYNTLICGLCK-EMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDK 368
            +  ++++Y   +  + + +      ER L+QM   G+    +    L+     A     
Sbjct: 195 GLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKA 254

Query: 369 AFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPS-----EVTY 423
             ++        Q P  V  + L+R             L   ++            E+  
Sbjct: 255 VHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMELAS 314

Query: 424 TILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFN-SMW 482
            + + S  +     K  +      K+            +     +   +     F+   +
Sbjct: 315 RVCVVSVEKPTLPSKEVKHARKTLKTLRDQWEKALCRALRETKNRLEREVYEGRFSLYPF 374

Query: 483 ETKLEPNDVVYNMM--IFGYCKEGNSYRALR 511
              L+  +VV  ++  +     +G S+  L 
Sbjct: 375 LCLLDEREVVRMLLQVLQALPAQGESFTTLA 405

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 82.9 bits (203), Expect = 1e-16
 Identities = 27/172 (15%), Positives = 60/172 (34%), Gaps = 4/172 (2%)

Query: 400 NSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYG 459
           + +MA  L     +   +P E     L+        ++          ++  S       
Sbjct: 72  SKQMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLL 131

Query: 460 VLIHGLCMKGNMKEASKLFN---SMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEM 516
                  +   +  A  L        + +      +YN ++ G+ ++G     + +L  +
Sbjct: 132 AFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMV 191

Query: 517 NEKGLVPNIASYSSTIGVLCQDGKWPEA-EVLLNQMLKLGLKPSVSLYNILY 567
            + GL P++ SY++ +  + +  +     E  L QM + GLK       +L 
Sbjct: 192 KDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLL 243

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 81.8 bits (200), Expect = 3e-16
 Identities = 25/277 (9%), Positives = 70/277 (25%), Gaps = 47/277 (16%)

Query: 104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLF 163
            + ++   ++   +   L D           +   P       LL       S D     
Sbjct: 62  RRLQVEPRLLSKQMAGCLEDC-------TRQAPESPWEEQLARLLQEAPGKLSLDVEQAP 114

Query: 164 FS-ENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEM---GFSPNVVIYTSLIDG 219
               ++ ++           K C     L  A  +L              + +Y +++ G
Sbjct: 115 SGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLG 174

Query: 220 CCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPS 279
             + G  +    +                                      ++  G++P 
Sbjct: 175 WARQGAFKELVYVLF-----------------------------------MVKDAGLTPD 199

Query: 280 LYTYNCLIHEYCNEGKVSEGF-KLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLL 338
           L +Y   +     + + +    +  ++M    +    +    L+    +   ++   ++ 
Sbjct: 200 LLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVK 259

Query: 339 DQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQ 375
               +    P  +  +KL+             +L   
Sbjct: 260 PTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLP 296

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 72.9 bits (177), Expect = 1e-13
 Identities = 27/283 (9%), Positives = 81/283 (28%), Gaps = 16/283 (5%)

Query: 37  RQGLQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLF 96
           ++  Q   Q +   L++        +      +  +++S ++              T+  
Sbjct: 34  KRTQQMRMQRLKAKLQMPFQSGEFKALTRRLQVEPRLLSKQMAGCLEDC-------TRQA 86

Query: 97  PSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCS 156
           P S            ++         D       Q   + +  +     +     + +  
Sbjct: 87  PESPWE----EQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQ 142

Query: 157 FDKGWLFFSENRCKVE----LDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVI 212
                     +  + +    L +  +  ++ G    G   +   VL  +++ G +P+++ 
Sbjct: 143 LPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS 202

Query: 213 YTSLIDGCCKNGDIERA-KMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKM 271
           Y + +    +        +    ++ + GL        VL+    +  + K   +     
Sbjct: 203 YAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTF 262

Query: 272 QLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACN 314
            L    P     + L+ +   +       KL   ++  +    
Sbjct: 263 SLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFE 305

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 66.0 bits (160), Expect = 2e-11
 Identities = 86/613 (14%), Positives = 178/613 (29%), Gaps = 183/613 (29%)

Query: 86  RSLLCHLTQLF---------PSSSNPVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSG 136
           + +L      F               +      + II +  K  +S   L  F  +L   
Sbjct: 19  KDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMS--KDAVS-GTLRLFWTLLSKQ 75

Query: 137 VRPRSNTFNSLLIFVIKSCSFDKGWLF----------------FSENRCKVELDVYSFGI 180
                        FV +    +  +L                 + E R ++  D   F  
Sbjct: 76  ----EEMVQK---FVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA- 127

Query: 181 LIKGCCEAGDLN----KAFEVLNQ-LEEMGFSPNVVIY-------TSLIDGCCKNGDIER 228
                      N    + +  L Q L E+  + NV+I        T +    C +  ++ 
Sbjct: 128 ---------KYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQC 178

Query: 229 AKMLFR----KIG-----ELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPS 279
            KM F+     +      E  L   Q     +      N   +       K++++ +   
Sbjct: 179 -KMDFKIFWLNLKNCNSPETVLEMLQKLLYQID----PNWTSRSDHSSNIKLRIHSIQAE 233

Query: 280 LYTY-------NCLI--HEYCNEGKVSEGFKLFDEMRHREVACNV-VT------YNTLIC 323
           L          NCL+      N    ++ +  F+      ++C + +T       + L  
Sbjct: 234 LRRLLKSKPYENCLLVLLNVQN----AKAWNAFN------LSCKILLTTRFKQVTDFLSA 283

Query: 324 GLCKEMRV---------QEAERLLDQ---MK-------MAGISPNVITYNKLIDGFCDAG 364
                + +          E + LL +    +       +   +P  +    +I       
Sbjct: 284 ATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRL---SII------A 334

Query: 365 ETDKAFR-LFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREM-EERGITPSEV- 421
           E+ +     ++  K        V  + L      + N  +     R+M +   + P    
Sbjct: 335 ESIRDGLATWDNWKH-------VNCDKLTTIIESSLNV-LEPAEYRKMFDRLSVFPPSAH 386

Query: 422 ----TYTILIDSFVRSDDME--KAFEMYSLMQKSGFSPDVYTYGVLIHGLCM--KGNMKE 473
                 +++    ++SD M        YSL++K    P   T    I  + +  K  ++ 
Sbjct: 387 IPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK---QPKESTIS--IPSIYLELKVKLEN 441

Query: 474 ASKLFNSM------------WETKLEPND------VVYNMMIFGYCKEGNSYRALRL-LG 514
              L  S+             +      D      + +++    + +    +R + L   
Sbjct: 442 EYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFR 501

Query: 515 EMNEK----GLVPN-IASYSSTIGVLCQDGKW-----PEAEVLLNQMLKLGLKPSVSLY- 563
            + +K        N   S  +T+  L     +     P+ E L+N +L    K   +L  
Sbjct: 502 FLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLIC 561

Query: 564 ----NILYRAKNN 572
               ++L  A   
Sbjct: 562 SKYTDLLRIALMA 574

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 43.2 bits (101), Expect = 1e-04
 Identities = 24/201 (11%), Positives = 58/201 (28%), Gaps = 14/201 (6%)

Query: 368 KAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILI 427
           K   + +++K +   P +    +     +           +     R +  +  T+ ++ 
Sbjct: 49  KYGVVLDEIKPSSA-PELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMA 107

Query: 428 DS-FVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKL 486
            S +    + + A               +    + +  L     +  A K    M     
Sbjct: 108 ASIYFYDQNPDAALRTLHQGD------SLECMAMTVQILLKLDRLDLARKELKKM--QDQ 159

Query: 487 EPNDVVYNMM---IFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPE 543
           + +  +  +    +           A  +  EM +K   P +   +         G+W  
Sbjct: 160 DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCS-PTLLLLNGQAACHMAQGRWEA 218

Query: 544 AEVLLNQMLKLGLKPSVSLYN 564
           AE +L + L        +L N
Sbjct: 219 AEGVLQEALDKDSGHPETLIN 239

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2 Length = 373

 Score = 41.1 bits (96), Expect = 8e-04
 Identities = 37/271 (13%), Positives = 81/271 (29%), Gaps = 30/271 (11%)

Query: 315 VVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPN-----VITYNKLIDGFCDAGETDKA 369
           +V  + L   L  +  +  +  L+ Q +      +     + +  +  +     G    A
Sbjct: 53  IVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTA 112

Query: 370 FRLFNQL------KSNGQSPSVVT-YNVLIRAFSKAGNSKMASDLVRE----MEERGITP 418
           +    +       +   Q P       +  +          A    R     +       
Sbjct: 113 WETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQ 172

Query: 419 SEVTYTILIDSFVRSDDMEKAFEMY----SLMQKSGFSPDVYTY--GVLIHGLCMKGNMK 472
                 +LI   +   D++ A        +L+    +  D  +    V +    M G+  
Sbjct: 173 QLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKA 232

Query: 473 EASKLFNSMWETKLEPNDVV---YNMMIFGYCKEGNSYRALRLLGEMNE----KGLVPNI 525
            A+       + +   N  +   +  +       G    A  +L E+NE      L+ ++
Sbjct: 233 AAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDL 292

Query: 526 ASYSSTIGVLC-QDGKWPEAEVLLNQMLKLG 555
                 +  L  Q G+  +A+ +L   LKL 
Sbjct: 293 NRNLLLLNQLYWQAGRKSDAQRVLLDALKLA 323

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	574
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.98
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.96
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.94
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.94
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.93
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.9
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.89
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.89
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.89
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.88
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.88
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.87
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.86
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.85
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.84
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.83
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.83
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.82
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.82
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.82
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.81
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.81
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.8
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.8
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.8
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.79
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.79
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.78
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.77
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.73
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.7
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.7
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.7
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.69
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.68
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.68
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.66
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.66
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.66
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.65
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.65
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.64
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.64
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.64
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.63
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.63
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.63
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.63
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.62
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.62
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.59
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.55
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.55
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.55
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.53
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.53
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.52
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.52
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.51
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.51
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.5
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.49
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.48
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.48
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.47
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.44
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.43
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.41
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.39
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.38
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.38
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.37
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.36
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.34
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.33
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.3
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.29
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.24
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.23
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.21
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.21
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.18
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.16
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.15
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.14
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.12
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.11
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.1
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.09
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.08
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.07
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.07
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.07
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.04
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.03
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.03
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.02
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.02
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.01
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.01
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.0
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.99
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.97
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.96
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.95
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.92
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.91
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.9
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.86
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.83
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.83
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.81
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.79
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.77
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.76
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.75
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.74
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.73
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.73
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.73
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.71
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.71
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.7
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.68
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.68
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.67
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.67
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.66
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.65
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.65
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.64
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.64
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.62
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.62
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.62
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.61
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.6
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.59
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.59
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.58
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.57
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.57
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.56
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.56
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.51
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.51
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.48
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.47
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.47
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.46
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.45
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.45
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.44
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.43
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.41
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.39
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.39
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.39
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.37
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.35
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.34
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.32
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.3
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.28
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.27
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.25
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.24
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.23
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.2
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.18
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.16
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.15
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.13
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.1
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.09
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.09
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.08
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.07
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.07
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.05
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.04
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.04
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.03
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.02
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.01
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.0
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.95
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.92
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.85
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.83
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.78
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.78
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.76
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.76
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.69
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.67
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.66
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.61
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.54
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.49
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.24
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.22
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.08
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.07
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.92
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.88
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.79
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.71
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.68
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.6
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.58
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.57
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.38
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.37
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.36
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.29
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.26
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.14
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.08
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.08
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.82
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.69
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.68
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.48
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.33
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.1
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	95.08
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	94.85
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.7
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.68
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	92.89
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	92.43
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	92.38
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	92.32
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	91.41
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	90.9
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	90.82
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	90.12
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	90.12
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	90.11
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	89.39
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	89.38
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	89.26
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	87.84
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	87.69
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	87.46
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	85.57
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	85.19
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	83.64
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	81.24
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	81.09
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	80.44
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	80.42
2p58_C	116	Putative type III secretion protein YSCG; type III	80.03

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.4e-42  Score=364.68  Aligned_cols=456  Identities=11%  Similarity=0.028  Sum_probs=402.5

Q ss_pred             CCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHH
Q 043999          102 PVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGIL  181 (574)
Q Consensus       102 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l  181 (574)
                      +.+++..|+.++..|.+.|++++|+.+|++|.+.  .|+..++..++.++.+.|++++|..+|+++... +++..+++.+
T Consensus        80 ~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~l  156 (597)
T 2xpi_A           80 SLSREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY-NRSSACRYLA  156 (597)
T ss_dssp             --CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG-GTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc-ccchhHHHHH
Confidence            3467889999999999999999999999999864  578899999999999999999999999998653 7799999999


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHC---------------CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChh
Q 043999          182 IKGCCEAGDLNKAFEVLNQLEEM---------------GFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQH  246 (574)
Q Consensus       182 i~~~~~~g~~~~A~~~~~~m~~~---------------g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  246 (574)
                      +.+|.+.|++++|.++|+++...               |.+++..+|+.++.+|.+.|++++|.+.|+++.+.++. +..
T Consensus       157 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~  235 (597)
T 2xpi_A          157 AFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAK-CYE  235 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHH
T ss_pred             HHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCch-hhH
Confidence            99999999999999999953321               23346889999999999999999999999999887643 333


Q ss_pred             hHHHH--------------------------------------HHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHH
Q 043999          247 TYTVL--------------------------------------ICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIH  288 (574)
Q Consensus       247 ~~~~l--------------------------------------i~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~  288 (574)
                      .+..+                                      +..|.+.|++++|.++|+++.+.  +++..+++.++.
T Consensus       236 ~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~  313 (597)
T 2xpi_A          236 AFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKAD  313 (597)
T ss_dssp             HHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHH
T ss_pred             HHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHH
Confidence            33333                                      55666789999999999999875  579999999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHH
Q 043999          289 EYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDK  368 (574)
Q Consensus       289 ~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  368 (574)
                      .|.+.|++++|.++|+++.+.++. +..+|+.++.++.+.|++++|..+++++.+.. +.+..+++.++.+|.+.|++++
T Consensus       314 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~  391 (597)
T 2xpi_A          314 TLFVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISE  391 (597)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHH
Confidence            999999999999999999987655 88899999999999999999999999998764 6678899999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          369 AFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQK  448 (574)
Q Consensus       369 A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  448 (574)
                      |.++|+++.+.. +.+..+|+.++..|.+.|++++|..+|+++.+.+ +.+..+|..++.+|.+.|++++|.++|+++.+
T Consensus       392 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  469 (597)
T 2xpi_A          392 ARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYA  469 (597)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999998763 3468899999999999999999999999999874 34788999999999999999999999999988


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 043999          449 SGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWET----KLEPN--DVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLV  522 (574)
Q Consensus       449 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  522 (574)
                      .. +.+..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|.++++++.+.+ +
T Consensus       470 ~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p  547 (597)
T 2xpi_A          470 LF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-T  547 (597)
T ss_dssp             HC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-S
T ss_pred             hC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-C
Confidence            65 567899999999999999999999999999876    66777  7899999999999999999999999999864 4


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHhhhh
Q 043999          523 PNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPS-VSLYNILYRAKN  571 (574)
Q Consensus       523 p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~  571 (574)
                      .+..+|..+..+|.+.|++++|.++++++++.  .|+ ...|..|...|.
T Consensus       548 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~l~~~~~  595 (597)
T 2xpi_A          548 NDANVHTAIALVYLHKKIPGLAITHLHESLAI--SPNEIMASDLLKRALE  595 (597)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHTTC
T ss_pred             CChHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCChHHHHHHHHHHh
Confidence            47899999999999999999999999999976  565 457777777664

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.1e-39  Score=342.61  Aligned_cols=452  Identities=12%  Similarity=0.030  Sum_probs=392.9

Q ss_pred             CCHHHHHHHHHHHHhhhccCChHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhCCCCCCCCcchhHHHHHHHHHHhcCC
Q 043999           42 HTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRL  121 (574)
Q Consensus        42 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  121 (574)
                      ++...++.+++.+.+   .+++++|..++.+++..                          .|+..+|..++.+|.+.|+
T Consensus        82 ~~~~~~~~~~~~~~~---~g~~~~A~~~~~~~~~~--------------------------~p~~~~~~~l~~~~~~~g~  132 (597)
T 2xpi_A           82 SREDYLRLWRHDALM---QQQYKCAAFVGEKVLDI--------------------------TGNPNDAFWLAQVYCCTGD  132 (597)
T ss_dssp             CHHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHH--------------------------HCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHH---ccCchHHHHHHHHHHhh--------------------------CCCchHHHHHHHHHHHcCc
Confidence            456678899999998   99999999999887631                          1355788999999999999


Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCC----------------CCCHHHHHHHHHHH
Q 043999          122 SDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKV----------------ELDVYSFGILIKGC  185 (574)
Q Consensus       122 ~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~----------------~~~~~~~~~li~~~  185 (574)
                      +++|+.+|+++...  +++..+++.++.+|.+.|++++|+++|+++....                +.++.+|+.++.+|
T Consensus       133 ~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  210 (597)
T 2xpi_A          133 YARAKCLLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVY  210 (597)
T ss_dssp             HHHHHHHHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHH
Confidence            99999999998753  5789999999999999999999999999644332                34689999999999


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHhHHH--------------------------------------HHHHHHhcCCHH
Q 043999          186 CEAGDLNKAFEVLNQLEEMGFSPNVVIYTS--------------------------------------LIDGCCKNGDIE  227 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~--------------------------------------li~~~~~~g~~~  227 (574)
                      .+.|++++|.+.|++|.+.+.. +...+..                                      ++..|.+.|+++
T Consensus       211 ~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~  289 (597)
T 2xpi_A          211 TNLSNFDRAKECYKEALMVDAK-CYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELR  289 (597)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCch-hhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHH
Confidence            9999999999999999986422 3333332                                      355667889999


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          228 RAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMR  307 (574)
Q Consensus       228 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  307 (574)
                      +|.++|+++.+.  .++..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+++.++.+|.+.|++++|.++++++.
T Consensus       290 ~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  366 (597)
T 2xpi_A          290 RAEDYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLV  366 (597)
T ss_dssp             HHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            999999999875  4789999999999999999999999999999875 3478899999999999999999999999998


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 043999          308 HREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVT  387 (574)
Q Consensus       308 ~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~  387 (574)
                      +..+. +..+|+.++..|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+
T Consensus       367 ~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~  443 (597)
T 2xpi_A          367 DRHPE-KAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLP  443 (597)
T ss_dssp             HHCTT-SHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHH
T ss_pred             hhCcc-cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHH
Confidence            76543 88999999999999999999999999998864 4568899999999999999999999999999874 347889


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC--HHHHHHH
Q 043999          388 YNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKS----GFSPD--VYTYGVL  461 (574)
Q Consensus       388 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~--~~~~~~l  461 (574)
                      |+.++..|.+.|++++|..+|+++.+.. +.+..+|..++..|.+.|++++|.++|+++.+.    +..|+  ..+|..+
T Consensus       444 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l  522 (597)
T 2xpi_A          444 YLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANL  522 (597)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHH
Confidence            9999999999999999999999999874 347899999999999999999999999999775    66777  7899999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHH
Q 043999          462 IHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVP-NIASYSSTIGVL  535 (574)
Q Consensus       462 i~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~  535 (574)
                      +.+|.+.|++++|.+.++++.+.++ .+..+|..++.+|.+.|++++|.+.++++.+.  .| +...+..+..+|
T Consensus       523 ~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~l~~~~  594 (597)
T 2xpi_A          523 GHAYRKLKMYDAAIDALNQGLLLST-NDANVHTAIALVYLHKKIPGLAITHLHESLAI--SPNEIMASDLLKRAL  594 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHTT
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCChHHHHHHHHHH
Confidence            9999999999999999999998753 37899999999999999999999999999995  44 456666655544

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=100.00  E-value=2.2e-29  Score=249.42  Aligned_cols=363  Identities=13%  Similarity=0.042  Sum_probs=211.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCCh
Q 043999          112 IIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDL  191 (574)
Q Consensus       112 li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  191 (574)
                      +...+.+.|++++|++.++++.+.. +.+...+..+...+.+.|++++|...++......|.+..+|..++..+.+.|++
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~   83 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCH
Confidence            3456677788888888888877653 334555666666677777777777777777666667777777777777777777


Q ss_pred             hHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          192 NKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKM  271 (574)
Q Consensus       192 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  271 (574)
                      ++|.+.|+++.+.. +.+..+|..+..++.+.|++++|.+.|+++.+.++. +...+..+...+...|++++|.+.|+++
T Consensus        84 ~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a  161 (388)
T 1w3b_A           84 QEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            77777777777643 223456777777777777777777777777665432 3445555666666666666666666666


Q ss_pred             HHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChh
Q 043999          272 QLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVI  351 (574)
Q Consensus       272 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~  351 (574)
                      .+.. +.+..+|..+...+.+.|++++|...|+++.+.++. +...|..+...+...|++++|...+++..+.. +.+..
T Consensus       162 l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~  238 (388)
T 1w3b_A          162 IETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAV  238 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHH
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHH
Confidence            6542 223455666666666666666666666666555433 44555555555555666666665555555442 22344


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHH
Q 043999          352 TYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFV  431 (574)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  431 (574)
                      ++..+...+.+.|++++|.+.|+++.+.+. .+..+|..+...+.+.|++++|...++++.+.. +.+..++..+...+.
T Consensus       239 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~  316 (388)
T 1w3b_A          239 VHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKR  316 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHH
Confidence            555555555555555555555555555421 134445555555555555555555555554432 223444444444444


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 043999          432 RSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWE  483 (574)
Q Consensus       432 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  483 (574)
                      +.|++++|...++++.+.. +.+..++..+...|.+.|++++|.+.|+++.+
T Consensus       317 ~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  367 (388)
T 1w3b_A          317 EQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             TTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4444444444444444432 22334444444444444444444444444443

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=100.00  E-value=5.3e-29  Score=246.62  Aligned_cols=377  Identities=16%  Similarity=0.065  Sum_probs=185.4

Q ss_pred             HHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHH
Q 043999          150 FVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERA  229 (574)
Q Consensus       150 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  229 (574)
                      .+.+.|++++|.+.++++....|.+...+..+...+.+.|++++|...++...+.. +.+..+|..+...+.+.|++++|
T Consensus         8 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A   86 (388)
T 1w3b_A            8 REYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEA   86 (388)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHH
Confidence            34445555555555555544444455555555555555555555555555544432 22444555555555555555555


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043999          230 KMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHR  309 (574)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  309 (574)
                      ++.|+++.+..+. +..+|..+..++.+.|++++|.+.|+++.+                                   .
T Consensus        87 ~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~-----------------------------------~  130 (388)
T 1w3b_A           87 IEHYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQ-----------------------------------Y  130 (388)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHHSCSSHHHHHHHHHHH-----------------------------------H
T ss_pred             HHHHHHHHHcCcc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----------------------------------h
Confidence            5555555443221 233444555555555555555555555444                                   3


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 043999          310 EVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYN  389 (574)
Q Consensus       310 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~  389 (574)
                      .+. +...+..+...+...|++++|...|+++.+.. +.+..+|..+...+.+.|++++|...|+++.+.+. .+...|.
T Consensus       131 ~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~  207 (388)
T 1w3b_A          131 NPD-LYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP-NFLDAYI  207 (388)
T ss_dssp             CTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHH
T ss_pred             CCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CcHHHHH
Confidence            222 23334444444444444444444444444432 22334444444455555555555555555444321 1344444


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 043999          390 VLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKG  469 (574)
Q Consensus       390 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  469 (574)
                      .+...+...|++++|...+++..+.. +.+..++..+...+.+.|++++|...|+++.+.. +.+..+|..+...+.+.|
T Consensus       208 ~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  285 (388)
T 1w3b_A          208 NLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKG  285 (388)
T ss_dssp             HHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcC
Confidence            55555555555555555555554432 1134445555555555555555555555555442 233445555555555555


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 043999          470 NMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLN  549 (574)
Q Consensus       470 ~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  549 (574)
                      ++++|.+.++++.+.. +.+..+++.++..+...|++++|.+.++++.+. .+.+..++..+..++.+.|++++|...++
T Consensus       286 ~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  363 (388)
T 1w3b_A          286 SVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEALMHYK  363 (388)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            5555555555555442 224555555555555555555555555555553 12234555555555555555555555555


Q ss_pred             HHHHcCCCCC-HHHHHHHHhhhhc
Q 043999          550 QMLKLGLKPS-VSLYNILYRAKNN  572 (574)
Q Consensus       550 ~m~~~g~~p~-~~~~~~l~~~~~~  572 (574)
                      ++++.  .|+ ...|..+...+..
T Consensus       364 ~a~~~--~p~~~~a~~~lg~~~~~  385 (388)
T 1w3b_A          364 EAIRI--SPTFADAYSNMGNTLKE  385 (388)
T ss_dssp             HHHTT--CTTCHHHHHHHHHHHHH
T ss_pred             HHHhh--CCCCHHHHHhHHHHHHH
Confidence            55532  343 2344444444433

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=1.8e-31  Score=268.80  Aligned_cols=204  Identities=23%  Similarity=0.311  Sum_probs=109.5

Q ss_pred             HHHHHHHHHHCCCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC---------hHH
Q 043999          334 AERLLDQMKMAGISPNV-ITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGN---------SKM  403 (574)
Q Consensus       334 A~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~---------~~~  403 (574)
                      +..+.+.+.+.+..+.+ ..++.+|++|++.|++++|.++|++|.+.|+.||..+|++||.+|++.+.         .++
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            44444555555544332 34556666666666666666666666666666666666666666665443         345


Q ss_pred             HHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 043999          404 ASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWE  483 (574)
Q Consensus       404 A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  483 (574)
                      |.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+
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            55555555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 043999          484 TKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQ  537 (574)
Q Consensus       484 ~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~  537 (574)
                      .|+.||..+|++||.+|++.|+.++|.+++++|.+.|..|+..||+.++..++.
T Consensus       169 ~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          169 SEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             TTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             cCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            555555555555555555555555555555555555555555555555555543

>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=99.98  E-value=5.1e-31  Score=265.48  Aligned_cols=188  Identities=15%  Similarity=0.230  Sum_probs=149.4

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCC---------HHHHHHHHHHHHhCCCCCChh
Q 043999          176 YSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGD---------IERAKMLFRKIGELGLVATQH  246 (574)
Q Consensus       176 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~---------~~~A~~~~~~~~~~~~~~~~~  246 (574)
                      ..++.+|++|++.|++++|+++|++|.+.|++||..+||+||.+|++.+.         +++|.++|++|.+.|+.||..
T Consensus        27 ~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~  106 (501)
T 4g26_A           27 ALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEA  106 (501)
T ss_dssp             HHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHH
Confidence            35677788888888888888888888888888888888888888876554         567777888887777777888


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 043999          247 TYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLC  326 (574)
Q Consensus       247 ~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  326 (574)
                      ||++||.+|++.|++++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..||++||.+|+
T Consensus       107 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~  186 (501)
T 4g26_A          107 TFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSM  186 (501)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Confidence            88888888888888888888888887777778888888888888888888888888888877788888888888888888


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc
Q 043999          327 KEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDA  363 (574)
Q Consensus       327 ~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~  363 (574)
                      +.|+.++|.+++++|.+.|..|+..||+.++..|+..
T Consensus       187 ~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          187 DTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             hCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            8888888888888887777778888887777777653

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.96  E-value=8.9e-26  Score=232.18  Aligned_cols=440  Identities=11%  Similarity=-0.034  Sum_probs=271.8

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      ...|..+...+.+.|++++|+..|+++++.+  |+..++..+..++.+.|++++|.+.|+++....|.+..++..++.++
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~   83 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASAN   83 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHH
Confidence            4568888999999999999999999999875  78999999999999999999999999999888788899999999999


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHH
Q 043999          186 CEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGF  265 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  265 (574)
                      .+.|++++|.+.|+++.+.+. ++......++..+.+......+.+.+..+...+..|+...+..-..............
T Consensus        84 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (514)
T 2gw1_A           84 EGLGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVT  162 (514)
T ss_dssp             HHTTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHH
T ss_pred             HHHhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhH
Confidence            999999999999999998753 4555555666655554444444444433322221111111111100001111111111


Q ss_pred             HHHHHHHHCCC---------CCCHhhHHHHHHHHHh---cCCHHHHHHHHHHHHh-----C--CC------CCCHHHHHH
Q 043999          266 EFYEKMQLNGV---------SPSLYTYNCLIHEYCN---EGKVSEGFKLFDEMRH-----R--EV------ACNVVTYNT  320 (574)
Q Consensus       266 ~~~~~~~~~g~---------~p~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~-----~--~~------~~~~~~~~~  320 (574)
                      .+...+.....         +.+...+......+..   .|++++|...|+++.+     .  .+      +.+..++..
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (514)
T 2gw1_A          163 SMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEH  242 (514)
T ss_dssp             HHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHH
Confidence            11111111100         1112333333333333   5667777777766655     2  11      112445566


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 043999          321 LICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGN  400 (574)
Q Consensus       321 li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  400 (574)
                      +...+...|++++|...++.+.+..  |+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|+
T Consensus       243 ~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~  319 (514)
T 2gw1_A          243 TGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQN  319 (514)
T ss_dssp             HHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCC
Confidence            6666667777777777777766653  225566666666777777777777777666553 2245566666666777777


Q ss_pred             hHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          401 SKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNS  480 (574)
Q Consensus       401 ~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  480 (574)
                      +++|...++++.+... .+...+..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++|.+.+++
T Consensus       320 ~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~  397 (514)
T 2gw1_A          320 YDQAGKDFDKAKELDP-ENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDL  397 (514)
T ss_dssp             TTHHHHHHHHHHHTCS-SCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCh-hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            7777777777666532 245566666666677777777777777666543 33455666666677777777777777776


Q ss_pred             HHhCCCC-CC----HHHHHHHHHHHHh---cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          481 MWETKLE-PN----DVVYNMMIFGYCK---EGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQML  552 (574)
Q Consensus       481 ~~~~~~~-p~----~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  552 (574)
                      +.+.... ++    ...+..+...+..   .|++++|.+.++++.+.. +.+..++..+...+.+.|++++|...+++++
T Consensus       398 a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  476 (514)
T 2gw1_A          398 AIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEESA  476 (514)
T ss_dssp             HHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            6653211 11    2366666666776   677777777777766642 2345566666677777777777777777776


Q ss_pred             Hc
Q 043999          553 KL  554 (574)
Q Consensus       553 ~~  554 (574)
                      +.
T Consensus       477 ~~  478 (514)
T 2gw1_A          477 DL  478 (514)
T ss_dssp             HH
T ss_pred             Hh
Confidence            54

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.95  E-value=5e-24  Score=215.24  Aligned_cols=329  Identities=10%  Similarity=0.024  Sum_probs=160.7

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 043999          124 QALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEE  203 (574)
Q Consensus       124 ~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  203 (574)
                      .+...+.+..... +.+..++..+...+.+.|++++|+..|+++....|.+..+|..++..+.+.|++++|.+.|+++.+
T Consensus        10 ~~~~~~~~~~~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~   88 (450)
T 2y4t_A           10 GVDLGTENLYFQS-MADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQ   88 (450)
T ss_dssp             --------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccccccc-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            3344444444332 234455555566666666666666666665554455566666666666666666666666666655


Q ss_pred             CCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCh---hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 043999          204 MGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQ---HTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSL  280 (574)
Q Consensus       204 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~  280 (574)
                      .+. .+..++..+...|.+.|++++|.+.|+++.+.++. +.   ..+..++..+..                       
T Consensus        89 ~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~-----------------------  143 (450)
T 2y4t_A           89 LKM-DFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQSQLIKSDEM-----------------------  143 (450)
T ss_dssp             HCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHH-----------------------
T ss_pred             cCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHHHHH-----------------------
Confidence            431 23455555666666666666666666665554321 22   344444332000                       


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 043999          281 YTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGF  360 (574)
Q Consensus       281 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~  360 (574)
                      ..+..+...+.+.|++++|...|+++.+..+. +...+..+...|.+.|++++|...|+++.+.. +.+..++..+...|
T Consensus       144 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  221 (450)
T 2y4t_A          144 QRLRSQALNAFGSGDYTAAIAFLDKILEVCVW-DAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLY  221 (450)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            00111222344455555555555555443322 44445555555555555555555555544432 23444455555555


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH------------HHHHHhcCChHHHHHHHHHHHHCCCCCC-----HhHH
Q 043999          361 CDAGETDKAFRLFNQLKSNGQSPSVVTYNVL------------IRAFSKAGNSKMASDLVREMEERGITPS-----EVTY  423 (574)
Q Consensus       361 ~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l------------i~~~~~~g~~~~A~~~~~~m~~~~~~p~-----~~~~  423 (574)
                      ...|++++|...|+++.+... .+...+..+            ...+.+.|++++|...++++.+..  |+     ...+
T Consensus       222 ~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~  298 (450)
T 2y4t_A          222 YQLGDHELSLSEVRECLKLDQ-DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSK  298 (450)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCC-ChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHH
Confidence            555555555555555544311 122222222            455555666666666666655532  22     2245


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043999          424 TILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWET  484 (574)
Q Consensus       424 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  484 (574)
                      ..+...+.+.|++++|...++.+.+.. +.+...|..+..+|...|++++|.+.++++++.
T Consensus       299 ~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  358 (450)
T 2y4t_A          299 ERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEH  358 (450)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            555555666666666666666555432 334555556666666666666666666666553

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.94  E-value=6.2e-24  Score=218.39  Aligned_cols=443  Identities=9%  Similarity=-0.020  Sum_probs=322.6

Q ss_pred             HHHHHHHHHHhhhccCChHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhCCCCCCCCcchhHHHHHHHHHHhcCChHHH
Q 043999           46 SISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQA  125 (574)
Q Consensus        46 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  125 (574)
                      .+......+..   .+++++|...+.+++...                          |++.+|..+..+|.+.|++++|
T Consensus         8 ~~~~~g~~~~~---~g~~~~A~~~~~~al~~~--------------------------p~~~~~~~la~~~~~~g~~~~A   58 (514)
T 2gw1_A            8 ALKDKGNQFFR---NKKYDDAIKYYNWALELK--------------------------EDPVFYSNLSACYVSVGDLKKV   58 (514)
T ss_dssp             HHHHHHHHHHH---TSCHHHHHHHHHHHHHHC--------------------------CCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHH---hccHHHHHHHHHHHHhcC--------------------------ccHHHHHhHHHHHHHHhhHHHH
Confidence            44555566667   899999999998886432                          3677899999999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 043999          126 LFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMG  205 (574)
Q Consensus       126 ~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  205 (574)
                      +..|+++++.+ +.+..++..+..++.+.|++++|...|+++....+++......++..+.+......+.+.+..+...+
T Consensus        59 ~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  137 (514)
T 2gw1_A           59 VEMSTKALELK-PDYSKVLLRRASANEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTAT  137 (514)
T ss_dssp             HHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC--------
T ss_pred             HHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999875 44678899999999999999999999999887766666666666666665555555555554443333


Q ss_pred             CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---------CCChhhHHHHHHHHHh---cCCHHHHHHHHHHHHH
Q 043999          206 FSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGL---------VATQHTYTVLICGLFK---NGLQKDGFEFYEKMQL  273 (574)
Q Consensus       206 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~---------~~~~~~~~~li~~~~~---~g~~~~a~~~~~~~~~  273 (574)
                      ..|+...+..-...............+...+.....         +.+...+......+..   .|++++|...|+++.+
T Consensus       138 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  217 (514)
T 2gw1_A          138 ATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAAR  217 (514)
T ss_dssp             -------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHH
T ss_pred             HhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHH
Confidence            223222222211111112222222222222211111         1124445555555554   7899999999998887


Q ss_pred             -----CCCC--------CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          274 -----NGVS--------PSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQ  340 (574)
Q Consensus       274 -----~g~~--------p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  340 (574)
                           ....        .+..++..+...+...|++++|...|+++.+..+.  ...+..+...+...|++++|...++.
T Consensus       218 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~  295 (514)
T 2gw1_A          218 LFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDK  295 (514)
T ss_dssp             HHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHH
T ss_pred             HhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence                 3111        23456778888899999999999999998887654  78888899999999999999999999


Q ss_pred             HHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH
Q 043999          341 MKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSE  420 (574)
Q Consensus       341 m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  420 (574)
                      +.+.. +.+...+..+...+...|++++|...++++.+... .+...+..+...+...|++++|...++++.+.. +.+.
T Consensus       296 ~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~  372 (514)
T 2gw1_A          296 ALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDP-ENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAP  372 (514)
T ss_dssp             HHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCS-SCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCS
T ss_pred             HhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCh-hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCH
Confidence            88764 45677888899999999999999999999988643 356788888999999999999999999998763 3356


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHh---cCCHHHHHHHHHHHHhCCCCCCHHH
Q 043999          421 VTYTILIDSFVRSDDMEKAFEMYSLMQKSGF-SPD----VYTYGVLIHGLCM---KGNMKEASKLFNSMWETKLEPNDVV  492 (574)
Q Consensus       421 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-~~~----~~~~~~li~~~~~---~g~~~~A~~~~~~~~~~~~~p~~~~  492 (574)
                      ..+..+...+...|++++|...++.+.+... .++    ...+..+...+..   .|++++|.+.++++.+.... +..+
T Consensus       373 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~  451 (514)
T 2gw1_A          373 EVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPR-SEQA  451 (514)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTT-CHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcc-cHHH
Confidence            7888889999999999999999998876421 111    3378888999999   99999999999999886433 6778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 043999          493 YNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIA  526 (574)
Q Consensus       493 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  526 (574)
                      +..+...|.+.|++++|.+.++++.+.  .|+..
T Consensus       452 ~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~  483 (514)
T 2gw1_A          452 KIGLAQMKLQQEDIDEAITLFEESADL--ARTME  483 (514)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHh--ccccH
Confidence            899999999999999999999999984  45543

>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=99.94  E-value=9.1e-24  Score=213.33  Aligned_cols=316  Identities=12%  Similarity=0.053  Sum_probs=203.0

Q ss_pred             CCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHH
Q 043999          102 PVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGIL  181 (574)
Q Consensus       102 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l  181 (574)
                      .+.++..|..++..|.+.|++++|+.+|+++++.. +.+..++..+..++.+.|++++|...|+++....|.+..++..+
T Consensus        22 ~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l  100 (450)
T 2y4t_A           22 SMADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQR  100 (450)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHH
Confidence            35667899999999999999999999999999864 45788999999999999999999999999988878889999999


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCC-H---HhHHHHHHH------------HHhcCCHHHHHHHHHHHHhCCCCCCh
Q 043999          182 IKGCCEAGDLNKAFEVLNQLEEMGFSPN-V---VIYTSLIDG------------CCKNGDIERAKMLFRKIGELGLVATQ  245 (574)
Q Consensus       182 i~~~~~~g~~~~A~~~~~~m~~~g~~p~-~---~~~~~li~~------------~~~~g~~~~A~~~~~~~~~~~~~~~~  245 (574)
                      +..|.+.|++++|.+.|+++.+..  |+ .   ..+..++..            +.+.|++++|...|+++.+..+. +.
T Consensus       101 ~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~  177 (450)
T 2y4t_A          101 GHLLLKQGKLDEAEDDFKKVLKSN--PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVW-DA  177 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-Ch
Confidence            999999999999999999999854  43 3   566666554            44555555555555555443322 34


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 043999          246 HTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGL  325 (574)
Q Consensus       246 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~  325 (574)
                      ..+..++.+|.+.|++++|++.|+++.+.. +.+..++..+...|...|++++|...|+++.+..+. +...+..+... 
T Consensus       178 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~~~~~-  254 (450)
T 2y4t_A          178 ELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQV-  254 (450)
T ss_dssp             HHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-hHHHHHHHHHH-
Confidence            445555555555555555555555544331 223444455555555555555555555554433221 22222222000 


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHHhcCC
Q 043999          326 CKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPS-----VVTYNVLIRAFSKAGN  400 (574)
Q Consensus       326 ~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~-----~~~~~~li~~~~~~g~  400 (574)
                                      .      ....+..+...+.+.|++++|.+.|+++.+.  .|+     ...|..+...+.+.|+
T Consensus       255 ----------------~------~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~  310 (450)
T 2y4t_A          255 ----------------K------KLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEK  310 (450)
T ss_dssp             ----------------H------HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTC
T ss_pred             ----------------H------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCC
Confidence                            0      0000111255666666666666666666654  222     2355666666666667


Q ss_pred             hHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          401 SKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKS  449 (574)
Q Consensus       401 ~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  449 (574)
                      +++|...++++.+.. +.+...+..+..+|...|++++|...++++.+.
T Consensus       311 ~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  358 (450)
T 2y4t_A          311 PVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEH  358 (450)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            777766666666542 224566666666666777777777777666654

>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=99.94  E-value=8.9e-24  Score=218.53  Aligned_cols=434  Identities=10%  Similarity=0.008  Sum_probs=260.6

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      ...|..+...+.+.|++++|+..|+++++.. +.+..++..+..++.+.|++++|++.|+++....|.+..++..++..+
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~  103 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASAN  103 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHH
Confidence            4678999999999999999999999999875 457889999999999999999999999999888788999999999999


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CChhhHHHHHHHHHhcCCHHH
Q 043999          186 CEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLV--ATQHTYTVLICGLFKNGLQKD  263 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~  263 (574)
                      ...|++++|.+.|+.+ ..  .|+  .....+..+...+...+|...++++....+.  +........+..+....+.+.
T Consensus       104 ~~~g~~~~A~~~~~~~-~~--~~~--~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (537)
T 3fp2_A          104 ESLGNFTDAMFDLSVL-SL--NGD--FDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHL  178 (537)
T ss_dssp             HHHTCHHHHHHHHHHH-C---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHH
T ss_pred             HHcCCHHHHHHHHHHH-hc--CCC--CChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHH
Confidence            9999999999999743 32  233  2233355666677778899999988654210  111112223333444444444


Q ss_pred             HHHHHHHHHHCCCCCCHh-hHHHHHHHHH--------hcCCHHHHHHHHHHHHhCCCCCCH-------HHHHHHHHHHHh
Q 043999          264 GFEFYEKMQLNGVSPSLY-TYNCLIHEYC--------NEGKVSEGFKLFDEMRHREVACNV-------VTYNTLICGLCK  327 (574)
Q Consensus       264 a~~~~~~~~~~g~~p~~~-~~~~li~~~~--------~~g~~~~A~~~~~~m~~~~~~~~~-------~~~~~li~~~~~  327 (574)
                      +...+......  .+... ....+...+.        ..|++++|..+++++.+..+. +.       .++..+...+..
T Consensus       179 ~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~g~~~~~  255 (537)
T 3fp2_A          179 EVSSVNTSSNY--DTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTV-DDPLRENAALALCYTGIFHFL  255 (537)
T ss_dssp             HHHTSCCCCSS--CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CC-CHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcccc--ccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCC-cchhhHHHHHHHHHHHHHHHh
Confidence            44333222211  11111 1122221111        123566666666666554333 22       234444555556


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 043999          328 EMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDL  407 (574)
Q Consensus       328 ~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~  407 (574)
                      .|++++|...++.+.+.  .|+...+..+...+...|++++|.+.++++.+.. +.+..+|..+...+...|++++|...
T Consensus       256 ~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~  332 (537)
T 3fp2_A          256 KNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKED  332 (537)
T ss_dssp             TTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHH
Confidence            66666666666666654  3345556666666666666666666666665543 22455666666666666666666666


Q ss_pred             HHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-
Q 043999          408 VREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKL-  486 (574)
Q Consensus       408 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-  486 (574)
                      ++++.+... .+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+... 
T Consensus       333 ~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~  410 (537)
T 3fp2_A          333 FQKAQSLNP-ENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEV  410 (537)
T ss_dssp             HHHHHHHCT-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCc
Confidence            666665432 234556666666666666666666666665543 34455666666666666666666666666654311 


Q ss_pred             ----CCCHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          487 ----EPNDVVYNMMIFGYCKE----------GNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQML  552 (574)
Q Consensus       487 ----~p~~~~~~~li~~~~~~----------g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  552 (574)
                          ......+......+...          |++++|...++++.+.. +.+..++..+..++.+.|++++|...+++++
T Consensus       411 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  489 (537)
T 3fp2_A          411 QEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIELFEDSA  489 (537)
T ss_dssp             CSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence                01112233344455555          66666666666666542 2344556666666666666666666666666


Q ss_pred             Hc
Q 043999          553 KL  554 (574)
Q Consensus       553 ~~  554 (574)
                      +.
T Consensus       490 ~~  491 (537)
T 3fp2_A          490 IL  491 (537)
T ss_dssp             HH
T ss_pred             Hh
Confidence            54

>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=5.4e-22  Score=205.16  Aligned_cols=432  Identities=12%  Similarity=0.009  Sum_probs=321.7

Q ss_pred             HHHHHHHHHHHhhhccCChHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHhhCCCCCCCCcchhHHHHHHHHHHhcCChHH
Q 043999           45 QSISIILRLLLSKMSSHSHAAAQTLILKIISGRITSSSFTPRSLLCHLTQLFPSSSNPVTKSRLYESIIDAHLKSRLSDQ  124 (574)
Q Consensus        45 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  124 (574)
                      ..+..+...+..   .+++++|...+.+.+..                         .|.++.+|..+..+|.+.|++++
T Consensus        26 ~~~~~~g~~~~~---~g~~~~A~~~~~~al~~-------------------------~p~~~~~~~~la~~~~~~g~~~~   77 (537)
T 3fp2_A           26 VQLKNRGNHFFT---AKNFNEAIKYYQYAIEL-------------------------DPNEPVFYSNISACYISTGDLEK   77 (537)
T ss_dssp             HHHHHHHHHHHH---TTCCC-CHHHHHHHHHH-------------------------CTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHH---hccHHHHHHHHHHHHhh-------------------------CCCCcHHHHHHHHHHHHcCCHHH
Confidence            445566666777   88999999888887643                         23567889999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 043999          125 ALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEM  204 (574)
Q Consensus       125 A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  204 (574)
                      |++.|+++++.+ +.+..++..+..++...|++++|+..|+.+...  |+  .....+..+...+...+|.+.++++...
T Consensus        78 A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~--~~~~~~~~~~~~~~~~~a~~~~~~~l~~  152 (537)
T 3fp2_A           78 VIEFTTKALEIK-PDHSKALLRRASANESLGNFTDAMFDLSVLSLN--GD--FDGASIEPMLERNLNKQAMKVLNENLSK  152 (537)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHC---------------CHHHHHHHHHHHHHHHHHCC-
T ss_pred             HHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHHHHHHHHHHHhcC--CC--CChHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999875 446888999999999999999999999744322  22  2222345566667778999999998653


Q ss_pred             C--CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCh-hhHHHHHHHHHh--------cCCHHHHHHHHHHHHH
Q 043999          205 G--FSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQ-HTYTVLICGLFK--------NGLQKDGFEFYEKMQL  273 (574)
Q Consensus       205 g--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~li~~~~~--------~g~~~~a~~~~~~~~~  273 (574)
                      .  ..+........+..+....+.+.+...+.+.....  +.. .....+...+..        .|++++|..+++++.+
T Consensus       153 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~  230 (537)
T 3fp2_A          153 DEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYD--TAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLS  230 (537)
T ss_dssp             ------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSC--SSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             CccccccccchHhHHHHHHHhcChHHHHHHHhhccccc--cHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            1  01111122334555666777776665554433211  111 122223222222        2578999999999987


Q ss_pred             CCCCCC--------HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          274 NGVSPS--------LYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAG  345 (574)
Q Consensus       274 ~g~~p~--------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g  345 (574)
                      ..  |+        ..++..+...+...|++++|.+.|+++.+..+  +...+..+...+...|++++|...++.+.+..
T Consensus       231 ~~--p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  306 (537)
T 3fp2_A          231 AN--TVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLHP--TPNSYIFLALTLADKENSQEFFKFFQKAVDLN  306 (537)
T ss_dssp             ----CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC--CHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC
T ss_pred             HC--CCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC--CchHHHHHHHHHHHhcCHHHHHHHHHHHhccC
Confidence            63  33        23466777888899999999999999988754  47888889999999999999999999998874


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHH
Q 043999          346 ISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTI  425 (574)
Q Consensus       346 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~  425 (574)
                       +.+..++..+...+...|++++|.+.++++.+... .+...+..+...+...|++++|...++++.+.. +.+...+..
T Consensus       307 -~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~  383 (537)
T 3fp2_A          307 -PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNP-ENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTF  383 (537)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHH
T ss_pred             -CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHH
Confidence             45678899999999999999999999999988643 356788899999999999999999999998874 336678889


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCC-----CCCHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHhCCCCCCH
Q 043999          426 LIDSFVRSDDMEKAFEMYSLMQKSGF-----SPDVYTYGVLIHGLCMK----------GNMKEASKLFNSMWETKLEPND  490 (574)
Q Consensus       426 li~~~~~~g~~~~A~~~~~~~~~~~~-----~~~~~~~~~li~~~~~~----------g~~~~A~~~~~~~~~~~~~p~~  490 (574)
                      +...+...|++++|...++++.+...     ......+..+...+...          |++++|...++++.+..+. +.
T Consensus       384 l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~-~~  462 (537)
T 3fp2_A          384 FAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPR-SE  462 (537)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTT-CH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCC-CH
Confidence            99999999999999999999876421     11122244455667777          9999999999999986433 67


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          491 VVYNMMIFGYCKEGNSYRALRLLGEMNEK  519 (574)
Q Consensus       491 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~  519 (574)
                      .++..+...|.+.|++++|.+.|+++.+.
T Consensus       463 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~  491 (537)
T 3fp2_A          463 QAKIGLAQLKLQMEKIDEAIELFEDSAIL  491 (537)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            88999999999999999999999999984

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.90  E-value=8.7e-20  Score=177.87  Aligned_cols=329  Identities=11%  Similarity=0.021  Sum_probs=197.5

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHH
Q 043999          105 KSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKG  184 (574)
Q Consensus       105 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~  184 (574)
                      ++..|..+...+.+.|++++|+..|+++++.. +.+..++..+...+...|++++|...|+++....|.+..++..+...
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            35678888999999999999999999998864 34678888888899999999999999999887767788889999999


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCC----CHHhHHHH------------HHHHHhcCCHHHHHHHHHHHHhCCCCCChhhH
Q 043999          185 CCEAGDLNKAFEVLNQLEEMGFSP----NVVIYTSL------------IDGCCKNGDIERAKMLFRKIGELGLVATQHTY  248 (574)
Q Consensus       185 ~~~~g~~~~A~~~~~~m~~~g~~p----~~~~~~~l------------i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  248 (574)
                      +...|++++|.+.++++.+..  |    +...+..+            ...+...|++++|.+.++++.+..+. +...+
T Consensus        81 ~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~  157 (359)
T 3ieg_A           81 LLKQGKLDEAEDDFKKVLKSN--PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVW-DAELR  157 (359)
T ss_dssp             HHHHTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHH
T ss_pred             HHHcCChHHHHHHHHHHHhcC--CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-chHHH
Confidence            999999999999999988753  4    33344433            34455555555555555555444322 34445


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 043999          249 TVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKE  328 (574)
Q Consensus       249 ~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~  328 (574)
                      ..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...|+...+..+. +...+..+...    
T Consensus       158 ~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~----  231 (359)
T 3ieg_A          158 ELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQV----  231 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH----
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-chHHHHHHHHH----
Confidence            555555555555555555555555432 223444455555555555555555555554443222 22211111000    


Q ss_pred             CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCChHHH
Q 043999          329 MRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSV----VTYNVLIRAFSKAGNSKMA  404 (574)
Q Consensus       329 ~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~----~~~~~li~~~~~~g~~~~A  404 (574)
                                   .      .......+...+.+.|++++|.+.++++.+.... +.    ..+..+...+.+.|++++|
T Consensus       232 -------------~------~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A  291 (359)
T 3ieg_A          232 -------------K------KLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEA  291 (359)
T ss_dssp             -------------H------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             -------------H------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHH
Confidence                         0      0000112244556666666666666666554221 22    1233455566666666666


Q ss_pred             HHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 043999          405 SDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGL  465 (574)
Q Consensus       405 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  465 (574)
                      ...+++..+.. +.+..++..+...+...|++++|...|+++.+.. +.+...+..+..+.
T Consensus       292 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~  350 (359)
T 3ieg_A          292 IRICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHN-ENDQQIREGLEKAQ  350 (359)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            66666666542 2255566666666666666666666666666543 33344444444443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.89  E-value=1.9e-19  Score=175.49  Aligned_cols=325  Identities=13%  Similarity=0.041  Sum_probs=156.3

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 043999          177 SFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLF  256 (574)
Q Consensus       177 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  256 (574)
                      .+..+...+.+.|++++|.+.|+++.+.. +.+..++..+...+...|++++|...++++.+..+. +...+..+...+.
T Consensus         5 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~   82 (359)
T 3ieg_A            5 KHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMD-FTAARLQRGHLLL   82 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-cchHHHHHHHHHH
Confidence            33444444444444444444444444332 113334444444444444444444444444433221 3334444444444


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCC----CHhhHH------------HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 043999          257 KNGLQKDGFEFYEKMQLNGVSP----SLYTYN------------CLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNT  320 (574)
Q Consensus       257 ~~g~~~~a~~~~~~~~~~g~~p----~~~~~~------------~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~  320 (574)
                      ..|++++|...++++.+.  .|    +...+.            .+...+...|++++|.+.++++.+..+. +...+..
T Consensus        83 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~  159 (359)
T 3ieg_A           83 KQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVW-DAELREL  159 (359)
T ss_dssp             HHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHH
T ss_pred             HcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-chHHHHH
Confidence            444444444444444433  12    111221            2234455555555555555555544332 4455555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 043999          321 LICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGN  400 (574)
Q Consensus       321 li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  400 (574)
                      +...+...|++++|...++.+.+.. +.+..++..+...+...|++++|...+++..+... .+...+..+..       
T Consensus       160 ~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~~-------  230 (359)
T 3ieg_A          160 RAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ-DHKRCFAHYKQ-------  230 (359)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH-------
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-cchHHHHHHHH-------
Confidence            5555555555555555555555442 33445555555555555555555555555554321 11221111100       


Q ss_pred             hHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHH
Q 043999          401 SKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDV----YTYGVLIHGLCMKGNMKEASK  476 (574)
Q Consensus       401 ~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~  476 (574)
                                +.      .......+...+.+.|++++|...++.+.+.. +.+.    ..+..+...+.+.|++++|.+
T Consensus       231 ----------~~------~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~~~~~~A~~  293 (359)
T 3ieg_A          231 ----------VK------KLNKLIESAEELIRDGRYTDATSKYESVMKTE-PSVAEYTVRSKERICHCFSKDEKPVEAIR  293 (359)
T ss_dssp             ----------HH------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSSHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ----------HH------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHHHHHccCHHHHHH
Confidence                      00      00011122445566666666666666665542 1222    123345566666777777777


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHH
Q 043999          477 LFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPN-IASYSSTIGVL  535 (574)
Q Consensus       477 ~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~  535 (574)
                      .++++.+..+. +..+|..+...|...|++++|.+.++++.+.  .|+ ...+..+..+.
T Consensus       294 ~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~  350 (359)
T 3ieg_A          294 ICSEVLQMEPD-NVNALKDRAEAYLIEEMYDEAIQDYEAAQEH--NENDQQIREGLEKAQ  350 (359)
T ss_dssp             HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCChHHHHHHHHHH
Confidence            77766664221 5566666777777777777777777777664  333 44444444443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.89  E-value=4.1e-18  Score=173.65  Aligned_cols=363  Identities=16%  Similarity=0.070  Sum_probs=243.4

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHh----cCChhHHHHH
Q 043999          126 LFYFHQMLDSGVRPRSNTFNSLLIFVIK----SCSFDKGWLFFSENRCKVELDVYSFGILIKGCCE----AGDLNKAFEV  197 (574)
Q Consensus       126 ~~~~~~~~~~g~~p~~~~~~~ll~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~  197 (574)
                      +..+++..+.|   +..+...+...|..    .+++++|...|++....  .+..++..|...|..    .+++++|.+.
T Consensus        27 ~~~~~~~a~~g---~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~--~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~  101 (490)
T 2xm6_A           27 LEQLKQKAESG---EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQ--GYTPAEYVLGLRYMNGEGVPQDYAQAVIW  101 (490)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred             HHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHC--CCHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            44444444433   45555556666655    66666777666665543  455666666666666    6677777777


Q ss_pred             HHHHHHCCCCCCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh----cCCHHHHHHHHH
Q 043999          198 LNQLEEMGFSPNVVIYTSLIDGCCK----NGDIERAKMLFRKIGELGLVATQHTYTVLICGLFK----NGLQKDGFEFYE  269 (574)
Q Consensus       198 ~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~  269 (574)
                      |++..+.|   +...+..|...|..    .+++++|++.|++..+.|   +...+..|...|..    .++.++|+++|+
T Consensus       102 ~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  175 (490)
T 2xm6_A          102 YKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYS  175 (490)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            77766643   45556666666666    667777777777766654   45566666666665    667777777777


Q ss_pred             HHHHCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHH
Q 043999          270 KMQLNGVSPSLYTYNCLIHEYCN----EGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCK----EMRVQEAERLLDQM  341 (574)
Q Consensus       270 ~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~m  341 (574)
                      +..+.|   +...+..+...|..    .++.++|.+.|++..+.+   +...+..+...|..    .+++++|..+|+..
T Consensus       176 ~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a  249 (490)
T 2xm6_A          176 KAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQS  249 (490)
T ss_dssp             HHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             HHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHH
Confidence            776653   55666666666666    677777777777776654   45566666666664    67777777777777


Q ss_pred             HHCCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-----CChHHHHHHHHHHH
Q 043999          342 KMAGISPNVITYNKLIDGFCD----AGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKA-----GNSKMASDLVREME  412 (574)
Q Consensus       342 ~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~  412 (574)
                      .+.|   +...+..+...|..    .+++++|.+.|++..+.|   +...+..+...|...     +++++|...+++..
T Consensus       250 ~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~  323 (490)
T 2xm6_A          250 AEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSA  323 (490)
T ss_dssp             HTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHH
T ss_pred             HHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHH
Confidence            6654   44556666666666    677777777777776653   455666666666665     77778888777777


Q ss_pred             HCCCCCCHhHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCC
Q 043999          413 ERGITPSEVTYTILIDSFVRSD---DMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCM----KGNMKEASKLFNSMWETK  485 (574)
Q Consensus       413 ~~~~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~  485 (574)
                      +.|   +...+..+...|...|   +.++|.+.|++..+.|   +...+..+...|..    .++.++|.+.|++..+.+
T Consensus       324 ~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~  397 (490)
T 2xm6_A          324 EQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG  397 (490)
T ss_dssp             HTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             hcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC
Confidence            764   3455666666666555   6777888888777753   45667777777777    778888888888877754


Q ss_pred             CCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCC
Q 043999          486 LEPNDVVYNMMIFGYCK----EGNSYRALRLLGEMNEKG  520 (574)
Q Consensus       486 ~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g  520 (574)
                         +...+..|...|..    .+++++|..+|++..+.+
T Consensus       398 ---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          398 ---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             ---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             ---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence               56677777777777    778888888888887764

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.89  E-value=5.1e-18  Score=172.94  Aligned_cols=383  Identities=13%  Similarity=0.054  Sum_probs=318.7

Q ss_pred             cchhHHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChhHHHHHHHHcccCCCCCH
Q 043999          104 TKSRLYESIIDAHLK----SRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIK----SCSFDKGWLFFSENRCKVELDV  175 (574)
Q Consensus       104 ~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~----~g~~~~A~~~~~~~~~~~~~~~  175 (574)
                      .++.++..|...|..    .+++++|+..|++..+.|   +..++..|...|..    .+++++|.+.|++....  .+.
T Consensus        37 g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~--~~~  111 (490)
T 2xm6_A           37 GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALK--GLP  111 (490)
T ss_dssp             TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--TCH
T ss_pred             CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC--CCH
Confidence            466778888888988    899999999999999876   67788889999998    89999999999998764  577


Q ss_pred             HHHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCChhh
Q 043999          176 YSFGILIKGCCE----AGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCK----NGDIERAKMLFRKIGELGLVATQHT  247 (574)
Q Consensus       176 ~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~  247 (574)
                      .++..|...|..    .+++++|.+.|++..+.|   +...+..|...|..    .+++++|++.|++..+.+   +..+
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a  185 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWS  185 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence            888899999998    899999999999998875   67788888888987    889999999999998875   6788


Q ss_pred             HHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 043999          248 YTVLICGLFK----NGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCN----EGKVSEGFKLFDEMRHREVACNVVTYN  319 (574)
Q Consensus       248 ~~~li~~~~~----~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~  319 (574)
                      +..+...|..    .++.++|.++|++..+.|   +...+..+...|..    .++.++|.+.|++..+.+   +...+.
T Consensus       186 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~  259 (490)
T 2xm6_A          186 CNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQF  259 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHH
T ss_pred             HHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            9999999998    899999999999999865   66788888888886    889999999999998775   566777


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc-----CCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 043999          320 TLICGLCK----EMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDA-----GETDKAFRLFNQLKSNGQSPSVVTYNV  390 (574)
Q Consensus       320 ~li~~~~~----~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~~~~~g~~~~~~~~~~  390 (574)
                      .+...|..    .++.++|+..|+...+.|   +...+..+...|...     +++++|...|++..+.|   +...+..
T Consensus       260 ~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~  333 (490)
T 2xm6_A          260 RLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQAN  333 (490)
T ss_dssp             HHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHH
Confidence            78888877    899999999999998875   566778888888887     89999999999999874   5667788


Q ss_pred             HHHHHHhcC---ChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043999          391 LIRAFSKAG---NSKMASDLVREMEERGITPSEVTYTILIDSFVR----SDDMEKAFEMYSLMQKSGFSPDVYTYGVLIH  463 (574)
Q Consensus       391 li~~~~~~g---~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  463 (574)
                      +...|.+.|   +.++|...|++..+.|   +...+..+...|..    .+++++|...|++..+.+   +...+..|..
T Consensus       334 lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~  407 (490)
T 2xm6_A          334 LGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGE  407 (490)
T ss_dssp             HHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHH
Confidence            888887766   7899999999999874   67788888888888    899999999999999865   5677888888


Q ss_pred             HHHh----cCCHHHHHHHHHHHHhCCCC-C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          464 GLCM----KGNMKEASKLFNSMWETKLE-P-NDVVYNMMIFGYCKEGNSYRALRLLGEMN  517 (574)
Q Consensus       464 ~~~~----~g~~~~A~~~~~~~~~~~~~-p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~  517 (574)
                      .|.+    .++.++|...|++..+.+.. | +......+...+..  +.+.|.+..++..
T Consensus       408 ~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~--~~~~a~~~a~~~~  465 (490)
T 2xm6_A          408 IYYYGLGVERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLTAK--QLQQAELLSQQYI  465 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHH--HHHHHHHHHHHHH
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHh--HHHHHHHHHHHHH
Confidence            8888    89999999999999987643 2 33344444333322  2344444444433

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.88  E-value=1.9e-18  Score=177.96  Aligned_cols=422  Identities=10%  Similarity=0.038  Sum_probs=287.0

Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHH
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILI  182 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li  182 (574)
                      |.+..+|..++. +.+.|++++|..+|+++++. .+.+...|..++..+.+.|++++|..+|+++.... |++..|...+
T Consensus        10 P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~-~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~-p~~~lw~~~~   86 (530)
T 2ooe_A           10 PYDLDAWSILIR-EAQNQPIDKARKTYERLVAQ-FPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV-LHIDLWKCYL   86 (530)
T ss_dssp             TTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTT-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC-CCHHHHHHHH
T ss_pred             CCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC-CChHHHHHHH
Confidence            456778888888 47788888888888888876 34467778888888888888888888888888765 4777777777


Q ss_pred             HHH-HhcCChhHHHH----HHHHHHH-CCCCC-CHHhHHHHHHHHHh---------cCCHHHHHHHHHHHHhCCCCCChh
Q 043999          183 KGC-CEAGDLNKAFE----VLNQLEE-MGFSP-NVVIYTSLIDGCCK---------NGDIERAKMLFRKIGELGLVATQH  246 (574)
Q Consensus       183 ~~~-~~~g~~~~A~~----~~~~m~~-~g~~p-~~~~~~~li~~~~~---------~g~~~~A~~~~~~~~~~~~~~~~~  246 (574)
                      ... ...|+.++|.+    +|++... .|..| +...|...+....+         .|++++|..+|++..+....+...
T Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~  166 (530)
T 2ooe_A           87 SYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQ  166 (530)
T ss_dssp             HHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHH
T ss_pred             HHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHH
Confidence            533 34577777665    6666554 24443 45567777766554         677888888888877621111112


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH------HhCC---CCCC---
Q 043999          247 TYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEM------RHRE---VACN---  314 (574)
Q Consensus       247 ~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m------~~~~---~~~~---  314 (574)
                      .|..........|.                    .+...++.  .+.+++++|..++.++      .+..   ++|+   
T Consensus       167 ~~~~~~~~e~~~~~--------------------~~~~~~l~--~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~  224 (530)
T 2ooe_A          167 LWRDYNKYEEGINI--------------------HLAKKMIE--DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTP  224 (530)
T ss_dssp             HHHHHHHHHHHHCH--------------------HHHHHHHH--TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--C
T ss_pred             HHHHHHHHHHhhch--------------------hHHHHHHH--HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCCh
Confidence            22222211100110                    01111111  1234456666666552      2221   2333   


Q ss_pred             -----HHHHHHHHHHHHhc----CCH----HHHHHHHHHHHHCCCCCChhhHHHHHHHHHh-------cCCHH-------
Q 043999          315 -----VVTYNTLICGLCKE----MRV----QEAERLLDQMKMAGISPNVITYNKLIDGFCD-------AGETD-------  367 (574)
Q Consensus       315 -----~~~~~~li~~~~~~----~~~----~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~-------~g~~~-------  367 (574)
                           ...|...+......    ++.    +.+..+|++++... +.+...|..++..+.+       .|+++       
T Consensus       225 ~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~  303 (530)
T 2ooe_A          225 QEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSD  303 (530)
T ss_dssp             CHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhH
Confidence                 24555555433221    222    47778888888763 5567788888887775       68876       


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-H-hHHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          368 KAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPS-E-VTYTILIDSFVRSDDMEKAFEMYSL  445 (574)
Q Consensus       368 ~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~-~~~~~li~~~~~~g~~~~A~~~~~~  445 (574)
                      +|..++++..+.-.+.+...|..++..+.+.|++++|..+|+++.+.  .|+ . ..|...+..+.+.|++++|.++|++
T Consensus       304 ~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  381 (530)
T 2ooe_A          304 EAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKK  381 (530)
T ss_dssp             HHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            89999999886323346888889999999999999999999999885  443 2 4788888888889999999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCC
Q 043999          446 MQKSGFSPDVYTYGVLIHG-LCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKG-LVP  523 (574)
Q Consensus       446 ~~~~~~~~~~~~~~~li~~-~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p  523 (574)
                      ..+.. +.+...|...... +...|+.++|..+|++.++..+ .+...|..++..+.+.|+.++|..+|++....+ ..|
T Consensus       382 Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p-~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~  459 (530)
T 2ooe_A          382 AREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPP  459 (530)
T ss_dssp             HHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCG
T ss_pred             HHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCC-CCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCH
Confidence            98763 2233333332222 3468999999999999987642 267889999999999999999999999999863 223


Q ss_pred             C--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043999          524 N--IASYSSTIGVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       524 ~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      +  ...|...+......|+.+.+.++.+++.+.
T Consensus       460 ~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          460 EKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             GGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            2  347888888888899999999999999865

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.88  E-value=4.6e-18  Score=175.09  Aligned_cols=386  Identities=12%  Similarity=0.036  Sum_probs=270.0

Q ss_pred             CCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-HhcCChhHHHH----HHHHcccC---CCC
Q 043999          102 PVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFV-IKSCSFDKGWL----FFSENRCK---VEL  173 (574)
Q Consensus       102 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~-~~~g~~~~A~~----~~~~~~~~---~~~  173 (574)
                      .|.+...|..++..+.+.|++++|..+|+++++..  |+...|..++... ...|++++|.+    +|+.....   .++
T Consensus        42 ~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~  119 (530)
T 2ooe_A           42 FPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIM  119 (530)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTT
T ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcc
Confidence            35677899999999999999999999999999863  6877888777533 45688888766    77766543   345


Q ss_pred             CHHHHHHHHHHHHh---------cCChhHHHHHHHHHHHCCCCCCH---HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 043999          174 DVYSFGILIKGCCE---------AGDLNKAFEVLNQLEEMGFSPNV---VIYTSLIDGCCKNGDIERAKMLFRKIGELGL  241 (574)
Q Consensus       174 ~~~~~~~li~~~~~---------~g~~~~A~~~~~~m~~~g~~p~~---~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~  241 (574)
                      +...|...+....+         .|++++|.++|++..+.   |+.   ..|..........|. ..+..++.       
T Consensus       120 ~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~---P~~~~~~~~~~~~~~e~~~~~-~~~~~~l~-------  188 (530)
T 2ooe_A          120 SYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVN---PMINIEQLWRDYNKYEEGINI-HLAKKMIE-------  188 (530)
T ss_dssp             CHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTS---CCTTHHHHHHHHHHHHHHHCH-HHHHHHHH-------
T ss_pred             cHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhc---hhhhHHHHHHHHHHHHHhhch-hHHHHHHH-------
Confidence            67888888887665         78999999999999873   332   233322221111110 00111110       


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHH------HHCC---CCCC--------HhhHHHHHHHHHhc----CCH----
Q 043999          242 VATQHTYTVLICGLFKNGLQKDGFEFYEKM------QLNG---VSPS--------LYTYNCLIHEYCNE----GKV----  296 (574)
Q Consensus       242 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~------~~~g---~~p~--------~~~~~~li~~~~~~----g~~----  296 (574)
                                    .+.+++.+|..++.+.      .+..   ++|+        ...|...+......    ++.    
T Consensus       189 --------------~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~  254 (530)
T 2ooe_A          189 --------------DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLIT  254 (530)
T ss_dssp             --------------TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHH
T ss_pred             --------------HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHH
Confidence                          0123345555544442      2111   2332        13444444332221    222    


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-------cCCHH-------HHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 043999          297 SEGFKLFDEMRHREVACNVVTYNTLICGLCK-------EMRVQ-------EAERLLDQMKMAGISPNVITYNKLIDGFCD  362 (574)
Q Consensus       297 ~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~-------~~~~~-------~A~~~~~~m~~~g~~~~~~~~~~li~~~~~  362 (574)
                      +++..+|++.....+. +...|..++..+.+       .|+++       +|..+|++..+.-.+.+...|..++..+.+
T Consensus       255 ~~a~~~y~~al~~~p~-~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~  333 (530)
T 2ooe_A          255 KRVMFAYEQCLLVLGH-HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  333 (530)
T ss_dssp             HHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            3677788888776443 77888888887775       68876       899999998863234467888889999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCC-H-HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHH-HHhcCCHHHH
Q 043999          363 AGETDKAFRLFNQLKSNGQSPS-V-VTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDS-FVRSDDMEKA  439 (574)
Q Consensus       363 ~g~~~~A~~~~~~~~~~g~~~~-~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~-~~~~g~~~~A  439 (574)
                      .|++++|..+|+++.+.  .|+ . ..|..++..+.+.|+.++|..+|++..+... .+...+...... +...|+.++|
T Consensus       334 ~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~-~~~~~~~~~a~~~~~~~~~~~~A  410 (530)
T 2ooe_A          334 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVA  410 (530)
T ss_dssp             TTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTT-CCTHHHHHHHHHHHHHTCCHHHH
T ss_pred             cCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccC-CchHHHHHHHHHHHHHcCChhHH
Confidence            99999999999999885  443 3 5788888888889999999999999987632 223333322222 3468999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC--HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          440 FEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKL-EPN--DVVYNMMIFGYCKEGNSYRALRLLGEM  516 (574)
Q Consensus       440 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m  516 (574)
                      ..+|+...+.. +.+...|..++..+.+.|+.++|..+|++.+.... .|+  ...|...+......|+.+.+..+.+++
T Consensus       411 ~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~  489 (530)
T 2ooe_A          411 FKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  489 (530)
T ss_dssp             HHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999988763 45678899999999999999999999999998643 332  457888888888899999999999999


Q ss_pred             HHC
Q 043999          517 NEK  519 (574)
Q Consensus       517 ~~~  519 (574)
                      .+.
T Consensus       490 ~~~  492 (530)
T 2ooe_A          490 FTA  492 (530)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            874

>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=99.87  E-value=4.1e-19  Score=171.02  Aligned_cols=201  Identities=13%  Similarity=-0.002  Sum_probs=109.9

Q ss_pred             CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHH
Q 043999          208 PNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLI  287 (574)
Q Consensus       208 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li  287 (574)
                      .+...+..+...+...|++++|.++|+++.+..+. +...+..++..+...|++++|..+++++.+.. +.+...+..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPF-HASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-ChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            34445555566666666666666666666554332 34445555555566666666666666655542 22444555555


Q ss_pred             HHHHhcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCH
Q 043999          288 HEYCNEG-KVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGET  366 (574)
Q Consensus       288 ~~~~~~g-~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  366 (574)
                      ..+...| ++++|.+.|+++.+..+. +...|..+...+...|++++|...++++.+.. +.+...+..+...+...|++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~  175 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLEKT-YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNS  175 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTCTT-CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhH
Confidence            6666666 566666666665554333 44555555666666666666666666655542 22334444455555556666


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 043999          367 DKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEE  413 (574)
Q Consensus       367 ~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  413 (574)
                      ++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+
T Consensus       176 ~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  221 (330)
T 3hym_B          176 KLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALE  221 (330)
T ss_dssp             HHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            66666665555542 22344555555555555555555555555543

>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=99.86  E-value=5.6e-19  Score=170.06  Aligned_cols=286  Identities=9%  Similarity=-0.045  Sum_probs=211.2

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHH
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIK  183 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  183 (574)
                      .++..+..++..+...|++++|+++|+++++.. +.+..++..++..+...|++++|...++++....+.+..+|..+..
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            455667888899999999999999999998764 3355667777888889999999999999888777778888888999


Q ss_pred             HHHhcC-ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHH
Q 043999          184 GCCEAG-DLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQK  262 (574)
Q Consensus       184 ~~~~~g-~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  262 (574)
                      .+...| ++++|.+.|++..+.. +.+...+..+...+...|++++|.+.+++..+.... +...+..+...+...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhHH
Confidence            999998 8999999999888754 235677888888888888888888888888776533 4566677788888888888


Q ss_pred             HHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC--------CCCCHHHHHHHHHHHHhcCCHHHH
Q 043999          263 DGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHRE--------VACNVVTYNTLICGLCKEMRVQEA  334 (574)
Q Consensus       263 ~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~--------~~~~~~~~~~li~~~~~~~~~~~A  334 (574)
                      +|.+.+++..+.. +.+..++..+...+...|++++|...++++.+..        .+.+..++..+...+.+.|++++|
T Consensus       177 ~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  255 (330)
T 3hym_B          177 LAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEA  255 (330)
T ss_dssp             HHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHH
Confidence            8888888887653 3356677777778888888888888877776531        122345666777777777777777


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 043999          335 ERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAF  395 (574)
Q Consensus       335 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~  395 (574)
                      ...++++.+.. +.+...+..+...+.+.|++++|.+.++++.+.. +.+...+..+...+
T Consensus       256 ~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  314 (330)
T 3hym_B          256 LDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVTMLGHCI  314 (330)
T ss_dssp             HHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHHHHHHHH
Confidence            77777766653 3355566666666777777777777776666542 22455555555555

>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=99.85  E-value=2.4e-19  Score=175.70  Aligned_cols=309  Identities=10%  Similarity=-0.041  Sum_probs=186.4

Q ss_pred             HHHhcCCHHHHHH-HHHHHHhCCCC---CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcC
Q 043999          219 GCCKNGDIERAKM-LFRKIGELGLV---ATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEG  294 (574)
Q Consensus       219 ~~~~~g~~~~A~~-~~~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g  294 (574)
                      .+...|++++|.+ .+++..+....   .+...+..+...+.+.|++++|...|+++.+.. +.+..++..+...+.+.|
T Consensus        34 ~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  112 (368)
T 1fch_A           34 AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENE  112 (368)
T ss_dssp             ------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCc
Confidence            3344455555555 55543332111   123445555555556666666666666555542 224445555555555555


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHH
Q 043999          295 KVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFN  374 (574)
Q Consensus       295 ~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  374 (574)
                      ++++|.+.|+++.+..+. +..++..+...+...|++++|...++++.+.. +.+...+..+...       ..      
T Consensus       113 ~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~-------~~------  177 (368)
T 1fch_A          113 QELLAISALRRCLELKPD-NQTALMALAVSFTNESLQRQACEILRDWLRYT-PAYAHLVTPAEEG-------AG------  177 (368)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-TTTGGGCC--------------------
T ss_pred             CHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHH-------hh------
Confidence            666665555555554332 45555555555555555555555555555542 1111111111000       00      


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 043999          375 QLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITP-SEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSP  453 (574)
Q Consensus       375 ~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~  453 (574)
                       .    ..+ ...+. .+..+...|++++|...++++.+..... +..++..+...+...|++++|...++++.+.. +.
T Consensus       178 -~----~~~-~~~~~-~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~  249 (368)
T 1fch_A          178 -G----AGL-GPSKR-ILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PN  249 (368)
T ss_dssp             --------------C-TTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             -h----hcc-cHHHH-HHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cC
Confidence             0    000 00111 2233337888899999998888763221 46788888888999999999999998887764 55


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC----------
Q 043999          454 DVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVP----------  523 (574)
Q Consensus       454 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p----------  523 (574)
                      +..++..+...+...|++++|.+.++++.+..+ .+..++..+...|.+.|++++|...++++.+.....          
T Consensus       250 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  328 (368)
T 1fch_A          250 DYLLWNKLGATLANGNQSEEAVAAYRRALELQP-GYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAM  328 (368)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCC
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccch
Confidence            677888899999999999999999999887643 267788899999999999999999999887742110          


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          524 NIASYSSTIGVLCQDGKWPEAEVLLNQML  552 (574)
Q Consensus       524 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  552 (574)
                      ...+|..+..++.+.|++++|..++++.+
T Consensus       329 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  357 (368)
T 1fch_A          329 SENIWSTLRLALSMLGQSDAYGAADARDL  357 (368)
T ss_dssp             CHHHHHHHHHHHHHHTCGGGHHHHHTTCH
T ss_pred             hhHHHHHHHHHHHHhCChHhHHHhHHHHH
Confidence            15788899999999999999998876543

>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=99.84  E-value=6.5e-19  Score=172.54  Aligned_cols=303  Identities=11%  Similarity=-0.027  Sum_probs=143.3

Q ss_pred             hcCChHHHHH-HHHHHHhCCCC-C--CHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhH
Q 043999          118 KSRLSDQALF-YFHQMLDSGVR-P--RSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNK  193 (574)
Q Consensus       118 ~~g~~~~A~~-~~~~~~~~g~~-p--~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  193 (574)
                      ..|++++|++ .|++.++.... |  +...+..+...+.+.|++++|...|+++....|.+..++..++..+.+.|++++
T Consensus        37 ~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~  116 (368)
T 1fch_A           37 WLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELL  116 (368)
T ss_dssp             ---------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHH
Confidence            3456666666 66554432110 1  233455566666666666666666666665555566666666666666666666


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          194 AFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQL  273 (574)
Q Consensus       194 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  273 (574)
                      |.+.|+++.+.. +.+..++..+...+...|++++|.+.++++.+..+. +...+..+...       ..       .  
T Consensus       117 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~-------~~-------~--  178 (368)
T 1fch_A          117 AISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEG-------AG-------G--  178 (368)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC------------------------
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHH-------hh-------h--
Confidence            666666666543 224556666666666666666666666666554322 11111110000       00       0  


Q ss_pred             CCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhh
Q 043999          274 NGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVAC-NVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVIT  352 (574)
Q Consensus       274 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~  352 (574)
                        ..+. ..+.. +..+...|++++|...|+++.+..+.. +..++..+...+.+.|++++|+..++++.+.. +.+..+
T Consensus       179 --~~~~-~~~~~-~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~  253 (368)
T 1fch_A          179 --AGLG-PSKRI-LGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLL  253 (368)
T ss_dssp             ----------CT-THHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             --hccc-HHHHH-HHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHH
Confidence              0000 00001 111224455555555555554432221 34445555555555555555555555554432 223445


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC----------CHhH
Q 043999          353 YNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITP----------SEVT  422 (574)
Q Consensus       353 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p----------~~~~  422 (574)
                      +..+...+.+.|++++|.+.++++.+.. +.+...+..+...+.+.|++++|...++++.+.....          ...+
T Consensus       254 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  332 (368)
T 1fch_A          254 WNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENI  332 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHH
Confidence            5555555555555555555555554432 1234455555555555555555555555554321110          1345


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHH
Q 043999          423 YTILIDSFVRSDDMEKAFEMYS  444 (574)
Q Consensus       423 ~~~li~~~~~~g~~~~A~~~~~  444 (574)
                      |..+..++...|+.++|..++.
T Consensus       333 ~~~l~~~~~~~g~~~~A~~~~~  354 (368)
T 1fch_A          333 WSTLRLALSMLGQSDAYGAADA  354 (368)
T ss_dssp             HHHHHHHHHHHTCGGGHHHHHT
T ss_pred             HHHHHHHHHHhCChHhHHHhHH
Confidence            5555555666666665555554

>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=99.83  E-value=1.7e-15  Score=161.68  Aligned_cols=462  Identities=12%  Similarity=0.087  Sum_probs=262.0

Q ss_pred             HHHHHHhhCC--CCCCHHHHHHHHHHHHhhhccCChHHHHHHHHHHHhcCCC--CCCCCHHHHHHHHHhhCCCCC---CC
Q 043999           30 SLFNWASRQG--LQHTPQSISIILRLLLSKMSSHSHAAAQTLILKIISGRIT--SSSFTPRSLLCHLTQLFPSSS---NP  102 (574)
Q Consensus        30 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~---~~  102 (574)
                      ++.+|.....  -..+|.-.+...+.+..   .+.+.++..++++++...-.  .+...-+.++....+.-.+..   ..
T Consensus       969 ~Lidqv~a~aL~e~~~PeeVs~~vKaf~~---aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIkaD~~Rv~eyI~ 1045 (1630)
T 1xi4_A          969 PLIDQVVQTALSETQDPEEVSVTVKAFMT---ADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKADRTRVMEYIN 1045 (1630)
T ss_pred             HHHHHHHHhhcccccCHHHhHHHHHHHHh---CCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHhChhhHHHHHH
Confidence            4566654322  24456666778888887   99999999999998733210  111111122222222100000   00


Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHH
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILI  182 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li  182 (574)
                      ..+......+...+...|.+++|..+|++...     .....+.++   ...|++++|.+++++..     +..+|..+.
T Consensus      1046 kLd~~d~~eIA~Iai~lglyEEAf~IYkKa~~-----~~~A~~VLi---e~i~nldrAiE~Aervn-----~p~vWsqLA 1112 (1630)
T 1xi4_A         1046 RLDNYDAPDIANIAISNELFEEAFAIFRKFDV-----NTSAVQVLI---EHIGNLDRAYEFAERCN-----EPAVWSQLA 1112 (1630)
T ss_pred             HhhhccHHHHHHHHHhCCCHHHHHHHHHHcCC-----HHHHHHHHH---HHHhhHHHHHHHHHhcC-----CHHHHHHHH
Confidence            01122234456666777777777777776421     122222232   25667777777776553     466677777


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHH
Q 043999          183 KGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQK  262 (574)
Q Consensus       183 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  262 (574)
                      +++.+.|++++|++.|.+.      -|...|..++..+.+.|++++|.+.+....+..  +++...+.++.+|++.++++
T Consensus      1113 KAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rle 1184 (1630)
T 1xi4_A         1113 KAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLA 1184 (1630)
T ss_pred             HHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHH
Confidence            7777777777777777543      256666777777777777777777777665543  23223334677777777766


Q ss_pred             HHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          263 DGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMK  342 (574)
Q Consensus       263 ~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~  342 (574)
                      +...+.    +   .++...|..+...|...|++++|...|...         ..|..+...+++.|++++|.+.+++..
T Consensus      1185 ele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~ 1248 (1630)
T 1xi4_A         1185 ELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN 1248 (1630)
T ss_pred             HHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhC
Confidence            433332    1   345556666777777777777777777764         367777777777777777777776652


Q ss_pred             HCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhH
Q 043999          343 MAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVT  422 (574)
Q Consensus       343 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  422 (574)
                            +..+|..+..+|...|++..|......+.     .+...+..++..|.+.|.+++|+.+++...... +-....
T Consensus      1249 ------n~~aWkev~~acve~~Ef~LA~~cgl~Ii-----v~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gm 1316 (1630)
T 1xi4_A         1249 ------STRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGM 1316 (1630)
T ss_pred             ------CHHHHHHHHHHHhhhhHHHHHHHHHHhhh-----cCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHH
Confidence                  55677777777777777777766554322     245556677777777777777777776665442 223334


Q ss_pred             HHHHHHHHHh--cCCHHHHHHHHHHHHHCCCCC------CHHHHHHHHHHHHhcCCHHHHHHHH-------------HHH
Q 043999          423 YTILIDSFVR--SDDMEKAFEMYSLMQKSGFSP------DVYTYGVLIHGLCMKGNMKEASKLF-------------NSM  481 (574)
Q Consensus       423 ~~~li~~~~~--~g~~~~A~~~~~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~-------------~~~  481 (574)
                      |+-+...+++  -+++.++.+.|..-.  +++|      +...|..++..|.+.|+++.|....             .+.
T Consensus      1317 ftELaiLyaKy~peklmEhlk~f~~ri--ni~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~ 1394 (1630)
T 1xi4_A         1317 FTELAILYSKFKPQKMREHLELFWSRV--NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDI 1394 (1630)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHhc--ccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHH
Confidence            5444444443  334445555544322  2222      3455677777777777777776221             111


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043999          482 WETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       482 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      +.  ...|...|...+.-|..  ...+++.-+...+...+.     +...+..+.+.|++.-+..+++.....
T Consensus      1395 i~--kv~n~elyykai~Fyl~--~~P~~lndLl~~l~~rlD-----~~R~V~l~~~~~~l~lik~yl~~vq~~ 1458 (1630)
T 1xi4_A         1395 IT--KVANVELYYRAIQFYLE--FKPLLLNDLLMVLSPRLD-----HTRAVNYFSKVKQLPLVKPYLRSVQNH 1458 (1630)
T ss_pred             hc--ccccHHHHHHHHHHHHh--hChHHHHHHHHHhhhcCC-----hHHHHHHHHHcCChHHhHHHHHHHHHh
Confidence            11  12355566666666552  223333333333321111     234566667777777777777766543

>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=99.83  E-value=4.3e-16  Score=166.21  Aligned_cols=381  Identities=15%  Similarity=0.167  Sum_probs=289.7

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSG--VRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIK  183 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g--~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  183 (574)
                      +.--...+++|...|.+.+|++++++..-.+  +.-+....+.++.+..+. +..+..+..++....      ...-+..
T Consensus       985 PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~------d~~eIA~ 1057 (1630)
T 1xi4_A          985 PEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY------DAPDIAN 1057 (1630)
T ss_pred             HHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc------cHHHHHH
Confidence            3334667889999999999999999988432  113445666666666555 445555555554421      1344778


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHH
Q 043999          184 GCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKD  263 (574)
Q Consensus       184 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  263 (574)
                      .+...|.+++|..+|++...     .....+.++.   ..+++++|.++.++..      +..+|..+..++.+.|++++
T Consensus      1058 Iai~lglyEEAf~IYkKa~~-----~~~A~~VLie---~i~nldrAiE~Aervn------~p~vWsqLAKAql~~G~~kE 1123 (1630)
T 1xi4_A         1058 IAISNELFEEAFAIFRKFDV-----NTSAVQVLIE---HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKE 1123 (1630)
T ss_pred             HHHhCCCHHHHHHHHHHcCC-----HHHHHHHHHH---HHhhHHHHHHHHHhcC------CHHHHHHHHHHHHhCCCHHH
Confidence            88899999999999998531     2233344433   7788999999998762      57789999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          264 GFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKM  343 (574)
Q Consensus       264 a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  343 (574)
                      |++.|.+.      -|...|..++..+.+.|++++|.+.+...++...  ++...+.++.+|++.+++++...+    ++
T Consensus      1124 AIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~--e~~Idt~LafaYAKl~rleele~f----I~ 1191 (1630)
T 1xi4_A         1124 AIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFALAKTNRLAELEEF----IN 1191 (1630)
T ss_pred             HHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcc--cccccHHHHHHHHhhcCHHHHHHH----Hh
Confidence            99999764      3778888999999999999999999998877653  333344588999999998864433    22


Q ss_pred             CCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHH
Q 043999          344 AGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTY  423 (574)
Q Consensus       344 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~  423 (574)
                         .++...|..+.+.|...|++++|..+|...         ..|..+...+++.|++++|.+.+++.      .+..+|
T Consensus      1192 ---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aW 1253 (1630)
T 1xi4_A         1192 ---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTW 1253 (1630)
T ss_pred             ---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHH
Confidence               356677778999999999999999999885         37899999999999999999999877      266889


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 043999          424 TILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKE  503 (574)
Q Consensus       424 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~  503 (574)
                      ..+..+|...|++..|......+     ..++..+..++..|.+.|.+++|+.+++..+... .-....|+-+...|++.
T Consensus      1254 kev~~acve~~Ef~LA~~cgl~I-----iv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy 1327 (1630)
T 1xi4_A         1254 KEVCFACVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF 1327 (1630)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHhh-----hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhC
Confidence            99999999999999998876542     3456677799999999999999999999887654 22455677777777664


Q ss_pred             --CCHHHHHHHHHHHHHCCCCC------CHHHHHHHHHHHHhcCCHHHHH
Q 043999          504 --GNSYRALRLLGEMNEKGLVP------NIASYSSTIGVLCQDGKWPEAE  545 (574)
Q Consensus       504 --g~~~~A~~~~~~m~~~g~~p------~~~~~~~l~~~~~~~g~~~~A~  545 (574)
                        ++..++.++|..-..  ++|      +...|..++..|.+.|+++.|.
T Consensus      1328 ~peklmEhlk~f~~rin--i~k~~r~~e~~~lW~elv~LY~~~~e~dnA~ 1375 (1630)
T 1xi4_A         1328 KPQKMREHLELFWSRVN--IPKVLRAAEQAHLWAELVFLYDKYEEYDNAI 1375 (1630)
T ss_pred             CHHHHHHHHHHHHHhcc--cchHhHHHHHHHHHHHHHHHHHhcccHHHHH
Confidence              456666666664433  333      4577999999999999999998

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.82  E-value=1.3e-18  Score=170.16  Aligned_cols=235  Identities=9%  Similarity=-0.032  Sum_probs=160.0

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHH
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIK  183 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  183 (574)
                      .+...|..+...+.+.|++++|+..|+++++.. +.+..++..+..++.+.|++++|+..|+++....|.+..++..++.
T Consensus        63 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~  141 (365)
T 4eqf_A           63 KDWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAV  141 (365)
T ss_dssp             TTCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence            445668899999999999999999999998864 4468888889999999999999999999888777778888999999


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCH-----------HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CChhhHHHH
Q 043999          184 GCCEAGDLNKAFEVLNQLEEMGFSPNV-----------VIYTSLIDGCCKNGDIERAKMLFRKIGELGLV-ATQHTYTVL  251 (574)
Q Consensus       184 ~~~~~g~~~~A~~~~~~m~~~g~~p~~-----------~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~l  251 (574)
                      .|...|++++|.+.++++.+..  |+.           ..+..+...+.+.|++++|.+.++++.+..+. ++..++..+
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l  219 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGL  219 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHH
Confidence            9999999999999998888742  221           12223456666677777777777776665432 145566666


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 043999          252 ICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRV  331 (574)
Q Consensus       252 i~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  331 (574)
                      ...+.+.|++++|++.|+++.+.. +.+..+|..+...|.+.|++++|...|+++.+..+. +..+|..+...|.+.|++
T Consensus       220 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~  297 (365)
T 4eqf_A          220 GVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPG-FIRSRYNLGISCINLGAY  297 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHCCCH
Confidence            666666666666666666666542 224556666666666666666666666666554333 455566666666666666


Q ss_pred             HHHHHHHHHHHH
Q 043999          332 QEAERLLDQMKM  343 (574)
Q Consensus       332 ~~A~~~~~~m~~  343 (574)
                      ++|...|+++.+
T Consensus       298 ~~A~~~~~~al~  309 (365)
T 4eqf_A          298 REAVSNFLTALS  309 (365)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            666666666554

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.82  E-value=6.9e-19  Score=172.26  Aligned_cols=265  Identities=10%  Similarity=-0.052  Sum_probs=184.6

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 043999          280 LYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDG  359 (574)
Q Consensus       280 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~  359 (574)
                      ...+..+...+.+.|++++|.+.|+++.+..+. +..+|..+...+.+.|++++|+..|+++.+.. +.+..++..+...
T Consensus        65 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  142 (365)
T 4eqf_A           65 WPGAFEEGLKRLKEGDLPVTILFMEAAILQDPG-DAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVS  142 (365)
T ss_dssp             CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            334566666666666666666666666655433 55666666666666666666666666666553 3345666666666


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCC---------CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-CCHhHHHHHHHH
Q 043999          360 FCDAGETDKAFRLFNQLKSNGQS---------PSVVTYNVLIRAFSKAGNSKMASDLVREMEERGIT-PSEVTYTILIDS  429 (574)
Q Consensus       360 ~~~~g~~~~A~~~~~~~~~~g~~---------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~~~~~~~li~~  429 (574)
                      |...|++++|.+.++++.+....         .....+..+...+.+.|++++|...++++.+.... ++..++..+...
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            66677777777766666553110         01223344567788888888898888888876322 157788888888


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 043999          430 FVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRA  509 (574)
Q Consensus       430 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  509 (574)
                      +...|++++|...++++.+.. +.+..+|..+...|.+.|++++|++.|+++++..+. +..++..+..+|...|++++|
T Consensus       223 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          223 FHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPG-FIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHCCCHHHH
Confidence            889999999999998888764 556788899999999999999999999998876432 578888999999999999999


Q ss_pred             HHHHHHHHHCCCCC-------------CHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          510 LRLLGEMNEKGLVP-------------NIASYSSTIGVLCQDGKWPEAEVLLNQ  550 (574)
Q Consensus       510 ~~~~~~m~~~g~~p-------------~~~~~~~l~~~~~~~g~~~~A~~~~~~  550 (574)
                      ...++++.+.  .|             +...|..+..++...|+.+.+....++
T Consensus       301 ~~~~~~al~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          301 VSNFLTALSL--QRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHH--HHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHh--CcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            9999998764  22             257788899999999999888877654

>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=1.9e-18  Score=165.78  Aligned_cols=281  Identities=10%  Similarity=0.087  Sum_probs=104.8

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 043999          118 KSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEV  197 (574)
Q Consensus       118 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  197 (574)
                      +.|++++|.++++++.      ++.+|..++.++.+.|++++|++.|.+.     +|..+|..++..+...|++++|++.
T Consensus        15 ~~~~ld~A~~fae~~~------~~~vWs~La~A~l~~g~~~eAIdsfika-----~D~~~y~~V~~~ae~~g~~EeAi~y   83 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA-----DDPSSYMEVVQAANTSGNWEELVKY   83 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC------ChHHHHHHHHHHHHcCCHHHHHHHHHcC-----CCHHHHHHHHHHHHhCCCHHHHHHH
Confidence            4566777777777762      2236777777777777777777777543     3566777777777777777777776


Q ss_pred             HHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 043999          198 LNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVS  277 (574)
Q Consensus       198 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~  277 (574)
                      ++...+.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..+...|...|++++|..+|..+      
T Consensus        84 l~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a------  148 (449)
T 1b89_A           84 LQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV------  148 (449)
T ss_dssp             ---------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT------
T ss_pred             HHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh------
Confidence            6655553  3455667777777777777777776663       245567777777777777777777777755      


Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 043999          278 PSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLI  357 (574)
Q Consensus       278 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li  357 (574)
                         ..|..++.++.+.|++++|.+.+.++  .    ++.+|..++.+|...|+++.|......+.     ..+.-...++
T Consensus       149 ---~n~~~LA~~L~~Lg~yq~AVea~~KA--~----~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-----~~ad~l~~lv  214 (449)
T 1b89_A          149 ---SNFGRLASTLVHLGEYQAAVDGARKA--N----STRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELI  214 (449)
T ss_dssp             ---TCHHHHHHHHHTTTCHHHHHHHHHHH--T----CHHHHHHHHHHHHHTTCHHHHHHTTTTTT-----TCHHHHHHHH
T ss_pred             ---hhHHHHHHHHHHhccHHHHHHHHHHc--C----CchhHHHHHHHHHHcCcHHHHHHHHHHHH-----hCHhhHHHHH
Confidence               35777777777777777777777776  1    66777777777777777777755444322     2222244567


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc--CChHHHHHHHHHHHHCCCCC------CHhHHHHHHHH
Q 043999          358 DGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKA--GNSKMASDLVREMEERGITP------SEVTYTILIDS  429 (574)
Q Consensus       358 ~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~--g~~~~A~~~~~~m~~~~~~p------~~~~~~~li~~  429 (574)
                      ..|.+.|.+++|..+++...... +.....|+.+.-.|++-  ++..+.+++|..  +.+++|      +...|..++-.
T Consensus       215 ~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~--~ini~k~~~~~~~~~~w~e~~~l  291 (449)
T 1b89_A          215 NYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWS--RVNIPKVLRAAEQAHLWAELVFL  291 (449)
T ss_dssp             HHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHST--TSCHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHHHHHHH
Confidence            77777777777777777776543 34556666666666554  233333333321  111121      34556677777


Q ss_pred             HHhcCCHHHHHH
Q 043999          430 FVRSDDMEKAFE  441 (574)
Q Consensus       430 ~~~~g~~~~A~~  441 (574)
                      |.+.++++.|..
T Consensus       292 y~~~~e~d~A~~  303 (449)
T 1b89_A          292 YDKYEEYDNAII  303 (449)
T ss_dssp             HHHTTCHHHHHH
T ss_pred             HHhhchHHHHHH
Confidence            777777776665

>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=99.81  E-value=1.1e-17  Score=160.73  Aligned_cols=280  Identities=9%  Similarity=-0.045  Sum_probs=164.5

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHH
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIK  183 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  183 (574)
                      .+...|..+...+.+.|++++|+.+|+++++.. +.+..++..+...+...|++++|.+.|+++....+.+..++..++.
T Consensus        19 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~   97 (327)
T 3cv0_A           19 MYHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAV   97 (327)
T ss_dssp             GGSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHH
Confidence            345668888999999999999999999998864 3467788888888889999999999999888777778888888888


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHH-HH-HHHhcCCH
Q 043999          184 GCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVL-IC-GLFKNGLQ  261 (574)
Q Consensus       184 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l-i~-~~~~~g~~  261 (574)
                      .+...|++++|.+.++++.+.... +...+..+....                      |+......+ .. .+...|++
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~  154 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQAD----------------------VDIDDLNVQSEDFFFAAPNEY  154 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTT-TTTC------------------------------------------CCTTSHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHH----------------------HHHHHHHHHHHhHHHHHcccH
Confidence            888899999999998888875321 222332220000                      000000111 11 13344444


Q ss_pred             HHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          262 KDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQM  341 (574)
Q Consensus       262 ~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m  341 (574)
                      ++|.+.++++.+.. +.+..++..+...+.+.|++++|.+.++++.+..+. +..++..+...+...|++++|...++++
T Consensus       155 ~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a  232 (327)
T 3cv0_A          155 RECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRPD-DAQLWNKLGATLANGNRPQEALDAYNRA  232 (327)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            45555554444432 123444455555555555555555555555444322 4445555555555555555555555555


Q ss_pred             HHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-----------CHHHHHHHHHHHHhcCChHHHHHHHHH
Q 043999          342 KMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSP-----------SVVTYNVLIRAFSKAGNSKMASDLVRE  410 (574)
Q Consensus       342 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~-----------~~~~~~~li~~~~~~g~~~~A~~~~~~  410 (574)
                      .+.. +.+...+..+...+.+.|++++|.+.++++.+.....           +...|..+...+.+.|++++|..++++
T Consensus       233 ~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  311 (327)
T 3cv0_A          233 LDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQ  311 (327)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTC
T ss_pred             HHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            5442 2334455555555555556665555555554432111           244555566666666666666665543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.81  E-value=1.4e-16  Score=161.67  Aligned_cols=383  Identities=9%  Similarity=-0.058  Sum_probs=236.6

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhC--------CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccC------
Q 043999          105 KSRLYESIIDAHLKSRLSDQALFYFHQMLDS--------GVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCK------  170 (574)
Q Consensus       105 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--------g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~------  170 (574)
                      ...+||.|...|...|++++|++.|++.++.        ..+....+|+.+..+|...|++++|...++++...      
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            4578999999999999999999999987642        11224678888999999999999999888876431      


Q ss_pred             --CCCCHHHHHHHHHHHHhc--CChhHHHHHHHHHHHCCCCCCHHhHHHHHHH---HHhcCCHHHHHHHHHHHHhCCCCC
Q 043999          171 --VELDVYSFGILIKGCCEA--GDLNKAFEVLNQLEEMGFSPNVVIYTSLIDG---CCKNGDIERAKMLFRKIGELGLVA  243 (574)
Q Consensus       171 --~~~~~~~~~~li~~~~~~--g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~---~~~~g~~~~A~~~~~~~~~~~~~~  243 (574)
                        ......++..+..++.+.  +++++|++.|++..+... -+...+..+..+   +...++.++|++.+++..+.++. 
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p-~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~-  207 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKP-KNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD-  207 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS-
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc-
Confidence              123456677666666554  468999999999887532 234455555444   34567788899888888776543 


Q ss_pred             ChhhHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 043999          244 TQHTYTVLICGLFK----NGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYN  319 (574)
Q Consensus       244 ~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~  319 (574)
                      +..++..+...+..    .|+.++|.+.+++..... +.+..++..+...|.+.|++++|...+++..+..+. +..++.
T Consensus       208 ~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~  285 (472)
T 4g1t_A          208 NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN-NAYLHC  285 (472)
T ss_dssp             CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHH
T ss_pred             chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-hHHHHH
Confidence            55566655555444    466788888888887653 346677888888899999999999999988877554 566676


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 043999          320 TLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAG  399 (574)
Q Consensus       320 ~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g  399 (574)
                      .+...|...+...         ....       ...........+..+.|...+++..+... .+..++..+...+...|
T Consensus       286 ~lg~~y~~~~~~~---------~~~~-------~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~lg~~~~~~~  348 (472)
T 4g1t_A          286 QIGCCYRAKVFQV---------MNLR-------ENGMYGKRKLLELIGHAVAHLKKADEAND-NLFRVCSILASLHALAD  348 (472)
T ss_dssp             HHHHHHHHHHHHH---------HHC-------------CHHHHHHHHHHHHHHHHHHHHHCT-TTCCCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh---------hhHH-------HHHHHHHHHHHhhHHHHHHHHHHHhhcCC-chhhhhhhHHHHHHHhc
Confidence            6666553221110         0000       00000011112335667777777766532 24456667777777888


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHh--HHHHHHH-HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 043999          400 NSKMASDLVREMEERGITPSEV--TYTILID-SFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASK  476 (574)
Q Consensus       400 ~~~~A~~~~~~m~~~~~~p~~~--~~~~li~-~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  476 (574)
                      ++++|...|++..+....+...  .+..+.. .....|+.++|+..|.+..+.  .|+.....         +..+.+.+
T Consensus       349 ~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i--~~~~~~~~---------~~~~~l~~  417 (472)
T 4g1t_A          349 QYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI--NQKSREKE---------KMKDKLQK  417 (472)
T ss_dssp             CHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS--CCCCHHHH---------HHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHHH---------HHHHHHHH
Confidence            8888888887777654332221  1222222 234677888888888887765  34432221         12334455


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          477 LFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKG  520 (574)
Q Consensus       477 ~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  520 (574)
                      +++..+...+ .+..+|..+...|...|++++|++.|++.++.|
T Consensus       418 ~~~~~l~~~p-~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~  460 (472)
T 4g1t_A          418 IAKMRLSKNG-ADSEALHVLAFLQELNEKMQQADEDSERGLESG  460 (472)
T ss_dssp             HHHHHHHHCC--CTTHHHHHHHHHHHHHHCC-------------
T ss_pred             HHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            5666555432 266788888888888888888888888888753

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.80  E-value=2.6e-16  Score=159.64  Aligned_cols=391  Identities=12%  Similarity=-0.031  Sum_probs=236.0

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHcccC---------CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHC-----C
Q 043999          140 RSNTFNSLLIFVIKSCSFDKGWLFFSENRCK---------VELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEM-----G  205 (574)
Q Consensus       140 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~---------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g  205 (574)
                      ....||.+...+...|++++|++.|++....         .+....+|+.+...|...|++++|...+++..+.     +
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            3556888888888888888888888875431         2345677888888888888888888888876542     1


Q ss_pred             -CCC-CHHhHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCCCChhhHHHHHHH---HHhcCCHHHHHHHHHHHHHCCCCC
Q 043999          206 -FSP-NVVIYTSLIDGCCKN--GDIERAKMLFRKIGELGLVATQHTYTVLICG---LFKNGLQKDGFEFYEKMQLNGVSP  278 (574)
Q Consensus       206 -~~p-~~~~~~~li~~~~~~--g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~---~~~~g~~~~a~~~~~~~~~~g~~p  278 (574)
                       ..+ ...++..+..++.+.  +++++|++.|++..+..+. ++..+..+...   +...++.++|++.+++..+.. +.
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~  207 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PD  207 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SS
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Cc
Confidence             111 234555555555543  4678888888887776533 44455554444   334566777888887777653 22


Q ss_pred             CHhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHH
Q 043999          279 SLYTYNCLIHEYCN----EGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYN  354 (574)
Q Consensus       279 ~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~  354 (574)
                      +..++..+...+..    .|++++|.+.+++.....+. +..++..+...|.+.|++++|+..+++..+.. +.+..++.
T Consensus       208 ~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~  285 (472)
T 4g1t_A          208 NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHC  285 (472)
T ss_dssp             CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHH
T ss_pred             chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHH
Confidence            44555555544443    35667788888777766544 66777777888888888888888888877653 33455566


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcC
Q 043999          355 KLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSD  434 (574)
Q Consensus       355 ~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  434 (574)
                      .+...|...+....         ...       ...........+..++|...+++..+.. +.+..++..+...+...|
T Consensus       286 ~lg~~y~~~~~~~~---------~~~-------~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~  348 (472)
T 4g1t_A          286 QIGCCYRAKVFQVM---------NLR-------ENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALAD  348 (472)
T ss_dssp             HHHHHHHHHHHHHH---------HC-------------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhh---------hHH-------HHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhc
Confidence            66555532211111         000       0000011112234678888888887764 335667888999999999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHH--HHHHHHH-HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 043999          435 DMEKAFEMYSLMQKSGFSPDVY--TYGVLIH-GLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALR  511 (574)
Q Consensus       435 ~~~~A~~~~~~~~~~~~~~~~~--~~~~li~-~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  511 (574)
                      ++++|...|++..+....+...  .+..+.. .+...|+.++|+..|++.++.  .|+.....         +....+.+
T Consensus       349 ~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i--~~~~~~~~---------~~~~~l~~  417 (472)
T 4g1t_A          349 QYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI--NQKSREKE---------KMKDKLQK  417 (472)
T ss_dssp             CHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS--CCCCHHHH---------HHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHHH---------HHHHHHHH
Confidence            9999999999998865333221  2223322 345789999999999999885  44433222         22344556


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCCHHHH
Q 043999          512 LLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLG-LKPSVSLY  563 (574)
Q Consensus       512 ~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~  563 (574)
                      ++++..+.+ +.+..+|..+..++...|++++|.+.|++.++.| ..|+..+|
T Consensus       418 ~~~~~l~~~-p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          418 IAKMRLSKN-GADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSW  469 (472)
T ss_dssp             HHHHHHHHC-C-CTTHHHHHHHHHHHHHHCC----------------------
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhc
Confidence            666666642 4467899999999999999999999999999764 34555444

>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=99.80  E-value=1.6e-18  Score=166.26  Aligned_cols=354  Identities=13%  Similarity=0.074  Sum_probs=164.1

Q ss_pred             HhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHH
Q 043999          152 IKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKM  231 (574)
Q Consensus       152 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  231 (574)
                      -+.|++++|.++++++.     +..+|..++.++.+.|++++|++.|.+.      +|..+|..++..+...|++++|+.
T Consensus        14 ~~~~~ld~A~~fae~~~-----~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCN-----EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCC-----ChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            36788999999999984     3359999999999999999999999653      577799999999999999999999


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 043999          232 LFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREV  311 (574)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  311 (574)
                      .++...+.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|+.+...|...|++++|...|..+     
T Consensus        83 yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----  148 (449)
T 1b89_A           83 YLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----  148 (449)
T ss_dssp             ----------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-----
T ss_pred             HHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----
Confidence            77776653  3467889999999999999999998885       477789999999999999999999999976     


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 043999          312 ACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVL  391 (574)
Q Consensus       312 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l  391 (574)
                          ..|..++.++.+.|++++|.+.++.+      .++.+|..++.+|...|+++.|......+.     ..+.-...+
T Consensus       149 ----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-----~~ad~l~~l  213 (449)
T 1b89_A          149 ----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEEL  213 (449)
T ss_dssp             ----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-----TCHHHHHHH
T ss_pred             ----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-----hCHhhHHHH
Confidence                47999999999999999999999988      278999999999999999999966555432     244445578


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhc--CCHHHHHHHHHHHHHCCCCC------CHHHHHHHHH
Q 043999          392 IRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRS--DDMEKAFEMYSLMQKSGFSP------DVYTYGVLIH  463 (574)
Q Consensus       392 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~--g~~~~A~~~~~~~~~~~~~~------~~~~~~~li~  463 (574)
                      +..|.+.|++++|..+++...... +-....|+-+.-.|++-  +++.+.++.|..  +.+++|      +...|..+..
T Consensus       214 v~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~--~ini~k~~~~~~~~~~w~e~~~  290 (449)
T 1b89_A          214 INYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWS--RVNIPKVLRAAEQAHLWAELVF  290 (449)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHST--TSCHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHHHHHH
Confidence            899999999999999999988654 34566777777667654  344455554432  223333      4567899999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCC-----------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 043999          464 GLCMKGNMKEASKLFNSMWETK-----------LEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTI  532 (574)
Q Consensus       464 ~~~~~g~~~~A~~~~~~~~~~~-----------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  532 (574)
                      .|.+.++++.|....-+-....           -..+...|-..+.-|... .+ .++.-+-..+...+  |   .+..+
T Consensus       291 ly~~~~e~d~A~~tm~~h~~~a~~~~~f~~~~~kv~n~elyYkai~fyl~~-~p-~~l~~ll~~l~~~l--d---~~r~v  363 (449)
T 1b89_A          291 LYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYLEF-KP-LLLNDLLMVLSPRL--D---HTRAV  363 (449)
T ss_dssp             HHHHTTCHHHHHHHHHHSTTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH-CG-GGHHHHHHHHGGGC--C---HHHHH
T ss_pred             HHHhhchHHHHHHHHHhCChhhhhhHHHHHHHhchhHHHHHHHHHHHHHhc-CH-HHHHHHHHHHHhcc--C---cHHHH
Confidence            9999999999876433221100           012455555555555521 11 12222222221101  1   23455


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcC
Q 043999          533 GVLCQDGKWPEAEVLLNQMLKLG  555 (574)
Q Consensus       533 ~~~~~~g~~~~A~~~~~~m~~~g  555 (574)
                      ..+.+.|.+.-+..+++.....+
T Consensus       364 ~~~~~~~~l~l~~~yl~~v~~~n  386 (449)
T 1b89_A          364 NYFSKVKQLPLVKPYLRSVQNHN  386 (449)
T ss_dssp             HHHHHTTCTTTTHHHHHHHHTTC
T ss_pred             HHHHHcCCcHHHHHHHHHHHHhh
Confidence            55666676666666666665443

>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=99.80  E-value=1.5e-17  Score=159.79  Aligned_cols=278  Identities=10%  Similarity=-0.011  Sum_probs=197.4

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHh
Q 043999          143 TFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCK  222 (574)
Q Consensus       143 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  222 (574)
                      .+..+...+...|++++|...|+++....+.+..++..++..+...|++++|.+.++++.+.. +.+..++..+...+..
T Consensus        23 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~  101 (327)
T 3cv0_A           23 NPMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN  101 (327)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHH
Confidence            344555566666666777666666665555566666666666666666666666666666542 2245566666666666


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHH-HH-HHHhcCCHHHHH
Q 043999          223 NGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCL-IH-EYCNEGKVSEGF  300 (574)
Q Consensus       223 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~l-i~-~~~~~g~~~~A~  300 (574)
                      .|++++|.+.++++.+..+. +...+..+...                      .|+......+ .. .+...|++++|.
T Consensus       102 ~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~~~A~  158 (327)
T 3cv0_A          102 EHNANAALASLRAWLLSQPQ-YEQLGSVNLQA----------------------DVDIDDLNVQSEDFFFAAPNEYRECR  158 (327)
T ss_dssp             TTCHHHHHHHHHHHHHTSTT-TTTC------------------------------------------CCTTSHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHH----------------------HHHHHHHHHHHHhHHHHHcccHHHHH
Confidence            66666666666666554322 12222211100                      0111111122 22 377889999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          301 KLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNG  380 (574)
Q Consensus       301 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g  380 (574)
                      +.++++.+..+. +...+..+...+.+.|++++|...++++.+.. +.+..++..+...+...|++++|.+.++++.+..
T Consensus       159 ~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~  236 (327)
T 3cv0_A          159 TLLHAALEMNPN-DAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN  236 (327)
T ss_dssp             HHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            999999887655 78899999999999999999999999998874 4567889999999999999999999999998864


Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-----------CHhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          381 QSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITP-----------SEVTYTILIDSFVRSDDMEKAFEMYSLMQ  447 (574)
Q Consensus       381 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-----------~~~~~~~li~~~~~~g~~~~A~~~~~~~~  447 (574)
                       +.+...+..+...+.+.|++++|...++++.+.....           +...+..+..++.+.|+.++|..+++...
T Consensus       237 -~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          237 -PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             -CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence             3468889999999999999999999999998753221           46788999999999999999999987543

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.79  E-value=6e-17  Score=152.26  Aligned_cols=256  Identities=12%  Similarity=0.107  Sum_probs=171.8

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCH--hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 043999          253 CGLFKNGLQKDGFEFYEKMQLNGVSPSL--YTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMR  330 (574)
Q Consensus       253 ~~~~~~g~~~~a~~~~~~~~~~g~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  330 (574)
                      +-....|++.+|+..+++....  .|+.  .....+.++|...|++++|+..++.    ..+|+..++..+...+...++
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~   80 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSR   80 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTT
T ss_pred             HHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCc
Confidence            3344567777777766654432  2332  2444556777777777777765543    234456667777777777777


Q ss_pred             HHHHHHHHHHHHHCCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 043999          331 VQEAERLLDQMKMAGISP-NVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVR  409 (574)
Q Consensus       331 ~~~A~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  409 (574)
                      .++|++.++++...+..| +...+..+...+...|++++|++.+++      +.+...+..++..+.+.|++++|...++
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            777777777777665433 444555566777777777777777766      3466777777777888888888888888


Q ss_pred             HHHHCCCCCCHhHH---HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 043999          410 EMEERGITPSEVTY---TILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKL  486 (574)
Q Consensus       410 ~m~~~~~~p~~~~~---~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~  486 (574)
                      ++.+..  |+....   ...+..+...|++++|..+|+++.+.. +.+...++.+..++.+.|++++|++.++++++..+
T Consensus       155 ~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p  231 (291)
T 3mkr_A          155 KMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDS  231 (291)
T ss_dssp             HHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            877653  443211   122233445578888888888887763 66777888888888888888888888888877643


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHCCCCCCHH
Q 043999          487 EPNDVVYNMMIFGYCKEGNSYR-ALRLLGEMNEKGLVPNIA  526 (574)
Q Consensus       487 ~p~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~~g~~p~~~  526 (574)
                      . +..++..++..+...|+.++ +.++++++.+.  .|+..
T Consensus       232 ~-~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~--~P~~~  269 (291)
T 3mkr_A          232 G-HPETLINLVVLSQHLGKPPEVTNRYLSQLKDA--HRSHP  269 (291)
T ss_dssp             T-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCH
T ss_pred             C-CHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh--CCCCh
Confidence            3 67778888888888888765 56788888773  45543

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.79  E-value=6.3e-17  Score=152.10  Aligned_cols=251  Identities=12%  Similarity=0.020  Sum_probs=167.4

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCCh
Q 043999          114 DAHLKSRLSDQALFYFHQMLDSGVRPRS--NTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDL  191 (574)
Q Consensus       114 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~--~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  191 (574)
                      +-....|++..|+..+++....  .|+.  .....+..+|...|++++|+..++.   ..+|+..++..++..+...|+.
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~~~~~~~a~~~la~~~~~~~~~   81 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP---SSAPELQAVRMFAEYLASHSRR   81 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---TSCHHHHHHHHHHHHHHCSTTH
T ss_pred             HHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---cCChhHHHHHHHHHHHcCCCcH
Confidence            4445678888888877766443  2332  3445566778888888888775544   2456777777788888888888


Q ss_pred             hHHHHHHHHHHHCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          192 NKAFEVLNQLEEMGFSP-NVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEK  270 (574)
Q Consensus       192 ~~A~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  270 (574)
                      ++|++.++++...+..| +...+..+...+.+.|++++|++.+++      +.+...+..++..+.+.|+.++|.+.+++
T Consensus        82 ~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~  155 (291)
T 3mkr_A           82 DAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKK  155 (291)
T ss_dssp             HHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            88888888877665434 445566666777888888888887776      24666777777777778888888888777


Q ss_pred             HHHCCCCCCHhhH---HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 043999          271 MQLNGVSPSLYTY---NCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGIS  347 (574)
Q Consensus       271 ~~~~g~~p~~~~~---~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~  347 (574)
                      +.+..  |+....   ..++..+...|++++|..+|+++.+..+ .+...++.+..++.+.|++++|...|+++.+.. +
T Consensus       156 ~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p-~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p  231 (291)
T 3mkr_A          156 MQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCS-PTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-S  231 (291)
T ss_dssp             HHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-C
Confidence            77653  443211   1223334445677777777777776633 366677777777777777777777777766653 3


Q ss_pred             CChhhHHHHHHHHHhcCCHHH-HHHHHHHHHHC
Q 043999          348 PNVITYNKLIDGFCDAGETDK-AFRLFNQLKSN  379 (574)
Q Consensus       348 ~~~~~~~~li~~~~~~g~~~~-A~~~~~~~~~~  379 (574)
                      -+..++..++..+...|+.++ +.++++++.+.
T Consensus       232 ~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          232 GHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            456666677777777776654 45666666654

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.78  E-value=3.9e-19  Score=183.75  Aligned_cols=164  Identities=14%  Similarity=0.132  Sum_probs=129.6

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHH---CCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhH
Q 043999          172 ELDVYSFGILIKGCCEAGDLNKAFEVLNQLEE---MGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTY  248 (574)
Q Consensus       172 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  248 (574)
                      ..-..|||++|++||+.|++++|.++|++|.+   .|+.||++|||+||++||+.|++++|.++|++|.+.|+.||..||
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            44567899999999999999999999988764   478999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCH-HHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC------HHHHHHH
Q 043999          249 TVLICGLFKNGLQ-KDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACN------VVTYNTL  321 (574)
Q Consensus       249 ~~li~~~~~~g~~-~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~------~~~~~~l  321 (574)
                      +++|.++|+.|+. ++|.++|++|.+.|+.||..+|++++.+..+.+-+    +..+++ ..+..|+      +.+...|
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL----~~Vrkv-~P~f~p~~~~~~~~~t~~LL  278 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVL----KAVHKV-KPTFSLPPQLPPPVNTSKLL  278 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHH----HHHGGG-CCCCCCCCCCCCCCCCCTTT
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHH----HHHHHh-CcccCCCCCCcccccchHHH
Confidence            9999999999984 78899999999999999999999998766554333    333333 2233333      4455666


Q ss_pred             HHHHHhcCC---------HHHHHHHHHH
Q 043999          322 ICGLCKEMR---------VQEAERLLDQ  340 (574)
Q Consensus       322 i~~~~~~~~---------~~~A~~~~~~  340 (574)
                      .+.|.+.+.         .++-..+|++
T Consensus       279 ~dl~s~d~~~s~pk~~~~~~~L~~~~~~  306 (1134)
T 3spa_A          279 RDVYAKDGRVSYPKLHLPLKTLQCLFEK  306 (1134)
T ss_dssp             HHHHCCCSCCCCCCCSSCHHHHHHHHHH
T ss_pred             HHHHccCCCCcCccccCCHHHHHHHHHH
Confidence            677776552         4555555554

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.77  E-value=9e-19  Score=181.06  Aligned_cols=137  Identities=12%  Similarity=0.128  Sum_probs=110.3

Q ss_pred             CCHhHHHHHHHHHHhcCCHHHHHHHHHHHHH---CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 043999          418 PSEVTYTILIDSFVRSDDMEKAFEMYSLMQK---SGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYN  494 (574)
Q Consensus       418 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~  494 (574)
                      .-..||+++|++||+.|++++|.++|+.|.+   .|+.||+.+||+||++||+.|++++|.++|++|.+.|+.||..|||
T Consensus       125 ~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYn  204 (1134)
T 3spa_A          125 GQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYA  204 (1134)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH
Confidence            3456899999999999999999999987754   4788999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCC-HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Q 043999          495 MMIFGYCKEGN-SYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPS  559 (574)
Q Consensus       495 ~li~~~~~~g~-~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~  559 (574)
                      ++|.++|+.|+ .++|.++|++|.+.|+.||..+|++++.++.+.    ..++.++++ ..++.|+
T Consensus       205 tLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~  265 (1134)
T 3spa_A          205 AALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLP  265 (1134)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCC
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCC
Confidence            99999999887 478889999999999999999998888766553    333444444 3345554

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.73  E-value=1.7e-15  Score=151.81  Aligned_cols=347  Identities=12%  Similarity=0.038  Sum_probs=212.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh---hHHHHHHHHcccCCCCCHHHHHHHHHHHHh
Q 043999          111 SIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSF---DKGWLFFSENRCKVELDVYSFGILIKGCCE  187 (574)
Q Consensus       111 ~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~~~~li~~~~~  187 (574)
                      .+...+.+.|++++|++.|++..+.|   +..++..|...+...|+.   ++|...|++....   ++.++..+...+..
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~---~~~A~~~Lg~~~~~   81 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT---SPRAQARLGRLLAA   81 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC-------------------------------CHHHHHHHHHT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC---CHHHHHHHHHHHHh
Confidence            46777889999999999999998876   334555566677778888   8999999888754   66677777775665


Q ss_pred             cC-----ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHH---HHHHHHHHHhCCCCCChhhHHHHHHHHHhcC
Q 043999          188 AG-----DLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIER---AKMLFRKIGELGLVATQHTYTVLICGLFKNG  259 (574)
Q Consensus       188 ~g-----~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~---A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  259 (574)
                      .|     ++++|.+.|++..+.|.   ...+..|...|...+..++   +.+.+.+....|   +...+..|...|...+
T Consensus        82 ~~~~~~~~~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~  155 (452)
T 3e4b_A           82 KPGATEAEHHEAESLLKKAFANGE---GNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQG  155 (452)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHTTC---SSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHT
T ss_pred             CCCCCCcCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCC
Confidence            55     77899999999888653   3367777777777665443   444555544444   4567777778888777


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----CCHH
Q 043999          260 LQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEG---KVSEGFKLFDEMRHREVACNVVTYNTLICGLCKE----MRVQ  332 (574)
Q Consensus       260 ~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~----~~~~  332 (574)
                      .++++.+....+.+.-...++..+..|...|.+.|   +.++|++.|++..+.|.. +...+..+...|...    ++++
T Consensus       156 ~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~  234 (452)
T 3e4b_A          156 TYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEK  234 (452)
T ss_dssp             CGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHH
T ss_pred             CcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHH
Confidence            55554444333322211223447777888888888   788888888888877654 555555666666544    6788


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHH-H--HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-----ChHHH
Q 043999          333 EAERLLDQMKMAGISPNVITYNKLIDG-F--CDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAG-----NSKMA  404 (574)
Q Consensus       333 ~A~~~~~~m~~~g~~~~~~~~~~li~~-~--~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g-----~~~~A  404 (574)
                      +|+..|+... .|   +...+..|... +  ...+++++|.+.|++..+.|   +...+..+...|. .|     ++++|
T Consensus       235 ~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A  306 (452)
T 3e4b_A          235 TAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAA  306 (452)
T ss_dssp             HHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHH
T ss_pred             HHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHH
Confidence            8888888877 33   55566666666 3  45778888888888887765   5666666666665 44     77788


Q ss_pred             HHHHHHHHHCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHH
Q 043999          405 SDLVREMEERGITPSEVTYTILIDSFVR----SDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCM----KGNMKEASK  476 (574)
Q Consensus       405 ~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~  476 (574)
                      ...|++.. .|   +......|...|..    ..++++|...|++..+.|.   ......|...|..    ..+.++|..
T Consensus       307 ~~~~~~Aa-~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~  379 (452)
T 3e4b_A          307 EAHFEKAV-GR---EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYV  379 (452)
T ss_dssp             HHHHHTTT-TT---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHH
T ss_pred             HHHHHHHh-CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHH
Confidence            87777766 32   45555566655554    3377777777777776552   2334444444443    346777777


Q ss_pred             HHHHHHhCC
Q 043999          477 LFNSMWETK  485 (574)
Q Consensus       477 ~~~~~~~~~  485 (574)
                      .|+...+.|
T Consensus       380 ~~~~A~~~g  388 (452)
T 3e4b_A          380 FSQLAKAQD  388 (452)
T ss_dssp             HHHHHHTTC
T ss_pred             HHHHHHHCC
Confidence            777776654

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.70  E-value=6.8e-15  Score=135.85  Aligned_cols=225  Identities=13%  Similarity=0.062  Sum_probs=145.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--CC----HHHHH
Q 043999          316 VTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQS--PS----VVTYN  389 (574)
Q Consensus       316 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~--~~----~~~~~  389 (574)
                      ..|..+...+...|++++|+..|+++.+..  .+...+..+...+...|++++|.+.++++.+....  ++    ...+.
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFA   83 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHH
Confidence            344555555555566666666665555544  45555555555666666666666666555443111  11    35566


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 043999          390 VLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKG  469 (574)
Q Consensus       390 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  469 (574)
                      .+...+...|++++|...+++..+..  |+.       ..+.+.|++++|...++.+.... +.+...+..+...+...|
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  153 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKS  153 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhc
Confidence            66666666666666666666666542  232       23555667777777777777653 334556777777777888


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 043999          470 NMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLN  549 (574)
Q Consensus       470 ~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  549 (574)
                      ++++|.+.++++.+.... +..+|..+...|...|++++|.+.++++.+.. +.+..+|..+..++.+.|++++|...++
T Consensus       154 ~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  231 (258)
T 3uq3_A          154 DWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLD  231 (258)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            888888888887765433 56777778888888888888888888887752 3346777777888888888888888888


Q ss_pred             HHHHc
Q 043999          550 QMLKL  554 (574)
Q Consensus       550 ~m~~~  554 (574)
                      ++++.
T Consensus       232 ~a~~~  236 (258)
T 3uq3_A          232 AARTK  236 (258)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            87754

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.70  E-value=2.2e-15  Score=151.04  Aligned_cols=374  Identities=11%  Similarity=0.009  Sum_probs=251.6

Q ss_pred             HHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCCh---hHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhc
Q 043999          147 LLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDL---NKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKN  223 (574)
Q Consensus       147 ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  223 (574)
                      +...+.+.|++++|.++|++....  .+..++..|...|...|+.   ++|.+.|++..+.    +...+..|...+...
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~--g~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~~   82 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAEL--GYSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAAK   82 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH--TCCTGGGTCC--------------------------------CHHHHHHHHHTC
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHC--CCHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHhC
Confidence            556677899999999999988654  3455666777778888888   8999999988853    556677777766665


Q ss_pred             C-----CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHH---HHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCC
Q 043999          224 G-----DIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQK---DGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGK  295 (574)
Q Consensus       224 g-----~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~---~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~  295 (574)
                      +     ++++|+..|++..+.|.   ...+..|...|...+..+   ++.+.+......|   +...+..+...|...+.
T Consensus        83 ~~~~~~~~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~  156 (452)
T 3e4b_A           83 PGATEAEHHEAESLLKKAFANGE---GNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGT  156 (452)
T ss_dssp             --CCHHHHHHHHHHHHHHHHTTC---SSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTC
T ss_pred             CCCCCcCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCC
Confidence            5     78899999999988763   347888888888766543   4555555555544   45567778888888775


Q ss_pred             HHHHHH----HHHHHHhCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc----C
Q 043999          296 VSEGFK----LFDEMRHREVACNVVTYNTLICGLCKEM---RVQEAERLLDQMKMAGISPNVITYNKLIDGFCDA----G  364 (574)
Q Consensus       296 ~~~A~~----~~~~m~~~~~~~~~~~~~~li~~~~~~~---~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~----g  364 (574)
                      ++++..    +++.....    ++..+..+...|.+.|   +.++|+..|+...+.| +++...+..|...|...    +
T Consensus       157 ~~~~~~~a~~~~~~a~~~----~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~  231 (452)
T 3e4b_A          157 YDQHLDDVERICKAALNT----TDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTP  231 (452)
T ss_dssp             GGGGHHHHHHHHHHHTTT----CTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSC
T ss_pred             cccCHHHHHHHHHHHHcC----CHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCC
Confidence            554444    44444333    5558888999999999   8999999999999887 55666556777777655    7


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-H--HhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcC-----CH
Q 043999          365 ETDKAFRLFNQLKSNGQSPSVVTYNVLIRA-F--SKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSD-----DM  436 (574)
Q Consensus       365 ~~~~A~~~~~~~~~~g~~~~~~~~~~li~~-~--~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-----~~  436 (574)
                      ++++|.++|++.. .   -+...+..+... +  ...+++++|...|++..+.|   +...+..+...|. .|     ++
T Consensus       232 d~~~A~~~~~~aa-~---g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~  303 (452)
T 3e4b_A          232 DEKTAQALLEKIA-P---GYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADA  303 (452)
T ss_dssp             CHHHHHHHHHHHG-G---GSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCH
T ss_pred             CHHHHHHHHHHHc-C---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCH
Confidence            9999999999987 3   355666667666 3  46899999999999999876   5667777777776 45     99


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHH
Q 043999          437 EKAFEMYSLMQKSGFSPDVYTYGVLIHGLCM----KGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCK----EGNSYR  508 (574)
Q Consensus       437 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~  508 (574)
                      ++|...|++.. .   .+...+..|...|..    ..+.++|.+.|++..+.|   +......|...|..    ..+.++
T Consensus       304 ~~A~~~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~  376 (452)
T 3e4b_A          304 KAAEAHFEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG---QNSADFAIAQLFSQGKGTKPDPLN  376 (452)
T ss_dssp             HHHHHHHHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT---CTTHHHHHHHHHHSCTTBCCCHHH
T ss_pred             HHHHHHHHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC---hHHHHHHHHHHHHhCCCCCCCHHH
Confidence            99999999887 3   456677777777766    448999999999998865   34456667776664    458999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          509 ALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       509 A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      |..+++...+.|. ++.......+......++.++|..+.++-.+
T Consensus       377 A~~~~~~A~~~g~-~~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          377 AYVFSQLAKAQDT-PEANDLATQLEAPLTPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             HHHHHHHHHTTCC-HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCC-HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            9999999999873 2332222222222233466777777766553

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.70  E-value=5.8e-15  Score=136.28  Aligned_cols=224  Identities=11%  Similarity=0.017  Sum_probs=154.9

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCC-------HHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELD-------VYSF  178 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~-------~~~~  178 (574)
                      ...|..+...+.+.|++++|+..|+++++..  .+..++..+..++...|++++|...++++....+.+       ..++
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            4568888889999999999999999988876  677888888888888888888888888876542222       5777


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc
Q 043999          179 GILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKN  258 (574)
Q Consensus       179 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  258 (574)
                      ..+...+.+.|++++|.+.|++..+.  .|+.       ..+.+.|++++|...++++....+. +...+..+...+...
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVNPE-KAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCCHH-HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcCcc-hHHHHHHHHHHHHHh
Confidence            88888888888888888888887774  2442       3455566777777777777665322 445566666666677


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 043999          259 GLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLL  338 (574)
Q Consensus       259 g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  338 (574)
                      |++++|.+.+++..+.. +.+..++..+...|.+.|++++|.+.|++..+..+. +...|..+...+.+.|++++|...+
T Consensus       153 ~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~  230 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKATAQIAVKEYASALETL  230 (258)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHH-HHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            77777777776666543 224556666666666666666666666666555333 4555666666666666666666666


Q ss_pred             HHHHH
Q 043999          339 DQMKM  343 (574)
Q Consensus       339 ~~m~~  343 (574)
                      +...+
T Consensus       231 ~~a~~  235 (258)
T 3uq3_A          231 DAART  235 (258)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            66554

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.69  E-value=3e-15  Score=134.33  Aligned_cols=195  Identities=13%  Similarity=0.023  Sum_probs=88.1

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHH
Q 043999          105 KSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKG  184 (574)
Q Consensus       105 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~  184 (574)
                      ++..|..+...+.+.|++++|+..|++.++.. +.+...+..+...+.+.|++++|+..|++.....|.+..++..+...
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~   82 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMVLSEA   82 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            44555566666666666666666666665543 23455555555555666666666666665555545555555555555


Q ss_pred             HHhc-----------CChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 043999          185 CCEA-----------GDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLIC  253 (574)
Q Consensus       185 ~~~~-----------g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  253 (574)
                      +.+.           |++++|++.+++..+... -+...+..+...+...|++++|+..|++..+.+  .+...+..+..
T Consensus        83 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~  159 (217)
T 2pl2_A           83 YVALYRQAEDRERGKGYLEQALSVLKDAERVNP-RYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAE  159 (217)
T ss_dssp             HHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHH
T ss_pred             HHHhhhhhhhhcccccCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHH
Confidence            5555           444444444444443221 123334444444444444444444444444333  23344444444


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 043999          254 GLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFD  304 (574)
Q Consensus       254 ~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  304 (574)
                      .+...|++++|+..|++..+.. +.+...+..+...+.+.|++++|...|+
T Consensus       160 ~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~  209 (217)
T 2pl2_A          160 LYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAA  209 (217)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHH
Confidence            4444444444444444444321 1123333334444444444444444333

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.68  E-value=3.3e-15  Score=134.02  Aligned_cols=201  Identities=12%  Similarity=0.020  Sum_probs=167.9

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHH
Q 043999          138 RPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLI  217 (574)
Q Consensus       138 ~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li  217 (574)
                      +++...+..+...+.+.|++++|...|++.....|.+..++..+...+.+.|++++|...+++..+.. +.+...+..+.
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            45777888899999999999999999999998888999999999999999999999999999999864 23677899999


Q ss_pred             HHHHhc-----------CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHH
Q 043999          218 DGCCKN-----------GDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCL  286 (574)
Q Consensus       218 ~~~~~~-----------g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~l  286 (574)
                      ..+.+.           |++++|+..+++..+..+. +...|..+...+...|++++|+..|++..+..  .+...+..+
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~l  157 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPR-YAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHH
Confidence            999999           9999999999999987654 67889999999999999999999999999886  688899999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          287 IHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKM  343 (574)
Q Consensus       287 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  343 (574)
                      ...|...|++++|+..|++..+..+. +...+..+...+.+.|++++|+..+++...
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  213 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQAPK-DLDLRVRYASALLLKGKAEEAARAAALEHH  213 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTC----------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHHhh
Confidence            99999999999999999999987655 788899999999999999999999987653

>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=99.68  E-value=2.1e-12  Score=133.78  Aligned_cols=439  Identities=10%  Similarity=0.031  Sum_probs=275.7

Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC---hhHHHHHHHHcccCC--CCCHHH
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCS---FDKGWLFFSENRCKV--ELDVYS  177 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~---~~~A~~~~~~~~~~~--~~~~~~  177 (574)
                      +.|..+|..++..+.+.+.++.+..+|++++.. ++.....|...+..-.+.|.   ++.+..+|++.....  +|++..
T Consensus        63 p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~L  141 (679)
T 4e6h_A           63 PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSL  141 (679)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHH
T ss_pred             cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHH
Confidence            456777888888777777888888888887765 45566677777777777777   778888888777765  377777


Q ss_pred             HHHHHHHHHhcCCh--------hHHHHHHHHHHH-CCC-CCC-HHhHHHHHHHHH---------hcCCHHHHHHHHHHHH
Q 043999          178 FGILIKGCCEAGDL--------NKAFEVLNQLEE-MGF-SPN-VVIYTSLIDGCC---------KNGDIERAKMLFRKIG  237 (574)
Q Consensus       178 ~~~li~~~~~~g~~--------~~A~~~~~~m~~-~g~-~p~-~~~~~~li~~~~---------~~g~~~~A~~~~~~~~  237 (574)
                      |..-+....+.++.        +...++|+.... .|. .|+ ...|...+....         .+++++.+..+|++.+
T Consensus       142 W~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL  221 (679)
T 4e6h_A          142 WLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLL  221 (679)
T ss_dssp             HHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHH
Confidence            77777666555543        223466666443 354 443 356666665433         2344666777777776


Q ss_pred             hCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHh--CCC----
Q 043999          238 ELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRH--REV----  311 (574)
Q Consensus       238 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~~~----  311 (574)
                      ......-..+|......-...+                    ..+...++.-  ...+++.|...+.++..  .++    
T Consensus       222 ~iP~~~~~~~w~~Y~~fe~~~~--------------------~~~a~~~~~e--~~~~y~~Ar~~~~e~~~~~~~l~r~~  279 (679)
T 4e6h_A          222 CQPMDCLESMWQRYTQWEQDVN--------------------QLTARRHIGE--LSAQYMNARSLYQDWLNITKGLKRNL  279 (679)
T ss_dssp             TSCCSSHHHHHHHHHHHHHHHC--------------------TTTHHHHHHH--HHHHHHHHHHHHHHHHHHTTTCCCCC
T ss_pred             hCccHHHHHHHHHHHHHHHhcC--------------------cchHHHHHHH--hhHHHHHHHHHHHHHHHHHHhHhhcc
Confidence            4211111122221111100000                    0011111111  01123344444443321  011    


Q ss_pred             C-----------C--C------HHHHHHHHHHHHhcC-------CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCC
Q 043999          312 A-----------C--N------VVTYNTLICGLCKEM-------RVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGE  365 (574)
Q Consensus       312 ~-----------~--~------~~~~~~li~~~~~~~-------~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  365 (574)
                      +           |  +      ...|...+..--..+       ..+.+..+|++++.. ++-+...|-..+..+...|+
T Consensus       280 p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~  358 (679)
T 4e6h_A          280 PITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNT  358 (679)
T ss_dssp             CSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSC
T ss_pred             ccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCc
Confidence            0           1  0      134555544332222       133456778887765 35577788888888888888


Q ss_pred             HHHHH-HHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC---------CCCC------------HhHH
Q 043999          366 TDKAF-RLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERG---------ITPS------------EVTY  423 (574)
Q Consensus       366 ~~~A~-~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~---------~~p~------------~~~~  423 (574)
                      .++|. ++|++.... ++.+...|-..+...-+.|++++|..+|+++.+..         ..|+            ..+|
T Consensus       359 ~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vW  437 (679)
T 4e6h_A          359 DSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVY  437 (679)
T ss_dssp             CTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHH
Confidence            88896 999998875 44566677778888888999999999999887631         0131            2357


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 043999          424 TILIDSFVRSDDMEKAFEMYSLMQKS-GFSPDVYTYGVLIHGLCMK-GNMKEASKLFNSMWETKLEPNDVVYNMMIFGYC  501 (574)
Q Consensus       424 ~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~li~~~~~~-g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~  501 (574)
                      ...+....+.|..+.|..+|....+. + ......|...+..-.+. ++.+.|.++|+..++. ..-+...|...+....
T Consensus       438 i~y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~  515 (679)
T 4e6h_A          438 CVYMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLI  515 (679)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHH
Confidence            77777778889999999999999875 2 22233443333333344 4589999999999886 2335667778888888


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHhhh
Q 043999          502 KEGNSYRALRLLGEMNEKGLVP--NIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRAK  570 (574)
Q Consensus       502 ~~g~~~~A~~~~~~m~~~g~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  570 (574)
                      ..|+.+.|..+|++.+.....+  ....|...+..-.+.|+.+.+.++.+++.+.  .|+......+..-|
T Consensus       516 ~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~--~P~~~~~~~f~~ry  584 (679)
T 4e6h_A          516 YVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK--FPEVNKLEEFTNKY  584 (679)
T ss_dssp             HHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH--STTCCHHHHHHHHT
T ss_pred             hCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHh
Confidence            8999999999999998863211  3467888888888899999999999999976  56655555555444

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.66  E-value=3.2e-12  Score=132.44  Aligned_cols=403  Identities=9%  Similarity=0.030  Sum_probs=255.1

Q ss_pred             CcchhHHHHHHHHHHhcCC---hHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCh----hH----HHHHHHHcccC
Q 043999          103 VTKSRLYESIIDAHLKSRL---SDQALFYFHQMLDSG-VRPRSNTFNSLLIFVIKSCSF----DK----GWLFFSENRCK  170 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~g-~~p~~~~~~~ll~~~~~~g~~----~~----A~~~~~~~~~~  170 (574)
                      |.....|...+..-.+.|+   ++.+..+|++.+... .+|++..|...+....+.++.    ++    ..++|+.....
T Consensus        97 P~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~  176 (679)
T 4e6h_A           97 PLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDK  176 (679)
T ss_dssp             TTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH
Confidence            4566789999999899999   999999999999863 148888999988877766654    33    44788876653


Q ss_pred             --C--CCCHHHHHHHHHHHHh---------cCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          171 --V--ELDVYSFGILIKGCCE---------AGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIG  237 (574)
Q Consensus       171 --~--~~~~~~~~~li~~~~~---------~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  237 (574)
                        .  +.+...|...+.....         .++++.+.++|++.+......-..+|......--..+. ..+.+++.+. 
T Consensus       177 vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~-~~a~~~~~e~-  254 (679)
T 4e6h_A          177 CAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQ-LTARRHIGEL-  254 (679)
T ss_dssp             TTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCT-TTHHHHHHHH-
T ss_pred             hCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCc-chHHHHHHHh-
Confidence              2  2345788888876542         44678899999998863211112233322211111111 1122222111 


Q ss_pred             hCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH--CCC----C-----------C--C------HhhHHHHHHHHHh
Q 043999          238 ELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQL--NGV----S-----------P--S------LYTYNCLIHEYCN  292 (574)
Q Consensus       238 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~g~----~-----------p--~------~~~~~~li~~~~~  292 (574)
                                          ...++.|...+.++..  .++    +           |  +      ...|...+..--.
T Consensus       255 --------------------~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~  314 (679)
T 4e6h_A          255 --------------------SAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESD  314 (679)
T ss_dssp             --------------------HHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHT
T ss_pred             --------------------hHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHh
Confidence                                1122223333322211  011    0           1  0      1233344433222


Q ss_pred             cC-------CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH-HHHHHHHHCCCCCChhhHHHHHHHHHhcC
Q 043999          293 EG-------KVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAE-RLLDQMKMAGISPNVITYNKLIDGFCDAG  364 (574)
Q Consensus       293 ~g-------~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~-~~~~~m~~~g~~~~~~~~~~li~~~~~~g  364 (574)
                      .+       ..+.+..+|++.+..-+. +...|-..+..+.+.|+.++|. .+|++.... ++.+...|-..+....+.|
T Consensus       315 ~~~~l~~~~~~~Rv~~~Ye~aL~~~p~-~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~  392 (679)
T 4e6h_A          315 NKLELSDDLHKARMTYVYMQAAQHVCF-APEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNT  392 (679)
T ss_dssp             CTTCCCHHHHHHHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTT
T ss_pred             CCccccchhhHHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhC
Confidence            22       123455677777765333 7788888888888888888886 899888764 4556666777888888889


Q ss_pred             CHHHHHHHHHHHHHCCC---------CC------------CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-CCCCCHhH
Q 043999          365 ETDKAFRLFNQLKSNGQ---------SP------------SVVTYNVLIRAFSKAGNSKMASDLVREMEER-GITPSEVT  422 (574)
Q Consensus       365 ~~~~A~~~~~~~~~~g~---------~~------------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~~  422 (574)
                      +++.|.++|+.+.+...         .|            ....|...+....+.|..+.|..+|.+..+. +. +....
T Consensus       393 ~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~-~~~~l  471 (679)
T 4e6h_A          393 KIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKL-VTPDI  471 (679)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGG-SCTHH
T ss_pred             CHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCC-CChHH
Confidence            99999999988875310         13            1235777777777888899999999998875 21 12333


Q ss_pred             HHHHHHHHHhc-CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHH
Q 043999          423 YTILIDSFVRS-DDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEP--NDVVYNMMIFG  499 (574)
Q Consensus       423 ~~~li~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p--~~~~~~~li~~  499 (574)
                      |...+..-.+. ++.+.|.++|+...+. ++.+...+...+......|+.+.|..+|+..+.....+  ....|...+.-
T Consensus       472 yi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~f  550 (679)
T 4e6h_A          472 YLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFF  550 (679)
T ss_dssp             HHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            43333333333 4589999999988776 45566777788888888899999999999988764322  34678888888


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043999          500 YCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIG  533 (574)
Q Consensus       500 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  533 (574)
                      -.+.|+.+.+.++.+++.+.  .|+......+++
T Consensus       551 E~~~G~~~~~~~v~~R~~~~--~P~~~~~~~f~~  582 (679)
T 4e6h_A          551 ESKVGSLNSVRTLEKRFFEK--FPEVNKLEEFTN  582 (679)
T ss_dssp             HHHTCCSHHHHHHHHHHHHH--STTCCHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCCCcHHHHHHH
Confidence            88899999999999999885  344433334443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.66  E-value=7.5e-14  Score=125.80  Aligned_cols=205  Identities=9%  Similarity=-0.065  Sum_probs=141.4

Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHH
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILI  182 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li  182 (574)
                      +.++.+|..+...+...|++++|++.|+++++.. +.+..++..+...+...|++++|.+.|+++....+.+..++..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~   83 (225)
T 2vq2_A            5 NQVSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYG   83 (225)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHH
Confidence            3456778888888888899999999888888764 335677777778888888888888888877766666777777788


Q ss_pred             HHHHhc-CChhHHHHHHHHHHHCCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCC
Q 043999          183 KGCCEA-GDLNKAFEVLNQLEEMGFSPN-VVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGL  260 (574)
Q Consensus       183 ~~~~~~-g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  260 (574)
                      ..+... |++++|.+.++++.+.+..|+ ...+..+...+.+.|++++|...++++.+..+. +...+..+...+.+.|+
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~  162 (225)
T 2vq2_A           84 WFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQ-FPPAFKELARTKMLAGQ  162 (225)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTC
T ss_pred             HHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CchHHHHHHHHHHHcCC
Confidence            888888 888888888887776322232 456667777777777777777777777665432 45566666666666666


Q ss_pred             HHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043999          261 QKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHR  309 (574)
Q Consensus       261 ~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  309 (574)
                      +++|.+.++++.+.....+...+..+...+...|+.++|...++.+.+.
T Consensus       163 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          163 LGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            6666666666665432134455555555566666666666666665543

>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=99.66  E-value=2.8e-14  Score=138.60  Aligned_cols=234  Identities=7%  Similarity=-0.020  Sum_probs=180.9

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-hhHHHHHHHHcccCCCCCHHHHHHHHH
Q 043999          105 KSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCS-FDKGWLFFSENRCKVELDVYSFGILIK  183 (574)
Q Consensus       105 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~-~~~A~~~~~~~~~~~~~~~~~~~~li~  183 (574)
                      +..+|+.+...+.+.|++++|+..|+++++.. +-+..+|+.+..++.+.|+ +++|+..|+++....|.+..+|+.+..
T Consensus        96 ~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~  174 (382)
T 2h6f_A           96 FRDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHH
Confidence            45778889999999999999999999998864 3367788888888999996 999999999988877888889999999


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh-cCCHH
Q 043999          184 GCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFK-NGLQK  262 (574)
Q Consensus       184 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~  262 (574)
                      .+.+.|++++|+..|+++++... -+...|..+..++.+.|++++|+..|+++++.++. +...|+.+..++.+ .|..+
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ldP-~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHccCHHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcch
Confidence            99999999999999999888643 36778888888888999999999999998887654 67788888888888 56556


Q ss_pred             HH-----HHHHHHHHHCCCCCCHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC------
Q 043999          263 DG-----FEFYEKMQLNGVSPSLYTYNCLIHEYCNEG--KVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEM------  329 (574)
Q Consensus       263 ~a-----~~~~~~~~~~g~~p~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~------  329 (574)
                      +|     ++.+++.++.. +-+...|+.+...+.+.|  ++++|.+.+.++ +..+ .+...+..+...|.+.|      
T Consensus       253 eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p-~~~~al~~La~~~~~~~~~~~~~  329 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSH-SSPYLIAFLVDIYEDMLENQCDN  329 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTC-CCHHHHHHHHHHHHHHHHTTCSS
T ss_pred             HHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCC-CCHHHHHHHHHHHHHHhcccccc
Confidence            66     47777777653 225567777777777766  577777777776 3322 25666777777776653      


Q ss_pred             ---CHHHHHHHHHHH-HHC
Q 043999          330 ---RVQEAERLLDQM-KMA  344 (574)
Q Consensus       330 ---~~~~A~~~~~~m-~~~  344 (574)
                         ..++|+.+++++ .+.
T Consensus       330 ~~~~~~~A~~~~~~l~~~~  348 (382)
T 2h6f_A          330 KEDILNKALELCEILAKEK  348 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHHHHHHh
Confidence               247777777777 443

>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=99.65  E-value=6.9e-14  Score=128.68  Aligned_cols=202  Identities=10%  Similarity=-0.009  Sum_probs=146.1

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      ...|..+...|...|++++|++.|+++++.. +.+..++..+...+...|++++|.+.|+++....+.+..++..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHH
Confidence            5778888899999999999999999988764 346777777888888888888888888887766666777888888888


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHH
Q 043999          186 CEAGDLNKAFEVLNQLEEMGFSP-NVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDG  264 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  264 (574)
                      ...|++++|.+.++++.+.+..| +...+..+...+.+.|++++|.+.+++..+.... +...+..+...+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRN-QPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCCHHHH
Confidence            88888888888888877632233 4456677777777777777777777777665432 456666677777777777777


Q ss_pred             HHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 043999          265 FEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHRE  310 (574)
Q Consensus       265 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  310 (574)
                      ...++++.+.. +.+...+..+...+.+.|+.++|.+.++++.+..
T Consensus       195 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          195 RQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            77777766543 2345556666666666777777777766666553

>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=99.65  E-value=7.1e-13  Score=123.54  Aligned_cols=224  Identities=13%  Similarity=0.003  Sum_probs=147.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 043999          314 NVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCD----AGETDKAFRLFNQLKSNGQSPSVVTYN  389 (574)
Q Consensus       314 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~~~~~~~~  389 (574)
                      ++.++..+...+...|++++|+..|++..+.+   +...+..+...|..    .+++++|.+.|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            44455555666666666666666666666532   44555556666666    666666666666666653   555666


Q ss_pred             HHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 043999          390 VLIRAFSK----AGNSKMASDLVREMEERGITPSEVTYTILIDSFVR----SDDMEKAFEMYSLMQKSGFSPDVYTYGVL  461 (574)
Q Consensus       390 ~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  461 (574)
                      .+...|..    .+++++|...+++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            66666666    666777777776666653   45566666666666    677777777777776654   44555666


Q ss_pred             HHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043999          462 IHGLCM----KGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCK----EGNSYRALRLLGEMNEKGLVPNIASYSSTIG  533 (574)
Q Consensus       462 i~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  533 (574)
                      ...|..    .+++++|.+.|++..+.+   +...+..+...|..    .+++++|++.+++..+.+   +...+..+..
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~  226 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  226 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHH
Confidence            666666    777777777777777653   45666777777777    777777887777777753   2556666777


Q ss_pred             HHHh----cCCHHHHHHHHHHHHHcC
Q 043999          534 VLCQ----DGKWPEAEVLLNQMLKLG  555 (574)
Q Consensus       534 ~~~~----~g~~~~A~~~~~~m~~~g  555 (574)
                      .|.+    .+++++|.+++++..+.|
T Consensus       227 ~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          227 MQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            7777    777788888888777663

>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=99.64  E-value=7.8e-13  Score=123.28  Aligned_cols=223  Identities=10%  Similarity=-0.024  Sum_probs=122.0

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCChhhHH
Q 043999          174 DVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCK----NGDIERAKMLFRKIGELGLVATQHTYT  249 (574)
Q Consensus       174 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~  249 (574)
                      +..++..+...+...|++++|.+.|++..+.   .+...+..+...|..    .+++++|...|++..+.+   +..++.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            4455555555566666666666666655552   234455555555555    566666666666655543   445555


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 043999          250 VLICGLFK----NGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCN----EGKVSEGFKLFDEMRHREVACNVVTYNTL  321 (574)
Q Consensus       250 ~li~~~~~----~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~l  321 (574)
                      .+...|..    .+++++|++.|++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            55555555    556666666665555543   44555555555555    555666666665555543   34445555


Q ss_pred             HHHHHh----cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043999          322 ICGLCK----EMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCD----AGETDKAFRLFNQLKSNGQSPSVVTYNVLIR  393 (574)
Q Consensus       322 i~~~~~----~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~  393 (574)
                      ...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|.+.|++..+.+   +...+..+..
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~  226 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  226 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHH
Confidence            555554    555566666655555543   33445555555555    555555655555555542   2444444555


Q ss_pred             HHHh----cCChHHHHHHHHHHHHC
Q 043999          394 AFSK----AGNSKMASDLVREMEER  414 (574)
Q Consensus       394 ~~~~----~g~~~~A~~~~~~m~~~  414 (574)
                      .|.+    .+++++|...+++..+.
T Consensus       227 ~~~~g~~~~~~~~~A~~~~~~a~~~  251 (273)
T 1ouv_A          227 MQYNGEGVTRNEKQAIENFKKGCKL  251 (273)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHH
T ss_pred             HHHcCCCcccCHHHHHHHHHHHHHc
Confidence            5555    55555555555555544

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.64  E-value=1.2e-14  Score=135.56  Aligned_cols=247  Identities=9%  Similarity=-0.067  Sum_probs=162.5

Q ss_pred             hcCChHHHHHHHHHHHhCCCC---CCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHH
Q 043999          118 KSRLSDQALFYFHQMLDSGVR---PRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKA  194 (574)
Q Consensus       118 ~~g~~~~A~~~~~~~~~~g~~---p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  194 (574)
                      ..|++++|+..|+++++....   .+..++..+...+...|++++|...|+++....+.+..+|..++..+...|++++|
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            457889999999998876321   13566777788888888888888888888777677788888888888888888888


Q ss_pred             HHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          195 FEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLN  274 (574)
Q Consensus       195 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  274 (574)
                      .+.|+++.+.. +.+..++..+...+.+.|++++|.+.|+++.+..  |+.......+..+...|++++|...+.+....
T Consensus        97 ~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           97 YEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            88888887753 2356778888888888888888888888887654  33333444444556667777888777666654


Q ss_pred             CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChh
Q 043999          275 GVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVAC---NVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVI  351 (574)
Q Consensus       275 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~  351 (574)
                      . +++...+ .++..+...++.++|.+.++...+.....   +..++..+...+.+.|++++|...|+++.+..  |+. 
T Consensus       174 ~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~-  248 (275)
T 1xnf_A          174 S-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--VHN-  248 (275)
T ss_dssp             S-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CTT-
T ss_pred             C-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--chh-
Confidence            2 2233333 35666666777777777777665442210   13556666666666777777777777666542  321 


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHH
Q 043999          352 TYNKLIDGFCDAGETDKAFRLF  373 (574)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~  373 (574)
                       +......+...|++++|.+.+
T Consensus       249 -~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          249 -FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             -CHHHHHHHHHHHHHHHC----
T ss_pred             -HHHHHHHHHHHHHHHhhHHHH
Confidence             122233445556666655544

>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=99.64  E-value=7.1e-14  Score=135.74  Aligned_cols=247  Identities=11%  Similarity=0.021  Sum_probs=196.6

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCC-hhHHHHHHHHHHHCCCCCCHHhHHHHHHH
Q 043999          141 SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGD-LNKAFEVLNQLEEMGFSPNVVIYTSLIDG  219 (574)
Q Consensus       141 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~~g~~p~~~~~~~li~~  219 (574)
                      ..+|..+...+.+.|++++|++.|+++....|.+..+|+.+...+.+.|+ +++|++.|+++++... -+...|..+..+
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P-~~~~a~~~~g~~  175 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCC-CCHHHHHHHHHH
Confidence            45677788888899999999999999888888889999999999999996 9999999999988643 367889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHh-cCCHHH
Q 043999          220 CCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCN-EGKVSE  298 (574)
Q Consensus       220 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~-~g~~~~  298 (574)
                      +.+.|++++|+..|+++++.++. +..+|..+..++.+.|++++|+..++++++... -+...|+.+...+.+ .|..++
T Consensus       176 ~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcchH
Confidence            99999999999999999887655 788899999999999999999999999988743 367788888888888 566577


Q ss_pred             H-----HHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcC-------
Q 043999          299 G-----FKLFDEMRHREVACNVVTYNTLICGLCKEM--RVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAG-------  364 (574)
Q Consensus       299 A-----~~~~~~m~~~~~~~~~~~~~~li~~~~~~~--~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g-------  364 (574)
                      |     ++.|++.++..+. +...|+.+...+.+.|  ++++|+..+..+ +. .+.+...+..+...|.+.|       
T Consensus       254 A~~~~el~~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          254 AVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             HHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             HHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhcccccch
Confidence            7     4778888776555 6778888888888877  578888888887 33 3456677788888888764       


Q ss_pred             --CHHHHHHHHHHH-HHCCCCC-CHHHHHHHHHHH
Q 043999          365 --ETDKAFRLFNQL-KSNGQSP-SVVTYNVLIRAF  395 (574)
Q Consensus       365 --~~~~A~~~~~~~-~~~g~~~-~~~~~~~li~~~  395 (574)
                        ..++|.++++++ .+.  .| ....|..+...+
T Consensus       331 ~~~~~~A~~~~~~l~~~~--DP~r~~~w~~~~~~l  363 (382)
T 2h6f_A          331 EDILNKALELCEILAKEK--DTIRKEYWRYIGRSL  363 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTT--CGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHh--CchhHHHHHHHHHHH
Confidence              257888888888 554  33 334555555444

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.63  E-value=2e-14  Score=131.37  Aligned_cols=211  Identities=8%  Similarity=0.021  Sum_probs=150.3

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHH
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIK  183 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  183 (574)
                      ..+..|..+...+.+.|++++|+..|+++++.. +.+..++..+...+.+.|++++|...|+++....+.+..++..+..
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~   99 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGN   99 (243)
T ss_dssp             ---------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHH
Confidence            456788999999999999999999999998864 4467888888889999999999999999888776778888999999


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHH
Q 043999          184 GCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKD  263 (574)
Q Consensus       184 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  263 (574)
                      .+...|++++|.+.++++.+.. +.+...+..+...+.+.|++++|...++++.+.... +...+..+...+.+.|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNEN-DTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999999888764 336777888888888899999999988888776433 56677788888888888888


Q ss_pred             HHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 043999          264 GFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYN  319 (574)
Q Consensus       264 a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~  319 (574)
                      |.+.++++.+.. +.+..++..+...|.+.|++++|.+.++++.+..+. +...+.
T Consensus       178 A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~  231 (243)
T 2q7f_A          178 ALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPD-HMLALH  231 (243)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             HHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcc-hHHHHH
Confidence            888888877653 335667777778888888888888888887766443 333333

>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=1.6e-13  Score=127.87  Aligned_cols=229  Identities=13%  Similarity=0.058  Sum_probs=98.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcC
Q 043999          322 ICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPS--VVTYNVLIRAFSKAG  399 (574)
Q Consensus       322 i~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~--~~~~~~li~~~~~~g  399 (574)
                      ...+...|++++|+..|+++.+.. +.+...+..+...+...|++++|.+.++++.+.+..++  ...|..+...+...|
T Consensus        10 a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~   88 (272)
T 3u4t_A           10 ADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKG   88 (272)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcc
Confidence            333444444444444444444332 12222344444444444444444444444443211111  122444444444444


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 043999          400 NSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFN  479 (574)
Q Consensus       400 ~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  479 (574)
                      ++++|...+++..+... .+..++..+...+...|++++|...+++..+.. +.+...+..+...+...+++++|.+.|+
T Consensus        89 ~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  166 (272)
T 3u4t_A           89 QDSLAIQQYQAAVDRDT-TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADSSFV  166 (272)
T ss_dssp             CHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444321 133444444555555555555555555444432 2333444444422222335555555555


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCC-CCCC------HHHHHHHHHHHHhcCCHHHHHHHHH
Q 043999          480 SMWETKLEPNDVVYNMMIFGYCKEGN---SYRALRLLGEMNEKG-LVPN------IASYSSTIGVLCQDGKWPEAEVLLN  549 (574)
Q Consensus       480 ~~~~~~~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g-~~p~------~~~~~~l~~~~~~~g~~~~A~~~~~  549 (574)
                      ++.+..+. +...+..+...+...|+   +++|...++++.+.. -.|+      ..+|..+...+.+.|++++|...++
T Consensus       167 ~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  245 (272)
T 3u4t_A          167 KVLELKPN-IYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWK  245 (272)
T ss_dssp             HHHHHSTT-CHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHhCcc-chHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            55543211 24444444555554454   444555555544320 0122      1344445555555555555555555


Q ss_pred             HHHHc
Q 043999          550 QMLKL  554 (574)
Q Consensus       550 ~m~~~  554 (574)
                      ++++.
T Consensus       246 ~al~~  250 (272)
T 3u4t_A          246 NILAL  250 (272)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            55543

>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=1.3e-13  Score=128.48  Aligned_cols=194  Identities=11%  Similarity=0.044  Sum_probs=85.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HhhHHHHHHHHHh
Q 043999          215 SLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPS--LYTYNCLIHEYCN  292 (574)
Q Consensus       215 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~--~~~~~~li~~~~~  292 (574)
                      .....+...|++++|+..|++..+..+. +...+..+...+...|++++|++.+++..+.+..|+  ...|..+...+..
T Consensus         8 ~~a~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~   86 (272)
T 3u4t_A            8 RYADFLFKNNNYAEAIEVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMK   86 (272)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHH
Confidence            3344444444555555554444443321 233444444444445555555555544444211111  1124444455555


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 043999          293 EGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRL  372 (574)
Q Consensus       293 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~  372 (574)
                      .|++++|.+.|++..+..+. +..+|..+...+...|++++|+..+++..+.. +.+...+..+...+...+++++|.+.
T Consensus        87 ~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~  164 (272)
T 3u4t_A           87 KGQDSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADSS  164 (272)
T ss_dssp             TTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555554443322 33445555555555555555555555544431 22333444444122223355555555


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCC---hHHHHHHHHHHH
Q 043999          373 FNQLKSNGQSPSVVTYNVLIRAFSKAGN---SKMASDLVREME  412 (574)
Q Consensus       373 ~~~~~~~g~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~m~  412 (574)
                      |+++.+.. +.+...+..+...+...|+   +++|...+++..
T Consensus       165 ~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~  206 (272)
T 3u4t_A          165 FVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLI  206 (272)
T ss_dssp             HHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHH
T ss_pred             HHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHH
Confidence            55554432 1123444444444444444   444444444443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.63  E-value=2.4e-14  Score=133.59  Aligned_cols=245  Identities=10%  Similarity=-0.068  Sum_probs=132.1

Q ss_pred             CCHHHHHHHHHHHHhCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHH
Q 043999          294 GKVSEGFKLFDEMRHREVA---CNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAF  370 (574)
Q Consensus       294 g~~~~A~~~~~~m~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~  370 (574)
                      |++++|++.|+++.+....   .+..+|..+...+...|++++|...|+++.+.. +.+..++..+...+...|++++|.
T Consensus        19 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~   97 (275)
T 1xnf_A           19 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAY   97 (275)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             chHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHH
Confidence            4455555555555543211   123445555555555555555555555555542 234555555555566666666666


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          371 RLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSG  450 (574)
Q Consensus       371 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  450 (574)
                      +.++++.+.. +.+...+..+...+.+.|++++|...++++.+.  .|+.......+..+...|++++|...++......
T Consensus        98 ~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~  174 (275)
T 1xnf_A           98 EAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  174 (275)
T ss_dssp             HHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            6666555542 123455555666666666666666666666554  2233333333334455566667776666555442


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 043999          451 FSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEP---NDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIAS  527 (574)
Q Consensus       451 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  527 (574)
                       +++...+ .++..+...++.++|.+.++++.......   +..++..+...|...|++++|...++++.+.  .|+.  
T Consensus       175 -~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~--  248 (275)
T 1xnf_A          175 -DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVHN--  248 (275)
T ss_dssp             -CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCTT--
T ss_pred             -CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--Cchh--
Confidence             3333333 35555666666677777777665432110   1456677777777777888888877777764  3422  


Q ss_pred             HHHHHHHHHhcCCHHHHHHHH
Q 043999          528 YSSTIGVLCQDGKWPEAEVLL  548 (574)
Q Consensus       528 ~~~l~~~~~~~g~~~~A~~~~  548 (574)
                      +.....++...|++++|.+.+
T Consensus       249 ~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          249 FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             CHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHHHhhHHHH
Confidence            222344566667777776654

>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=99.62  E-value=2.4e-13  Score=125.00  Aligned_cols=211  Identities=15%  Similarity=0.032  Sum_probs=135.4

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHH
Q 043999          351 ITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSF  430 (574)
Q Consensus       351 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  430 (574)
                      ..+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            344555555666666666666666655542 2245556666666666666666666666666543 22455666666667


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 043999          431 VRSDDMEKAFEMYSLMQKSGFSP-DVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRA  509 (574)
Q Consensus       431 ~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  509 (574)
                      ...|++++|.++++++.+.+..| +...+..+...+...|++++|.+.++++.+.... +...+..+...+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRN-QPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCCHHHH
Confidence            77777777777777766522233 3456666777777777777777777777765322 466777777777777888888


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 043999          510 LRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILY  567 (574)
Q Consensus       510 ~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  567 (574)
                      ...++++.+. .+.+...+..+...+.+.|++++|.++++++.+.  .|+...+..++
T Consensus       195 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l  249 (252)
T 2ho1_A          195 RQYYDLFAQG-GGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL--YPGSLEYQEFQ  249 (252)
T ss_dssp             HHHHHHHHTT-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTSHHHHHHH
T ss_pred             HHHHHHHHHh-CcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH--CCCCHHHHHHH
Confidence            8877777764 2345566777777777778888888888877765  45555444433

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.62  E-value=3.6e-13  Score=121.31  Aligned_cols=213  Identities=8%  Similarity=-0.067  Sum_probs=134.7

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHH
Q 043999          350 VITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDS  429 (574)
Q Consensus       350 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  429 (574)
                      ...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            3445555556666666666666666655542 2245556666666666666666666666666542 2245566666666


Q ss_pred             HHhc-CCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 043999          430 FVRS-DDMEKAFEMYSLMQKSGFSPD-VYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSY  507 (574)
Q Consensus       430 ~~~~-g~~~~A~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  507 (574)
                      +... |++++|...++.+.+.+..|+ ...+..+...+...|++++|.+.++++.+.... +...+..+...+...|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQ-FPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CchHHHHHHHHHHHcCCHH
Confidence            6777 777777777777665222222 456666777777777777777777777765322 4667777777777778888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 043999          508 RALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILY  567 (574)
Q Consensus       508 ~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  567 (574)
                      +|.+.++++.+.....+...+..+...+...|+.++|..+++.+.+.  .|+...+..++
T Consensus       165 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~~l  222 (225)
T 2vq2_A          165 DADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN--FPYSEELQTVL  222 (225)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHh
Confidence            88887777776421135566666666777778888887777777654  46655544443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.59  E-value=7.6e-14  Score=127.54  Aligned_cols=200  Identities=14%  Similarity=0.071  Sum_probs=111.0

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHH
Q 043999          141 SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGC  220 (574)
Q Consensus       141 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  220 (574)
                      ..++..+...+...|++++|...|+++....+.+..++..+...+.+.|++++|.+.++++.+.. +.+..++..+...+
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~  101 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVY  101 (243)
T ss_dssp             -------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHH
Confidence            44455566666677777777777777666656666777777777777777777777777766543 22455666666666


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 043999          221 CKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGF  300 (574)
Q Consensus       221 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  300 (574)
                      ...|++++|.+.++++.+.... +...+..+...+.+.|++++|.+.++++.+.. +.+...+..+...+.+.|++++|.
T Consensus       102 ~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  179 (243)
T 2q7f_A          102 VVKEMYKEAKDMFEKALRAGME-NGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEAL  179 (243)
T ss_dssp             HHTTCHHHHHHHHHHHHHHTCC-SHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHH
Confidence            6777777777777666654432 45556666666666666666666666665542 224555555666666666666666


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          301 KLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMA  344 (574)
Q Consensus       301 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  344 (574)
                      +.++++.+.... +..++..+...+.+.|++++|...++++.+.
T Consensus       180 ~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          180 SQFAAVTEQDPG-HADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            666665554332 4455555555555666666666666555554

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.55  E-value=1.5e-13  Score=136.06  Aligned_cols=237  Identities=12%  Similarity=0.020  Sum_probs=140.8

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChhHHHHHHHHcccC------CCC
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPR----SNTFNSLLIFVIKSCSFDKGWLFFSENRCK------VEL  173 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~------~~~  173 (574)
                      .....+..+...+.+.|++++|+..|+++++.+ +.+    ..++..+...+...|++++|...+++....      .+.
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~   85 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLG   85 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHH
Confidence            445677888899999999999999999998864 223    246777788888999999999888876432      122


Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCC-CC----HHhHHHHHHHHHhcCC--------------------HHH
Q 043999          174 DVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFS-PN----VVIYTSLIDGCCKNGD--------------------IER  228 (574)
Q Consensus       174 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~~~~~li~~~~~~g~--------------------~~~  228 (574)
                      ...++..+...+...|++++|.+.+++..+.... ++    ..++..+...|...|+                    +++
T Consensus        86 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~  165 (406)
T 3sf4_A           86 EAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQA  165 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHH
Confidence            3556778888888888888888888877652100 11    3366777777777777                    777


Q ss_pred             HHHHHHHHHhC----CCC-CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----HhhHHHHHHHHHhcCCHHH
Q 043999          229 AKMLFRKIGEL----GLV-ATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGV-SPS----LYTYNCLIHEYCNEGKVSE  298 (574)
Q Consensus       229 A~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~-~p~----~~~~~~li~~~~~~g~~~~  298 (574)
                      |.+.+++..+.    +.. ....++..+...+...|++++|.+.+++..+... .++    ..++..+...|...|++++
T Consensus       166 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  245 (406)
T 3sf4_A          166 AVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFET  245 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHH
Confidence            77776665331    100 1123455555566666666666666655543200 011    1244445555555555555


Q ss_pred             HHHHHHHHHhCCCC----C-CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          299 GFKLFDEMRHREVA----C-NVVTYNTLICGLCKEMRVQEAERLLDQM  341 (574)
Q Consensus       299 A~~~~~~m~~~~~~----~-~~~~~~~li~~~~~~~~~~~A~~~~~~m  341 (574)
                      |...+++..+....    + ...++..+...+.+.|++++|...+++.
T Consensus       246 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  293 (406)
T 3sf4_A          246 ASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKH  293 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHH
Confidence            55555544321100    0 0233444444444444444444444443

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.55  E-value=1.3e-13  Score=136.91  Aligned_cols=275  Identities=14%  Similarity=0.043  Sum_probs=153.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----hhHHHHHHHHHhcCCHHHHHHHHHHHHhC----C-CCCCHHHH
Q 043999          248 YTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSL----YTYNCLIHEYCNEGKVSEGFKLFDEMRHR----E-VACNVVTY  318 (574)
Q Consensus       248 ~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~-~~~~~~~~  318 (574)
                      +..+...+...|++++|+..|+++.+.+.. +.    ..+..+...|...|++++|...+++..+.    + ......++
T Consensus        51 l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  129 (411)
T 4a1s_A           51 LALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSS  129 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHH
Confidence            334445555666666666666665554211 21    24455555555556666666555554332    0 01122344


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHh
Q 043999          319 NTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNG-QSPSVVTYNVLIRAFSK  397 (574)
Q Consensus       319 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g-~~~~~~~~~~li~~~~~  397 (574)
                      ..+...|...|++++|...++++.+..                               ...+ ......++..+...|..
T Consensus       130 ~~l~~~~~~~g~~~~A~~~~~~al~~~-------------------------------~~~~~~~~~~~~~~~l~~~~~~  178 (411)
T 4a1s_A          130 GNLGNTLKVMGRFDEAAICCERHLTLA-------------------------------RQLGDRLSEGRALYNLGNVYHA  178 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHH-------------------------------HHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHH-------------------------------HHhhchHHHHHHHHHHHHHHHH
Confidence            444444555555555555554443220                               0000 00112344444555555


Q ss_pred             cCC-----------------hHHHHHHHHHHHHC----CCC-CCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC
Q 043999          398 AGN-----------------SKMASDLVREMEER----GIT-PSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGF-SPD  454 (574)
Q Consensus       398 ~g~-----------------~~~A~~~~~~m~~~----~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-~~~  454 (574)
                      .|+                 +++|...+++..+.    +.. ....++..+...+...|++++|...+++..+... .++
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            555                 55555555544321    111 1223566666677777777777777776654210 011


Q ss_pred             ----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--C---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC
Q 043999          455 ----VYTYGVLIHGLCMKGNMKEASKLFNSMWETKL--E---PNDVVYNMMIFGYCKEGNSYRALRLLGEMNEK----GL  521 (574)
Q Consensus       455 ----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~--~---p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~  521 (574)
                          ...+..+...|...|++++|.+.+++..+...  .   ....++..+...|...|++++|.+.+++..+.    +.
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                23667777788888888888888887765311  0   11456777888888888888888888887653    10


Q ss_pred             CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043999          522 VP-NIASYSSTIGVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       522 ~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      .+ ...++..+...+.+.|++++|..++++.++.
T Consensus       339 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          339 RIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            11 1346777788888889999998888888754

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.55  E-value=1.4e-13  Score=136.71  Aligned_cols=277  Identities=12%  Similarity=0.012  Sum_probs=158.3

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCChhHHHHHHHHcccC------CCCCH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRS----NTFNSLLIFVIKSCSFDKGWLFFSENRCK------VELDV  175 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~----~~~~~ll~~~~~~g~~~~A~~~~~~~~~~------~~~~~  175 (574)
                      ...+..+...+...|++++|+..|+++++.+ +.+.    .++..+...+...|++++|...|++....      .+...
T Consensus        48 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  126 (411)
T 4a1s_A           48 CLELALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEA  126 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHH
Confidence            4556678889999999999999999998864 2233    46777888888999999999988876543      23345


Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHC----CC-CCCHHhHHHHHHHHHhcCC-----------------HHHHHHHH
Q 043999          176 YSFGILIKGCCEAGDLNKAFEVLNQLEEM----GF-SPNVVIYTSLIDGCCKNGD-----------------IERAKMLF  233 (574)
Q Consensus       176 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~-~p~~~~~~~li~~~~~~g~-----------------~~~A~~~~  233 (574)
                      .++..+...|...|++++|.+.+++..+.    +- +....++..+...|...|+                 +++|++.+
T Consensus       127 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~  206 (411)
T 4a1s_A          127 KSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFY  206 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHH
Confidence            67888888888888888888888876653    11 1123466777777777777                 67776666


Q ss_pred             HHHHhC----CC-CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC----HhhHHHHHHHHHhcCCHHHHHHHH
Q 043999          234 RKIGEL----GL-VATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVS-PS----LYTYNCLIHEYCNEGKVSEGFKLF  303 (574)
Q Consensus       234 ~~~~~~----~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~-p~----~~~~~~li~~~~~~g~~~~A~~~~  303 (574)
                      ++..+.    +. .....++..+...+...|++++|.+.+++..+.... ++    ..++..+...|...|++++|.+.+
T Consensus       207 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  286 (411)
T 4a1s_A          207 QENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHY  286 (411)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            654331    10 011234455555555555555555555554432100 01    113444444444455555554444


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC--
Q 043999          304 DEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGIS-PNVITYNKLIDGFCDAGETDKAFRLFNQLKSNG--  380 (574)
Q Consensus       304 ~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g--  380 (574)
                      ++..+....                               .+.. ....++..+...|...|++++|.+.+++..+..  
T Consensus       287 ~~al~~~~~-------------------------------~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  335 (411)
T 4a1s_A          287 KRTLALAVE-------------------------------LGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQE  335 (411)
T ss_dssp             HHHHHHHHH-------------------------------TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHH-------------------------------cCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            443321100                               0000 012344445555555555555555555443320  


Q ss_pred             --C-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 043999          381 --Q-SPSVVTYNVLIRAFSKAGNSKMASDLVREMEER  414 (574)
Q Consensus       381 --~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  414 (574)
                        . .....++..+...|.+.|++++|...+++..+.
T Consensus       336 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          336 LGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence              0 001234555555666666666666666665543

>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=2.5e-13  Score=130.51  Aligned_cols=276  Identities=13%  Similarity=0.028  Sum_probs=153.1

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChhHHHHHHHHcccC------CCCCHH
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPR----SNTFNSLLIFVIKSCSFDKGWLFFSENRCK------VELDVY  176 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~------~~~~~~  176 (574)
                      ..+......+.+.|++++|+..|+++++.. +.+    ...+..+...+...|++++|...+++....      .+....
T Consensus         6 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~   84 (338)
T 3ro2_A            6 LELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAK   84 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHH
Confidence            445667788889999999999999988864 223    356677778888888888888888775432      122355


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCCC-CCC----HHhHHHHHHHHHhcCC--------------------HHHHHH
Q 043999          177 SFGILIKGCCEAGDLNKAFEVLNQLEEMGF-SPN----VVIYTSLIDGCCKNGD--------------------IERAKM  231 (574)
Q Consensus       177 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~~~~~li~~~~~~g~--------------------~~~A~~  231 (574)
                      ++..+...+...|++++|.+.+++..+... .++    ..++..+...+...|+                    +++|.+
T Consensus        85 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~  164 (338)
T 3ro2_A           85 ASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVD  164 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHH
Confidence            677777888888888888888877654210 011    2356667777777777                    666666


Q ss_pred             HHHHHHhC----CCC-CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          232 LFRKIGEL----GLV-ATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGV-SPSLYTYNCLIHEYCNEGKVSEGFKLFDE  305 (574)
Q Consensus       232 ~~~~~~~~----~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~  305 (574)
                      .+++..+.    +.. ....++..+...+...|++++|.+.+++..+... .++.                         
T Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~-------------------------  219 (338)
T 3ro2_A          165 LYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDK-------------------------  219 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCH-------------------------
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCCh-------------------------
Confidence            66554321    100 0122344444555555555555555554432100 0000                         


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          306 MRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGI-SPN----VITYNKLIDGFCDAGETDKAFRLFNQLKSNG  380 (574)
Q Consensus       306 m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~-~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g  380 (574)
                            .....++..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|...+++..+..
T Consensus       220 ------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  293 (338)
T 3ro2_A          220 ------AAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIA  293 (338)
T ss_dssp             ------HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             ------HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH
Confidence                  00112344444455555555555555544432110 001    2344455555556666666665555544320


Q ss_pred             ----C-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 043999          381 ----Q-SPSVVTYNVLIRAFSKAGNSKMASDLVREMEER  414 (574)
Q Consensus       381 ----~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  414 (574)
                          . .....++..+...+.+.|++++|...+++..+.
T Consensus       294 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          294 QELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence                0 001234555666666666666666666666543

>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=4.7e-13  Score=132.46  Aligned_cols=121  Identities=13%  Similarity=0.018  Sum_probs=68.8

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-C
Q 043999          244 TQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPS----LYTYNCLIHEYCNEGKVSEGFKLFDEMRHR----EVAC-N  314 (574)
Q Consensus       244 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~~-~  314 (574)
                      ....+......+...|++++|...|++..+.+.. +    ..++..+...|...|++++|...+++....    +..| .
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~   86 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGE   86 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHH
Confidence            4445556666777777777777777777665211 2    245666667777777777777777665332    1111 2


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----hhhHHHHHHHHHhcCC
Q 043999          315 VVTYNTLICGLCKEMRVQEAERLLDQMKMAGI-SPN----VITYNKLIDGFCDAGE  365 (574)
Q Consensus       315 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~-~~~----~~~~~~li~~~~~~g~  365 (574)
                      ..++..+...+...|++++|...+++..+... .++    ..++..+...|...|+
T Consensus        87 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~  142 (406)
T 3sf4_A           87 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGK  142 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCC
Confidence            34555566666666666666666666554310 011    2244555555555555

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.52  E-value=2.1e-12  Score=112.43  Aligned_cols=167  Identities=13%  Similarity=0.064  Sum_probs=133.9

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHH
Q 043999          105 KSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKG  184 (574)
Q Consensus       105 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~  184 (574)
                      ++.+|..|...|.+.|++++|++.|++.++.. +-+..++..+..++.+.|++++|...+.......+.+...+..+...
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~   82 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTTSAEAYYILGSA   82 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCchhHHHHHHHHHH
Confidence            45678889999999999999999999988864 33677888888888888888888888888877777778888888888


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHH
Q 043999          185 CCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDG  264 (574)
Q Consensus       185 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  264 (574)
                      +...++++.|.+.+++..+.. +.+...+..+...+.+.|++++|++.|++..+..+. +..+|..+..+|.+.|++++|
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPG-FIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcch-hhhHHHHHHHHHHHCCCHHHH
Confidence            888888888888888877653 235677788888888888888888888888776543 667778888888888888888


Q ss_pred             HHHHHHHHHC
Q 043999          265 FEFYEKMQLN  274 (574)
Q Consensus       265 ~~~~~~~~~~  274 (574)
                      ++.|++.++.
T Consensus       161 ~~~~~~al~~  170 (184)
T 3vtx_A          161 VKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHhC
Confidence            8888887764

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.52  E-value=1.4e-11  Score=116.99  Aligned_cols=80  Identities=9%  Similarity=0.094  Sum_probs=34.0

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-------cCCh-------hHHHHHHHHcccC-CCCCHHHHHHHHHHHHh
Q 043999          123 DQALFYFHQMLDSGVRPRSNTFNSLLIFVIK-------SCSF-------DKGWLFFSENRCK-VELDVYSFGILIKGCCE  187 (574)
Q Consensus       123 ~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~-------~g~~-------~~A~~~~~~~~~~-~~~~~~~~~~li~~~~~  187 (574)
                      ++|+..|+++++.. +.+...|..++..+..       .|++       ++|..+|++.... .|.+...|..++..+.+
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            34555555555432 2234444444444432       2333       4444444444432 23333344444444444


Q ss_pred             cCChhHHHHHHHHHHH
Q 043999          188 AGDLNKAFEVLNQLEE  203 (574)
Q Consensus       188 ~g~~~~A~~~~~~m~~  203 (574)
                      .|++++|.++|++..+
T Consensus       112 ~~~~~~A~~~~~~al~  127 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLA  127 (308)
T ss_dssp             TTCHHHHHHHHHHHHT
T ss_pred             cCCHHHHHHHHHHHHh
Confidence            4444444444444443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.51  E-value=1.5e-11  Score=116.78  Aligned_cols=219  Identities=10%  Similarity=0.068  Sum_probs=180.6

Q ss_pred             hHHHHHHHHcccCCCCCHHHHHHHHHHHHh-------cCCh-------hHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhc
Q 043999          158 DKGWLFFSENRCKVELDVYSFGILIKGCCE-------AGDL-------NKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKN  223 (574)
Q Consensus       158 ~~A~~~~~~~~~~~~~~~~~~~~li~~~~~-------~g~~-------~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  223 (574)
                      ++|...|+++....|.++..|..++..+..       .|++       ++|..+|++..+.-.+-+...|..++..+.+.
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            678889998888778899999999988864       5886       99999999999731123566899999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCChh-hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHH-hcCCHHHHHH
Q 043999          224 GDIERAKMLFRKIGELGLVATQH-TYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYC-NEGKVSEGFK  301 (574)
Q Consensus       224 g~~~~A~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~-~~g~~~~A~~  301 (574)
                      |++++|.++|++..+..+. +.. .|..++..+.+.|++++|..+|++..+.. +++...|........ ..|+.++|.+
T Consensus       113 ~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~  190 (308)
T 2ond_A          113 MKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             CCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999999985432 343 89999999999999999999999999864 234455554443322 3699999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCC--ChhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          302 LFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAG-ISP--NVITYNKLIDGFCDAGETDKAFRLFNQLKS  378 (574)
Q Consensus       302 ~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g-~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  378 (574)
                      +|+...+..+. +...|..++..+.+.|++++|..+|++..... .+|  ....|..++....+.|+.+.|..+++++.+
T Consensus       191 ~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~  269 (308)
T 2ond_A          191 IFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999877544 78899999999999999999999999999863 354  456888899999999999999999999987


Q ss_pred             C
Q 043999          379 N  379 (574)
Q Consensus       379 ~  379 (574)
                      .
T Consensus       270 ~  270 (308)
T 2ond_A          270 A  270 (308)
T ss_dssp             H
T ss_pred             H
Confidence            6

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.51  E-value=3.8e-12  Score=110.76  Aligned_cols=174  Identities=13%  Similarity=0.034  Sum_probs=111.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043999          384 SVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIH  463 (574)
Q Consensus       384 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  463 (574)
                      +...|..+...|.+.|++++|+..|++..+... -+...+..+..++.+.|++++|...+....... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADP-NNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            445566666666666666666666666665532 245556666666666677777766666665543 344555666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 043999          464 GLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPE  543 (574)
Q Consensus       464 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~  543 (574)
                      .+...++++.|.+.+.+.....+. +...+..+...|.+.|++++|++.|++..+.. +.+..+|..+..++.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            666777777777777776664322 55666677777777777777777777776642 2345666677777777777777


Q ss_pred             HHHHHHHHHHcCCCCCHHHH
Q 043999          544 AEVLLNQMLKLGLKPSVSLY  563 (574)
Q Consensus       544 A~~~~~~m~~~g~~p~~~~~  563 (574)
                      |...|++.++.  .|+...|
T Consensus       160 A~~~~~~al~~--~p~~a~~  177 (184)
T 3vtx_A          160 AVKYFKKALEK--EEKKAKY  177 (184)
T ss_dssp             HHHHHHHHHHT--THHHHHH
T ss_pred             HHHHHHHHHhC--CccCHHH
Confidence            77777777754  5655443

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.50  E-value=9.8e-13  Score=126.29  Aligned_cols=203  Identities=11%  Similarity=0.006  Sum_probs=132.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----HhhHHHHHHHHHhcCC--------------------HHHHHH
Q 043999          247 TYTVLICGLFKNGLQKDGFEFYEKMQLNGV-SPS----LYTYNCLIHEYCNEGK--------------------VSEGFK  301 (574)
Q Consensus       247 ~~~~li~~~~~~g~~~~a~~~~~~~~~~g~-~p~----~~~~~~li~~~~~~g~--------------------~~~A~~  301 (574)
                      ++..+...+...|++++|.+.+++..+... .++    ..++..+...|...|+                    +++|.+
T Consensus        85 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~  164 (338)
T 3ro2_A           85 ASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVD  164 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHH
Confidence            444444555555555555555544432100 011    2245555555666666                    666666


Q ss_pred             HHHHHHhC----CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC----C-CCChhhHHHHHHHHHhcCCHHHHHH
Q 043999          302 LFDEMRHR----EV-ACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAG----I-SPNVITYNKLIDGFCDAGETDKAFR  371 (574)
Q Consensus       302 ~~~~m~~~----~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g----~-~~~~~~~~~li~~~~~~g~~~~A~~  371 (574)
                      .+++..+.    +. .....++..+...+...|++++|...+++..+..    . .....++..+...+...|++++|.+
T Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  244 (338)
T 3ro2_A          165 LYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASE  244 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            66554321    11 1123467777788888888888888888765431    0 1112377888899999999999999


Q ss_pred             HHHHHHHCCCC-CC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHCC----CC-CCHhHHHHHHHHHHhcCCHHHHHH
Q 043999          372 LFNQLKSNGQS-PS----VVTYNVLIRAFSKAGNSKMASDLVREMEERG----IT-PSEVTYTILIDSFVRSDDMEKAFE  441 (574)
Q Consensus       372 ~~~~~~~~g~~-~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~----~~-p~~~~~~~li~~~~~~g~~~~A~~  441 (574)
                      .+++..+.... .+    ..++..+...+...|++++|...+++..+..    .. ....++..+...+.+.|++++|..
T Consensus       245 ~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  324 (338)
T 3ro2_A          245 YYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMH  324 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            99987653111 11    5677888899999999999999999886531    11 113467788999999999999999


Q ss_pred             HHHHHHHC
Q 043999          442 MYSLMQKS  449 (574)
Q Consensus       442 ~~~~~~~~  449 (574)
                      .+++..+.
T Consensus       325 ~~~~a~~~  332 (338)
T 3ro2_A          325 FAEKHLEI  332 (338)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHHH
Confidence            99998875

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.49  E-value=6.3e-12  Score=123.46  Aligned_cols=129  Identities=8%  Similarity=-0.021  Sum_probs=63.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---CC-CHHH
Q 043999          422 TYTILIDSFVRSDDMEKAFEMYSLMQKS----GF-SPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKL---EP-NDVV  492 (574)
Q Consensus       422 ~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~---~p-~~~~  492 (574)
                      ++..+...|...|++++|...+++..+.    +. +....++..+...|.+.|++++|.+.+++..+...   .| ....
T Consensus       226 ~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  305 (383)
T 3ulq_A          226 TLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSE  305 (383)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            3444455555555555555555554431    11 22234455555555555555555555555543200   11 1222


Q ss_pred             HHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          493 YNMMIFGYCKEGN---SYRALRLLGEMNEKGLVPN-IASYSSTIGVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       493 ~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      +..+...|...|+   +++|+.++++.   +..|+ ...+..+...|.+.|++++|..++++..+
T Consensus       306 ~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          306 FEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3445555555665   55555555544   12222 23455556666666666666666666653

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.48  E-value=1.2e-12  Score=132.06  Aligned_cols=213  Identities=11%  Similarity=-0.057  Sum_probs=104.7

Q ss_pred             hHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCCh-hHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          158 DKGWLFFSENRCKVELDVYSFGILIKGCCEAGDL-NKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKI  236 (574)
Q Consensus       158 ~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  236 (574)
                      ++++..+++.....+.+...+..+...+...|++ ++|.+.|++..+... .+...|..+...|.+.|++++|.+.|++.
T Consensus        85 ~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~a  163 (474)
T 4abn_A           85 EKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEP-ELVEAWNQLGEVYWKKGDVTSAHTCFSGA  163 (474)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444444443333334444555555555555555 555555555444321 13444555555555555555555555555


Q ss_pred             HhCCCCCChhhHHHHHHHHHhc---------CCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhc--------CCHHHH
Q 043999          237 GELGLVATQHTYTVLICGLFKN---------GLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNE--------GKVSEG  299 (574)
Q Consensus       237 ~~~~~~~~~~~~~~li~~~~~~---------g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~--------g~~~~A  299 (574)
                      .+..  |+...+..+...+...         |++++|++.|++..+.. +.+...|..+...|...        |++++|
T Consensus       164 l~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A  240 (474)
T 4abn_A          164 LTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQA  240 (474)
T ss_dssp             HTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHH
Confidence            4433  3334444455555554         55555555555555432 12344455555555555        555555


Q ss_pred             HHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          300 FKLFDEMRHREVA--CNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQ  375 (574)
Q Consensus       300 ~~~~~~m~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  375 (574)
                      .+.|++..+..+.  -+...|..+...|.+.|++++|...|++..+.. +.+...+..+...+...|++++|.+.+.+
T Consensus       241 ~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          241 LSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            5555555544220  145555555555555555555555555555442 22344455555555555555555554433

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.48  E-value=4.5e-12  Score=124.52  Aligned_cols=294  Identities=11%  Similarity=-0.009  Sum_probs=212.8

Q ss_pred             HHhcCCHHHHHHHHHHHHhC--CC--CCChhhHHHHHHH--HHhcCCHHHHH-----------HHHHHHHHCCCCCCHhh
Q 043999          220 CCKNGDIERAKMLFRKIGEL--GL--VATQHTYTVLICG--LFKNGLQKDGF-----------EFYEKMQLNGVSPSLYT  282 (574)
Q Consensus       220 ~~~~g~~~~A~~~~~~~~~~--~~--~~~~~~~~~li~~--~~~~g~~~~a~-----------~~~~~~~~~g~~p~~~~  282 (574)
                      +.+.+++++|..+++++.+.  ..  .++...|..++..  ....+..+.+.           +.++.+....  .+...
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~--~~~~~   99 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQ--ARLTG   99 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHT--HHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcC--CCchh
Confidence            45799999999999998653  22  2233344444432  22334455555           6777765431  12222


Q ss_pred             HH------HHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC-
Q 043999          283 YN------CLIHEYCNEGKVSEGFKLFDEMRHR----EVAC-NVVTYNTLICGLCKEMRVQEAERLLDQMKMAGI-SPN-  349 (574)
Q Consensus       283 ~~------~li~~~~~~g~~~~A~~~~~~m~~~----~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~-~~~-  349 (574)
                      +.      .....+...|++++|...|++..+.    +-.+ ...++..+...|...|++++|+..+++..+.-. .++ 
T Consensus       100 ~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~  179 (383)
T 3ulq_A          100 LLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAY  179 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTT
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccc
Confidence            22      2556678899999999999998764    2111 346788899999999999999999999875321 111 


Q ss_pred             ----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHC----CC
Q 043999          350 ----VITYNKLIDGFCDAGETDKAFRLFNQLKSNGQS-PSV----VTYNVLIRAFSKAGNSKMASDLVREMEER----GI  416 (574)
Q Consensus       350 ----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~-~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~  416 (574)
                          ..+++.+...|...|++++|.+.+++..+.... ++.    .++..+...|...|++++|...+++..+.    +.
T Consensus       180 ~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~  259 (383)
T 3ulq_A          180 NIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNI  259 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcc
Confidence                346788899999999999999999998764211 222    36888899999999999999999998762    23


Q ss_pred             -CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCC
Q 043999          417 -TPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKS----GFSPDVYTYGVLIHGLCMKGN---MKEASKLFNSMWETKLEP  488 (574)
Q Consensus       417 -~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~~~p  488 (574)
                       +....++..+...+.+.|++++|...+++..+.    +-+.....+..+...+...|+   +++|+.++++..   ..|
T Consensus       260 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~---~~~  336 (383)
T 3ulq_A          260 LPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKM---LYA  336 (383)
T ss_dssp             GGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTT---CHH
T ss_pred             chhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCc---CHH
Confidence             334567888999999999999999999988653    112222345678888889999   888888888762   223


Q ss_pred             -CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          489 -NDVVYNMMIFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       489 -~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  518 (574)
                       ....+..+...|...|++++|.+.+++..+
T Consensus       337 ~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          337 DLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence             345678899999999999999999999876

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.47  E-value=2.2e-13  Score=129.53  Aligned_cols=170  Identities=13%  Similarity=0.102  Sum_probs=127.9

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhC-------CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccC------
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDS-------GVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCK------  170 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-------g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~------  170 (574)
                      .+..+|..+...|...|++++|+.+|+++++.       ..+....++..+...+...|++++|...++++...      
T Consensus        25 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  104 (311)
T 3nf1_A           25 ARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLG  104 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhC
Confidence            34688999999999999999999999999873       22334566778888899999999999988887643      


Q ss_pred             --CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHC------CCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC--
Q 043999          171 --VELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEM------GFSP-NVVIYTSLIDGCCKNGDIERAKMLFRKIGEL--  239 (574)
Q Consensus       171 --~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--  239 (574)
                        .+....++..+...|...|++++|.+.+++..+.      +..| ...++..+...+...|++++|.+.+++..+.  
T Consensus       105 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~  184 (311)
T 3nf1_A          105 KDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQ  184 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence              2334667888888888999999999888887763      2122 3456777888888888888888888887653  


Q ss_pred             ----CCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          240 ----GLVA-TQHTYTVLICGLFKNGLQKDGFEFYEKMQL  273 (574)
Q Consensus       240 ----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  273 (574)
                          +..| ...++..+...+...|++++|.+.++++.+
T Consensus       185 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          185 TKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             HTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                1111 244677777788888888888888877764

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.44  E-value=4.8e-12  Score=127.63  Aligned_cols=211  Identities=11%  Similarity=-0.007  Sum_probs=113.4

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHH
Q 043999          296 VSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRV-QEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFN  374 (574)
Q Consensus       296 ~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~-~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  374 (574)
                      ++++.+.+++...... .+...+..+...+...|++ ++|+..|++..+.. +.+...|..+...|.+.|++++|.+.|+
T Consensus        84 ~~~al~~l~~~~~~~~-~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQ-VEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTCC-CCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCc-hhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            3444444444433322 2445555555555555555 55555555555442 2234555555555555555555555555


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhc---------CChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhc--------CCHH
Q 043999          375 QLKSNGQSPSVVTYNVLIRAFSKA---------GNSKMASDLVREMEERGITPSEVTYTILIDSFVRS--------DDME  437 (574)
Q Consensus       375 ~~~~~g~~~~~~~~~~li~~~~~~---------g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~--------g~~~  437 (574)
                      +..+.  .|+...+..+...+...         |++++|...+++..+... .+...|..+..+|...        |+++
T Consensus       162 ~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDV-LDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            55554  24445555555555555         555666666655555421 2445555555555555        5566


Q ss_pred             HHHHHHHHHHHCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 043999          438 KAFEMYSLMQKSGFS---PDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLL  513 (574)
Q Consensus       438 ~A~~~~~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  513 (574)
                      +|...|++..+.. +   .+...|..+...|...|++++|.+.|+++.+..+. +...+..+...+...|++++|++.+
T Consensus       239 ~A~~~~~~al~~~-p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          239 QALSAYAQAEKVD-RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPA-WPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHHC-GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            6666666665542 2   35555666666666666666666666666554322 4445555666666666666665543

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.43  E-value=1.1e-12  Score=124.68  Aligned_cols=245  Identities=13%  Similarity=0.063  Sum_probs=113.8

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC------CC
Q 043999          280 LYTYNCLIHEYCNEGKVSEGFKLFDEMRHR-------EVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMA------GI  346 (574)
Q Consensus       280 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-------~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~------g~  346 (574)
                      ..++..+...+...|++++|...++++.+.       ..+....++..+...+...|++++|...++++.+.      +.
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            344556666666666666666666665542       11223344555555666666666666666555432      11


Q ss_pred             -CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHhHHH
Q 043999          347 -SPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITP-SEVTYT  424 (574)
Q Consensus       347 -~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~  424 (574)
                       +....++..+...|...|++++|.+.++++.+...                            +.. .+..| ....+.
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~----------------------------~~~-~~~~~~~~~~~~  157 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIRE----------------------------KVL-GKDHPDVAKQLN  157 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH----------------------------HHH-CTTCHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHH----------------------------Hhc-CCCChHHHHHHH
Confidence             11233444455555555555555555554443200                            000 01111 223344


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC------CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-------CCCCC-
Q 043999          425 ILIDSFVRSDDMEKAFEMYSLMQKS------GFSP-DVYTYGVLIHGLCMKGNMKEASKLFNSMWET-------KLEPN-  489 (574)
Q Consensus       425 ~li~~~~~~g~~~~A~~~~~~~~~~------~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-------~~~p~-  489 (574)
                      .+...+...|++++|..+++++.+.      +..| ...++..+...|...|++++|.+.++++.+.       ...+. 
T Consensus       158 ~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  237 (311)
T 3nf1_A          158 NLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDEN  237 (311)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcch
Confidence            4445555555555555555554432      1011 2234555555566666666666666655532       00111 


Q ss_pred             ------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043999          490 ------DVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       490 ------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                            ...+..+...+...+.+.+|...++..... .+.+..++..+..+|.+.|++++|..++++.++.
T Consensus       238 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          238 KPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVD-SPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             CCHHHHHHHHHHC-------CCSCCCC----------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCC-CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence                  112222233334445555566666665543 1224466777778888888888888888877653

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.41  E-value=2.4e-10  Score=111.66  Aligned_cols=235  Identities=10%  Similarity=-0.010  Sum_probs=136.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH----HHHHHHHHHHhcCChhHHHHHHHHcccC--CCCC----HHH
Q 043999          108 LYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSN----TFNSLLIFVIKSCSFDKGWLFFSENRCK--VELD----VYS  177 (574)
Q Consensus       108 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~----~~~~ll~~~~~~g~~~~A~~~~~~~~~~--~~~~----~~~  177 (574)
                      .+..+...+...|++++|...+++.++.....+..    +++.+...+...|++++|...+++....  ...+    ..+
T Consensus        16 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   95 (373)
T 1hz4_A           16 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   95 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            44555667778999999999999988754222222    4555666777888888888888876543  1122    233


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHC----CCC--C-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC----Chh
Q 043999          178 FGILIKGCCEAGDLNKAFEVLNQLEEM----GFS--P-NVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVA----TQH  246 (574)
Q Consensus       178 ~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~--p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~  246 (574)
                      +..+...+...|++++|.+.+++..+.    +..  | ...++..+...+...|++++|...+++........    ...
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            566777777888888888888776542    211  2 23355566677777788888887777765432211    123


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-hhHH-----HHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHH
Q 043999          247 TYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSL-YTYN-----CLIHEYCNEGKVSEGFKLFDEMRHREVACN---VVT  317 (574)
Q Consensus       247 ~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~-~~~~-----~li~~~~~~g~~~~A~~~~~~m~~~~~~~~---~~~  317 (574)
                      ++..+...+...|++++|...+++.......++. ..+.     ..+..+...|+.++|...+++.......+.   ...
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            4555666666777777777777666532111111 1111     122335566666666666666544322111   113


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          318 YNTLICGLCKEMRVQEAERLLDQMK  342 (574)
Q Consensus       318 ~~~li~~~~~~~~~~~A~~~~~~m~  342 (574)
                      +..+...+...|++++|...++...
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~  280 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELN  280 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444455555566666655555543

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.39  E-value=2.8e-10  Score=111.17  Aligned_cols=300  Identities=12%  Similarity=0.047  Sum_probs=203.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHh----hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCH----HH
Q 043999          247 TYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLY----TYNCLIHEYCNEGKVSEGFKLFDEMRHREVA-CNV----VT  317 (574)
Q Consensus       247 ~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~----~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-~~~----~~  317 (574)
                      ........+...|++++|...+++........+..    +++.+...+...|++++|.+.+++....... .+.    .+
T Consensus        16 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   95 (373)
T 1hz4_A           16 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   95 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            34445566778999999999999988754222222    4566777888899999999999887653111 122    23


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC--C-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--C--CHH
Q 043999          318 YNTLICGLCKEMRVQEAERLLDQMKMA----GIS--P-NVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQS--P--SVV  386 (574)
Q Consensus       318 ~~~li~~~~~~~~~~~A~~~~~~m~~~----g~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~--~--~~~  386 (574)
                      +..+...+...|++++|...+++..+.    +.+  | ....+..+...+...|++++|...+++.......  +  ...
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            566777888899999999999887653    222  2 2345666788888999999999999988764221  1  235


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-hHHH-----HHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHH
Q 043999          387 TYNVLIRAFSKAGNSKMASDLVREMEERGITPSE-VTYT-----ILIDSFVRSDDMEKAFEMYSLMQKSGFSPD---VYT  457 (574)
Q Consensus       387 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~-----~li~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~  457 (574)
                      ++..+...+...|++++|...+++.......++. ..+.     ..+..+...|++++|...++........+.   ...
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            6777788888999999999999988754212111 1121     233447788999999999988775432211   224


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 043999          458 YGVLIHGLCMKGNMKEASKLFNSMWET----KLEPND-VVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTI  532 (574)
Q Consensus       458 ~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  532 (574)
                      +..+...+...|++++|...+++....    +..++. .++..+..++...|+.++|...+++.....  +..    -.+
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~--~~~----g~~  329 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLA--NRT----GFI  329 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--HHH----CCC
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHh--ccc----cHH
Confidence            567778888899999999999887653    211222 356677788888999999999999988741  111    122


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc
Q 043999          533 GVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       533 ~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      ..+...|  +....+++.+...
T Consensus       330 ~~~~~~g--~~~~~ll~~~~~~  349 (373)
T 1hz4_A          330 SHFVIEG--EAMAQQLRQLIQL  349 (373)
T ss_dssp             HHHHTTH--HHHHHHHHHHHHT
T ss_pred             HHHHHcc--HHHHHHHHHHHhC
Confidence            3344445  6777788888765

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.38  E-value=1.1e-10  Score=114.39  Aligned_cols=228  Identities=13%  Similarity=0.047  Sum_probs=146.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCC-CCC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CC-CHHHHHH
Q 043999          322 ICGLCKEMRVQEAERLLDQMKMAGI-SPN----VITYNKLIDGFCDAGETDKAFRLFNQLKSN----GQ-SP-SVVTYNV  390 (574)
Q Consensus       322 i~~~~~~~~~~~A~~~~~~m~~~g~-~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----g~-~~-~~~~~~~  390 (574)
                      ...+...|++++|+..|+++.+... .++    ..++..+...|...|+++.|...+++..+.    +. .+ ...+++.
T Consensus       108 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  187 (378)
T 3q15_A          108 GMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFV  187 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHH
T ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHH
Confidence            3445567777777777777654310 111    345566677777777777777777766542    10 11 1345666


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHC----CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCHHHHHH
Q 043999          391 LIRAFSKAGNSKMASDLVREMEER----GITP-SEVTYTILIDSFVRSDDMEKAFEMYSLMQK-----SGFSPDVYTYGV  460 (574)
Q Consensus       391 li~~~~~~g~~~~A~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~~~~~  460 (574)
                      +...|...|++++|...+++..+.    +..+ ...++..+...|...|++++|...+++..+     .. +....++..
T Consensus       188 lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~  266 (378)
T 3q15_A          188 IAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFG  266 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHH
Confidence            777777788888887777776542    1111 124566777778888888888888887765     32 333567777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCC---CC-CHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCCC-HHHHHHHH
Q 043999          461 LIHGLCMKGNMKEASKLFNSMWETKL---EP-NDVVYNMMIFGYCKEGN---SYRALRLLGEMNEKGLVPN-IASYSSTI  532 (574)
Q Consensus       461 li~~~~~~g~~~~A~~~~~~~~~~~~---~p-~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p~-~~~~~~l~  532 (574)
                      +...+.+.|++++|...+++..+...   .| ....+..+...+...|+   +++|+..+++.   +..|+ ...+..+.
T Consensus       267 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la  343 (378)
T 3q15_A          267 LSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEACARSAA  343 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHHHHHHHH
Confidence            88888888888888888888776421   12 23345556666667777   67777777652   22222 34566777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 043999          533 GVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       533 ~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      ..|...|++++|..++++..+
T Consensus       344 ~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          344 AVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            888888888888888888764

>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=99.38  E-value=3.6e-11  Score=104.28  Aligned_cols=165  Identities=15%  Similarity=0.096  Sum_probs=99.3

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      ...|..+...+...|++++|+..|+++.+.. +.+..++..+...+...|++++|...++++....+.+..++..++..+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   86 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAPDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            3456666677777777777777777766543 234556666666666666666666666666555555666666666666


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHH
Q 043999          186 CEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGF  265 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  265 (574)
                      ...|++++|.+.++++.+.. +.+...+..+...+.+.|++++|.+.+++..+.... +...+..+...+...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPN-EGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCHHHHH
Confidence            66666666666666665542 224455555666666666666666666665554322 3445555555555555555555


Q ss_pred             HHHHHHHH
Q 043999          266 EFYEKMQL  273 (574)
Q Consensus       266 ~~~~~~~~  273 (574)
                      +.+++..+
T Consensus       165 ~~~~~~~~  172 (186)
T 3as5_A          165 PHFKKANE  172 (186)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.37  E-value=1.8e-10  Score=112.80  Aligned_cols=229  Identities=8%  Similarity=-0.029  Sum_probs=154.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCC-C----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-----CC-ChhhHH
Q 043999          286 LIHEYCNEGKVSEGFKLFDEMRHREVA-C----NVVTYNTLICGLCKEMRVQEAERLLDQMKMAGI-----SP-NVITYN  354 (574)
Q Consensus       286 li~~~~~~g~~~~A~~~~~~m~~~~~~-~----~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~-----~~-~~~~~~  354 (574)
                      ....+...|++++|...|++..+.-.. +    ...++..+...|...|++++|...+++..+...     .+ ...+++
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            344556777788888777776543110 1    234666777777788888888887777654210     11 234567


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHH-----CCCCCCHhHHH
Q 043999          355 KLIDGFCDAGETDKAFRLFNQLKSN----GQSP-SVVTYNVLIRAFSKAGNSKMASDLVREMEE-----RGITPSEVTYT  424 (574)
Q Consensus       355 ~li~~~~~~g~~~~A~~~~~~~~~~----g~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~~~~  424 (574)
                      .+...|...|++++|.+.+++..+.    +..+ ...++..+...|...|++++|...+++..+     .. +....++.
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~  265 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLF  265 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHH
Confidence            7777888888888888888776542    1111 134567777888888888888888888776     32 22356677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCC----CCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCC-CHHHHHHH
Q 043999          425 ILIDSFVRSDDMEKAFEMYSLMQKSG----FSPDVYTYGVLIHGLCMKGN---MKEASKLFNSMWETKLEP-NDVVYNMM  496 (574)
Q Consensus       425 ~li~~~~~~g~~~~A~~~~~~~~~~~----~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~~~p-~~~~~~~l  496 (574)
                      .+...+.+.|++++|...+++..+..    -+.....+..+...+...++   +++|+..+++..   ..| ....+..+
T Consensus       266 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~---~~~~~~~~~~~l  342 (378)
T 3q15_A          266 GLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKN---LHAYIEACARSA  342 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCC---ChhHHHHHHHHH
Confidence            78888888999999999988876531    11223345566666777777   777777777632   222 24456778


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH
Q 043999          497 IFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       497 i~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      ...|...|++++|.+.|++..+
T Consensus       343 a~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          343 AAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            8889999999999999988865

>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=99.36  E-value=2.7e-11  Score=127.11  Aligned_cols=168  Identities=12%  Similarity=0.034  Sum_probs=151.5

Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHH
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILI  182 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li  182 (574)
                      |.++.+|+.|...|.+.|++++|++.|++.++.. +-+..++..+..+|.+.|++++|++.|++.....|.+..+|+.+.
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 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMG   84 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            4557899999999999999999999999999864 335889999999999999999999999999887788999999999


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHH
Q 043999          183 KGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQK  262 (574)
Q Consensus       183 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  262 (574)
                      ..|.+.|++++|++.|++..+... -+...|+.+..+|.+.|++++|++.|++..+..+. +...|..+...+...|+++
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~P-~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQINP-AFADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHhhhhhHHHhcccHH
Confidence            999999999999999999998642 25789999999999999999999999999887654 6789999999999999999


Q ss_pred             HHHHHHHHHHH
Q 043999          263 DGFEFYEKMQL  273 (574)
Q Consensus       263 ~a~~~~~~~~~  273 (574)
                      +|.+.+++..+
T Consensus       163 ~A~~~~~kal~  173 (723)
T 4gyw_A          163 DYDERMKKLVS  173 (723)
T ss_dssp             THHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99998888764

>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=99.34  E-value=1.8e-10  Score=99.80  Aligned_cols=164  Identities=14%  Similarity=0.066  Sum_probs=108.3

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHH
Q 043999          142 NTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCC  221 (574)
Q Consensus       142 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  221 (574)
                      ..+..+...+...|++++|...|+++....+.+..++..++..+...|++++|.+.++++.+.. +.+...+..+...+.
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            3455566677777888888888877776666677777777777777777777777777776653 235566667777777


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 043999          222 KNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFK  301 (574)
Q Consensus       222 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  301 (574)
                      ..|++++|.+.++++.+.... +...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+
T Consensus        88 ~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEANPI-NFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcCcH-hHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHH
Confidence            777777777777776655332 45556666666666666666666666665542 2244555566666666666666666


Q ss_pred             HHHHHHh
Q 043999          302 LFDEMRH  308 (574)
Q Consensus       302 ~~~~m~~  308 (574)
                      .++.+.+
T Consensus       166 ~~~~~~~  172 (186)
T 3as5_A          166 HFKKANE  172 (186)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6665544

>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=99.33  E-value=2.3e-10  Score=103.25  Aligned_cols=202  Identities=12%  Similarity=0.060  Sum_probs=155.8

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHH
Q 043999          348 PNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILI  427 (574)
Q Consensus       348 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li  427 (574)
                      .|+..+......+...|++++|.+.|++..+....++...+..+...+...|++++|...+++..+.... +...+..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            4567888888999999999999999999988754467788888899999999999999999999887432 567788889


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHH
Q 043999          428 DSFVRSDDMEKAFEMYSLMQKSGFSPDV-------YTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPN---DVVYNMMI  497 (574)
Q Consensus       428 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~-------~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~---~~~~~~li  497 (574)
                      ..+...|++++|...+++..+.. +.+.       ..|..+...+...|++++|++.|+++++.  .|+   ...|..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            99999999999999999998764 3444       45777888888999999999999999875  454   46677777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 043999          498 FGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLY  563 (574)
Q Consensus       498 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  563 (574)
                      .+|...|     ..+++++...+ ..+...|....  ....+.+++|...+++.++.  .|+....
T Consensus       161 ~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l--~p~~~~~  216 (228)
T 4i17_A          161 VLFYNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTL--SPNRTEI  216 (228)
T ss_dssp             HHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHH--CTTCHHH
T ss_pred             HHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhc--CCCCHHH
Confidence            7776554     44556665542 23444444433  33457789999999999976  6765543

>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=99.30  E-value=9.8e-11  Score=122.88  Aligned_cols=165  Identities=9%  Similarity=0.001  Sum_probs=107.3

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHH
Q 043999          141 SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGC  220 (574)
Q Consensus       141 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  220 (574)
                      ..+++.|...+.+.|++++|++.|++..+..|.+..+|+.+...|.+.|++++|++.|++..+... -+...|..+..+|
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P-~~~~a~~nLg~~l   87 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP-TFADAYSNMGNTL   87 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence            556666777777777777777777776665566667777777777777777777777777666431 2455666677777


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 043999          221 CKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGF  300 (574)
Q Consensus       221 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  300 (574)
                      .+.|++++|++.|++..+.++. +..+|..+...|.+.|++++|++.|++.++.. +-+...+..+...|...|++++|.
T Consensus        88 ~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~A~  165 (723)
T 4gyw_A           88 KEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTDYD  165 (723)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTTHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHHHH
Confidence            7777777777777766665433 45566666666666666666666666666542 124556666666666666666666


Q ss_pred             HHHHHHHh
Q 043999          301 KLFDEMRH  308 (574)
Q Consensus       301 ~~~~~m~~  308 (574)
                      +.+++..+
T Consensus       166 ~~~~kal~  173 (723)
T 4gyw_A          166 ERMKKLVS  173 (723)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66665544

>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=99.29  E-value=4.1e-10  Score=101.50  Aligned_cols=207  Identities=11%  Similarity=0.005  Sum_probs=162.3

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHH
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIK  183 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  183 (574)
                      .++..|..+...+.+.|++++|+..|++.++...+++...+..+..++.+.|++++|++.|++.....|.+..+|..+..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   84 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSA   84 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHH
Confidence            45678999999999999999999999999987644778888889999999999999999999999887888999999999


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCH-------HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---hhhHHHHHH
Q 043999          184 GCCEAGDLNKAFEVLNQLEEMGFSPNV-------VIYTSLIDGCCKNGDIERAKMLFRKIGELGLVAT---QHTYTVLIC  253 (574)
Q Consensus       184 ~~~~~g~~~~A~~~~~~m~~~g~~p~~-------~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~li~  253 (574)
                      .+...|++++|.+.+++..+... .+.       ..|..+...+.+.|++++|++.|++..+.+  |+   ...|..+..
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~l~~  161 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAVP-GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT--SKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS--CHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC--CCcccHHHHHHHHH
Confidence            99999999999999999988532 234       457888889999999999999999998864  43   467777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 043999          254 GLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLI  322 (574)
Q Consensus       254 ~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li  322 (574)
                      .+...|     ...++++...+ ..+...|....  ....+.+++|...|++..+..+. +..+...+.
T Consensus       162 ~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~-~~~~~~~l~  221 (228)
T 4i17_A          162 LFYNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPN-RTEIKQMQD  221 (228)
T ss_dssp             HHHHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             HHHHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCC-CHHHHHHHH
Confidence            776554     34455555443 22444444443  23456789999999999887554 455544443

>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=99.24  E-value=8.6e-11  Score=109.59  Aligned_cols=156  Identities=14%  Similarity=0.119  Sum_probs=96.8

Q ss_pred             hcCChHHHHHHHHHHHhC-------CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccC--------CCCCHHHHHHHH
Q 043999          118 KSRLSDQALFYFHQMLDS-------GVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCK--------VELDVYSFGILI  182 (574)
Q Consensus       118 ~~g~~~~A~~~~~~~~~~-------g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~--------~~~~~~~~~~li  182 (574)
                      ..|++++|+..|++.++.       +.+....++..+...+...|++++|...|+++...        .+....++..+.
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            356666666666665541       21223556667777777788888887777766532        233455677777


Q ss_pred             HHHHhcCChhHHHHHHHHHHHC------CC-CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCC-ChhhH
Q 043999          183 KGCCEAGDLNKAFEVLNQLEEM------GF-SPNVVIYTSLIDGCCKNGDIERAKMLFRKIGEL------GLVA-TQHTY  248 (574)
Q Consensus       183 ~~~~~~g~~~~A~~~~~~m~~~------g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~~~~-~~~~~  248 (574)
                      ..|...|++++|.+.+++..+.      .. +....++..+...|...|++++|...+++..+.      +..| ...++
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            7777778888777777776653      11 123456666777777777777777777776543      1011 23456


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          249 TVLICGLFKNGLQKDGFEFYEKMQL  273 (574)
Q Consensus       249 ~~li~~~~~~g~~~~a~~~~~~~~~  273 (574)
                      ..+...+...|++++|.+.+++..+
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l~  197 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEILT  197 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6666666666666666666666554

>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=99.23  E-value=1.2e-10  Score=108.53  Aligned_cols=227  Identities=15%  Similarity=0.029  Sum_probs=155.5

Q ss_pred             hcCCHHHHHHHHHHHHH-------CCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC------CCCC-CHHHHHHHH
Q 043999          327 KEMRVQEAERLLDQMKM-------AGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSN------GQSP-SVVTYNVLI  392 (574)
Q Consensus       327 ~~~~~~~A~~~~~~m~~-------~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------g~~~-~~~~~~~li  392 (574)
                      ..|++++|+.++++..+       ...+....++..+...|...|++++|...++++.+.      +-.| ...++..+.
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            45666666666666554       222334567888999999999999999999988764      2222 356788889


Q ss_pred             HHHHhcCChHHHHHHHHHHHHC------CC-CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHC------C-CCCCHHHH
Q 043999          393 RAFSKAGNSKMASDLVREMEER------GI-TPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKS------G-FSPDVYTY  458 (574)
Q Consensus       393 ~~~~~~g~~~~A~~~~~~m~~~------~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~-~~~~~~~~  458 (574)
                      ..+...|++++|...+++..+.      .. +....++..+...+...|++++|...++++.+.      + .+....++
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            9999999999999999998764      11 223567788888999999999999999988764      1 12235678


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhC-------CCCC-CHHHHHHHHHHHHhcCCH------HHHHHHHHHHHHCCCCCC
Q 043999          459 GVLIHGLCMKGNMKEASKLFNSMWET-------KLEP-NDVVYNMMIFGYCKEGNS------YRALRLLGEMNEKGLVPN  524 (574)
Q Consensus       459 ~~li~~~~~~g~~~~A~~~~~~~~~~-------~~~p-~~~~~~~li~~~~~~g~~------~~A~~~~~~m~~~g~~p~  524 (574)
                      ..+...|...|++++|.+.++++.+.       ...+ ....|..+...+...+..      .++...++..... .+..
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  251 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVD-SPTV  251 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCC-CHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCC-CHHH
Confidence            88899999999999999999998763       1122 223344444444333332      2222222222111 1223


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043999          525 IASYSSTIGVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       525 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      ..++..+...|.+.|++++|..++++.++.
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            467888899999999999999999998753

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.21  E-value=7.4e-10  Score=104.02  Aligned_cols=129  Identities=16%  Similarity=0.093  Sum_probs=61.9

Q ss_pred             HHHHHHHHHHhc-CCHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-----
Q 043999          422 TYTILIDSFVRS-DDMEKAFEMYSLMQKSGFS-PD----VYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPND-----  490 (574)
Q Consensus       422 ~~~~li~~~~~~-g~~~~A~~~~~~~~~~~~~-~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~-----  490 (574)
                      ++..+...|... |++++|...|++..+.... .+    ..++..+...+.+.|++++|+..|+++.+..+....     
T Consensus       119 ~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  198 (292)
T 1qqe_A          119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL  198 (292)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHH
Confidence            344455555553 6666666555555432100 00    234555555666666666666666666554322111     


Q ss_pred             -HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH------HHHHHHHHHH--hcCCHHHHHHHHHHHH
Q 043999          491 -VVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIA------SYSSTIGVLC--QDGKWPEAEVLLNQML  552 (574)
Q Consensus       491 -~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~------~~~~l~~~~~--~~g~~~~A~~~~~~m~  552 (574)
                       ..|..++.++...|++++|...+++..+  +.|+..      .+..++.++.  ..+++++|...|+++.
T Consensus       199 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~--l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          199 KDYFLKKGLCQLAATDAVAAARTLQEGQS--EDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGC--C---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence             1345555556666666666666666554  223211      1223333333  2345666666655554

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.21  E-value=5.8e-08  Score=97.69  Aligned_cols=203  Identities=8%  Similarity=0.031  Sum_probs=123.6

Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 043999          333 EAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREME  412 (574)
Q Consensus       333 ~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  412 (574)
                      .+..+|++++... +.+...|-..+..+.+.|+++.|..++++....  +.+...|..    |....+.++.   ++.+.
T Consensus       197 Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~---~~~l~  266 (493)
T 2uy1_A          197 RMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAV---YGDLK  266 (493)
T ss_dssp             HHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHH---HHHHH
T ss_pred             HHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHH---HHHHH
Confidence            4556666666542 444556666666666667777777777776665  222222221    1111111111   22221


Q ss_pred             HCC---------C---CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHH
Q 043999          413 ERG---------I---TPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCM-KGNMKEASKLFN  479 (574)
Q Consensus       413 ~~~---------~---~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~A~~~~~  479 (574)
                      +.-         .   ......|...+....+.+..+.|..+|+.. +.. ..+...|......-.. .++.+.|..+|+
T Consensus       267 ~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife  344 (493)
T 2uy1_A          267 RKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFS  344 (493)
T ss_dssp             HHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHH
T ss_pred             HHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHH
Confidence            110         0   001244666666666778899999999988 321 2233444332222222 336999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          480 SMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       480 ~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      ...+.... ++..|...+......|+.+.|..+|+++.     .....|...+..-...|+.+.+.++++++.+
T Consensus       345 ~al~~~~~-~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          345 SGLLKHPD-STLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            98875322 35556677777788899999999999873     2567888888877888999999998888874

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.18  E-value=1.3e-08  Score=93.67  Aligned_cols=183  Identities=13%  Similarity=0.043  Sum_probs=115.2

Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 043999          334 AERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQ-SPSVVTYNVLIRAFSKAGNSKMASDLVREME  412 (574)
Q Consensus       334 A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  412 (574)
                      |+..+++..+.+ +++..++..+..++...|++++|++++.+.+..+. .-+...+..++..+.+.|+.+.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            566666666554 44555556677777777888888888777765543 1255666677777778888888888888776


Q ss_pred             HCCCCC-----CHhHHHHHHHHH--HhcC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 043999          413 ERGITP-----SEVTYTILIDSF--VRSD--DMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWE  483 (574)
Q Consensus       413 ~~~~~p-----~~~~~~~li~~~--~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  483 (574)
                      +.  .|     +..+...+..++  ...|  +..+|..+|+++.+.  .|+..+...++.++.+.|++++|.+.++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            65  44     245555555553  2223  778888888887654  34433333444467778888888888876554


Q ss_pred             CC-----C----CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 043999          484 TK-----L----EPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNI  525 (574)
Q Consensus       484 ~~-----~----~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  525 (574)
                      ..     .    .-++.++..+|......|+  +|.++++++.+.  .|+.
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~--~P~h  286 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL--DHEH  286 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT--TCCC
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh--CCCC
Confidence            21     0    1255566455555555666  777888888774  4553

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.16  E-value=1.5e-09  Score=101.92  Aligned_cols=95  Identities=12%  Similarity=-0.125  Sum_probs=44.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHcccCC--CCC----HH
Q 043999          108 LYESIIDAHLKSRLSDQALFYFHQMLDS----GVRPR-SNTFNSLLIFVIKSCSFDKGWLFFSENRCKV--ELD----VY  176 (574)
Q Consensus       108 ~~~~li~~~~~~g~~~~A~~~~~~~~~~----g~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~--~~~----~~  176 (574)
                      .|......|...|++++|++.|++.++.    |.+++ ..+++.+..+|.+.|++++|+..|++.....  ..+    ..
T Consensus        39 ~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~  118 (292)
T 1qqe_A           39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (292)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            3444455555666666666666655432    11111 2345555555555555555555555443220  001    22


Q ss_pred             HHHHHHHHHHhc-CChhHHHHHHHHHH
Q 043999          177 SFGILIKGCCEA-GDLNKAFEVLNQLE  202 (574)
Q Consensus       177 ~~~~li~~~~~~-g~~~~A~~~~~~m~  202 (574)
                      +++.+...|... |++++|++.|++..
T Consensus       119 ~~~~lg~~~~~~lg~~~~A~~~~~~Al  145 (292)
T 1qqe_A          119 FKFELGEILENDLHDYAKAIDCYELAG  145 (292)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            344444444443 44444444444443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.15  E-value=1.5e-08  Score=93.24  Aligned_cols=244  Identities=10%  Similarity=-0.031  Sum_probs=148.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChh
Q 043999          113 IDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLN  192 (574)
Q Consensus       113 i~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  192 (574)
                      |+-..-.|++..++.-...+.   ........-.+.+++...|+++..        ....|....+..+...+ . ++  
T Consensus        20 ikn~fy~G~yq~~i~e~~~~~---~~~~~~~~~~~~Rs~iAlg~~~~~--------~~~~~~~~a~~~la~~~-~-~~--   84 (310)
T 3mv2_B           20 IKQNYYTGNFVQCLQEIEKFS---KVTDNTLLFYKAKTLLALGQYQSQ--------DPTSKLGKVLDLYVQFL-D-TK--   84 (310)
T ss_dssp             HHHHHTTTCHHHHTHHHHTSS---CCCCHHHHHHHHHHHHHTTCCCCC--------CSSSTTHHHHHHHHHHH-T-TT--
T ss_pred             HHHHHHhhHHHHHHHHHHhcC---ccchHHHHHHHHHHHHHcCCCccC--------CCCCHHHHHHHHHHHHh-c-cc--
Confidence            344446788888877333221   111223333345777777776642        11234444555444443 2 22  


Q ss_pred             HHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          193 KAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGL-VATQHTYTVLICGLFKNGLQKDGFEFYEKM  271 (574)
Q Consensus       193 ~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  271 (574)
                       |+..|++..+.+ .++..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.+++|
T Consensus        85 -a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 -NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             -CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             -HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence             677777776654 34556666777888888888888888888766553 125667777788888888888888888888


Q ss_pred             HHCCCCC-----CHhhHHHHHHH--HHhcC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          272 QLNGVSP-----SLYTYNCLIHE--YCNEG--KVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMK  342 (574)
Q Consensus       272 ~~~g~~p-----~~~~~~~li~~--~~~~g--~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~  342 (574)
                      .+.  .|     +..+...++.+  ....|  +..+|..+|+++.+..  |+..+-..++.++.+.|++++|.+.++.+.
T Consensus       163 ~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~--p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          163 TNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTF--PTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTS--CSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             Hhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhC--CCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            764  45     24555555555  22233  7888888888876552  232233344447777888888888887655


Q ss_pred             HC-----C----CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          343 MA-----G----ISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSN  379 (574)
Q Consensus       343 ~~-----g----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  379 (574)
                      +.     .    -+.|..+...+|......|+  +|.++++++.+.
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence            42     0    03355555455555555665  677777777775

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.14  E-value=2.3e-09  Score=87.08  Aligned_cols=130  Identities=18%  Similarity=0.210  Sum_probs=92.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHh
Q 043999          108 LYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCE  187 (574)
Q Consensus       108 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~  187 (574)
                      +|..+...+...|++++|..+|+++.+.+ +.+..++..+...+...|++++|...|+++....+.+...+..++..+..
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHH
Confidence            46777888888888888888888887654 33566677777777777777777777777766556666777777777777


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043999          188 AGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGEL  239 (574)
Q Consensus       188 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  239 (574)
                      .|++++|.+.++++.+.. +.+..++..+...+.+.|++++|...++++.+.
T Consensus        82 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            777777777777776643 224556666777777777777777777766554

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.12  E-value=3.9e-09  Score=97.27  Aligned_cols=101  Identities=11%  Similarity=-0.039  Sum_probs=68.3

Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhcCChhHHHHHHHHcccCCC---CCHH
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPR---SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVE---LDVY  176 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~---~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~---~~~~  176 (574)
                      +.++..+-.+...+.+.|++++|+..|+++++.. +.+   ..++..+..++.+.|++++|+..|++.....|   ....
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~   90 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQ   90 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHH
Confidence            4456677777778888888888888888887753 112   45566667777777777777777777665422   2245


Q ss_pred             HHHHHHHHHHh--------cCChhHHHHHHHHHHHC
Q 043999          177 SFGILIKGCCE--------AGDLNKAFEVLNQLEEM  204 (574)
Q Consensus       177 ~~~~li~~~~~--------~g~~~~A~~~~~~m~~~  204 (574)
                      ++..+..++.+        .|++++|.+.|+++.+.
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~  126 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR  126 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH
Confidence            56666666666        67777777777776654

>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=99.11  E-value=4.8e-09  Score=85.20  Aligned_cols=129  Identities=16%  Similarity=0.205  Sum_probs=81.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 043999          423 YTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCK  502 (574)
Q Consensus       423 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~  502 (574)
                      +..+...+...|++++|..+++.+.+.. +.+...+..+...+...|++++|...++++..... .+...+..+...+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCC-CchHHHHHHHHHHHH
Confidence            4455555666666666666666665543 33455566666666666677777777666665432 245566666666777


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043999          503 EGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       503 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      .|++++|.++++++.+.. +.+..++..+...+.+.|++++|...++++.+.
T Consensus        82 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            777777777777766642 334556666677777777777777777777654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.10  E-value=3.2e-09  Score=97.91  Aligned_cols=195  Identities=7%  Similarity=-0.070  Sum_probs=151.3

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCC---HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCC-CCC-HHhH
Q 043999          139 PRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELD---VYSFGILIKGCCEAGDLNKAFEVLNQLEEMGF-SPN-VVIY  213 (574)
Q Consensus       139 p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~-~~~~  213 (574)
                      .+...+-.+...+.+.|++++|...|+++....|.+   ..++..+...|.+.|++++|.+.|++..+... .|. ...+
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            356677778888999999999999999998876666   78899999999999999999999999998532 112 4567


Q ss_pred             HHHHHHHHh--------cCCHHHHHHHHHHHHhCCCCCChhhH-----------------HHHHHHHHhcCCHHHHHHHH
Q 043999          214 TSLIDGCCK--------NGDIERAKMLFRKIGELGLVATQHTY-----------------TVLICGLFKNGLQKDGFEFY  268 (574)
Q Consensus       214 ~~li~~~~~--------~g~~~~A~~~~~~~~~~~~~~~~~~~-----------------~~li~~~~~~g~~~~a~~~~  268 (574)
                      ..+..++.+        .|++++|+..|+++.+..+. +....                 ..+...|.+.|++++|+..|
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  171 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPN-HELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTY  171 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTT-CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcC-chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHH
Confidence            788888888        99999999999999886543 33344                 55688999999999999999


Q ss_pred             HHHHHCCCCC--CHhhHHHHHHHHHhc----------CCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHH
Q 043999          269 EKMQLNGVSP--SLYTYNCLIHEYCNE----------GKVSEGFKLFDEMRHREVACN--VVTYNTLICGLCKEMRVQEA  334 (574)
Q Consensus       269 ~~~~~~g~~p--~~~~~~~li~~~~~~----------g~~~~A~~~~~~m~~~~~~~~--~~~~~~li~~~~~~~~~~~A  334 (574)
                      +++.+.....  ....+..+..+|...          |++++|...|+++.+..+...  ......+...+.+.++++++
T Consensus       172 ~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~l~~~~~~~~~~~~~  251 (261)
T 3qky_A          172 EAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLRTAEELYTRARQRLTELEGD  251 (261)
T ss_dssp             HHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHHHHhhhh
Confidence            9998763221  234677788888866          899999999999988754422  23445555555555555543

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.09  E-value=2.8e-09  Score=91.62  Aligned_cols=163  Identities=14%  Similarity=0.032  Sum_probs=113.3

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHH-H
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKG-C  185 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~-~  185 (574)
                      ..+..+...+.+.|++++|+..|++.++.. +.+...+..+..++.+.|++++|+..|+++....| +...+..+... +
T Consensus         7 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~   84 (176)
T 2r5s_A            7 EQLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEYQ-DNSYKSLIAKLEL   84 (176)
T ss_dssp             TTHHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC-ChHHHHHHHHHHH
Confidence            346677778888888889988888877653 33567788888888888888888888888776655 55544433322 1


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-ChhhHHHHHHHHHhcCCHHHH
Q 043999          186 CEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVA-TQHTYTVLICGLFKNGLQKDG  264 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a  264 (574)
                      ...++..+|.+.+++..+... .+...+..+...+...|++++|...|+++.+..+.+ +...+..+...+...|+.++|
T Consensus        85 ~~~~~~~~a~~~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAANP-DNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             HhhcccchHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            222334456777777776432 246677777788888888888888888877765432 345677777777777777777


Q ss_pred             HHHHHHHH
Q 043999          265 FEFYEKMQ  272 (574)
Q Consensus       265 ~~~~~~~~  272 (574)
                      ...|++.+
T Consensus       164 ~~~y~~al  171 (176)
T 2r5s_A          164 ASKYRRQL  171 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77777654

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.08  E-value=7.8e-08  Score=89.47  Aligned_cols=171  Identities=9%  Similarity=-0.013  Sum_probs=93.6

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--ChhHHHHHHHHcccCCCCCHHHHHHHHHHH----Hhc---CCh
Q 043999          121 LSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSC--SFDKGWLFFSENRCKVELDVYSFGILIKGC----CEA---GDL  191 (574)
Q Consensus       121 ~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~li~~~----~~~---g~~  191 (574)
                      ..++|+..++.++..+ +-+..+|+.-..++...|  ++++++..++.+....|.+..+|+.-...+    ...   +++
T Consensus        48 ~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~  126 (306)
T 3dra_A           48 YSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDP  126 (306)
T ss_dssp             CSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCT
T ss_pred             CCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCH
Confidence            3356777777777653 224555666666666666  677777777766666666666666665555    444   556


Q ss_pred             hHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHH--HHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCC------HHH
Q 043999          192 NKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIE--RAKMLFRKIGELGLVATQHTYTVLICGLFKNGL------QKD  263 (574)
Q Consensus       192 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~--~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~------~~~  263 (574)
                      +++++.++++.+... .|..+|+.-.-.+.+.|+++  ++++.++++.+.++. |..+|+.-...+.+.+.      +++
T Consensus       127 ~~EL~~~~~~l~~~p-kny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~e  204 (306)
T 3dra_A          127 YREFDILEAMLSSDP-KNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDE  204 (306)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHH
T ss_pred             HHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHH
Confidence            666666666665432 25555555555555556555  666666666555443 44555544444444443      444


Q ss_pred             HHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCC
Q 043999          264 GFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGK  295 (574)
Q Consensus       264 a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~  295 (574)
                      +++.+++++... +-|...|+-+-..+.+.|+
T Consensus       205 El~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~  235 (306)
T 3dra_A          205 ELNYVKDKIVKC-PQNPSTWNYLLGIHERFDR  235 (306)
T ss_dssp             HHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhC-CCCccHHHHHHHHHHhcCC
Confidence            444444444332 1234444444444444443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.07  E-value=4.6e-09  Score=92.99  Aligned_cols=94  Identities=18%  Similarity=0.230  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHH----------------HHHHHHhcCChhHHHHHHHHcccC
Q 043999          108 LYESIIDAHLKSRLSDQALFYFHQMLDSGVRPR-SNTFNS----------------LLIFVIKSCSFDKGWLFFSENRCK  170 (574)
Q Consensus       108 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~----------------ll~~~~~~g~~~~A~~~~~~~~~~  170 (574)
                      .+......+.+.|++++|+..|++.++..  |+ ...+..                +..++.+.|++++|+..|++....
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   83 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIALN--IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK   83 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            34455667778899999999999988753  33 334443                444444444444444444444444


Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 043999          171 VELDVYSFGILIKGCCEAGDLNKAFEVLNQLEE  203 (574)
Q Consensus       171 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  203 (574)
                      .|.+..++..+...+...|++++|.+.|++..+
T Consensus        84 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  116 (208)
T 3urz_A           84 APNNVDCLEACAEMQVCRGQEKDALRMYEKILQ  116 (208)
T ss_dssp             CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444444444444444444444444444444444

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.07  E-value=6.6e-09  Score=92.00  Aligned_cols=135  Identities=11%  Similarity=0.092  Sum_probs=79.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 043999          426 LIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGN  505 (574)
Q Consensus       426 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  505 (574)
                      +..++.+.|++++|...|++..+.. +.+...+..+...+...|++++|+..|+++++..+. +..+|..+...|...|+
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~  137 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTAE  137 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHhH
Confidence            5666677777777777777776653 445666777777777777777777777777765332 56666666666655443


Q ss_pred             --HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 043999          506 --SYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNIL  566 (574)
Q Consensus       506 --~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  566 (574)
                        .+.+...++....  ..|....+.....++...|++++|...|++.++.  .|+......|
T Consensus       138 ~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~~l  196 (208)
T 3urz_A          138 QEKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQKTL  196 (208)
T ss_dssp             HHHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHHHH
Confidence              3344444444432  2222223333444555667777777777777643  5665554444

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.07  E-value=9.7e-08  Score=88.85  Aligned_cols=233  Identities=10%  Similarity=-0.009  Sum_probs=186.6

Q ss_pred             ChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcC--ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHH----Hhc---CCH
Q 043999          156 SFDKGWLFFSENRCKVELDVYSFGILIKGCCEAG--DLNKAFEVLNQLEEMGFSPNVVIYTSLIDGC----CKN---GDI  226 (574)
Q Consensus       156 ~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~----~~~---g~~  226 (574)
                      ..++|+.+++.+....|.+..+|+.-...+...|  +++++++.++.+.....+ +..+|+.--..+    .+.   +++
T Consensus        48 ~s~~aL~~t~~~L~~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~~  126 (306)
T 3dra_A           48 YSERALHITELGINELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFDP  126 (306)
T ss_dssp             CSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCCT
T ss_pred             CCHHHHHHHHHHHHHCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCCH
Confidence            3468899999988878889999999999999999  999999999999986533 566777665555    555   789


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHH--HHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCC------HHH
Q 043999          227 ERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQK--DGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGK------VSE  298 (574)
Q Consensus       227 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~--~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~------~~~  298 (574)
                      ++++++++++.+.++. +..+|+.-.-.+.+.|.++  ++++.++++++.... |-..|+.-...+.+.+.      +++
T Consensus       127 ~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~e  204 (306)
T 3dra_A          127 YREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDE  204 (306)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHH
Confidence            9999999999988765 8888988888888899888  999999999987543 77788877777777776      899


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHCC--CCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          299 GFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQE-AERLLDQMKMAG--ISPNVITYNKLIDGFCDAGETDKAFRLFNQ  375 (574)
Q Consensus       299 A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~-A~~~~~~m~~~g--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  375 (574)
                      +++.++.+....+. |...|+-+-..+.+.|+..+ +..+.+.+.+.+  -+.+...+..+.+.|.+.|+.++|.++++.
T Consensus       205 El~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~  283 (306)
T 3dra_A          205 ELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDL  283 (306)
T ss_dssp             HHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Confidence            99999999988777 99999999888888888444 555666665432  245778899999999999999999999999


Q ss_pred             HHHCCCCCCHHHHHHHH
Q 043999          376 LKSNGQSPSVVTYNVLI  392 (574)
Q Consensus       376 ~~~~g~~~~~~~~~~li  392 (574)
                      +.+.--+.....|+..+
T Consensus       284 l~~~~Dpir~~yW~~~~  300 (306)
T 3dra_A          284 LKSKYNPIRSNFWDYQI  300 (306)
T ss_dssp             HHHTTCGGGHHHHHHHH
T ss_pred             HHhccChHHHHHHHHHH
Confidence            98731122444555443

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.04  E-value=2.6e-09  Score=112.58  Aligned_cols=171  Identities=14%  Similarity=0.005  Sum_probs=93.6

Q ss_pred             HhcCChhHHHHHHHHcc--------cCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhc
Q 043999          152 IKSCSFDKGWLFFSENR--------CKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKN  223 (574)
Q Consensus       152 ~~~g~~~~A~~~~~~~~--------~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  223 (574)
                      ...|++++|++.+++..        ...+.+...+..+...+.+.|++++|.+.|++..+... .+...|..+..++.+.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVG-WRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCc-chHHHHHHHHHHHHHc
Confidence            45566666666666655        33455555666666666666666666666666655421 2445555666666666


Q ss_pred             CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHH
Q 043999          224 GDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLF  303 (574)
Q Consensus       224 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  303 (574)
                      |++++|++.|++..+..+. +...|..+..++.+.|++++ ++.|++..+.. +.+...|..+...+.+.|++++|.+.|
T Consensus       481 g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            6666666666666554432 44555555566666666666 66665555442 124445555555566666666666666


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHh
Q 043999          304 DEMRHREVACNVVTYNTLICGLCK  327 (574)
Q Consensus       304 ~~m~~~~~~~~~~~~~~li~~~~~  327 (574)
                      ++..+..+. +...+..+..++..
T Consensus       558 ~~al~l~P~-~~~a~~~~~~~~~~  580 (681)
T 2pzi_A          558 DEVPPTSRH-FTTARLTSAVTLLS  580 (681)
T ss_dssp             HTSCTTSTT-HHHHHHHHHHHTC-
T ss_pred             HhhcccCcc-cHHHHHHHHHHHHc
Confidence            555444322 33444444444433

>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=99.03  E-value=2.6e-09  Score=112.61  Aligned_cols=173  Identities=7%  Similarity=-0.122  Sum_probs=147.4

Q ss_pred             HhcCChHHHHHHHHHHH--------hCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhc
Q 043999          117 LKSRLSDQALFYFHQML--------DSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEA  188 (574)
Q Consensus       117 ~~~g~~~~A~~~~~~~~--------~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~  188 (574)
                      ...|++++|++.|++.+        +.. +.+...+..+...+.+.|++++|+..|+++....+.+...|..+...+.+.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHc
Confidence            78899999999999998        432 346778888999999999999999999999888788999999999999999


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 043999          189 GDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFY  268 (574)
Q Consensus       189 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  268 (574)
                      |++++|.+.|++..+... .+...+..+..++.+.|++++ ++.|++..+.++. +...|..+..++.+.|++++|++.|
T Consensus       481 g~~~~A~~~~~~al~l~P-~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTFP-GELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHHST-TCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999999999998642 267789999999999999999 9999999887654 6788999999999999999999999


Q ss_pred             HHHHHCCCCCC-HhhHHHHHHHHHhcCC
Q 043999          269 EKMQLNGVSPS-LYTYNCLIHEYCNEGK  295 (574)
Q Consensus       269 ~~~~~~g~~p~-~~~~~~li~~~~~~g~  295 (574)
                      ++..+.  .|+ ...+..+..++...++
T Consensus       558 ~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             Hhhccc--CcccHHHHHHHHHHHHccCC
Confidence            998875  444 5677777777766554

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.03  E-value=1.5e-06  Score=87.31  Aligned_cols=357  Identities=10%  Similarity=-0.031  Sum_probs=204.8

Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-hhHHHHHHHHcccC---CCCCHHHHHHHHHHHH----hcCCh
Q 043999          120 RLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCS-FDKGWLFFSENRCK---VELDVYSFGILIKGCC----EAGDL  191 (574)
Q Consensus       120 g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~-~~~A~~~~~~~~~~---~~~~~~~~~~li~~~~----~~g~~  191 (574)
                      |+++.+..+|++.+..  .|+...|...+....+.+. .+....+|+.....   .+.+...|...+..+.    ..|++
T Consensus        28 ~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~  105 (493)
T 2uy1_A           28 KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRI  105 (493)
T ss_dssp             TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHH
T ss_pred             CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHH
Confidence            7788888888888774  4688888888777766653 34556677766553   2446677777776544    24567


Q ss_pred             hHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          192 NKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKM  271 (574)
Q Consensus       192 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  271 (574)
                      +.+.++|++.+......-...|...... .+......+..+..+..                     +.+..|...++.+
T Consensus       106 ~~vR~iy~rAL~~P~~~~~~lw~~Y~~f-E~~~~~~~~~~~~~~~~---------------------~~y~~ar~~y~~~  163 (493)
T 2uy1_A          106 EKIRNGYMRALQTPMGSLSELWKDFENF-ELELNKITGKKIVGDTL---------------------PIFQSSFQRYQQI  163 (493)
T ss_dssp             HHHHHHHHHHHTSCCTTHHHHHHHHHHH-HHHHCHHHHHHHHHHHH---------------------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhChhhhHHHHHHHHHHH-HHHhccccHHHHHHHHh---------------------HHHHHHHHHHHHH
Confidence            7788888888763111001112111111 11111112222221111                     1222233333332


Q ss_pred             HHCCCCCCHhhHHHHHHHHHhcC--C-----HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          272 QLNGVSPSLYTYNCLIHEYCNEG--K-----VSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMA  344 (574)
Q Consensus       272 ~~~g~~p~~~~~~~li~~~~~~g--~-----~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  344 (574)
                      ...-...+...|...+..-...+  -     .+.+..+|+++....+. +...|...+..+.+.|+.+.|..++++....
T Consensus       164 ~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~p~-~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~  242 (493)
T 2uy1_A          164 QPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSFYY-AEEVYFFYSEYLIGIGQKEKAKKVVERGIEM  242 (493)
T ss_dssp             HHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            21100012334444444322211  0     23456777777765333 5777887888788888888888888888876


Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC---------C---CCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 043999          345 GISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNG---------Q---SPSVVTYNVLIRAFSKAGNSKMASDLVREME  412 (574)
Q Consensus       345 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g---------~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  412 (574)
                        +.+...+..    |....+.++.   ++.+.+.-         .   ......|...+....+.+..+.|..+|.+. 
T Consensus       243 --P~~~~l~~~----y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-  312 (493)
T 2uy1_A          243 --SDGMFLSLY----YGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-  312 (493)
T ss_dssp             --CCSSHHHHH----HHHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-
T ss_pred             --CCcHHHHHH----HHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-
Confidence              333332221    2221111111   22222110         0   011245666777777788899999999999 


Q ss_pred             HCCCCCCHhHHHHHHHHHHh-cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 043999          413 ERGITPSEVTYTILIDSFVR-SDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDV  491 (574)
Q Consensus       413 ~~~~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  491 (574)
                      +. ...+...|......-.. .++.+.|..+|+...+.. +.++..+...++...+.|+.+.|..+|+.+.     ....
T Consensus       313 ~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~  385 (493)
T 2uy1_A          313 GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSR  385 (493)
T ss_dssp             TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHH
T ss_pred             hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHH
Confidence            32 12244444432222222 336999999999988753 3345556667787888999999999999973     2577


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          492 VYNMMIFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       492 ~~~~li~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      .|...+.--...|+.+.+..+++++.+
T Consensus       386 lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          386 MWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            888888877888999999998888874

>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=99.02  E-value=5.2e-08  Score=86.41  Aligned_cols=176  Identities=13%  Similarity=0.048  Sum_probs=91.1

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcC----CHHHHHHHHH
Q 043999          369 AFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSD----DMEKAFEMYS  444 (574)
Q Consensus       369 A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g----~~~~A~~~~~  444 (574)
                      |.+.|++..+.|   +...+..+...|...+++++|...|++..+.|   +...+..+...|.. +    ++++|.+.|+
T Consensus         5 A~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~   77 (212)
T 3rjv_A            5 PGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAE   77 (212)
T ss_dssp             TTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHH
Confidence            344444444432   44444445555555555555555555555443   33344444444444 3    5555555555


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHh----cCCHHHHHHHHHH
Q 043999          445 LMQKSGFSPDVYTYGVLIHGLCM----KGNMKEASKLFNSMWETKLE-PNDVVYNMMIFGYCK----EGNSYRALRLLGE  515 (574)
Q Consensus       445 ~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~-p~~~~~~~li~~~~~----~g~~~~A~~~~~~  515 (574)
                      +..+.|   +...+..|...|..    .+++++|.+.|++..+.+.. .+...+..|...|..    .+++++|+.+|++
T Consensus        78 ~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           78 KAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            555433   34444555555544    55666666666666554321 014555566666655    5566666666666


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhc-C-----CHHHHHHHHHHHHHcCC
Q 043999          516 MNEKGLVPNIASYSSTIGVLCQD-G-----KWPEAEVLLNQMLKLGL  556 (574)
Q Consensus       516 m~~~g~~p~~~~~~~l~~~~~~~-g-----~~~~A~~~~~~m~~~g~  556 (574)
                      ..+.  .++...+..+...|... |     +.++|..++++..+.|.
T Consensus       155 A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          155 SSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            6654  12333445555555432 2     56666666666666553

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.02  E-value=1.4e-08  Score=94.78  Aligned_cols=162  Identities=7%  Similarity=-0.067  Sum_probs=84.4

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHH-HHHHH
Q 043999          142 NTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTS-LIDGC  220 (574)
Q Consensus       142 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~-li~~~  220 (574)
                      ..+..+...+.+.|++++|...|++.....|.+...+..+...+.+.|++++|.+.++++.+.  .|+...... ....+
T Consensus       118 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~~l  195 (287)
T 3qou_A          118 ELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQIEL  195 (287)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHHHH
Confidence            344444455555566666665555555555555555555555566666666666665555443  233222221 12224


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHhhHHHHHHHHHhcCCHHHH
Q 043999          221 CKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSP-SLYTYNCLIHEYCNEGKVSEG  299 (574)
Q Consensus       221 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A  299 (574)
                      .+.++.++|...+++.....+. +...+..+...+...|++++|++.|.++.+..... +...+..++..+...|+.++|
T Consensus       196 ~~~~~~~~a~~~l~~al~~~P~-~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a  274 (287)
T 3qou_A          196 LXQAADTPEIQQLQQQVAENPE-DAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDAL  274 (287)
T ss_dssp             HHHHTSCHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHH
T ss_pred             HhhcccCccHHHHHHHHhcCCc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcH
Confidence            4455555555555555554432 45555555566666666666666666555542111 134555566666666666666


Q ss_pred             HHHHHHH
Q 043999          300 FKLFDEM  306 (574)
Q Consensus       300 ~~~~~~m  306 (574)
                      ...|++.
T Consensus       275 ~~~~r~a  281 (287)
T 3qou_A          275 ASXYRRQ  281 (287)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555543

>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=99.01  E-value=6.4e-09  Score=89.36  Aligned_cols=161  Identities=5%  Similarity=-0.109  Sum_probs=105.1

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHH-HHh
Q 043999          144 FNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDG-CCK  222 (574)
Q Consensus       144 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~-~~~  222 (574)
                      +..+...+.+.|++++|...|++.....|.+...+..+...+.+.|++++|.+.+++..+..  |+...+..+... +..
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            44556677788888888888888877767788888888888888888888888888876643  343333222211 122


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHhhHHHHHHHHHhcCCHHHHHH
Q 043999          223 NGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSP-SLYTYNCLIHEYCNEGKVSEGFK  301 (574)
Q Consensus       223 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~  301 (574)
                      .++..+|...+++..+..+. +...+..+...+...|++++|...|+++.+....+ +...+..+...+...|+.++|..
T Consensus        87 ~~~~~~a~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~  165 (176)
T 2r5s_A           87 QAAESPELKRLEQELAANPD-NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIAS  165 (176)
T ss_dssp             HHTSCHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHH
T ss_pred             hcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHH
Confidence            22333466667766665433 45666667777777777777777777776653222 24456666677777777777776


Q ss_pred             HHHHHH
Q 043999          302 LFDEMR  307 (574)
Q Consensus       302 ~~~~m~  307 (574)
                      .|++..
T Consensus       166 ~y~~al  171 (176)
T 2r5s_A          166 KYRRQL  171 (176)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            666544

>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=99.01  E-value=4.6e-08  Score=86.78  Aligned_cols=175  Identities=16%  Similarity=0.049  Sum_probs=80.7

Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcC----CHHHHHHHHH
Q 043999          194 AFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNG----LQKDGFEFYE  269 (574)
Q Consensus       194 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g----~~~~a~~~~~  269 (574)
                      |.+.|++..+.|   +...+..|...|...+++++|++.|++..+.|   +...+..|...|.. +    +.++|+++|+
T Consensus         5 A~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~   77 (212)
T 3rjv_A            5 PGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAE   77 (212)
T ss_dssp             TTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHH
Confidence            444444444432   44444445555555555555555555554433   33444444444444 3    4555555555


Q ss_pred             HHHHCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHh----cCCHHHHHHHHHH
Q 043999          270 KMQLNGVSPSLYTYNCLIHEYCN----EGKVSEGFKLFDEMRHREVA-CNVVTYNTLICGLCK----EMRVQEAERLLDQ  340 (574)
Q Consensus       270 ~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~-~~~~~~~~li~~~~~----~~~~~~A~~~~~~  340 (574)
                      +..+.|   +...+..|...|..    .+++++|.+.|++..+.+.. .++..+..|...|..    .+++++|+..|++
T Consensus        78 ~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           78 KAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            554432   33444444444443    44555555555555444321 013444444444444    4455555555555


Q ss_pred             HHHCCCCCChhhHHHHHHHHHhc-C-----CHHHHHHHHHHHHHCC
Q 043999          341 MKMAGISPNVITYNKLIDGFCDA-G-----ETDKAFRLFNQLKSNG  380 (574)
Q Consensus       341 m~~~g~~~~~~~~~~li~~~~~~-g-----~~~~A~~~~~~~~~~g  380 (574)
                      ..+.  +.+...+..|..+|... |     ++++|.++|++..+.|
T Consensus       155 A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          155 SSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            5443  12333444444444432 1     4555555555554443

>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=99.00  E-value=1.2e-09  Score=91.02  Aligned_cols=143  Identities=13%  Similarity=-0.002  Sum_probs=82.3

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhH
Q 043999          114 DAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNK  193 (574)
Q Consensus       114 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  193 (574)
                      ..+...|++++|+..+++..... +.+...+-.+...|.+.|++++|++.|++.....|.+..+|..+...|.+.|++++
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCchHH
Confidence            34445566677777666665431 11233444566666666777777666666666556666666666666666666666


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHH-HHHHHhCCCCCChhhHHHHHHHHHhcC
Q 043999          194 AFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKML-FRKIGELGLVATQHTYTVLICGLFKNG  259 (574)
Q Consensus       194 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~-~~~~~~~~~~~~~~~~~~li~~~~~~g  259 (574)
                      |+..|++..+... -+..++..+...|.+.|++++|.+. +++..+..+. ++.+|......+...|
T Consensus        84 A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~-~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           84 AVECYRRSVELNP-TQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPG-SPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhC
Confidence            6666666665431 1455666666666666666555443 3555554432 4445555555544444

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.99  E-value=3.3e-08  Score=88.69  Aligned_cols=185  Identities=10%  Similarity=-0.051  Sum_probs=123.3

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-CC-HHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCH---HHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVR-PR-SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDV---YSFGI  180 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~-p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~  180 (574)
                      +..+..+...+.+.|++++|+..|+++++.... |. ...+..+..++.+.|++++|+..|+++....|.+.   .++..
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            445667788899999999999999999875321 11 35677788899999999999999999887644443   25555


Q ss_pred             HHHHHHh------------------cCChhHHHHHHHHHHHCCCCCCHH-hHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 043999          181 LIKGCCE------------------AGDLNKAFEVLNQLEEMGFSPNVV-IYTSLIDGCCKNGDIERAKMLFRKIGELGL  241 (574)
Q Consensus       181 li~~~~~------------------~g~~~~A~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~~~  241 (574)
                      +..++.+                  .|++++|...|+++.+..  |+.. .+......          ..+...+.    
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l----------~~~~~~~~----  147 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRL----------VFLKDRLA----  147 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHH----------HHHHHHHH----
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHH----------HHHHHHHH----
Confidence            6665554                  456666666666666532  3221 11111000          00000000    


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 043999          242 VATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPS----LYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVA  312 (574)
Q Consensus       242 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  312 (574)
                          .....+...|.+.|++++|+..|+++++..  |+    ...+..+..+|.+.|+.++|.+.++.+...++.
T Consensus       148 ----~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          148 ----KYEYSVAEYYTERGAWVAVVNRVEGMLRDY--PDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSN  216 (225)
T ss_dssp             ----HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSC
T ss_pred             ----HHHHHHHHHHHHcCcHHHHHHHHHHHHHHC--cCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC
Confidence                012345677888899999999999888763  33    246777888899999999999999888776544

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.97  E-value=2.1e-09  Score=89.52  Aligned_cols=121  Identities=11%  Similarity=-0.052  Sum_probs=61.9

Q ss_pred             HHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHH
Q 043999          151 VIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAK  230 (574)
Q Consensus       151 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  230 (574)
                      +...|++++|++.++......|.+...+..+...|.+.|++++|++.|++..+... -+..+|..+..+|.+.|++++|+
T Consensus         7 ~~~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~A~   85 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQE-RDPKAHRFLGLLYELEENTDKAV   85 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCchHHHH
Confidence            33445555555555555444333444445555555555555555555555555421 24445555555555555555555


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHH-HHHHHH
Q 043999          231 MLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEF-YEKMQL  273 (574)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~-~~~~~~  273 (574)
                      ..|++..+.++. +..+|..+...|.+.|+.++|.+. +++..+
T Consensus        86 ~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~aa~~~~~~al~  128 (150)
T 4ga2_A           86 ECYRRSVELNPT-QKDLVLKIAELLCKNDVTDGRAKYWVERAAK  128 (150)
T ss_dssp             HHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            555555554332 344555555555555555444333 344443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.96  E-value=7.1e-08  Score=86.47  Aligned_cols=186  Identities=9%  Similarity=-0.045  Sum_probs=120.9

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCC---HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-CH-HhHHH
Q 043999          141 SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELD---VYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSP-NV-VIYTS  215 (574)
Q Consensus       141 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~-~~~~~  215 (574)
                      ...+..+...+.+.|++++|...|+++....|.+   ..++..++.++.+.|++++|++.|+++.+..... .. ..+..
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            3445556667788888888888888877653333   3567778888888888888888888887753221 11 13444


Q ss_pred             HHHHHHh------------------cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 043999          216 LIDGCCK------------------NGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVS  277 (574)
Q Consensus       216 li~~~~~------------------~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~  277 (574)
                      +..++.+                  .|++++|...|+++.+..+. +...+.......          .+...+.     
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~-~~~a~~a~~~l~----------~~~~~~~-----  147 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPN-SQYTTDATKRLV----------FLKDRLA-----  147 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTT-CTTHHHHHHHHH----------HHHHHHH-----
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcC-ChhHHHHHHHHH----------HHHHHHH-----
Confidence            4444443                  45666666666666654322 222222111100          0000000     


Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          278 PSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACN--VVTYNTLICGLCKEMRVQEAERLLDQMKMAG  345 (574)
Q Consensus       278 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~--~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g  345 (574)
                         .....+...|.+.|++++|...|+++.+..+...  ...+..+..++.+.|+.++|...++.+...+
T Consensus       148 ---~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          148 ---KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             ---HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             ---HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence               1123567789999999999999999988754421  2568889999999999999999999988874

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.95  E-value=1.5e-08  Score=94.67  Aligned_cols=167  Identities=10%  Similarity=-0.021  Sum_probs=114.1

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhh-HHH
Q 043999          172 ELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHT-YTV  250 (574)
Q Consensus       172 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~  250 (574)
                      +.+...+..+...+.+.|++++|...|++..+... -+...+..+...+.+.|++++|...++++....  |+... ...
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSN-QNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT-SCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCC-cchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHH
Confidence            45566677777777778888888888887776532 255677777777888888888888887776554  33322 222


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcC
Q 043999          251 LICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVAC-NVVTYNTLICGLCKEM  329 (574)
Q Consensus       251 li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~-~~~~~~~li~~~~~~~  329 (574)
                      ....+.+.++.++|...+++..... +.+...+..+...|...|++++|...|+++.+..+.. +...+..++..+...|
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            2233556677777777777777653 3356677777777888888888888888777765442 2566777777777778


Q ss_pred             CHHHHHHHHHHHH
Q 043999          330 RVQEAERLLDQMK  342 (574)
Q Consensus       330 ~~~~A~~~~~~m~  342 (574)
                      +.++|...|++..
T Consensus       270 ~~~~a~~~~r~al  282 (287)
T 3qou_A          270 TGDALASXYRRQL  282 (287)
T ss_dssp             TTCHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHH
Confidence            8777777777654

>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=98.92  E-value=2.9e-08  Score=102.74  Aligned_cols=154  Identities=10%  Similarity=-0.090  Sum_probs=115.3

Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHH
Q 043999          119 SRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVL  198 (574)
Q Consensus       119 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  198 (574)
                      .|++++|++.|++.++.. +.+...+..+...+.+.|++++|.+.|++.....+.+..++..+...|.+.|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            578899999999988763 3357788888889999999999999999988877788889999999999999999999999


Q ss_pred             HHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc---CCHHHHHHHHHHHHHCC
Q 043999          199 NQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKN---GLQKDGFEFYEKMQLNG  275 (574)
Q Consensus       199 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~~~~~g  275 (574)
                      ++..+.. +.+...+..+...|.+.|++++|.+.+++..+.... +...+..+...+...   |+.++|.+.+++..+.+
T Consensus        81 ~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPE-EPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            9988764 235778888999999999999999999998876543 677888888889888   99999999999888764

>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=98.91  E-value=3.1e-08  Score=102.52  Aligned_cols=148  Identities=9%  Similarity=-0.030  Sum_probs=126.7

Q ss_pred             CCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHH
Q 043999          102 PVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGIL  181 (574)
Q Consensus       102 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l  181 (574)
                      .+.+...|..+...|.+.|++++|++.|++.++.. +.+..++..+...+.+.|++++|.+.|++.....+.+...+..+
T Consensus        19 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l   97 (568)
T 2vsy_A           19 RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLLQQASDAAPEHPGIALWL   97 (568)
T ss_dssp             --CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            34567899999999999999999999999999874 34688899999999999999999999999988778889999999


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhc---CCHHHHHHHHHHHHhCCCCCChhhHHHHH
Q 043999          182 IKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKN---GDIERAKMLFRKIGELGLVATQHTYTVLI  252 (574)
Q Consensus       182 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~---g~~~~A~~~~~~~~~~~~~~~~~~~~~li  252 (574)
                      ...|.+.|++++|.+.+++..+... .+...+..+...+...   |+.++|.+.+++..+.+.. +...|..+.
T Consensus        98 a~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~  169 (568)
T 2vsy_A           98 GHALEDAGQAEAAAAAYTRAHQLLP-EEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQGVG-AVEPFAFLS  169 (568)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHTCC-CSCHHHHTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcCCc-ccChHHHhC
Confidence            9999999999999999999988642 3677889999999999   9999999999999887644 344444443

>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=98.90  E-value=4.5e-08  Score=92.48  Aligned_cols=130  Identities=10%  Similarity=-0.011  Sum_probs=71.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC---CC--CHH
Q 043999          387 TYNVLIRAFSKAGNSKMASDLVREMEER----GITP-SEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGF---SP--DVY  456 (574)
Q Consensus       387 ~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~---~~--~~~  456 (574)
                      +|+.+...|.+.|++++|...+++..+.    |-.. -..++..+...|.. |++++|...|++..+...   .+  ...
T Consensus        78 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~  156 (307)
T 2ifu_A           78 AFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAE  156 (307)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHH
Confidence            4445555555566666666666554432    1000 12345555566656 777777776666543210   00  134


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          457 TYGVLIHGLCMKGNMKEASKLFNSMWET----KLEPN-DVVYNMMIFGYCKEGNSYRALRLLGEMN  517 (574)
Q Consensus       457 ~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~  517 (574)
                      ++..+...|.+.|++++|+..|++.++.    +..+. ...+..++.++...|++++|...|++..
T Consensus       157 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          157 LIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            5666667777777777777777776652    11111 2245555566666677777777777776

>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=98.86  E-value=1.3e-06  Score=82.10  Aligned_cols=150  Identities=7%  Similarity=-0.106  Sum_probs=90.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHHHcccCCCCCHHHHHHHHHHHH
Q 043999          108 LYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSC-SFDKGWLFFSENRCKVELDVYSFGILIKGCC  186 (574)
Q Consensus       108 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~  186 (574)
                      +++.+-....+.+..++|++++++++..+ +-+..+|+.--.++...| .+++++.+++.+....|.+..+|+.-...+.
T Consensus        56 ~~~~~r~~~~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~  134 (349)
T 3q7a_A           56 AMDYFRAIAAKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLD  134 (349)
T ss_dssp             HHHHHHHHHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            33444444444455567778777777754 224556676666666666 4777777777777666777777777766666


Q ss_pred             hc-C-ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHH--------HHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 043999          187 EA-G-DLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIE--------RAKMLFRKIGELGLVATQHTYTVLICGLF  256 (574)
Q Consensus       187 ~~-g-~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~--------~A~~~~~~~~~~~~~~~~~~~~~li~~~~  256 (574)
                      +. + +++++++.++++.+... .|..+|+.-.-.+.+.|.++        ++++.++++.+.++. |..+|+.....+.
T Consensus       135 ~l~~~~~~~EL~~~~k~L~~dp-kNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~  212 (349)
T 3q7a_A          135 RISPQDPVSEIEYIHGSLLPDP-KNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRV  212 (349)
T ss_dssp             HHCCSCCHHHHHHHHHHTSSCT-TCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHT
T ss_pred             HhcCCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            65 5 66777777777766532 25556655555555544444        566666666555443 5555555555554


Q ss_pred             hcCC
Q 043999          257 KNGL  260 (574)
Q Consensus       257 ~~g~  260 (574)
                      +.++
T Consensus       213 ~l~~  216 (349)
T 3q7a_A          213 SRPG  216 (349)
T ss_dssp             TSTT
T ss_pred             hccc
Confidence            4443

>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=98.83  E-value=1.4e-07  Score=89.07  Aligned_cols=225  Identities=9%  Similarity=-0.017  Sum_probs=142.9

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHH
Q 043999          118 KSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIK-SCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFE  196 (574)
Q Consensus       118 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  196 (574)
                      ..|++++|.+++++..+.. +..          +.+ .+++++|...|++.              +..|...|++++|.+
T Consensus         3 ~~~~~~eA~~~~~~a~k~~-~~~----------~~~~~~~~~~A~~~~~~a--------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYL-KTS----------FMKWKPDYDSAASEYAKA--------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHH-CCC----------SSSCSCCHHHHHHHHHHH--------------HHHHHHTTCHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHc-ccc----------ccCCCCCHHHHHHHHHHH--------------HHHHHHcCCHHHHHH
Confidence            4577888888888776532 111          112 46677777666553              345667788888877


Q ss_pred             HHHHHHHC----CCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC-CChhhHHHHHHHHHhcCCHHHHHH
Q 043999          197 VLNQLEEM----GFSP-NVVIYTSLIDGCCKNGDIERAKMLFRKIGEL----GLV-ATQHTYTVLICGLFKNGLQKDGFE  266 (574)
Q Consensus       197 ~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~g~~~~a~~  266 (574)
                      .|.+..+.    |-.+ -..+|+.+...|.+.|++++|+..|++..+.    |-. ....++..+...|.. |++++|+.
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            77776542    1110 1346777777888888888888888776432    111 113467777777777 88888888


Q ss_pred             HHHHHHHCCCC---C--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCCHHHHHH
Q 043999          267 FYEKMQLNGVS---P--SLYTYNCLIHEYCNEGKVSEGFKLFDEMRHR----EVACN-VVTYNTLICGLCKEMRVQEAER  336 (574)
Q Consensus       267 ~~~~~~~~g~~---p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~~~-~~~~~~li~~~~~~~~~~~A~~  336 (574)
                      .|++..+....   +  ...++..+...|.+.|++++|+..|++..+.    +..+. ...+..+...+...|++++|..
T Consensus       137 ~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~  216 (307)
T 2ifu_A          137 LYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQK  216 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            88877643111   0  1356777888888888888888888887653    21111 2356666777777889999999


Q ss_pred             HHHHHHHCCCCCCh------hhHHHHHHHHHhcCCHHHHHHH
Q 043999          337 LLDQMKMAGISPNV------ITYNKLIDGFCDAGETDKAFRL  372 (574)
Q Consensus       337 ~~~~m~~~g~~~~~------~~~~~li~~~~~~g~~~~A~~~  372 (574)
                      .|++.. .  .|+.      .....++..+ ..|+.+.+.++
T Consensus       217 ~~~~al-~--~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          217 CVRESY-S--IPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHHT-T--STTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHh-C--CCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            988887 4  2221      1244455555 56777766664

>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=98.83  E-value=2.4e-07  Score=82.06  Aligned_cols=132  Identities=8%  Similarity=-0.119  Sum_probs=110.3

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      ...+..+...+.+.|++++|+..|++.+    .|+..++..+...+.+.|++++|+..|++.....+.+..++..+...+
T Consensus         6 ~~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            6 AISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHH
Confidence            3456778888889999999999998874    467888999999999999999999999998877778889999999999


Q ss_pred             HhcCChhHHHHHHHHHHHCCCC--------------C-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 043999          186 CEAGDLNKAFEVLNQLEEMGFS--------------P-NVVIYTSLIDGCCKNGDIERAKMLFRKIGELGL  241 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~g~~--------------p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~  241 (574)
                      .+.|++++|.+.|++..+....              | ....+..+...+.+.|++++|.+.|++..+..+
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  152 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCc
Confidence            9999999999999998875321              1 126778888889999999999999999887654

>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=98.81  E-value=2e-06  Score=80.82  Aligned_cols=237  Identities=11%  Similarity=0.011  Sum_probs=183.3

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHH
Q 043999          121 LSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAG-DLNKAFEVLN  199 (574)
Q Consensus       121 ~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~  199 (574)
                      ++.+|...++.+++.+                  +..++|+++++.+....|.+..+|+.-...+...| +++++++.++
T Consensus        52 ~y~~~~~~~r~~~~~~------------------e~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~  113 (349)
T 3q7a_A           52 EYKDAMDYFRAIAAKE------------------EKSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMN  113 (349)
T ss_dssp             HHHHHHHHHHHHHHTT------------------CCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhC------------------CCCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            4556666666665543                  34568899999998888889999999999998888 5999999999


Q ss_pred             HHHHCCCCCCHHhHHHHHHHHHhc-C-CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHH--------HHHHHHH
Q 043999          200 QLEEMGFSPNVVIYTSLIDGCCKN-G-DIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQK--------DGFEFYE  269 (574)
Q Consensus       200 ~m~~~g~~p~~~~~~~li~~~~~~-g-~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~--------~a~~~~~  269 (574)
                      .+.....+ +..+|+.-...+.+. + ++++++++++++.+.++. +..+|+.-.-.+.+.|.++        ++++.++
T Consensus       114 ~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~  191 (349)
T 3q7a_A          114 EFAVQNLK-SYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCN  191 (349)
T ss_dssp             HHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHH
T ss_pred             HHHHhCCC-cHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHH
Confidence            99987543 777888888887776 7 899999999999988765 7788887776666666666        9999999


Q ss_pred             HHHHCCCCCCHhhHHHHHHHHHhcCC-------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH-----------
Q 043999          270 KMQLNGVSPSLYTYNCLIHEYCNEGK-------VSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRV-----------  331 (574)
Q Consensus       270 ~~~~~g~~p~~~~~~~li~~~~~~g~-------~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~-----------  331 (574)
                      ++++..+ -|...|+.....+.+.+.       ++++++.+++.....+. |...|+-+-..+.+.|+.           
T Consensus       192 k~I~~dp-~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~P~-n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~  269 (349)
T 3q7a_A          192 EMLRVDG-RNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLIPH-NVSAWNYLRGFLKHFSLPLVPILPAILPY  269 (349)
T ss_dssp             HHHHHCT-TCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCSGGGHHHHGGG
T ss_pred             HHHHhCC-CCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCCccccccccccc
Confidence            9998754 378888888888877776       78999999999888766 888998877777766653           


Q ss_pred             ---------HHHHHHHHHHHHCC-----CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          332 ---------QEAERLLDQMKMAG-----ISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSN  379 (574)
Q Consensus       332 ---------~~A~~~~~~m~~~g-----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  379 (574)
                               .+.......+...+     -.++...+..|++.|...|+.++|.++++.+.+.
T Consensus       270 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          270 TASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             TC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             ccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence                     33444444443322     1467888899999999999999999999999754

>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=98.79  E-value=3.8e-07  Score=80.75  Aligned_cols=129  Identities=12%  Similarity=-0.062  Sum_probs=99.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 043999          386 VTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGL  465 (574)
Q Consensus       386 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  465 (574)
                      ..+..+...+...|++++|...+++..    .|+...+..+...+...|++++|...+++..+.. +.+...+..+..+|
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHH
Confidence            345566777788888888888887763    4577788888888888888888888888887764 45667788888888


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCC---------------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          466 CMKGNMKEASKLFNSMWETKLEP---------------NDVVYNMMIFGYCKEGNSYRALRLLGEMNEK  519 (574)
Q Consensus       466 ~~~g~~~~A~~~~~~~~~~~~~p---------------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  519 (574)
                      ...|++++|.+.|+++.+.....               ....+..+..+|...|++++|.+.+++..+.
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            88888888888888888753221               1267777888888888888888888888874

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.77  E-value=2e-06  Score=80.46  Aligned_cols=163  Identities=12%  Similarity=0.012  Sum_probs=117.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCC-CCCHh----HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC----HHHHHH
Q 043999          391 LIRAFSKAGNSKMASDLVREMEERGI-TPSEV----TYTILIDSFVRSDDMEKAFEMYSLMQKSGFS-PD----VYTYGV  460 (574)
Q Consensus       391 li~~~~~~g~~~~A~~~~~~m~~~~~-~p~~~----~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~~  460 (574)
                      .+..+...|++++|..++++..+... .|+..    .+..+...+...+++++|...++++.+.... ++    ..+++.
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            35667788888888888888876422 22211    2334666677778899999999888874222 22    236888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC-----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC-HHHHH
Q 043999          461 LIHGLCMKGNMKEASKLFNSMWET-----KLEP-NDVVYNMMIFGYCKEGNSYRALRLLGEMNEK----GLVPN-IASYS  529 (574)
Q Consensus       461 li~~~~~~g~~~~A~~~~~~~~~~-----~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~  529 (574)
                      +...|...|++++|...++++++.     +..+ ...+|..+...|.+.|++++|++.+++..+.    +..+. ..+|.
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            888899999999999999988741     1122 2347888899999999999999999887753    22222 56788


Q ss_pred             HHHHHHHhcCC-HHHHHHHHHHHHH
Q 043999          530 STIGVLCQDGK-WPEAEVLLNQMLK  553 (574)
Q Consensus       530 ~l~~~~~~~g~-~~~A~~~~~~m~~  553 (574)
                      .+..++.+.|+ +++|...+++++.
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            88889999994 6999999988874

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.76  E-value=7.9e-08  Score=87.29  Aligned_cols=192  Identities=7%  Similarity=-0.047  Sum_probs=121.6

Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH-------HHHHHhcCChhHHHHHHHHcccC--------CC-CC----
Q 043999          115 AHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSL-------LIFVIKSCSFDKGWLFFSENRCK--------VE-LD----  174 (574)
Q Consensus       115 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l-------l~~~~~~g~~~~A~~~~~~~~~~--------~~-~~----  174 (574)
                      ++ ..+++..|.+.|.++.+.. +-....|..+       ...+.+.++..+++..+......        +. ..    
T Consensus        16 ~~-~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~   93 (282)
T 4f3v_A           16 SM-LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGD   93 (282)
T ss_dssp             HH-TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCC
T ss_pred             cc-cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCcccc
Confidence            44 6789999999999998864 2356778777       45666666666666665554331        00 00    


Q ss_pred             --------HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--
Q 043999          175 --------VYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVAT--  244 (574)
Q Consensus       175 --------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~--  244 (574)
                              ...+-.....+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  
T Consensus        94 ~~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~  170 (282)
T 4f3v_A           94 ITYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLA  170 (282)
T ss_dssp             CEEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHH
T ss_pred             cccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccH
Confidence                    2234445667777888888888887776543  443355566667777888888888876544321 111  


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 043999          245 QHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPS--LYTYNCLIHEYCNEGKVSEGFKLFDEMRHREV  311 (574)
Q Consensus       245 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  311 (574)
                      ...+..+..++.+.|++++|++.|++.......|.  .........++.+.|+.++|..+|+++....+
T Consensus       171 ~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P  239 (282)
T 4f3v_A          171 GAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHP  239 (282)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            23566667777777777777777777764322143  23455566667777777777777777776643

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.75  E-value=2e-06  Score=80.44  Aligned_cols=166  Identities=10%  Similarity=-0.010  Sum_probs=115.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-----hHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC---CCC--HH
Q 043999          387 TYNVLIRAFSKAGNSKMASDLVREMEERGITPSE-----VTYTILIDSFVRSDDMEKAFEMYSLMQKSGF---SPD--VY  456 (574)
Q Consensus       387 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~---~~~--~~  456 (574)
                      .+...+..+...|++++|...+.+..+.......     ..+..+...+...|++++|...+++..+...   .+.  ..
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            3445566677788888888888777665322111     1233455566778888899888888765321   111  34


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh---CCC-CC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCC-CH
Q 043999          457 TYGVLIHGLCMKGNMKEASKLFNSMWE---TKL-EP--NDVVYNMMIFGYCKEGNSYRALRLLGEMNEKG----LVP-NI  525 (574)
Q Consensus       457 ~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~-~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g----~~p-~~  525 (574)
                      +++.+...|...|++++|...++++.+   ... .+  ...++..+...|...|++++|++.+++..+..    ... -.
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            788888889999999999999988873   211 11  12578888889999999999999998877531    111 15


Q ss_pred             HHHHHHHHHHHhcCCHHHH-HHHHHHHH
Q 043999          526 ASYSSTIGVLCQDGKWPEA-EVLLNQML  552 (574)
Q Consensus       526 ~~~~~l~~~~~~~g~~~~A-~~~~~~m~  552 (574)
                      .+|..+..++.+.|++++| ...+++..
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            6778888899999999999 77787775

>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=98.74  E-value=3.3e-07  Score=77.34  Aligned_cols=130  Identities=7%  Similarity=-0.011  Sum_probs=98.3

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      ...|..+...+...|++++|...|++.++.. +.+..++..+...+...|++++|...+++.....+.+..++..+...+
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~   91 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            4568888888999999999999999988764 336777888888888888888888888887776677788888888888


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHhH--HHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          186 CEAGDLNKAFEVLNQLEEMGFSPNVVIY--TSLIDGCCKNGDIERAKMLFRKIG  237 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~--~~li~~~~~~g~~~~A~~~~~~~~  237 (574)
                      ...|++++|.+.+++..+... .+...+  ..+...+.+.|++++|++.+++..
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            888888888888888877532 233444  333334667778888877776653

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.73  E-value=3.3e-07  Score=72.90  Aligned_cols=113  Identities=15%  Similarity=0.146  Sum_probs=78.2

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      ...|..+...+.+.|++++|++.|+++++.. +.+..++..+...+.+.|++++|...|+++....+.+..++..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~   87 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHH
Confidence            5677888888888888888888888887653 335666777777777777777777777777665566667777777777


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHH
Q 043999          186 CEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGC  220 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  220 (574)
                      .+.|++++|.+.++++.+... .+...+..+...+
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~  121 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELDP-NNAEAKQNLGNAK  121 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHH
Confidence            777777777777777666431 2334444444443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.73  E-value=1.7e-07  Score=75.10  Aligned_cols=99  Identities=6%  Similarity=-0.067  Sum_probs=76.5

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHH
Q 043999          105 KSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKG  184 (574)
Q Consensus       105 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~  184 (574)
                      ....|......|.+.|++++|++.|++.++.. +.+..+|..+..++.+.|++++|+..|++.....|.+..+|..+..+
T Consensus        12 ~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~   90 (126)
T 4gco_A           12 LAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAAC   90 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHH
Confidence            34667788888888888888888888887764 34677777777788888888888888887776666777778888888


Q ss_pred             HHhcCChhHHHHHHHHHHHC
Q 043999          185 CCEAGDLNKAFEVLNQLEEM  204 (574)
Q Consensus       185 ~~~~g~~~~A~~~~~~m~~~  204 (574)
                      +...|++++|.+.|++..+.
T Consensus        91 ~~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH
Confidence            88888888888888877764

>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=98.73  E-value=3.1e-06  Score=79.11  Aligned_cols=163  Identities=8%  Similarity=-0.019  Sum_probs=114.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCC-CCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-CC----HhHHHH
Q 043999          356 LIDGFCDAGETDKAFRLFNQLKSNGQ-SPSV----VTYNVLIRAFSKAGNSKMASDLVREMEERGIT-PS----EVTYTI  425 (574)
Q Consensus       356 li~~~~~~g~~~~A~~~~~~~~~~g~-~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~----~~~~~~  425 (574)
                      .+..+...|++++|.+.+++..+... .|+.    ..+..+...+...|++++|...+++..+.... ++    ..+++.
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            35567777888888888887766421 1221    12334555666777888888888888774222 22    225788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHH----C-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHH
Q 043999          426 LIDSFVRSDDMEKAFEMYSLMQK----S-GFSPD-VYTYGVLIHGLCMKGNMKEASKLFNSMWET----KLEP-NDVVYN  494 (574)
Q Consensus       426 li~~~~~~g~~~~A~~~~~~~~~----~-~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~p-~~~~~~  494 (574)
                      +...|...|++++|...|+++.+    . +..+. ..++..+...|.+.|++++|.+.+++.++.    +..+ -..+|.
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            88888888999999988888763    1 11222 236788888999999999999999987753    2122 267888


Q ss_pred             HHHHHHHhcCC-HHHHHHHHHHHHH
Q 043999          495 MMIFGYCKEGN-SYRALRLLGEMNE  518 (574)
Q Consensus       495 ~li~~~~~~g~-~~~A~~~~~~m~~  518 (574)
                      .+..+|.+.|+ +++|.+.+++...
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            99999999994 6999999988764

>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=98.71  E-value=6.9e-08  Score=89.79  Aligned_cols=99  Identities=8%  Similarity=-0.037  Sum_probs=79.9

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHH
Q 043999          105 KSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKG  184 (574)
Q Consensus       105 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~  184 (574)
                      +...+..+...+.+.|++++|+..|++.++.. +.+...+..+..++.+.|++++|...+++.....+.+...+..+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~   81 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   81 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            45667788888888899999999998888763 33677778888888888888888888888887777778888888888


Q ss_pred             HHhcCChhHHHHHHHHHHHC
Q 043999          185 CCEAGDLNKAFEVLNQLEEM  204 (574)
Q Consensus       185 ~~~~g~~~~A~~~~~~m~~~  204 (574)
                      +...|++++|.+.|++..+.
T Consensus        82 ~~~~g~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSL  101 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            88888888888888887663

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.71  E-value=3.2e-07  Score=73.48  Aligned_cols=97  Identities=5%  Similarity=-0.037  Sum_probs=53.3

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHh
Q 043999          143 TFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCK  222 (574)
Q Consensus       143 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  222 (574)
                      .+......+.+.|++++|++.|++.....|.+..+|..+..+|.+.|++++|++.+++.++... .+...|..+..++..
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~   93 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDS-KFIKGYIRKAACLVA   93 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhh-hhhHHHHHHHHHHHH
Confidence            3444555555556666666666555554455555555555555555555555555555555321 234455555555555


Q ss_pred             cCCHHHHHHHHHHHHhCC
Q 043999          223 NGDIERAKMLFRKIGELG  240 (574)
Q Consensus       223 ~g~~~~A~~~~~~~~~~~  240 (574)
                      .|++++|++.|++..+..
T Consensus        94 ~~~~~~A~~~~~~al~l~  111 (126)
T 4gco_A           94 MREWSKAQRAYEDALQVD  111 (126)
T ss_dssp             TTCHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHHC
Confidence            555555555555555543

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.70  E-value=7.8e-08  Score=89.42  Aligned_cols=97  Identities=6%  Similarity=-0.069  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHH
Q 043999          141 SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGC  220 (574)
Q Consensus       141 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  220 (574)
                      ...+..+...+.+.|++++|...|++.....+.+...|..+...|.+.|++++|.+.+++..+.. +.+...+..+..+|
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   82 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQ   82 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            44555556666666666666666666655555566666666666666666666666666666542 12445566666666


Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 043999          221 CKNGDIERAKMLFRKIGE  238 (574)
Q Consensus       221 ~~~g~~~~A~~~~~~~~~  238 (574)
                      ...|++++|...|++..+
T Consensus        83 ~~~g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYS  100 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            666666666666666544

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.68  E-value=1.7e-07  Score=77.62  Aligned_cols=102  Identities=10%  Similarity=-0.104  Sum_probs=82.8

Q ss_pred             CCcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHH
Q 043999          102 PVTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGIL  181 (574)
Q Consensus       102 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l  181 (574)
                      .|.+...|..+...+.+.|++++|+..|++.++.. +.+...|..+..++.+.|++++|+..|++.....|.++..|..+
T Consensus        32 ~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~l  110 (151)
T 3gyz_A           32 PDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHT  110 (151)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHH
Confidence            34456778888888888888888888888888764 34677888888888888888888888888877777778888888


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHC
Q 043999          182 IKGCCEAGDLNKAFEVLNQLEEM  204 (574)
Q Consensus       182 i~~~~~~g~~~~A~~~~~~m~~~  204 (574)
                      ..+|.+.|++++|.+.|++..+.
T Consensus       111 g~~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          111 GQCQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh
Confidence            88888888888888888888775

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.68  E-value=4e-07  Score=73.46  Aligned_cols=120  Identities=8%  Similarity=-0.051  Sum_probs=87.9

Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHH
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILI  182 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li  182 (574)
                      +.+...|..+...+.+.|++++|+..|++.++.. +.+..++..+...+...|++++|++.+++.....+.+...+..+.
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la   91 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKA   91 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence            4456888899999999999999999999988763 335677777777788888888888888877766666777777777


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcC
Q 043999          183 KGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNG  224 (574)
Q Consensus       183 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  224 (574)
                      ..+.+.|++++|.+.|++..+... .+...+..+...+.+.|
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALDLDS-SCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCG-GGTHHHHHHHHHHHHHT
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHhc
Confidence            788888888888888877766421 23345555555555443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.67  E-value=1.1e-06  Score=82.31  Aligned_cols=164  Identities=13%  Similarity=0.088  Sum_probs=93.0

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH------HHHHHHHHHHhcCChhHHHHHHHHcccC----CCCC--
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSN------TFNSLLIFVIKSCSFDKGWLFFSENRCK----VELD--  174 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~------~~~~ll~~~~~~g~~~~A~~~~~~~~~~----~~~~--  174 (574)
                      ..+...+..+...|++++|.+.+++.++.... ...      .+..+...+...|++++|+..+++....    ..+.  
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEY-HPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCC-CHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccC-ChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            45566777888888888888888887765322 211      1223444455666777777777665432    1111  


Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHH---C-CCCC--CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC----CCC-
Q 043999          175 VYSFGILIKGCCEAGDLNKAFEVLNQLEE---M-GFSP--NVVIYTSLIDGCCKNGDIERAKMLFRKIGELG----LVA-  243 (574)
Q Consensus       175 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~-g~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----~~~-  243 (574)
                      ..+++.+...|...|++++|.+.+++..+   . +..+  ...++..+...|.+.|++++|+..+++..+..    ... 
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~  234 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMAL  234 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHH
Confidence            34666677777777777777777766652   1 1011  11356666666666666666666666654321    000 


Q ss_pred             ChhhHHHHHHHHHhcCCHHHH-HHHHHHH
Q 043999          244 TQHTYTVLICGLFKNGLQKDG-FEFYEKM  271 (574)
Q Consensus       244 ~~~~~~~li~~~~~~g~~~~a-~~~~~~~  271 (574)
                      -..+|..+...|.+.|+.++| ...+++.
T Consensus       235 ~~~~~~~lg~~y~~~g~~~~Ai~~~~~~A  263 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHH
Confidence            133455555555566666555 4444443

>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=98.67  E-value=8.9e-07  Score=74.63  Aligned_cols=128  Identities=12%  Similarity=0.002  Sum_probs=81.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 043999          422 TYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYC  501 (574)
Q Consensus       422 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~  501 (574)
                      .+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|.+.+++..+.... +...|..+..++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHH
Confidence            35555566666777777777777666543 345666666777777777777777777777665322 5666777777777


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHH--HHHHHHHhcCCHHHHHHHHHHHH
Q 043999          502 KEGNSYRALRLLGEMNEKGLVPNIASYS--STIGVLCQDGKWPEAEVLLNQML  552 (574)
Q Consensus       502 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~--~l~~~~~~~g~~~~A~~~~~~m~  552 (574)
                      ..|++++|.+.++++.+.. +.+...+.  ..+..+.+.|++++|...+++..
T Consensus        93 ~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            7777777777777777642 22333442  23333566677777777776654

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.66  E-value=9.2e-08  Score=79.20  Aligned_cols=102  Identities=13%  Similarity=-0.042  Sum_probs=71.5

Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHH
Q 043999          171 VELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTV  250 (574)
Q Consensus       171 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  250 (574)
                      .|.+...+..+...+.+.|++++|.+.|++..+... .+...|..+..+|.+.|++++|+..|++..+..+. +...|..
T Consensus        32 ~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~  109 (151)
T 3gyz_A           32 PDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDF-YNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFH  109 (151)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHH
Confidence            344566677777777777777777777777776532 25667777777777777777777777777766543 5666777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          251 LICGLFKNGLQKDGFEFYEKMQLN  274 (574)
Q Consensus       251 li~~~~~~g~~~~a~~~~~~~~~~  274 (574)
                      +..+|.+.|++++|...|++..+.
T Consensus       110 lg~~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          110 TGQCQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh
Confidence            777777777777777777777765

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.65  E-value=2.3e-07  Score=81.43  Aligned_cols=119  Identities=13%  Similarity=-0.001  Sum_probs=58.1

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccC------CCCCHHHHHHHHHHHHhcCC
Q 043999          117 LKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCK------VELDVYSFGILIKGCCEAGD  190 (574)
Q Consensus       117 ~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~~~~li~~~~~~g~  190 (574)
                      ...|++++|.+.++.+... ......++..+...+...|++++|...+++....      .+....++..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            3456677776644443321 1123445555666666666666666666655431      12233445555555666666


Q ss_pred             hhHHHHHHHHHHHC----CCCC--CHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          191 LNKAFEVLNQLEEM----GFSP--NVVIYTSLIDGCCKNGDIERAKMLFRKI  236 (574)
Q Consensus       191 ~~~A~~~~~~m~~~----g~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~~  236 (574)
                      +++|.+.+++..+.    +-.|  ...++..+...+...|++++|...+++.
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~a  133 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKS  133 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            66666655554432    1011  1223444555555555555555555554

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.65  E-value=4.5e-07  Score=72.80  Aligned_cols=121  Identities=9%  Similarity=0.018  Sum_probs=87.0

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHH
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIK  183 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  183 (574)
                      .+...|..+...+...|++++|+..|++.++.. +.+...+..+...+...|++++|...+++.....+.+...+..+..
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~   88 (131)
T 2vyi_A           10 AEAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHH
Confidence            345678888888888888888888888887753 3356677777777778888888888877776665666777777777


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCH
Q 043999          184 GCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDI  226 (574)
Q Consensus       184 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  226 (574)
                      .+.+.|++++|.+.+++..+... .+...+..+...+.+.|++
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELDP-DNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHhcC
Confidence            77777777777777777766532 2455666666666665543

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.64  E-value=1e-06  Score=70.01  Aligned_cols=96  Identities=18%  Similarity=0.198  Sum_probs=46.4

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHH
Q 043999          142 NTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCC  221 (574)
Q Consensus       142 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  221 (574)
                      .++..+...+...|++++|.+.|+++....+.+..++..++..+.+.|++++|...++++.+.. +.+..++..+...+.
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~   88 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHH
Confidence            3444444455555555555555555444334444455555555555555555555555544432 123344444444555


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 043999          222 KNGDIERAKMLFRKIGE  238 (574)
Q Consensus       222 ~~g~~~~A~~~~~~~~~  238 (574)
                      ..|++++|...++++.+
T Consensus        89 ~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHH
Confidence            55555555555554444

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.64  E-value=7.6e-07  Score=71.79  Aligned_cols=116  Identities=8%  Similarity=-0.019  Sum_probs=65.1

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHH
Q 043999          140 RSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDG  219 (574)
Q Consensus       140 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  219 (574)
                      +...+..+...+.+.|++++|...|++.....+.+..++..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   93 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHH
Confidence            344555556666666666666666666655555556666666666666666666666666665542 1244555556666


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 043999          220 CCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFK  257 (574)
Q Consensus       220 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  257 (574)
                      +.+.|++++|.+.|++..+.... +...+..+...+.+
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~  130 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDLDSS-CKEAADGYQRCMMA  130 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCGG-GTHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHH
Confidence            66666666666666665544322 23344444444433

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.62  E-value=1.1e-06  Score=79.70  Aligned_cols=198  Identities=12%  Similarity=-0.042  Sum_probs=120.1

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHH-------HHHHHhcCChHHHHHHHHHHHHCCCCCC---------------
Q 043999          362 DAGETDKAFRLFNQLKSNGQSPSVVTYNVL-------IRAFSKAGNSKMASDLVREMEERGITPS---------------  419 (574)
Q Consensus       362 ~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m~~~~~~p~---------------  419 (574)
                      ..++...|.+.|.++...... ....|..+       ...+...++..+++..+..-.+  +.|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~-~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            456666677777666665322 45556555       3444444444444444444332  1111               


Q ss_pred             -------HhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--H
Q 043999          420 -------EVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPN--D  490 (574)
Q Consensus       420 -------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~--~  490 (574)
                             ......+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  .
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~  171 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAG  171 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHH
Confidence                   1123345556777788888888887776543  433355555667778888888888887655421 111  2


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 043999          491 VVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPN--IASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILY  567 (574)
Q Consensus       491 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  567 (574)
                      ..+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|...|+++...  .|+...+..|.
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~--~P~~~~~~aL~  248 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT--HPEPKVAAALK  248 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--SCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHHHHHHh
Confidence            3567777888888888888888888775332143  235556677778888888888888888865  56644555443

>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=98.62  E-value=1.6e-07  Score=77.83  Aligned_cols=94  Identities=13%  Similarity=-0.090  Sum_probs=44.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 043999          423 YTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCK  502 (574)
Q Consensus       423 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~  502 (574)
                      +..+...+...|++++|...|+...... +.+...|..+..+|...|++++|+..|++++...+. +...+..+..+|..
T Consensus        24 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~~  101 (148)
T 2vgx_A           24 LYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIX-EPRFPFHAAECLLQ  101 (148)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHHH
Confidence            3344444445555555555555444432 334444444444555555555555555554443221 33444444455555


Q ss_pred             cCCHHHHHHHHHHHHH
Q 043999          503 EGNSYRALRLLGEMNE  518 (574)
Q Consensus       503 ~g~~~~A~~~~~~m~~  518 (574)
                      .|++++|.+.|++..+
T Consensus       102 ~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          102 XGELAEAESGLFLAQE  117 (148)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5555555555554444

>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=3.7e-07  Score=78.20  Aligned_cols=122  Identities=9%  Similarity=0.115  Sum_probs=70.2

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHH-HHhcCCh--hH
Q 043999          117 LKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKG-CCEAGDL--NK  193 (574)
Q Consensus       117 ~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~--~~  193 (574)
                      ...|++++|+..|++.++.. +.+...+..+...+...|++++|...|++.....+.+...+..+... +...|++  ++
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHH
Confidence            35666677777777666543 23555666666666666666666666666655545556666666666 5566665  66


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 043999          194 AFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELG  240 (574)
Q Consensus       194 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  240 (574)
                      |.+.+++..+... .+...+..+...+...|++++|...|++..+..
T Consensus       100 A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A          100 TRAMIDKALALDS-NEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhCC-CcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            6666666655421 234555556666666666666666666655543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.61  E-value=3.5e-07  Score=80.20  Aligned_cols=120  Identities=11%  Similarity=-0.076  Sum_probs=62.4

Q ss_pred             hcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHC----CCC-CCHHhHHHHHHHHHhcCCHH
Q 043999          153 KSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEM----GFS-PNVVIYTSLIDGCCKNGDIE  227 (574)
Q Consensus       153 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~-p~~~~~~~li~~~~~~g~~~  227 (574)
                      ..|++++|.+.++.+.........++..+...+...|++++|.+.+++..+.    +.. ....++..+...+...|+++
T Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             ---CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            4567777777433333222235566666777777777777777777665541    111 12335555666666666666


Q ss_pred             HHHHHHHHHHhC----CCCC--ChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          228 RAKMLFRKIGEL----GLVA--TQHTYTVLICGLFKNGLQKDGFEFYEKMQ  272 (574)
Q Consensus       228 ~A~~~~~~~~~~----~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~  272 (574)
                      +|.+.+++..+.    +..+  ....+..+...+...|++++|...+++..
T Consensus        84 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  134 (203)
T 3gw4_A           84 AARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSL  134 (203)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            666666655432    1010  12234445555555555555555555544

>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=98.60  E-value=4.1e-07  Score=77.93  Aligned_cols=121  Identities=7%  Similarity=0.110  Sum_probs=74.3

Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhcCCH--H
Q 043999          396 SKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHG-LCMKGNM--K  472 (574)
Q Consensus       396 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~--~  472 (574)
                      ...|++++|...+++..+.. +.+...+..+...+...|++++|...|++..+.. +.+...+..+... +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchH
Confidence            34566667777777666553 2355666666667777777777777777766543 3455566666666 5566666  7


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          473 EASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEK  519 (574)
Q Consensus       473 ~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  519 (574)
                      +|...++++++..+. +...+..+...|...|++++|...++++.+.
T Consensus        99 ~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           99 QTRAMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            777777776665322 4556666666777777777777777776664

>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=98.59  E-value=4e-05  Score=71.69  Aligned_cols=139  Identities=8%  Similarity=-0.070  Sum_probs=94.9

Q ss_pred             HhcCChH-HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC----------hhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          117 LKSRLSD-QALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCS----------FDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       117 ~~~g~~~-~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~----------~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      .+.|.++ +|+.+++.++..+ +-+..+|+.--..+...+.          +++++.+++.+....|.+..+|+.-...+
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL  118 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLL  118 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3556655 7899999988864 2245556665444443333          56777777777776777888888777777


Q ss_pred             HhcCC--hhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCC-HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc
Q 043999          186 CEAGD--LNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGD-IERAKMLFRKIGELGLVATQHTYTVLICGLFKN  258 (574)
Q Consensus       186 ~~~g~--~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~-~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  258 (574)
                      .+.|+  ++++++.++++.+... .|..+|+.-.-.+.+.|. ++++++.++++.+.++. |..+|+.....+.+.
T Consensus       119 ~~l~~~~~~~EL~~~~k~l~~dp-rNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l  192 (331)
T 3dss_A          119 SRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQL  192 (331)
T ss_dssp             HHCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHH
T ss_pred             hccCcccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHh
Confidence            77773  7788888888877643 366777777777777777 57888888887776654 666776666555544

>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=98.59  E-value=8.6e-07  Score=84.67  Aligned_cols=124  Identities=10%  Similarity=-0.056  Sum_probs=75.4

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC--------------HHHHHHHHHHHHhcCChhHHHHHHHHcccC
Q 043999          105 KSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPR--------------SNTFNSLLIFVIKSCSFDKGWLFFSENRCK  170 (574)
Q Consensus       105 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~--------------~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~  170 (574)
                      +...|..+...|.+.|++++|+..|++.++......              ..++..+..++.+.|++++|+..|+++...
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            346677788888888888888888888776532211              345555556666666666666666665555


Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHH
Q 043999          171 VELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERA  229 (574)
Q Consensus       171 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  229 (574)
                      .|.+..+|..+..+|...|++++|++.|++..+... .+...+..+..++.+.|+.++|
T Consensus       226 ~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          226 DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP-NNKAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHHHH
Confidence            555556666666666666666666666666555421 2344555555555555555555

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.58  E-value=1.6e-06  Score=69.43  Aligned_cols=116  Identities=10%  Similarity=-0.009  Sum_probs=55.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 043999          422 TYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYC  501 (574)
Q Consensus       422 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~  501 (574)
                      .+..+...+...|++++|...+++..... +.+...+..+...+...|++++|.+.+++..+.... +...+..+...+.
T Consensus        14 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~   91 (131)
T 2vyi_A           14 RLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPA-YSKAYGRMGLALS   91 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCcc-CHHHHHHHHHHHH
Confidence            34444444455555555555555544432 233444445555555555555555555555543211 3444555555555


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 043999          502 KEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGK  540 (574)
Q Consensus       502 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~  540 (574)
                      ..|++++|.+.+++..+.. +.+...+..+..++.+.|+
T Consensus        92 ~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           92 SLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            5555555555555555431 1233444444444444443

>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=98.57  E-value=1.4e-07  Score=90.23  Aligned_cols=142  Identities=10%  Similarity=-0.154  Sum_probs=76.4

Q ss_pred             ChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC--------------HHhHHHHHHHHH
Q 043999          156 SFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPN--------------VVIYTSLIDGCC  221 (574)
Q Consensus       156 ~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--------------~~~~~~li~~~~  221 (574)
                      ++++|...++......+.+...+..+...+.+.|++++|.+.|++..+......              ..+|..+..+|.
T Consensus       128 ~~~~A~~~~~~a~~~~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~  207 (336)
T 1p5q_A          128 SFEKAKESWEMNSEEKLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHL  207 (336)
T ss_dssp             EEECCCCGGGCCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ecccccchhcCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444433322233556677777777777777777777777766432111              245555555555


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHH
Q 043999          222 KNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEG  299 (574)
Q Consensus       222 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A  299 (574)
                      +.|++++|+..+++..+..+. +...|..+..+|...|++++|+..|++.++.. +.+...+..+...+.+.|+.++|
T Consensus       208 ~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          208 KLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            556666665555555554322 44455555555555555555555555555432 12344445555555555555554

>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=98.57  E-value=9.9e-07  Score=70.74  Aligned_cols=105  Identities=13%  Similarity=0.067  Sum_probs=60.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCCC----HHHHHH
Q 043999          457 TYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKG--LVPN----IASYSS  530 (574)
Q Consensus       457 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~p~----~~~~~~  530 (574)
                      .+..+...+.+.|++++|++.|+++++..+. +...|..+..+|...|++++|++.+++.++..  ..++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            3445566666666666666666666654322 45566666666666666666666666665421  0111    124555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 043999          531 TIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYN  564 (574)
Q Consensus       531 l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  564 (574)
                      +..++...|++++|++.|++.++.  .||..+..
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~  120 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVK  120 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHH
Confidence            566666677777777777776654  45544443

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.56  E-value=4.2e-07  Score=75.20  Aligned_cols=98  Identities=11%  Similarity=-0.020  Sum_probs=45.3

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 043999          174 DVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLIC  253 (574)
Q Consensus       174 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  253 (574)
                      +...+..+...+.+.|++++|...|++..+.. +.+...|..+..++...|++++|+..|++....++. +...+..+..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIX-EPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHH
Confidence            33444444444445555555555555444432 113444444444455555555555555544443322 3344444444


Q ss_pred             HHHhcCCHHHHHHHHHHHHH
Q 043999          254 GLFKNGLQKDGFEFYEKMQL  273 (574)
Q Consensus       254 ~~~~~g~~~~a~~~~~~~~~  273 (574)
                      ++...|++++|.+.|++..+
T Consensus        98 ~~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            45555555555555544443

>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=98.56  E-value=7e-05  Score=70.02  Aligned_cols=167  Identities=5%  Similarity=-0.079  Sum_probs=110.1

Q ss_pred             hcCChh-HHHHHHHHcccCCCCCHHHHHHHHHHHHhcCC----------hhHHHHHHHHHHHCCCCCCHHhHHHHHHHHH
Q 043999          153 KSCSFD-KGWLFFSENRCKVELDVYSFGILIKGCCEAGD----------LNKAFEVLNQLEEMGFSPNVVIYTSLIDGCC  221 (574)
Q Consensus       153 ~~g~~~-~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  221 (574)
                      +.|.++ +|+.+++.+....|.+..+|+.--..+...+.          +++++..++.+..... -+..+|+.-...+.
T Consensus        41 ~~~e~s~eaL~~t~~~L~~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~P-Kny~aW~hR~wlL~  119 (331)
T 3dss_A           41 QAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP-KSYGTWHHRCWLLS  119 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHh
Confidence            455555 78899988888777788888877666655544          5677788887776543 36677777777777


Q ss_pred             hcC--CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCC-HHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhc-----
Q 043999          222 KNG--DIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGL-QKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNE-----  293 (574)
Q Consensus       222 ~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~-----  293 (574)
                      +.|  ++++++..++++.+.++. +..+|+.-.-.+...|. .+++++.++++++..+ -|...|+.....+.+.     
T Consensus       120 ~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p-~N~SAW~~R~~ll~~l~~~~~  197 (331)
T 3dss_A          120 RLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPD  197 (331)
T ss_dssp             HCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHHSCCC-
T ss_pred             ccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhhhccc
Confidence            777  377888888888777654 66777777666677776 4777777777776643 3666666555544443     


Q ss_pred             ---------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 043999          294 ---------GKVSEGFKLFDEMRHREVACNVVTYNTLIC  323 (574)
Q Consensus       294 ---------g~~~~A~~~~~~m~~~~~~~~~~~~~~li~  323 (574)
                               +.++++++.++......+. |...|+-+-.
T Consensus       198 ~~~~~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~  235 (331)
T 3dss_A          198 SGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRW  235 (331)
T ss_dssp             -----CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHH
T ss_pred             cccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence                     2355555555555554444 5555544333

>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=98.51  E-value=2.2e-06  Score=68.51  Aligned_cols=98  Identities=10%  Similarity=-0.022  Sum_probs=74.6

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      ...|..+...+.+.|++++|+..|++.++.. +.+...+..+..++.+.|++++|+..|++.....|.+..+|..+...+
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            3567777788888888888888888887764 335677777777788888888888888877766666777777778888


Q ss_pred             HhcCChhHHHHHHHHHHHC
Q 043999          186 CEAGDLNKAFEVLNQLEEM  204 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~  204 (574)
                      ...|++++|.+.|++..+.
T Consensus        83 ~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           83 IAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHh
Confidence            8888888888877777663

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.51  E-value=1.4e-06  Score=67.71  Aligned_cols=101  Identities=6%  Similarity=-0.110  Sum_probs=73.8

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCC--CHHHHHHH
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVEL--DVYSFGIL  181 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~l  181 (574)
                      .+...|..+...+.+.|++++|+..|++.++.. +.+..++..+...+...|++++|.+.|++.....+.  +...+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l   82 (112)
T 2kck_A            4 QNPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAK   82 (112)
T ss_dssp             SSTTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHH
Confidence            345667778888888888888888888887754 335666777777777777777777777777666555  67777777


Q ss_pred             HHHHHhc-CChhHHHHHHHHHHHCC
Q 043999          182 IKGCCEA-GDLNKAFEVLNQLEEMG  205 (574)
Q Consensus       182 i~~~~~~-g~~~~A~~~~~~m~~~g  205 (574)
                      ...+.+. |++++|.+.+++..+..
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhcc
Confidence            7777777 77777777777776643

>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=98.48  E-value=3.4e-06  Score=67.38  Aligned_cols=96  Identities=14%  Similarity=0.011  Sum_probs=57.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 043999          457 TYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLC  536 (574)
Q Consensus       457 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~  536 (574)
                      .+..+...+.+.|++++|+..|++.++..+. +...|..+..+|.+.|++++|+..+++..+.. +.+...|..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            4445555566666666666666666654322 45566666666666666666666666666532 223455666666666


Q ss_pred             hcCCHHHHHHHHHHHHHc
Q 043999          537 QDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       537 ~~g~~~~A~~~~~~m~~~  554 (574)
                      ..|++++|...+++.++.
T Consensus        84 ~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           84 AVKEYASALETLDAARTK  101 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHh
Confidence            666666666666666643

>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=98.47  E-value=5.1e-06  Score=65.01  Aligned_cols=98  Identities=7%  Similarity=-0.103  Sum_probs=66.3

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      +..|..+...+...|++++|...|++.++.. +.+...+..+...+...|++++|...+++.....+.+...+..+...+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   82 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            3456677777777778888887777777653 235566666666677777777777777766655555666666666666


Q ss_pred             HhcCChhHHHHHHHHHHHC
Q 043999          186 CEAGDLNKAFEVLNQLEEM  204 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~  204 (574)
                      .+.|++++|.+.+++..+.
T Consensus        83 ~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhhHHHHHHHHHHHHHc
Confidence            6777777777777666654

>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=98.47  E-value=3.8e-07  Score=79.80  Aligned_cols=146  Identities=10%  Similarity=-0.059  Sum_probs=68.1

Q ss_pred             HHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCC-CC--------------HHhHHH
Q 043999          151 VIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFS-PN--------------VVIYTS  215 (574)
Q Consensus       151 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~--------------~~~~~~  215 (574)
                      ....|+++++.+.++............+..+...+.+.|++++|.+.|++..+.... |+              ..++..
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (198)
T 2fbn_A           14 RENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLN   93 (198)
T ss_dssp             --------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHH
Confidence            334455555554444322222224445666666777777777777777776653211 10              144555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCC
Q 043999          216 LIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGK  295 (574)
Q Consensus       216 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~  295 (574)
                      +..+|.+.|++++|+..+++..+.... +...+..+..++...|++++|.+.|++..+.. +.+...+..+...+...++
T Consensus        94 la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~  171 (198)
T 2fbn_A           94 LATCYNKNKDYPKAIDHASKVLKIDKN-NVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKE  171 (198)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHH
Confidence            555555555555555555555544321 34445555555555555555555555554432 1133344444444444443


Q ss_pred             HHH
Q 043999          296 VSE  298 (574)
Q Consensus       296 ~~~  298 (574)
                      .++
T Consensus       172 ~~~  174 (198)
T 2fbn_A          172 ARK  174 (198)
T ss_dssp             HHC
T ss_pred             HHH
Confidence            333

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.46  E-value=1.8e-06  Score=70.76  Aligned_cols=100  Identities=10%  Similarity=-0.084  Sum_probs=73.1

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHH
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIK  183 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  183 (574)
                      .+...+..+...+.+.|++++|+..|++.++.+ +.+...|..+..++.+.|++++|+..|++.....|.+...+..+..
T Consensus        16 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~   94 (142)
T 2xcb_A           16 DTLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHH
Confidence            345566777777888888888888888877754 3356667777777777777777777777777666667777777777


Q ss_pred             HHHhcCChhHHHHHHHHHHHC
Q 043999          184 GCCEAGDLNKAFEVLNQLEEM  204 (574)
Q Consensus       184 ~~~~~g~~~~A~~~~~~m~~~  204 (574)
                      +|...|++++|.+.|++..+.
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            777777777777777776653

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.45  E-value=1.9e-06  Score=70.59  Aligned_cols=98  Identities=10%  Similarity=-0.053  Sum_probs=51.4

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 043999          174 DVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLIC  253 (574)
Q Consensus       174 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  253 (574)
                      +...+..+...+.+.|++++|.+.|++..+... .+...|..+..++.+.|++++|+..|++..+.++. +...+..+..
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLDH-YDARYFLGLGACRQSLGLYEQALQSYSYGALMDIN-EPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHH
Confidence            444444555555555555555555555554321 24445555555555555555555555555554332 3444555555


Q ss_pred             HHHhcCCHHHHHHHHHHHHH
Q 043999          254 GLFKNGLQKDGFEFYEKMQL  273 (574)
Q Consensus       254 ~~~~~g~~~~a~~~~~~~~~  273 (574)
                      ++...|++++|.+.|++..+
T Consensus        95 ~~~~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555555544

>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=98.45  E-value=3.5e-06  Score=67.47  Aligned_cols=104  Identities=11%  Similarity=0.025  Sum_probs=68.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCC----HHHHHH
Q 043999          422 TYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKL--EPN----DVVYNM  495 (574)
Q Consensus       422 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~--~p~----~~~~~~  495 (574)
                      .+..+...+.+.|++++|+..|++.++.. +.+...|..+..+|.+.|++++|++.+++.++..+  .++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            45556666777777777777777776653 44566677777777777777777777777665311  111    235667


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 043999          496 MIFGYCKEGNSYRALRLLGEMNEKGLVPNIASY  528 (574)
Q Consensus       496 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  528 (574)
                      +..++...|++++|++.|++.++  ..||+.+.
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~--~~~~~~~~  119 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS--EFRDPELV  119 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HSCCHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh--hCcCHHHH
Confidence            77777788888888888888776  34565443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.44  E-value=4.5e-06  Score=70.31  Aligned_cols=101  Identities=13%  Similarity=-0.043  Sum_probs=86.3

Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHH
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILI  182 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li  182 (574)
                      +.+...|..+...+.+.|++++|+..|++.++.. +.+...+..+..++.+.|++++|+..|++.....+.+...|..+.
T Consensus         8 ~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg   86 (164)
T 3sz7_A            8 TPESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLG   86 (164)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            3456788899999999999999999999998864 336778888888899999999999999988877777888899999


Q ss_pred             HHHHhcCChhHHHHHHHHHHHC
Q 043999          183 KGCCEAGDLNKAFEVLNQLEEM  204 (574)
Q Consensus       183 ~~~~~~g~~~~A~~~~~~m~~~  204 (574)
                      ..|.+.|++++|.+.|++..+.
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHh
Confidence            9999999999999999888774

>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=98.43  E-value=6.3e-06  Score=64.50  Aligned_cols=96  Identities=13%  Similarity=-0.010  Sum_probs=49.2

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHh
Q 043999          143 TFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCK  222 (574)
Q Consensus       143 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  222 (574)
                      .+..+...+...|++++|...|++.....+.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+..
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~   84 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEF   84 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHH
Confidence            344444555555555555555555544444455555555555555555555555555555432 1134444555555555


Q ss_pred             cCCHHHHHHHHHHHHhC
Q 043999          223 NGDIERAKMLFRKIGEL  239 (574)
Q Consensus       223 ~g~~~~A~~~~~~~~~~  239 (574)
                      .|++++|.+.+++..+.
T Consensus        85 ~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           85 LNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             TTCHHHHHHHHHHHHTT
T ss_pred             HhhHHHHHHHHHHHHHc
Confidence            55555555555555443

>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=98.41  E-value=1.7e-06  Score=69.38  Aligned_cols=109  Identities=6%  Similarity=-0.015  Sum_probs=75.5

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCC-------HHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELD-------VYSF  178 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~-------~~~~  178 (574)
                      ...|..+...+...|++++|...|++.++.. +.+...+..+...+...|++++|...+++.....+.+       ..++
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            3567778888888888888888888887764 3456677777777778888888888777766542222       6667


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHH
Q 043999          179 GILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLI  217 (574)
Q Consensus       179 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li  217 (574)
                      ..+...+.+.|++++|.+.|++..+..  |+......+.
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~  119 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEH--RTPDVLKKCQ  119 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC--CCHHHHHHHH
Confidence            777777777777777777777776642  4444444333

>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=98.39  E-value=4.8e-06  Score=72.69  Aligned_cols=123  Identities=15%  Similarity=0.001  Sum_probs=72.9

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH----------------HHHHHHHHHHHhcCChhHHHHHHHHccc
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRS----------------NTFNSLLIFVIKSCSFDKGWLFFSENRC  169 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~----------------~~~~~ll~~~~~~g~~~~A~~~~~~~~~  169 (574)
                      ...+..+...+.+.|++++|+..|++.++.... +.                .++..+..++.+.|++++|+..+++...
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~  116 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIH-TEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLK  116 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTT-CTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhc-ccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            456778888889999999999999998875311 21                4455555555566666666666665555


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHH
Q 043999          170 KVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAK  230 (574)
Q Consensus       170 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  230 (574)
                      ..+.+..++..+..+|...|++++|.+.|++..+.. +.+...+..+..++...++.+++.
T Consensus       117 ~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~  176 (198)
T 2fbn_A          117 IDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKD  176 (198)
T ss_dssp             HSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC--
T ss_pred             hCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHH
Confidence            445555555666666666666666666666555432 113444444555554444444444

>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=98.39  E-value=5.5e-06  Score=67.15  Aligned_cols=99  Identities=8%  Similarity=-0.046  Sum_probs=70.0

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHH
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIK  183 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  183 (574)
                      .++..|..+...+.+.|++++|+..|++.++.. +.+...+..+..++...|++++|...|++.....+.+...+..+..
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   85 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   85 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHH
Confidence            456677777788888888888888888877653 3346666667777777777777777777766655666667777777


Q ss_pred             HHHhcCChhHHHHHHHHHHH
Q 043999          184 GCCEAGDLNKAFEVLNQLEE  203 (574)
Q Consensus       184 ~~~~~g~~~~A~~~~~~m~~  203 (574)
                      .+...|++++|.+.|++..+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            77777777777777766654

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.39  E-value=4.6e-06  Score=64.60  Aligned_cols=99  Identities=16%  Similarity=-0.008  Sum_probs=69.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHHHHH
Q 043999          454 DVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVP--NIASYSST  531 (574)
Q Consensus       454 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p--~~~~~~~l  531 (574)
                      +...+..+...+...|++++|...++++.+.... +...+..+...+...|++++|.+.+++..+.. +.  +...+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPE-ESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHH
Confidence            3445666667777777777777777777765332 56667777777777788888888887777742 22  45677777


Q ss_pred             HHHHHhc-CCHHHHHHHHHHHHHc
Q 043999          532 IGVLCQD-GKWPEAEVLLNQMLKL  554 (574)
Q Consensus       532 ~~~~~~~-g~~~~A~~~~~~m~~~  554 (574)
                      ..++.+. |++++|.+.+++..+.
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhc
Confidence            7777778 8888888888777755

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.37  E-value=5e-06  Score=66.55  Aligned_cols=95  Identities=15%  Similarity=0.142  Sum_probs=42.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CC----HHHHHHH
Q 043999          423 YTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLE--PN----DVVYNMM  496 (574)
Q Consensus       423 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--p~----~~~~~~l  496 (574)
                      +..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++++.+....  ++    ..++..+
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            3444444445555555555555444432 233444444444444555555555555444432110  01    3344444


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH
Q 043999          497 IFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       497 i~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      ...+...|++++|.+.++++.+
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHH
Confidence            4444444444444444444444

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.35  E-value=1.5e-05  Score=65.45  Aligned_cols=100  Identities=16%  Similarity=0.009  Sum_probs=81.3

Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHH
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPR----SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSF  178 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  178 (574)
                      +.+...+..+...+.+.|++++|++.|++.++..  |+    ...+..+...+.+.|++++|+..+++.....+.+...+
T Consensus        25 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  102 (148)
T 2dba_A           25 ASSVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKAL  102 (148)
T ss_dssp             CCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHH
T ss_pred             hHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHH
Confidence            3456889999999999999999999999998864  55    56677777788888888888888888776666677788


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHC
Q 043999          179 GILIKGCCEAGDLNKAFEVLNQLEEM  204 (574)
Q Consensus       179 ~~li~~~~~~g~~~~A~~~~~~m~~~  204 (574)
                      ..+...+...|++++|.+.|++..+.
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            88888888888888888888887764

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.34  E-value=9.2e-06  Score=68.37  Aligned_cols=99  Identities=7%  Similarity=-0.019  Sum_probs=79.2

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 043999          419 SEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIF  498 (574)
Q Consensus       419 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~  498 (574)
                      +...+..+...+.+.|++++|...|++..+.. +.+...|..+..+|.+.|++++|+..+++.++.... +...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            45567777788888888888888888887764 456778888888888888888888888888876433 5777888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC
Q 043999          499 GYCKEGNSYRALRLLGEMNEK  519 (574)
Q Consensus       499 ~~~~~g~~~~A~~~~~~m~~~  519 (574)
                      +|...|++++|.+.|++..+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            888888888888888888874

>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=98.32  E-value=1.4e-05  Score=64.65  Aligned_cols=98  Identities=8%  Similarity=-0.136  Sum_probs=48.5

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 043999          419 SEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIF  498 (574)
Q Consensus       419 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~  498 (574)
                      +...+..+...+...|++++|...|+...+.. +.+...+..+..++...|++++|...+++.++..+. +...+..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCch-hHHHHHHHHH
Confidence            34444455555555555555555555554432 233444555555555555555555555555543222 3444555555


Q ss_pred             HHHhcCCHHHHHHHHHHHHH
Q 043999          499 GYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       499 ~~~~~g~~~~A~~~~~~m~~  518 (574)
                      +|...|++++|...+++..+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            55555555555555555444

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.30  E-value=4.7e-06  Score=66.05  Aligned_cols=96  Identities=14%  Similarity=-0.004  Sum_probs=72.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHh
Q 043999          108 LYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCE  187 (574)
Q Consensus       108 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~  187 (574)
                      .+..+...+.+.|++++|+..|++.++.. +.+...|..+..++...|++++|+..|++.....|.+...+..+...+.+
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            45667777888888888888888888764 33667777777777888888888888877776666677777777778888


Q ss_pred             cCChhHHHHHHHHHHHC
Q 043999          188 AGDLNKAFEVLNQLEEM  204 (574)
Q Consensus       188 ~g~~~~A~~~~~~m~~~  204 (574)
                      .|++++|++.+++..+.
T Consensus        98 ~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           98 EHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHC-
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            88888888888777653

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.28  E-value=2.9e-05  Score=63.64  Aligned_cols=98  Identities=14%  Similarity=0.023  Sum_probs=61.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 043999          454 DVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPN----DVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYS  529 (574)
Q Consensus       454 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  529 (574)
                      +...+..+...+...|++++|.+.|++..+.  .|+    ...|..+...|...|++++|+..+++..+.. +.+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHH
Confidence            4455566666666666666666666666654  333    4556666666666777777777776666641 22455666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc
Q 043999          530 STIGVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       530 ~l~~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      .+..++...|++++|...+++.++.
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            6666666777777777777776654

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.27  E-value=7.4e-06  Score=64.86  Aligned_cols=95  Identities=13%  Similarity=0.005  Sum_probs=63.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 043999          458 YGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQ  537 (574)
Q Consensus       458 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~  537 (574)
                      +..+...+.+.|++++|+..++++++..+. +...|..+..++...|++++|+..+++..+.. +.+...+..+..++.+
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            344555666777777777777777765332 56667777777777777777777777777642 2245666667777777


Q ss_pred             cCCHHHHHHHHHHHHHc
Q 043999          538 DGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       538 ~g~~~~A~~~~~~m~~~  554 (574)
                      .|++++|...+++.++.
T Consensus        98 ~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           98 EHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHC-
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            77777777777777643

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.25  E-value=6.7e-05  Score=74.35  Aligned_cols=197  Identities=11%  Similarity=-0.001  Sum_probs=108.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCh----------------hhHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCC
Q 043999          322 ICGLCKEMRVQEAERLLDQMKMAGISPNV----------------ITYNKLIDGFCDAGETDKAFRLFNQLKSNG-QSPS  384 (574)
Q Consensus       322 i~~~~~~~~~~~A~~~~~~m~~~g~~~~~----------------~~~~~li~~~~~~g~~~~A~~~~~~~~~~g-~~~~  384 (574)
                      ...+.+.|++++|++.|..+.+.......                ..+..++..|.+.|++++|.+.+..+.+.- ..++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            44567788888888888888775422111                125566777777777777777776654421 0111


Q ss_pred             HH----HHHHHHHHHHhcCChHHHHHHHHHHHH----CCCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCC-
Q 043999          385 VV----TYNVLIRAFSKAGNSKMASDLVREMEE----RGITPS-EVTYTILIDSFVRSDDMEKAFEMYSLMQKS--GFS-  452 (574)
Q Consensus       385 ~~----~~~~li~~~~~~g~~~~A~~~~~~m~~----~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~-  452 (574)
                      ..    +.+.+...+...|+.+.|..++++...    .+..+. ..++..+...+...|++++|..+++.+...  +.. 
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            11    122222233345667777776666542    222222 334556666666777777777776665432  111 


Q ss_pred             -C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCC-C--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          453 -P-DVYTYGVLIHGLCMKGNMKEASKLFNSMWET---KLEP-N--DVVYNMMIFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       453 -~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~p-~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~  518 (574)
                       + ...++..++..|...|++++|..++++....   ...| .  ...+..++..+...|++++|...|.+..+
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence             1 1235566666666777777777776665532   1111 1  23445555556666677777666666655

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.24  E-value=8.9e-05  Score=73.43  Aligned_cols=124  Identities=11%  Similarity=-0.025  Sum_probs=64.2

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCH----------------HHHHHHHHHHHhcCChhHHHHHHHHcccC--CCCC
Q 043999          113 IDAHLKSRLSDQALFYFHQMLDSGVRPRS----------------NTFNSLLIFVIKSCSFDKGWLFFSENRCK--VELD  174 (574)
Q Consensus       113 i~~~~~~g~~~~A~~~~~~~~~~g~~p~~----------------~~~~~ll~~~~~~g~~~~A~~~~~~~~~~--~~~~  174 (574)
                      .+.+.+.|++++|++.|.++++.......                .++..+...|.+.|++++|.+.+..+...  .-++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            45677899999999999999875422111                12445566666666666666666655432  0111


Q ss_pred             H----HHHHHHHHHHHhcCChhHHHHHHHHHHH----CCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          175 V----YSFGILIKGCCEAGDLNKAFEVLNQLEE----MGFSPN-VVIYTSLIDGCCKNGDIERAKMLFRKI  236 (574)
Q Consensus       175 ~----~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~  236 (574)
                      .    .+.+.+...+...|+.++|.+++++...    .+..+. ..++..+...|...|++++|..+++++
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~  161 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDL  161 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHH
Confidence            1    1222233333344555555555554432    111111 224444555555555555555555544

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.23  E-value=6.1e-06  Score=68.84  Aligned_cols=97  Identities=13%  Similarity=0.008  Sum_probs=59.2

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHhcCChhHHHHHHHHcccCC--CC----C
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVR-PR----SNTFNSLLIFVIKSCSFDKGWLFFSENRCKV--EL----D  174 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~-p~----~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~--~~----~  174 (574)
                      ..++..+...|...|++++|+..+++.++.... ++    ..++..+...+...|++++|...+++.....  ..    .
T Consensus         9 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~   88 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVE   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHH
Confidence            457888889999999999999999988753111 11    1245556666666677777766666654320  01    1


Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHH
Q 043999          175 VYSFGILIKGCCEAGDLNKAFEVLNQLE  202 (574)
Q Consensus       175 ~~~~~~li~~~~~~g~~~~A~~~~~~m~  202 (574)
                      ..++..+...+...|++++|.+.+++..
T Consensus        89 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~  116 (164)
T 3ro3_A           89 AQSCYSLGNTYTLLQDYEKAIDYHLKHL  116 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            3345555555555666666655555544

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.20  E-value=3.8e-05  Score=61.29  Aligned_cols=90  Identities=11%  Similarity=0.034  Sum_probs=42.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHH
Q 043999          427 IDSFVRSDDMEKAFEMYSLMQKSGFSPDV---YTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPN---DVVYNMMIFGY  500 (574)
Q Consensus       427 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~---~~~~~~li~~~  500 (574)
                      ...+...|++++|...|+.+.+.. +.+.   ..+..+..++.+.|++++|...++++.+..+. +   ...+..+..++
T Consensus         9 a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la~~~   86 (129)
T 2xev_A            9 AFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHH
Confidence            344445555555555555554432 1111   24444444555555555555555555443211 1   33444445555


Q ss_pred             HhcCCHHHHHHHHHHHHH
Q 043999          501 CKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       501 ~~~g~~~~A~~~~~~m~~  518 (574)
                      ...|++++|...|+++.+
T Consensus        87 ~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            555555555555555544

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.18  E-value=4.4e-05  Score=60.90  Aligned_cols=95  Identities=16%  Similarity=0.003  Sum_probs=67.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCChhHHHHHHHHcccCCCCC---HHHHHHHH
Q 043999          109 YESIIDAHLKSRLSDQALFYFHQMLDSGVRPRS---NTFNSLLIFVIKSCSFDKGWLFFSENRCKVELD---VYSFGILI  182 (574)
Q Consensus       109 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~---~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~li  182 (574)
                      +..+...+.+.|++++|+..|++.++... .+.   ..+..+..++.+.|++++|...|+++....|.+   ..++..+.
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la   83 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELYP-NGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHCC-CCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHH
Confidence            44566777788888888888888877532 122   356666777777788888877777776654555   56677777


Q ss_pred             HHHHhcCChhHHHHHHHHHHHC
Q 043999          183 KGCCEAGDLNKAFEVLNQLEEM  204 (574)
Q Consensus       183 ~~~~~~g~~~~A~~~~~~m~~~  204 (574)
                      ..+.+.|++++|.+.|+++.+.
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            7777777777777777777664

>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=98.16  E-value=1.5e-06  Score=87.30  Aligned_cols=124  Identities=7%  Similarity=0.006  Sum_probs=93.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhc
Q 043999          109 YESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEA  188 (574)
Q Consensus       109 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~  188 (574)
                      |..+...+.+.|++++|++.|++.++.. +.+..++..+..++.+.|++++|++.+++.....+.+..++..+..+|.+.
T Consensus         9 ~~~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~   87 (477)
T 1wao_1            9 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMAL   87 (477)
T ss_dssp             SSSSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            3444555668899999999999988864 335778888888899999999999999888877777888888889999999


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHhHHHHHHH--HHhcCCHHHHHHHHH
Q 043999          189 GDLNKAFEVLNQLEEMGFSPNVVIYTSLIDG--CCKNGDIERAKMLFR  234 (574)
Q Consensus       189 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~--~~~~g~~~~A~~~~~  234 (574)
                      |++++|.+.|++..+... .+...+..+..+  +.+.|++++|++.++
T Consensus        88 g~~~eA~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           88 GKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             TCHHHHHHHHHHHHHHST-TCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             CCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999988887532 134455555555  777888888888887

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.15  E-value=1.2e-05  Score=66.92  Aligned_cols=131  Identities=11%  Similarity=-0.052  Sum_probs=74.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC----CCC-CHHH
Q 043999          423 YTILIDSFVRSDDMEKAFEMYSLMQKSGF-SPD----VYTYGVLIHGLCMKGNMKEASKLFNSMWETK----LEP-NDVV  492 (574)
Q Consensus       423 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----~~p-~~~~  492 (574)
                      +..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|.+.+++..+..    ..+ ...+
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            44444445555555555555554433200 011    1345556666666677777776666655421    000 1345


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          493 YNMMIFGYCKEGNSYRALRLLGEMNEK----GLVP-NIASYSSTIGVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       493 ~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      +..+...+...|++++|.+.+++..+.    +..+ ...++..+...+...|++++|...+++.++
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            666677777777777777777776542    1111 124566677777788888888888887764

>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=98.13  E-value=2.4e-05  Score=78.10  Aligned_cols=138  Identities=12%  Similarity=-0.034  Sum_probs=65.4

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      ...|..+...|.+.|++++|+..|++.++..  |+...+           .-++..+ ..      +....+|..+..+|
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~-----------~~~~~~~-~~------~~~~~~~~nla~~~  327 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL--EMEYGL-----------SEKESKA-SE------SFLLAAFLNLAMCY  327 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--TTCCSC-----------CHHHHHH-HH------HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccC-----------ChHHHHH-HH------HHHHHHHHHHHHHH
Confidence            3567777777777778888877777777642  211000           0000000 00      00133444455555


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHH
Q 043999          186 CEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGF  265 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  265 (574)
                      .+.|++++|+..+++.++... .+...|..+..+|...|++++|+..|++..+..+. +...+..+..++.+.++.+++.
T Consensus       328 ~~~g~~~~A~~~~~~al~~~p-~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          328 LKLREYTKAVECCDKALGLDS-ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             HHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555544321 23444555555555555555555555555444322 3344555555555555554443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.10  E-value=5.2e-06  Score=65.31  Aligned_cols=87  Identities=13%  Similarity=0.060  Sum_probs=60.2

Q ss_pred             hcCChHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHH
Q 043999          118 KSRLSDQALFYFHQMLDSG--VRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAF  195 (574)
Q Consensus       118 ~~g~~~~A~~~~~~~~~~g--~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  195 (574)
                      ..|++++|+..|++.++.+  -+.+..++..+..++.+.|++++|+..|++.....|.+..++..+..++.+.|++++|.
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            3577788888888887753  12235566677777777888888888887777666667777777777777888888888


Q ss_pred             HHHHHHHHC
Q 043999          196 EVLNQLEEM  204 (574)
Q Consensus       196 ~~~~~m~~~  204 (574)
                      +.+++..+.
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            877777664

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.09  E-value=4.8e-05  Score=63.69  Aligned_cols=97  Identities=10%  Similarity=0.003  Sum_probs=57.2

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHHC-------CC----------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 043999          421 VTYTILIDSFVRSDDMEKAFEMYSLMQKS-------GF----------SPDVYTYGVLIHGLCMKGNMKEASKLFNSMWE  483 (574)
Q Consensus       421 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~-------~~----------~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  483 (574)
                      ..+......+.+.|++++|...|....+.       .-          +.+...|..+..+|.+.|++++|+..++++++
T Consensus        12 ~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~   91 (162)
T 3rkv_A           12 EALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLK   91 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            44566666777777777777777776553       00          11123455555566666666666666666655


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          484 TKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       484 ~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      ..+. +...|..+..+|...|++++|...|++..+
T Consensus        92 ~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  125 (162)
T 3rkv_A           92 REET-NEKALFRRAKARIAAWKLDEAEEDLKLLLR  125 (162)
T ss_dssp             HSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCc-chHHHHHHHHHHHHHhcHHHHHHHHHHHHh
Confidence            4322 455566666666666666666666666655

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.09  E-value=4.5e-05  Score=63.89  Aligned_cols=99  Identities=14%  Similarity=0.038  Sum_probs=68.3

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHC--------CC---------CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          385 VVTYNVLIRAFSKAGNSKMASDLVREMEER--------GI---------TPSEVTYTILIDSFVRSDDMEKAFEMYSLMQ  447 (574)
Q Consensus       385 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--------~~---------~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  447 (574)
                      ...+......+.+.|++++|+..|.+..+.        ..         +.+...|..+..+|.+.|++++|...++..+
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            445666677777777888887777776653        00         1123456667777777778888877777777


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043999          448 KSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWET  484 (574)
Q Consensus       448 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  484 (574)
                      +.. +.+...|..+..+|...|++++|...|++.++.
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            654 455667777777777778888888777777764

>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=98.08  E-value=8.6e-06  Score=81.69  Aligned_cols=119  Identities=9%  Similarity=-0.030  Sum_probs=85.1

Q ss_pred             HHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHH
Q 043999          149 IFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIER  228 (574)
Q Consensus       149 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  228 (574)
                      ..+.+.|++++|.+.|++.....+.+..+|..+...|.+.|++++|++.+++..+... .+..++..+..+|.+.|++++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~~~~~~g~~~e   92 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNMALGKFRA   92 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHH
Confidence            3455778888888888887776677788888888888888888888888888887632 356677888888888888888


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHH--HHhcCCHHHHHHHHH
Q 043999          229 AKMLFRKIGELGLVATQHTYTVLICG--LFKNGLQKDGFEFYE  269 (574)
Q Consensus       229 A~~~~~~~~~~~~~~~~~~~~~li~~--~~~~g~~~~a~~~~~  269 (574)
                      |++.|++..+..+. +...+..+..+  +.+.|++++|++.++
T Consensus        93 A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           93 ALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            88888887775433 34455555555  777788888888777

>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=98.07  E-value=3.2e-05  Score=74.63  Aligned_cols=138  Identities=14%  Similarity=0.010  Sum_probs=76.4

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHH
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCC  186 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~  186 (574)
                      ..|..+...+.+.|++++|+..|++.++.-  +...          .....       ++.....+.+..+|..+..+|.
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~--~~~~----------~~~~~-------~~~~~~~~~~~~~~~nla~~~~  284 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYV--EGSR----------AAAED-------ADGAKLQPVALSCVLNIGACKL  284 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHHH----------HHSCH-------HHHGGGHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHh--hcCc----------cccCh-------HHHHHHHHHHHHHHHHHHHHHH
Confidence            457778888888888888888888877620  0000          00000       0000011224455666666666


Q ss_pred             hcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHH
Q 043999          187 EAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGF  265 (574)
Q Consensus       187 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  265 (574)
                      +.|++++|++.+++.++.. +.+...+..+..+|.+.|++++|++.|++..+..+. +...+..+...+.+.++.+++.
T Consensus       285 ~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~-~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          285 KMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             HTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666666542 124455666666666666666666666666554332 4445555555555555555544

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.07  E-value=9.2e-06  Score=63.85  Aligned_cols=84  Identities=13%  Similarity=0.031  Sum_probs=37.8

Q ss_pred             CCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 043999          434 DDMEKAFEMYSLMQKSG--FSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALR  511 (574)
Q Consensus       434 g~~~~A~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  511 (574)
                      |++++|...|++..+.+  -+.+...+..+...|...|++++|++.|+++++..+. +..++..+..++...|++++|+.
T Consensus         4 g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            4 GLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ---CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHHHH
Confidence            44455555555554432  1122334444444555555555555555555443222 34444445555555555555555


Q ss_pred             HHHHHHH
Q 043999          512 LLGEMNE  518 (574)
Q Consensus       512 ~~~~m~~  518 (574)
                      .+++..+
T Consensus        83 ~~~~al~   89 (117)
T 3k9i_A           83 LLLKIIA   89 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555444

>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=98.05  E-value=5.4e-05  Score=75.51  Aligned_cols=154  Identities=9%  Similarity=-0.104  Sum_probs=114.6

Q ss_pred             hcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC--------------HHhHHHHHH
Q 043999          153 KSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPN--------------VVIYTSLID  218 (574)
Q Consensus       153 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--------------~~~~~~li~  218 (574)
                      ..+++++|...|+......+.....+..+...+.+.|++++|...|++..+......              ..+|..+..
T Consensus       246 ~l~~~~~A~~~~~~~~~~~~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~  325 (457)
T 1kt0_A          246 TLKSFEKAKESWEMDTKEKLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAM  325 (457)
T ss_dssp             EEEEEECCCCGGGSCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhcccCcchhhcCHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHH
Confidence            344555565555444333344677777777888888888888888887776421111              578999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHH
Q 043999          219 GCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSE  298 (574)
Q Consensus       219 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~  298 (574)
                      +|.+.|++++|+..+++.++..+. +...|..+..+|...|++++|+..|++.++.. +-+...+..+...+.+.++.++
T Consensus       326 ~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~  403 (457)
T 1kt0_A          326 CYLKLREYTKAVECCDKALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNE  403 (457)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999887654 78899999999999999999999999999864 2356788888899999999887


Q ss_pred             HHH-HHHHHHh
Q 043999          299 GFK-LFDEMRH  308 (574)
Q Consensus       299 A~~-~~~~m~~  308 (574)
                      +.+ .+..|..
T Consensus       404 a~~~~~~~~f~  414 (457)
T 1kt0_A          404 RDRRIYANMFK  414 (457)
T ss_dssp             HHHHHHHHC--
T ss_pred             HHHHHHHHHHh
Confidence            764 4555543

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.04  E-value=0.00016  Score=58.50  Aligned_cols=111  Identities=11%  Similarity=-0.046  Sum_probs=72.9

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHH
Q 043999          434 DDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCK----EGNSYRA  509 (574)
Q Consensus       434 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A  509 (574)
                      +++++|.+.|++..+.| .|+..    |...|...+.+++|.+.|++..+.|   +...+..|...|..    .+++++|
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            34566777777766665 33333    5555556666677777777776643   55666666666666    6677777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcC
Q 043999          510 LRLLGEMNEKGLVPNIASYSSTIGVLCQ----DGKWPEAEVLLNQMLKLG  555 (574)
Q Consensus       510 ~~~~~~m~~~g~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~g  555 (574)
                      .++|++..+.|   +...+..+...|..    .++.++|..++++..+.|
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            77777777754   45566666666666    677777777777777665

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.04  E-value=5e-05  Score=62.13  Aligned_cols=30  Identities=17%  Similarity=0.031  Sum_probs=24.8

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLDSG  136 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g  136 (574)
                      ..+......+.+.|++++|+..|++.++..
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~   41 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAMEIS   41 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhC
Confidence            456777888889999999999999988753

>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=98.03  E-value=0.00025  Score=72.37  Aligned_cols=137  Identities=6%  Similarity=-0.047  Sum_probs=65.0

Q ss_pred             hhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcC-CHHHHHHH
Q 043999          191 LNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNG--DIERAKMLFRKIGELGLVATQHTYTVLICGLFKNG-LQKDGFEF  267 (574)
Q Consensus       191 ~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~  267 (574)
                      ++++++.++++.+...+ +..+|+.-...+.+.|  +++++++.++++.+.++. +..+|+.-...+.+.| ..+++++.
T Consensus        89 ~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~  166 (567)
T 1dce_A           89 VKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAF  166 (567)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHH
Confidence            44444444444443221 3344444444444444  334444444444444333 4444444444444444 44444444


Q ss_pred             HHHHHHCCCCCCHhhHHHHHHHHHhc--------------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 043999          268 YEKMQLNGVSPSLYTYNCLIHEYCNE--------------GKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRV  331 (574)
Q Consensus       268 ~~~~~~~g~~p~~~~~~~li~~~~~~--------------g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  331 (574)
                      ++++++..+ -|...|+.....+.+.              +.++++++.+++.....+. |...|+-.-..+.+.++.
T Consensus       167 ~~~~I~~~p-~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~P~-~~saW~y~~~ll~~~~~~  242 (567)
T 1dce_A          167 TDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGRAEPH  242 (567)
T ss_dssp             HHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSS-CSHHHHHHHHHHSCCCCC
T ss_pred             HHHHHHHCC-CCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhCCC-CccHHHHHHHHHhcCCCc
Confidence            444444322 1344444433333331              3456677777666665544 666666666666555553

>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=98.02  E-value=5.4e-05  Score=73.01  Aligned_cols=140  Identities=12%  Similarity=-0.056  Sum_probs=87.6

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 043999          385 VVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHG  464 (574)
Q Consensus       385 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  464 (574)
                      ...+..+...+.+.|++++|...|++..+.-  +...          .....+++       .+.. +.+...|..+..+
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~--~~~~----------~~~~~~~~-------~~~~-~~~~~~~~nla~~  282 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRYV--EGSR----------AAAEDADG-------AKLQ-PVALSCVLNIGAC  282 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHHH----------HHSCHHHH-------GGGH-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh--hcCc----------cccChHHH-------HHHH-HHHHHHHHHHHHH
Confidence            4456666777777777777777777766520  0000          00011111       1010 2234567777778


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 043999          465 LCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEA  544 (574)
Q Consensus       465 ~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  544 (574)
                      |.+.|++++|++.++++++.... +...|..+..+|...|++++|++.|++..+.. +.+...+..+..++.+.++.+++
T Consensus       283 ~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a  360 (370)
T 1ihg_A          283 KLKMSDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDK  360 (370)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888888888875432 56777788888888888888888888887742 22455666666666666666665


Q ss_pred             HH
Q 043999          545 EV  546 (574)
Q Consensus       545 ~~  546 (574)
                      .+
T Consensus       361 ~k  362 (370)
T 1ihg_A          361 EK  362 (370)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=98.01  E-value=0.0001  Score=60.24  Aligned_cols=110  Identities=13%  Similarity=-0.024  Sum_probs=72.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC------C-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CC
Q 043999          458 YGVLIHGLCMKGNMKEASKLFNSMWETKLEP------N-----DVVYNMMIFGYCKEGNSYRALRLLGEMNEK-----GL  521 (574)
Q Consensus       458 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p------~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g~  521 (574)
                      +......+.+.|++++|+..|++.++..+..      +     ...|..+..++.+.|++++|+..+++.++.     .+
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~   93 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGEL   93 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccC
Confidence            3344445556666666666666666532220      1     237888888888888888888888888873     01


Q ss_pred             CCCH-HHH----HHHHHHHHhcCCHHHHHHHHHHHHHc-----CCCCCHHHHHHHH
Q 043999          522 VPNI-ASY----SSTIGVLCQDGKWPEAEVLLNQMLKL-----GLKPSVSLYNILY  567 (574)
Q Consensus       522 ~p~~-~~~----~~l~~~~~~~g~~~~A~~~~~~m~~~-----g~~p~~~~~~~l~  567 (574)
                      .|+. ..|    .....++...|++++|+..|++.++.     |+.+........+
T Consensus        94 ~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~~~~  149 (159)
T 2hr2_A           94 NQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVA  149 (159)
T ss_dssp             TSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHHHHH
T ss_pred             CCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHH
Confidence            5654 567    78888899999999999999988743     5555554444333

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.00  E-value=1.2e-05  Score=76.71  Aligned_cols=149  Identities=10%  Similarity=-0.044  Sum_probs=77.6

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      ...|..+...+.+.|++++|+..|++.++..  |+...       +...|+.+++...+.         ...|..+..+|
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l~---------~~~~~nla~~~  240 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAVK---------NPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHHH---------THHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHHH---------HHHHHHHHHHH
Confidence            4567788888888999999999999888753  44321       112233333332221         13667777788


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHH-HHhcCCHHHH
Q 043999          186 CEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICG-LFKNGLQKDG  264 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~~~a  264 (574)
                      .+.|++++|++.+++.++.. +.+...|..+..+|...|++++|...|++..+..+. +...+..+... ....+..+++
T Consensus       241 ~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~-~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888888877653 235667777888888888888888888877665432 44455555544 3344566677


Q ss_pred             HHHHHHHHHC
Q 043999          265 FEFYEKMQLN  274 (574)
Q Consensus       265 ~~~~~~~~~~  274 (574)
                      ...|.+|...
T Consensus       319 ~~~~~~~l~~  328 (338)
T 2if4_A          319 KEMYKGIFKG  328 (338)
T ss_dssp             ----------
T ss_pred             HHHHHHhhCC
Confidence            7777777654

>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=97.95  E-value=0.00039  Score=71.04  Aligned_cols=176  Identities=7%  Similarity=-0.047  Sum_probs=143.7

Q ss_pred             hcC-ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC----------hhHHHHHHHHcccCCCCCHHHHHHHHHHHH
Q 043999          118 KSR-LSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCS----------FDKGWLFFSENRCKVELDVYSFGILIKGCC  186 (574)
Q Consensus       118 ~~g-~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~----------~~~A~~~~~~~~~~~~~~~~~~~~li~~~~  186 (574)
                      +.| ..++|++.++++++.+ +-+..+|+.--.++.+.|+          ++++++.++.+....|.+..+|+.-...+.
T Consensus        40 ~~~~~~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~  118 (567)
T 1dce_A           40 QAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS  118 (567)
T ss_dssp             HTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            344 4468899999999875 3356778887777777777          899999999999888899999999999999


Q ss_pred             hcC--ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc-----
Q 043999          187 EAG--DLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNG-DIERAKMLFRKIGELGLVATQHTYTVLICGLFKN-----  258 (574)
Q Consensus       187 ~~g--~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----  258 (574)
                      +.|  +++++++.++++.+.... |..+|+.-...+.+.| .++++++.++++.+.++. +..+|+.....+.+.     
T Consensus       119 ~l~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~  196 (567)
T 1dce_A          119 RLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPD  196 (567)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCC
T ss_pred             HcccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhccccc
Confidence            999  779999999999997643 7889999888888999 899999999999988765 788898888777763     


Q ss_pred             ---------CCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHH
Q 043999          259 ---------GLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVS  297 (574)
Q Consensus       259 ---------g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~  297 (574)
                               +.++++++.+.+..... +-|...|+-+-..+.+.++.+
T Consensus       197 ~~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~  243 (567)
T 1dce_A          197 SGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHD  243 (567)
T ss_dssp             SSSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCS
T ss_pred             ccccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCcc
Confidence                     55789999999988764 336777887777776666633

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.92  E-value=3e-05  Score=73.96  Aligned_cols=152  Identities=9%  Similarity=-0.075  Sum_probs=84.4

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043999          384 SVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIH  463 (574)
Q Consensus       384 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  463 (574)
                      ....+..+...+.+.|++++|...|++..+.  .|+...       +...++.+++...+.          ...|..+..
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~  238 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH----------HHHHHHHHH
Confidence            3556777777788888888888888887765  233321       223333444332221          136778888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHH-HHhcCCH
Q 043999          464 GLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPN-IASYSSTIGV-LCQDGKW  541 (574)
Q Consensus       464 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~-~~~~g~~  541 (574)
                      +|.+.|++++|+..+++.++.... +...|..+..+|...|++++|...|++..+.  .|+ ...+..+... ....+..
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~~~  315 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEEEK-NPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKALY  315 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHH
Confidence            899999999999999999886432 6788999999999999999999999998874  444 3444444444 2345677


Q ss_pred             HHHHHHHHHHHHcCCCCC
Q 043999          542 PEAEVLLNQMLKLGLKPS  559 (574)
Q Consensus       542 ~~A~~~~~~m~~~g~~p~  559 (574)
                      +++...|++|...  .|+
T Consensus       316 ~~a~~~~~~~l~~--~p~  331 (338)
T 2if4_A          316 QKQKEMYKGIFKG--KDE  331 (338)
T ss_dssp             ------------------
T ss_pred             HHHHHHHHHhhCC--CCC
Confidence            8888899988854  454

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.85  E-value=1.6e-05  Score=61.47  Aligned_cols=93  Identities=9%  Similarity=0.035  Sum_probs=61.6

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCC------HHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELD------VYSFG  179 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~------~~~~~  179 (574)
                      ...|..+...+.+.|++++|++.|++.++.. +.+...+..+..++.+.|++++|++.|++.....|.+      ...+.
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~   82 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQY   82 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHH
Confidence            4567777777778888888888888777653 3356666677777777777777777777766654444      55555


Q ss_pred             HHHHHHHhcCChhHHHHHHH
Q 043999          180 ILIKGCCEAGDLNKAFEVLN  199 (574)
Q Consensus       180 ~li~~~~~~g~~~~A~~~~~  199 (574)
                      .+..++...|+.+.|.+.++
T Consensus        83 ~~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHHHHHHHhHhhhHhHHH
Confidence            56666666665555554443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.83  E-value=0.00014  Score=53.65  Aligned_cols=83  Identities=12%  Similarity=0.085  Sum_probs=58.8

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHH
Q 043999          105 KSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKG  184 (574)
Q Consensus       105 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~  184 (574)
                      +...|..+...+.+.|++++|+..|++.++.. +.+..++..+..++.+.|++++|...|++.....|.+..++..+...
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~   86 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNA   86 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            45677778888888888888888888887753 33566667777777777777777777777766555666666666665


Q ss_pred             HHhc
Q 043999          185 CCEA  188 (574)
Q Consensus       185 ~~~~  188 (574)
                      +.+.
T Consensus        87 ~~~~   90 (91)
T 1na3_A           87 KQKQ   90 (91)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            5543

>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=97.78  E-value=0.00061  Score=55.07  Aligned_cols=16  Identities=13%  Similarity=0.204  Sum_probs=8.0

Q ss_pred             ChHHHHHHHHHHHhCC
Q 043999          121 LSDQALFYFHQMLDSG  136 (574)
Q Consensus       121 ~~~~A~~~~~~~~~~g  136 (574)
                      ++++|++.|++..+.|
T Consensus        10 d~~~A~~~~~~aa~~g   25 (138)
T 1klx_A           10 DLKKAIQYYVKACELN   25 (138)
T ss_dssp             HHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHcCC
Confidence            4445555555555444

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.78  E-value=2.4e-05  Score=60.51  Aligned_cols=90  Identities=13%  Similarity=0.018  Sum_probs=56.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-------HHH
Q 043999          455 VYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPN-------IAS  527 (574)
Q Consensus       455 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-------~~~  527 (574)
                      ...+..+...+...|++++|++.|++.++..+. +...|..+..++...|++++|++.+++..+.  .|+       ...
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~   80 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQ-NPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TSTAEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSSTTSHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCccHHHHHHHH
Confidence            445566666677777777777777777665322 5666777777777777777777777777763  343       334


Q ss_pred             HHHHHHHHHhcCCHHHHHHH
Q 043999          528 YSSTIGVLCQDGKWPEAEVL  547 (574)
Q Consensus       528 ~~~l~~~~~~~g~~~~A~~~  547 (574)
                      +..+..++...|+.++|...
T Consensus        81 ~~~~~~~~~~~~~~~~a~~~  100 (111)
T 2l6j_A           81 QYRLELAQGAVGSVQIPVVE  100 (111)
T ss_dssp             HHHHHHHHHHHHCCCCCSSS
T ss_pred             HHHHHHHHHHHHhHhhhHhH
Confidence            44445555555555554443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.76  E-value=0.00015  Score=72.18  Aligned_cols=97  Identities=10%  Similarity=0.034  Sum_probs=45.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CC-CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CC-CC
Q 043999          457 TYGVLIHGLCMKGNMKEASKLFNSMWET-----KL-EPN-DVVYNMMIFGYCKEGNSYRALRLLGEMNEK-----GL-VP  523 (574)
Q Consensus       457 ~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~-~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g~-~p  523 (574)
                      +++.|...|...|++++|+.++++.++.     |. .|+ ..+++.|...|...|++++|..++++.++.     |- .|
T Consensus       353 ~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp  432 (490)
T 3n71_A          353 LLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHP  432 (490)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCCh
Confidence            4555555555555555555555554421     11 111 234555555555555555555555554421     21 11


Q ss_pred             CH-HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          524 NI-ASYSSTIGVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       524 ~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      +. .+...+..++...|++++|..++.++++
T Consensus       433 ~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          433 ITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            11 2223333444455556666666665553

>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=97.76  E-value=6.4e-05  Score=61.34  Aligned_cols=98  Identities=15%  Similarity=0.015  Sum_probs=61.1

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 043999          432 RSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGN----------MKEASKLFNSMWETKLEPNDVVYNMMIFGYC  501 (574)
Q Consensus       432 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~----------~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~  501 (574)
                      +.+.+++|.+.++...+.. +.+...|..+..++...++          +++|+..|++.++..+. +..+|..+..+|.
T Consensus        14 r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay~   91 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHH
Confidence            3445566666666665543 4455556555555555544          45777777777775433 5667777777777


Q ss_pred             hcC-----------CHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043999          502 KEG-----------NSYRALRLLGEMNEKGLVPNIASYSSTIG  533 (574)
Q Consensus       502 ~~g-----------~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  533 (574)
                      ..|           ++++|++.|++.++  +.|+...|...+.
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~  132 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHH
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHH
Confidence            654           67777777777777  4666555544443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.69  E-value=0.00015  Score=56.52  Aligned_cols=79  Identities=14%  Similarity=-0.074  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 043999          124 QALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEE  203 (574)
Q Consensus       124 ~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  203 (574)
                      +|++.|++.++.. +.+...+..+...+...|++++|+..|++.....+.+..+|..+...+.+.|++++|.+.|++..+
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4566666666543 235566666666677777777777777766655556666777777777777777777777776654

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.67  E-value=0.0002  Score=55.76  Aligned_cols=81  Identities=12%  Similarity=-0.050  Sum_probs=61.7

Q ss_pred             hHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          158 DKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIG  237 (574)
Q Consensus       158 ~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  237 (574)
                      ++|+..|++.....|.+...+..+...|...|++++|.+.|++..+.. +.+...|..+..+|...|++++|...|++..
T Consensus         2 ~~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            2 QAITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CCHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            356677777776667778888888888888888888888888887754 2356677788888888888888888888776


Q ss_pred             hC
Q 043999          238 EL  239 (574)
Q Consensus       238 ~~  239 (574)
                      +.
T Consensus        81 ~~   82 (115)
T 2kat_A           81 AA   82 (115)
T ss_dssp             HH
T ss_pred             Hh
Confidence            53

>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=97.66  E-value=9.2e-05  Score=60.40  Aligned_cols=99  Identities=10%  Similarity=0.025  Sum_probs=74.5

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh----------hHHHHHHHHcccCCCCCHHHHHHHHHHHH
Q 043999          117 LKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSF----------DKGWLFFSENRCKVELDVYSFGILIKGCC  186 (574)
Q Consensus       117 ~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~----------~~A~~~~~~~~~~~~~~~~~~~~li~~~~  186 (574)
                      .+.+.+++|++.+++.++.. +.+...|..+..++...+++          ++|+..|++.....|.+..+|..+..+|.
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~   91 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHH
Confidence            35677899999999988875 44788888888888887765          48888888888777778888888888888


Q ss_pred             hcC-----------ChhHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 043999          187 EAG-----------DLNKAFEVLNQLEEMGFSPNVVIYTSLID  218 (574)
Q Consensus       187 ~~g-----------~~~~A~~~~~~m~~~g~~p~~~~~~~li~  218 (574)
                      ..|           ++++|++.|++..+.  .|+...|...+.
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~  132 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            764           788888888887774  466555544433

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.61  E-value=0.0003  Score=70.04  Aligned_cols=126  Identities=11%  Similarity=-0.030  Sum_probs=86.2

Q ss_pred             HHHhcCChHHHHHHHHHHHHC---CCCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CC-CCCC-HHHHH
Q 043999          394 AFSKAGNSKMASDLVREMEER---GITPS----EVTYTILIDSFVRSDDMEKAFEMYSLMQK-----SG-FSPD-VYTYG  459 (574)
Q Consensus       394 ~~~~~g~~~~A~~~~~~m~~~---~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~-~~~~-~~~~~  459 (574)
                      .+...|++++|..++++..+.   -+.|+    ..+++.|...|...|++++|..++++.++     .| -.|+ ..+++
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            345678888888887776542   11121    34577788888888888888888877653     12 1122 35678


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC-----CCC-CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          460 VLIHGLCMKGNMKEASKLFNSMWET-----KLE-PN-DVVYNMMIFGYCKEGNSYRALRLLGEMNEK  519 (574)
Q Consensus       460 ~li~~~~~~g~~~~A~~~~~~~~~~-----~~~-p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  519 (574)
                      .|...|...|++++|+.+++++++.     |.. |+ ..+.+.+..++...|.+++|..++.++.+.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888999999999888887642     322 22 334566677778888899999999888763

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.54  E-value=0.0008  Score=49.33  Aligned_cols=60  Identities=18%  Similarity=0.221  Sum_probs=24.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          458 YGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       458 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      +..+...+...|++++|+..+++..+.... +...+..+...+...|++++|...+++..+
T Consensus        12 ~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           12 WYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            333334444444444444444444432211 233344444444444444444444444443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.49  E-value=0.00044  Score=52.22  Aligned_cols=66  Identities=14%  Similarity=0.114  Sum_probs=51.1

Q ss_pred             CcchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHccc
Q 043999          103 VTKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRC  169 (574)
Q Consensus       103 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~  169 (574)
                      +.++..|..+...|.+.|++++|+..|++.++.+ +.+..+|..+..++.+.|++++|.+.|++...
T Consensus         4 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            4 PEDPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3466778888888888888888888888888764 33566777788888888888888888877653

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.24  E-value=0.0012  Score=49.66  Aligned_cols=65  Identities=15%  Similarity=0.055  Sum_probs=33.0

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 043999          173 LDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGE  238 (574)
Q Consensus       173 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  238 (574)
                      .+..++..+...|.+.|++++|++.|++..+... .+...|..+..+|.+.|++++|.+.|++..+
T Consensus         5 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            5 EDPFTRYALAQEHLKHDNASRALALFEELVETDP-DYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3444555555555555555555555555554321 1334455555555555555555555555443

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.22  E-value=0.0085  Score=56.24  Aligned_cols=74  Identities=12%  Similarity=0.101  Sum_probs=48.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 043999          489 NDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNIL  566 (574)
Q Consensus       489 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  566 (574)
                      +..+|..+...+...|++++|...+++++..  .|+...|..+...+.-.|++++|...++++...  .|...||...
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~L--n~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~~~  349 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDL--EMSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLYWI  349 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHHHH
Confidence            5666666666666667777777777777764  366666666666666777777777777777655  5666665443

>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=97.08  E-value=0.0032  Score=61.61  Aligned_cols=85  Identities=9%  Similarity=-0.074  Sum_probs=50.5

Q ss_pred             cCCHHHHHHHHHHHHhC---CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----C-CCCCH-HHHHHHHH
Q 043999          468 KGNMKEASKLFNSMWET---KLEPN----DVVYNMMIFGYCKEGNSYRALRLLGEMNEK-----G-LVPNI-ASYSSTIG  533 (574)
Q Consensus       468 ~g~~~~A~~~~~~~~~~---~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g-~~p~~-~~~~~l~~  533 (574)
                      .|++++|+.++++.++.   -+.|+    ..+++.|..+|...|++++|..++++.++-     | -.|+. .+++.+..
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            45666666666665532   11222    345666667777777777777766666532     1 12222 45666777


Q ss_pred             HHHhcCCHHHHHHHHHHHH
Q 043999          534 VLCQDGKWPEAEVLLNQML  552 (574)
Q Consensus       534 ~~~~~g~~~~A~~~~~~m~  552 (574)
                      .|...|++++|..++++.+
T Consensus       391 ~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHH
Confidence            7777777777777777765

>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=97.07  E-value=0.0089  Score=56.09  Aligned_cols=135  Identities=9%  Similarity=-0.026  Sum_probs=61.8

Q ss_pred             CCCHHHHHHHHHHHH--hcCC---hhHHHHHHHHcccCCCCCHHHHHHHHHHHHhc---C-----ChhHHHHHHHHHHH-
Q 043999          138 RPRSNTFNSLLIFVI--KSCS---FDKGWLFFSENRCKVELDVYSFGILIKGCCEA---G-----DLNKAFEVLNQLEE-  203 (574)
Q Consensus       138 ~p~~~~~~~ll~~~~--~~g~---~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~---g-----~~~~A~~~~~~m~~-  203 (574)
                      +.+..+|...+.+..  ..++   ..+|+.+|++.....|.....|..+.-+|...   +     ......+.++.... 
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~  270 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTL  270 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhc
Confidence            445566666665433  2222   35667777777666555566665555444310   0     00000111111110 


Q ss_pred             CCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          204 MGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLN  274 (574)
Q Consensus       204 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  274 (574)
                      ...+.+..+|..+...+...|++++|...+++....+  |+...|..+...+.-.|+.++|.+.+++....
T Consensus       271 ~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL  339 (372)
T 3ly7_A          271 PELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL  339 (372)
T ss_dssp             GGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            0112334444444444444455555555555555443  34444444445555555555555555555443

>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=96.92  E-value=0.0068  Score=59.34  Aligned_cols=88  Identities=14%  Similarity=0.014  Sum_probs=47.9

Q ss_pred             HHhcCCHHHHHHHHHHHHhC---CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----C-CCCC-HHHHHH
Q 043999          465 LCMKGNMKEASKLFNSMWET---KLEPN----DVVYNMMIFGYCKEGNSYRALRLLGEMNEK-----G-LVPN-IASYSS  530 (574)
Q Consensus       465 ~~~~g~~~~A~~~~~~~~~~---~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g-~~p~-~~~~~~  530 (574)
                      +.+.|++++|+.++++.++.   -+.|+    ..+++.+..+|...|++++|+.+++++++-     | -.|+ ..+++.
T Consensus       297 ~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~n  376 (429)
T 3qwp_A          297 LKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMK  376 (429)
T ss_dssp             HHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHH
T ss_pred             HHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHH
Confidence            34455566666666655532   11121    334566666666666666666666655432     1 1122 245566


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHH
Q 043999          531 TIGVLCQDGKWPEAEVLLNQML  552 (574)
Q Consensus       531 l~~~~~~~g~~~~A~~~~~~m~  552 (574)
                      +...|...|++++|..++++++
T Consensus       377 La~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          377 VGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHH
Confidence            6666666777777766666665

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.88  E-value=0.002  Score=48.21  Aligned_cols=66  Identities=9%  Similarity=-0.049  Sum_probs=36.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHH
Q 043999          112 IIDAHLKSRLSDQALFYFHQMLDSGVRPRSN-TFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSF  178 (574)
Q Consensus       112 li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  178 (574)
                      ....+.+.|++++|+..|++.++.. +.+.. .+..+..++.+.|++++|.+.|++.....|.+..++
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~   72 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQ   72 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHH
Confidence            3445556666666666666666543 22344 555555556666666666666665554434444333

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.79  E-value=0.0015  Score=48.82  Aligned_cols=56  Identities=13%  Similarity=0.096  Sum_probs=33.7

Q ss_pred             HHHHhcCChhHHHHHHHHcccCCCCCHH-HHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 043999          149 IFVIKSCSFDKGWLFFSENRCKVELDVY-SFGILIKGCCEAGDLNKAFEVLNQLEEM  204 (574)
Q Consensus       149 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~  204 (574)
                      ..+.+.|++++|...|+++....+.+.. .+..+...|...|++++|.+.|++..+.
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3445566666666666665555455555 6666666666666666666666666554

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.71  E-value=0.11  Score=55.68  Aligned_cols=27  Identities=15%  Similarity=0.087  Sum_probs=12.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          350 VITYNKLIDGFCDAGETDKAFRLFNQL  376 (574)
Q Consensus       350 ~~~~~~li~~~~~~g~~~~A~~~~~~~  376 (574)
                      ...|..+...+.+.++++.|.+.|.++
T Consensus       681 ~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          681 EMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            334444444444444444444444433

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.68  E-value=0.0063  Score=59.51  Aligned_cols=86  Identities=12%  Similarity=-0.003  Sum_probs=59.0

Q ss_pred             cCCHHHHHHHHHHHHHC---CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CC-CCC-HHHHHHHHH
Q 043999          433 SDDMEKAFEMYSLMQKS---GFSPD----VYTYGVLIHGLCMKGNMKEASKLFNSMWET-----KL-EPN-DVVYNMMIF  498 (574)
Q Consensus       433 ~g~~~~A~~~~~~~~~~---~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~-~p~-~~~~~~li~  498 (574)
                      .|++++|..++++..+.   -+.|+    ..+++.|...|...|++++|+.+++++++.     |. .|+ ..+++.|..
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            46677777777766431   11222    356777888888888888888888877642     21 222 446788888


Q ss_pred             HHHhcCCHHHHHHHHHHHHH
Q 043999          499 GYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       499 ~~~~~g~~~~A~~~~~~m~~  518 (574)
                      .|...|++++|..++++.++
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHH
Confidence            88888888888888887764

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.60  E-value=0.028  Score=45.27  Aligned_cols=81  Identities=11%  Similarity=0.067  Sum_probs=45.9

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHH
Q 043999          436 MEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKG---NMKEASKLFNSMWETKLEP--NDVVYNMMIFGYCKEGNSYRAL  510 (574)
Q Consensus       436 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~~~~~p--~~~~~~~li~~~~~~g~~~~A~  510 (574)
                      ...+.+-|.+....+ +++..+...+..++++.+   ++++++.++++..+.+ .|  +...+-.+.-+|.+.|++++|.
T Consensus        14 l~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            444555555555544 355555555666666655   4556666666666543 13  2344444555556666666666


Q ss_pred             HHHHHHHH
Q 043999          511 RLLGEMNE  518 (574)
Q Consensus       511 ~~~~~m~~  518 (574)
                      ++++.+++
T Consensus        92 ~y~~~lL~   99 (152)
T 1pc2_A           92 KYVRGLLQ   99 (152)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            66666666

>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=96.58  E-value=0.0091  Score=58.45  Aligned_cols=91  Identities=13%  Similarity=0.007  Sum_probs=62.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCC---CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C-CCCC-HHHH
Q 043999          428 DSFVRSDDMEKAFEMYSLMQKSG---FSPD----VYTYGVLIHGLCMKGNMKEASKLFNSMWET-----K-LEPN-DVVY  493 (574)
Q Consensus       428 ~~~~~~g~~~~A~~~~~~~~~~~---~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~-~~p~-~~~~  493 (574)
                      ..+.+.|++++|..++++..+..   +.|+    ..+++.+...|...|++++|+.++++++..     | -.|+ ..++
T Consensus       295 e~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l  374 (429)
T 3qwp_A          295 EELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQV  374 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHH
Confidence            33456677777777777765431   1222    346777888888888888888888877642     2 1222 4467


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          494 NMMIFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       494 ~~li~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      +.|...|...|++++|..++++..+
T Consensus       375 ~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          375 MKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            8888888888888888888887764

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.57  E-value=0.016  Score=42.60  Aligned_cols=67  Identities=9%  Similarity=-0.022  Sum_probs=37.5

Q ss_pred             CCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          452 SPDVYTYGVLIHGLCMKGN---MKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEK  519 (574)
Q Consensus       452 ~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  519 (574)
                      +.+...+..+..++...++   .++|..++++.++..+. +......+...+.+.|++++|+..|+++.+.
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3445555555555543333   46666666666654333 4555555666666666666666666666654

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.38  E-value=0.061  Score=57.76  Aligned_cols=98  Identities=10%  Similarity=0.098  Sum_probs=52.4

Q ss_pred             HhcCChHHHHH-HHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHH
Q 043999          117 LKSRLSDQALF-YFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAF  195 (574)
Q Consensus       117 ~~~g~~~~A~~-~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  195 (574)
                      ...+++++|.+ ++..+      |+......++..+.+.|..++|+++.+...           .-.....+.|++++|.
T Consensus       610 ~~~~~~~~a~~~~l~~i------~~~~~~~~~~~~l~~~~~~~~a~~~~~~~~-----------~~f~~~l~~~~~~~A~  672 (814)
T 3mkq_A          610 TLRGEIEEAIENVLPNV------EGKDSLTKIARFLEGQEYYEEALNISPDQD-----------QKFELALKVGQLTLAR  672 (814)
T ss_dssp             HHTTCHHHHHHHTGGGC------CCHHHHHHHHHHHHHTTCHHHHHHHCCCHH-----------HHHHHHHHHTCHHHHH
T ss_pred             HHhCCHHHHHHHHHhcC------CchHHHHHHHHHHHhCCChHHheecCCCcc-----------hheehhhhcCCHHHHH
Confidence            45667776655 33111      111122555666666666666665442111           0112334556666666


Q ss_pred             HHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          196 EVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIG  237 (574)
Q Consensus       196 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  237 (574)
                      ++.+.+      .+...|..+...+.+.|+++.|.+.|.++.
T Consensus       673 ~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~  708 (814)
T 3mkq_A          673 DLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAH  708 (814)
T ss_dssp             HHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHcc
Confidence            664332      245666667777777777777777666653

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.37  E-value=0.15  Score=45.81  Aligned_cols=92  Identities=12%  Similarity=0.080  Sum_probs=68.9

Q ss_pred             hhHHHHHHHHHHHCCCCCC---HHhHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc-CCH
Q 043999          191 LNKAFEVLNQLEEMGFSPN---VVIYTSLIDGCCKN-----GDIERAKMLFRKIGELGLVATQHTYTVLICGLFKN-GLQ  261 (574)
Q Consensus       191 ~~~A~~~~~~m~~~g~~p~---~~~~~~li~~~~~~-----g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~  261 (574)
                      ...|...+++..+.  .|+   ...|..+...|.+.     |+.++|.+.|++.++.++.-+..++......++.. |+.
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            45777777777774  455   45788888888884     89999999999988876543577788888888884 888


Q ss_pred             HHHHHHHHHHHHCCCC--CCHhhHH
Q 043999          262 KDGFEFYEKMQLNGVS--PSLYTYN  284 (574)
Q Consensus       262 ~~a~~~~~~~~~~g~~--p~~~~~~  284 (574)
                      +++.+.+++.+.....  |+....+
T Consensus       257 ~~a~~~L~kAL~a~p~~~P~~~lan  281 (301)
T 3u64_A          257 AGFDEALDRALAIDPESVPHNKLLV  281 (301)
T ss_dssp             HHHHHHHHHHHHCCGGGCSSCHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCChhHHH
Confidence            9999999988887555  5544333

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.36  E-value=0.035  Score=44.68  Aligned_cols=86  Identities=13%  Similarity=0.045  Sum_probs=48.7

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHHH
Q 043999          471 MKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEG---NSYRALRLLGEMNEKGLVP--NIASYSSTIGVLCQDGKWPEAE  545 (574)
Q Consensus       471 ~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~g~~p--~~~~~~~l~~~~~~~g~~~~A~  545 (574)
                      +..+.+-|.+....+. ++..+...+.+++++.+   +.++++.++++..+.+ .|  +...+..+.-++.+.|++++|.
T Consensus        14 l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            3445555555555443 45666666666666665   4456666666666642 23  2233444555566666666666


Q ss_pred             HHHHHHHHcCCCCCH
Q 043999          546 VLLNQMLKLGLKPSV  560 (574)
Q Consensus       546 ~~~~~m~~~g~~p~~  560 (574)
                      ++++.+++.  +|+.
T Consensus        92 ~y~~~lL~i--eP~n  104 (152)
T 1pc2_A           92 KYVRGLLQT--EPQN  104 (152)
T ss_dssp             HHHHHHHHH--CTTC
T ss_pred             HHHHHHHhc--CCCC
Confidence            666666654  5554

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.29  E-value=3.8e-06  Score=79.99  Aligned_cols=205  Identities=14%  Similarity=0.180  Sum_probs=133.2

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHH
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIK  183 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  183 (574)
                      ..+.+|..|..++.+.++..+|++-|-+.   +   |+..|..++....+.|.+++-++.+.-.++. ..++..=+.|+-
T Consensus        52 n~p~VWs~LgkAqL~~~~v~eAIdsyIkA---~---Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~-~ke~~IDteLi~  124 (624)
T 3lvg_A           52 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA---D---DPSSYMEVVQAANTSGNWEELVKYLQMARKK-ARESYVETELIF  124 (624)
T ss_dssp             CCCCCSSSHHHHTTTSSSCTTTTTSSCCC---S---CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT-CCSTTTTHHHHH
T ss_pred             CCccHHHHHHHHHHccCchHHHHHHHHhC---C---ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-hcccccHHHHHH
Confidence            44567999999999999999988765432   2   4556778899999999999999888777665 334455567888


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC--------------------CCC
Q 043999          184 GCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELG--------------------LVA  243 (574)
Q Consensus       184 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--------------------~~~  243 (574)
                      +|++.++..+-.+.+.       .||..-...+.+-|...|.++.|.-+|..+....                    -..
T Consensus       125 ayAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAn  197 (624)
T 3lvg_A          125 ALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKAN  197 (624)
T ss_dssp             HHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCC
T ss_pred             HHHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            9999998776544431       3677777888888888888888887776543210                    012


Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 043999          244 TQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLIC  323 (574)
Q Consensus       244 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~  323 (574)
                      ++.||.-+..+|...+.+.-|.-.--.+.-.   ||  -...++..|-..|.+++-+.+++.-... -......|+-|.-
T Consensus       198 s~ktWKeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaI  271 (624)
T 3lvg_A          198 STRTWKEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAI  271 (624)
T ss_dssp             SSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHH
T ss_pred             ChhHHHHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHH
Confidence            4556666666666666665554443333321   11  1223455566667777766666665432 1225556666666


Q ss_pred             HHHhc
Q 043999          324 GLCKE  328 (574)
Q Consensus       324 ~~~~~  328 (574)
                      .|++-
T Consensus       272 LYsKY  276 (624)
T 3lvg_A          272 LYSKF  276 (624)
T ss_dssp             HHHSS
T ss_pred             HHHhc
Confidence            66554

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.26  E-value=0.044  Score=40.24  Aligned_cols=46  Identities=9%  Similarity=0.055  Sum_probs=21.4

Q ss_pred             hHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 043999          158 DKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEE  203 (574)
Q Consensus       158 ~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  203 (574)
                      ++|..++++.....|.++.+...+...+.+.|++++|++.|+++.+
T Consensus        26 ~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~   71 (93)
T 3bee_A           26 DEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLD   71 (93)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4444444444443344444444444444444555555555444444

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.14  E-value=0.33  Score=37.63  Aligned_cols=137  Identities=14%  Similarity=0.041  Sum_probs=60.2

Q ss_pred             hcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 043999          187 EAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFE  266 (574)
Q Consensus       187 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  266 (574)
                      -.|.+++..++..+....   .+..-||.+|--....-+-+-..++++.+-+.   -|..          ..|+......
T Consensus        19 ldG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDis----------~C~NlKrVi~   82 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDLD----------KCQNLKSVVE   82 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCGG----------GCSCTHHHHH
T ss_pred             HhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCcH----------hhhcHHHHHH
Confidence            345666666666665542   24445555555544444545555555544331   0110          1122222222


Q ss_pred             HHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          267 FYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAG  345 (574)
Q Consensus       267 ~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g  345 (574)
                      .+-.+-     .+.......++.+...|+-++-.+++.++.. +.+|++...-.+..+|.+.|+..+|.+++.++-+.|
T Consensus        83 C~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG  155 (172)
T 1wy6_A           83 CGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKG  155 (172)
T ss_dssp             HHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhh
Confidence            221110     1222333344444555555555555555432 223344444455555555555555555555555544

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.08  E-value=0.18  Score=41.71  Aligned_cols=43  Identities=14%  Similarity=0.094  Sum_probs=19.5

Q ss_pred             hcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHH
Q 043999          153 KSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQ  200 (574)
Q Consensus       153 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  200 (574)
                      +.|+++.|+++.+++.     +...|..|.+...+.|+++-|.+.|.+
T Consensus        17 ~lg~l~~A~e~a~~l~-----~~~~Wk~Lg~~AL~~gn~~lAe~cy~~   59 (177)
T 3mkq_B           17 EYGNLDAALDEAKKLN-----DSITWERLIQEALAQGNASLAEMIYQT   59 (177)
T ss_dssp             HTTCHHHHHHHHHHHC-----CHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hcCCHHHHHHHHHHhC-----CHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            4444444444444331     344444444444444444444444444

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.08  E-value=0.043  Score=49.31  Aligned_cols=83  Identities=14%  Similarity=0.030  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-CCH
Q 043999          436 MEKAFEMYSLMQKSGFSPD---VYTYGVLIHGLCMK-----GNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKE-GNS  506 (574)
Q Consensus       436 ~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~~~-----g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~-g~~  506 (574)
                      ...|...+++..+.  .|+   ...|..+...|.+.     |+.++|.+.|++.++..+.-+..++......++.. |+.
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            34555556666554  344   34566666666663     66777777777666643322355666666666663 666


Q ss_pred             HHHHHHHHHHHHCC
Q 043999          507 YRALRLLGEMNEKG  520 (574)
Q Consensus       507 ~~A~~~~~~m~~~g  520 (574)
                      ++|.+.+++.+...
T Consensus       257 ~~a~~~L~kAL~a~  270 (301)
T 3u64_A          257 AGFDEALDRALAID  270 (301)
T ss_dssp             HHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHcCC
Confidence            77777777666643

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.82  E-value=0.11  Score=39.05  Aligned_cols=70  Identities=13%  Similarity=0.069  Sum_probs=43.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 043999          454 DVYTYGVLIHGLCMKGNMKEASKLFNSMWETK------LEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNI  525 (574)
Q Consensus       454 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  525 (574)
                      +..-+..+...+.+.|+++.|...|+.+.+..      -.+....+..+..+|.+.|++++|...++++.+  +.|+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~--l~P~~   79 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE--LDPEH   79 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTC
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh--cCCCC
Confidence            33444556666666777777777766665431      122455667777777777777777777777766  34443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.69  E-value=0.73  Score=38.02  Aligned_cols=127  Identities=17%  Similarity=0.140  Sum_probs=91.5

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHH
Q 043999          116 HLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAF  195 (574)
Q Consensus       116 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  195 (574)
                      ..+.|+++.|.++.+++      .+...|..|.......|+++-|.+.|.....        +..+.-.|.-.|+.++-.
T Consensus        15 AL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D--------~~~L~~Ly~~tg~~e~L~   80 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS--------FDKLSFLYLVTGDVNKLS   80 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC--------HHHHHHHHHHHTCHHHHH
T ss_pred             HHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC--------HHHHHHHHHHhCCHHHHH
Confidence            45789999999998876      2678999999999999999999999999874        445555667778888877


Q ss_pred             HHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          196 EVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKM  271 (574)
Q Consensus       196 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  271 (574)
                      ++-+.....|      -++.....+.-.|+++++.++|.+..+         |.--+-.....|..+.|.++.+.+
T Consensus        81 kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r---------~~eA~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           81 KMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGGS---------LPLAYAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTC---------HHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCCC---------hHHHHHHHHHcCcHHHHHHHHHHh
Confidence            7766665544      256666777788999999998865432         111111222356666777776654

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.68  E-value=0.069  Score=40.17  Aligned_cols=72  Identities=10%  Similarity=-0.039  Sum_probs=45.6

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCC------CCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSG------VRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYS  177 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g------~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  177 (574)
                      ..-+..|...+.+.|++..|...|+..++.-      -.+....+..+..++.+.|++++|+..++++....|.+..+
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~   82 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRA   82 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHH
Confidence            3445678888888888888888888876531      11234455566666666666666666666665544444444

>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=95.48  E-value=0.14  Score=40.53  Aligned_cols=104  Identities=13%  Similarity=0.114  Sum_probs=57.6

Q ss_pred             CCcchhHHHHHHHHHHhcCCh------HHHHHHHHHHHhCCCCCCHH-HHHHHHHHH------HhcCChhHHHHHHHHcc
Q 043999          102 PVTKSRLYESIIDAHLKSRLS------DQALFYFHQMLDSGVRPRSN-TFNSLLIFV------IKSCSFDKGWLFFSENR  168 (574)
Q Consensus       102 ~~~~~~~~~~li~~~~~~g~~------~~A~~~~~~~~~~g~~p~~~-~~~~ll~~~------~~~g~~~~A~~~~~~~~  168 (574)
                      .+.|..+|-..+...-+.|++      ++.+++|++.... ++|+.. .|...+..+      ...++.++|..+|+.+.
T Consensus         9 ~p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~   87 (161)
T 4h7y_A            9 MANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMAR   87 (161)
T ss_dssp             -CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            356777888888888888998      8888999988875 566421 222222211      12245555555555543


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 043999          169 CKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGF  206 (574)
Q Consensus       169 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  206 (574)
                      ...+.=...|......-.++|++..|++++.+.+..+.
T Consensus        88 ~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~  125 (161)
T 4h7y_A           88 ANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGA  125 (161)
T ss_dssp             HHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCC
Confidence            22111144444444445555555555555555555443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.33  E-value=0.73  Score=35.73  Aligned_cols=66  Identities=15%  Similarity=0.038  Sum_probs=36.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 043999          490 DVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGL  556 (574)
Q Consensus       490 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  556 (574)
                      ....+..++.+...|+-+.-.+++..+... -+|++.....+..+|.+.|+..+|.+++.++.++|+
T Consensus        91 se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           91 NEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            334444555555566666655555554332 345555555556666666666666666666665554

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.10  E-value=0.12  Score=40.01  Aligned_cols=85  Identities=13%  Similarity=0.015  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH---HHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHHHH
Q 043999          472 KEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYR---ALRLLGEMNEKGLVP--NIASYSSTIGVLCQDGKWPEAEV  546 (574)
Q Consensus       472 ~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~---A~~~~~~m~~~g~~p--~~~~~~~l~~~~~~~g~~~~A~~  546 (574)
                      ..+.+-|.+....+. |+..+--.+.+++.+..+...   ++.++++..+.+ .|  .....-.+.-++.+.|++++|.+
T Consensus        18 ~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A~~   95 (126)
T 1nzn_A           18 LKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALK   95 (126)
T ss_dssp             HHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHHHH
Confidence            334444444433332 445555555555555554443   555555555542 12  11222334445556666666666


Q ss_pred             HHHHHHHcCCCCCH
Q 043999          547 LLNQMLKLGLKPSV  560 (574)
Q Consensus       547 ~~~~m~~~g~~p~~  560 (574)
                      +++.+++.  +|+.
T Consensus        96 ~~~~lL~~--eP~n  107 (126)
T 1nzn_A           96 YVRGLLQT--EPQN  107 (126)
T ss_dssp             HHHHHHHH--CTTC
T ss_pred             HHHHHHHh--CCCC
Confidence            66666644  4543

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=95.08  E-value=4.3  Score=43.22  Aligned_cols=254  Identities=11%  Similarity=0.053  Sum_probs=136.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-------CCChhhHHHHHHH
Q 043999          289 EYCNEGKVSEGFKLFDEMRHREVACN--VVTYNTLICGLCKEMRVQEAERLLDQMKMAGI-------SPNVITYNKLIDG  359 (574)
Q Consensus       289 ~~~~~g~~~~A~~~~~~m~~~~~~~~--~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~-------~~~~~~~~~li~~  359 (574)
                      +....|+.++++.+++.....+...+  ...-..+.-+....|..+++..++.......-       .+....-..+.-+
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            35566777777777766554211112  22333444556666666677777776554321       0111112222223


Q ss_pred             H--HhcCCHHHHHHHHHHHHHCCCCCCHHH--HH--HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHH--HHHH
Q 043999          360 F--CDAGETDKAFRLFNQLKSNGQSPSVVT--YN--VLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILI--DSFV  431 (574)
Q Consensus       360 ~--~~~g~~~~A~~~~~~~~~~g~~~~~~~--~~--~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li--~~~~  431 (574)
                      +  .-.++ +++.+.+..+...   .+...  ..  ++...++..|+.+....++..+.+..   +..+...+.  -++.
T Consensus       463 la~~GS~~-eev~e~L~~~L~d---d~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll  535 (963)
T 4ady_A          463 LAAMGSAN-IEVYEALKEVLYN---DSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALI  535 (963)
T ss_dssp             HHSTTCCC-HHHHHHHHHHHHT---CCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHH
T ss_pred             HHhcCCCC-HHHHHHHHHHHhc---CCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhh
Confidence            3  33344 3555555555543   12211  22  23334556777777777877776542   222333333  3445


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHH--HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 043999          432 RSDDMEKAFEMYSLMQKSGFSPDVYTY--GVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRA  509 (574)
Q Consensus       432 ~~g~~~~A~~~~~~~~~~~~~~~~~~~--~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  509 (574)
                      ..|+.+.+..+.+.+.... .|....-  .++.-+|+..|+.....+++..+.+. ...+..-...+.-++...|+.+.+
T Consensus       536 ~~g~~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d-~~d~VRraAViaLGlI~~g~~e~v  613 (963)
T 4ady_A          536 NYGRQELADDLITKMLASD-ESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD-SNDDVRRAAVIALGFVLLRDYTTV  613 (963)
T ss_dssp             TTTCGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTSSSCSSH
T ss_pred             hCCChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC-CcHHHHHHHHHHHHhhccCCHHHH
Confidence            7788888888888887642 2322222  23445677888887777788888763 222333333334445556777777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHH
Q 043999          510 LRLLGEMNEKGLVPNIASYSSTIGVLCQDGKW-PEAEVLLNQML  552 (574)
Q Consensus       510 ~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~-~~A~~~~~~m~  552 (574)
                      .++++.+.+.+ .|....-..+.-+....|+. .++...+..+.
T Consensus       614 ~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~  656 (963)
T 4ady_A          614 PRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLT  656 (963)
T ss_dssp             HHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHc
Confidence            77777666653 44444333344444445543 57777888776

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=94.85  E-value=0.00025  Score=67.84  Aligned_cols=217  Identities=12%  Similarity=0.067  Sum_probs=140.5

Q ss_pred             cchhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHH
Q 043999          104 TKSRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIK  183 (574)
Q Consensus       104 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  183 (574)
                      .|+..|..+|....+.|.+++-+..+....+..-  ++..=+.|+-+|++.++..+-.+++      ..||+.-...+.+
T Consensus        81 ~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~ayAk~~rL~elEefl------~~~N~A~iq~VGD  152 (624)
T 3lvg_A           81 DDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFALAKTNRLAELEEFI------NGPNNAHIQQVGD  152 (624)
T ss_dssp             SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHHHHTSCSSSTTTSTT------SCCSSSCTHHHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHHHHhhCcHHHHHHHH------cCCCcccHHHHHH
Confidence            4667788999999999999999888776665432  3444557888999998866432221      2355555566667


Q ss_pred             HHHhcCChhHHHHHHHHHHHCC--------------------CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 043999          184 GCCEAGDLNKAFEVLNQLEEMG--------------------FSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVA  243 (574)
Q Consensus       184 ~~~~~g~~~~A~~~~~~m~~~g--------------------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~  243 (574)
                      -|...|.++.|.-+|..+....                    -..++.||-.+-.+|...+++.-|...--.+.-     
T Consensus       153 rcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIv-----  227 (624)
T 3lvg_A          153 RCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVV-----  227 (624)
T ss_dssp             HHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHC-----
T ss_pred             HHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhcc-----
Confidence            7777777777766665432110                    123677899999999999988877654444432     


Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCC------CHH
Q 043999          244 TQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHR-EVAC------NVV  316 (574)
Q Consensus       244 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~~------~~~  316 (574)
                      .+.-...++..|-..|.+++-+.+++.-... -+.....|+-|.-.|++- +.++-.+.++....+ +++-      ...
T Consensus       228 hadeL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILYsKY-~PeKlmEHlklf~sriNipKviracE~ah  305 (624)
T 3lvg_A          228 HADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAH  305 (624)
T ss_dssp             CSSCCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTT
T ss_pred             cHHHHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHh
Confidence            2223345677789999999999999988743 234677888888888875 345444444433222 1110      234


Q ss_pred             HHHHHHHHHHhcCCHHHHH
Q 043999          317 TYNTLICGLCKEMRVQEAE  335 (574)
Q Consensus       317 ~~~~li~~~~~~~~~~~A~  335 (574)
                      .|.-++-.|++-.+++.|.
T Consensus       306 LW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          306 LWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             CHHHHHHHHHHHTCHHHHH
T ss_pred             hHHHHHHHHhcchhHHHHH
Confidence            5666666666666666554

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.70  E-value=0.17  Score=39.05  Aligned_cols=87  Identities=13%  Similarity=0.076  Sum_probs=55.9

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH---HHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHH
Q 043999          434 DDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKE---ASKLFNSMWETKLEP--NDVVYNMMIFGYCKEGNSYR  508 (574)
Q Consensus       434 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~---A~~~~~~~~~~~~~p--~~~~~~~li~~~~~~g~~~~  508 (574)
                      ..+..+.+-|......| .++..+--.+..++.+..+...   ++.++++....+ .|  .....-.|.-++.+.|++++
T Consensus        15 ~~l~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~   92 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEK   92 (126)
T ss_dssp             HHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHH
Confidence            33445555555555544 3666666667777777766544   778888777653 13  33444556667788888888


Q ss_pred             HHHHHHHHHHCCCCCC
Q 043999          509 ALRLLGEMNEKGLVPN  524 (574)
Q Consensus       509 A~~~~~~m~~~g~~p~  524 (574)
                      |.+.++.+++  +.|+
T Consensus        93 A~~~~~~lL~--~eP~  106 (126)
T 1nzn_A           93 ALKYVRGLLQ--TEPQ  106 (126)
T ss_dssp             HHHHHHHHHH--HCTT
T ss_pred             HHHHHHHHHH--hCCC
Confidence            8888888887  4554

>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=94.68  E-value=0.26  Score=39.16  Aligned_cols=100  Identities=17%  Similarity=0.137  Sum_probs=43.3

Q ss_pred             CHhHHHHHHHHHHhcCCH------HHHHHHHHHHHHCCCCCCHH-HHHHHHHH------HHhcCCHHHHHHHHHHHHhCC
Q 043999          419 SEVTYTILIDSFVRSDDM------EKAFEMYSLMQKSGFSPDVY-TYGVLIHG------LCMKGNMKEASKLFNSMWETK  485 (574)
Q Consensus       419 ~~~~~~~li~~~~~~g~~------~~A~~~~~~~~~~~~~~~~~-~~~~li~~------~~~~g~~~~A~~~~~~~~~~~  485 (574)
                      |..+|-..+...-+.|+.      ++..++|++.... ++|+.. .|...+..      +...++.++|.++|+.++...
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            445555555555555655      5555566555543 344321 11111111      112244455555555544321


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043999          486 LEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKG  520 (574)
Q Consensus       486 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  520 (574)
                      -+- ...|.....--.++|+.++|.+++.+....+
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~  124 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERG  124 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccC
Confidence            111 3333333333344555555555555555443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=92.89  E-value=0.46  Score=49.42  Aligned_cols=129  Identities=13%  Similarity=0.043  Sum_probs=81.1

Q ss_pred             HHHHHHHHHHhcCC-hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh-hHHHHHHHHccc-------CCC-CCH--
Q 043999          108 LYESIIDAHLKSRL-SDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSF-DKGWLFFSENRC-------KVE-LDV--  175 (574)
Q Consensus       108 ~~~~li~~~~~~g~-~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~-~~A~~~~~~~~~-------~~~-~~~--  175 (574)
                      .-.+|+..+...|+ .+.|+.+|+++.+....-+......++..+.+.++- -+|.++..+...       ..+ .+.  
T Consensus       250 L~~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~  329 (754)
T 4gns_B          250 LMYSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADS  329 (754)
T ss_dssp             HHHHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHH
T ss_pred             HHHHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccc
Confidence            34555555555666 588999999998864221222223334443333322 245555544331       111 121  


Q ss_pred             --------HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          176 --------YSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIG  237 (574)
Q Consensus       176 --------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  237 (574)
                              .....-++.+...|+++-|+++-++..... +-+-.+|..|..+|.+.|+++.|+-.+..++
T Consensus       330 ~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          330 ARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                    123333556777899999999999988753 2356799999999999999999998888774

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=92.43  E-value=6.4  Score=36.01  Aligned_cols=80  Identities=11%  Similarity=0.085  Sum_probs=42.4

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHCCCCCChhhHHH
Q 043999          279 SLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKE---MRVQEAERLLDQMKMAGISPNVITYNK  355 (574)
Q Consensus       279 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~---~~~~~A~~~~~~m~~~g~~~~~~~~~~  355 (574)
                      |+.....+...|.+.|++.+|+..|-.-...    +...+..++.-+...   |...++--+.              -.+
T Consensus       133 dp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~----s~~~~a~~l~~w~~~~~~~~~~e~dlf~--------------~Ra  194 (312)
T 2wpv_A          133 DPYLHNTIGSKLLEGDFVYEAERYFMLGTHD----SMIKYVDLLWDWLCQVDDIEDSTVAEFF--------------SRL  194 (312)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHTSCHH----HHHHHHHHHHHHHHHTTCCCHHHHHHHH--------------HHH
T ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHHhCCCc----cHHHHHHHHHHHHHhcCCCCcchHHHHH--------------HHH
Confidence            6667777778888888888877766411111    234444444333333   3333322111              112


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHH
Q 043999          356 LIDGFCDAGETDKAFRLFNQLK  377 (574)
Q Consensus       356 li~~~~~~g~~~~A~~~~~~~~  377 (574)
                      ++ .|.-.++...|..+++...
T Consensus       195 VL-~yL~l~n~~~A~~~~~~f~  215 (312)
T 2wpv_A          195 VF-NYLFISNISFAHESKDIFL  215 (312)
T ss_dssp             HH-HHHHTTBHHHHHHHHHHHH
T ss_pred             HH-HHHHhcCHHHHHHHHHHHH
Confidence            22 2445677777777777654

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.38  E-value=8.7  Score=37.45  Aligned_cols=50  Identities=6%  Similarity=0.117  Sum_probs=30.4

Q ss_pred             CCHHHHHHHHHHHHhC-----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          294 GKVSEGFKLFDEMRHR-----EVACNVVTYNTLICGLCKEMRVQEAERLLDQMKM  343 (574)
Q Consensus       294 g~~~~A~~~~~~m~~~-----~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  343 (574)
                      |++++|++.+-.+.+.     +..........++..|...++++.....+..+.+
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            5677777766555432     2223445566677777777777777666655543

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=92.32  E-value=14  Score=39.54  Aligned_cols=276  Identities=11%  Similarity=0.074  Sum_probs=155.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCC--HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-------CCCHHHHHHHHH
Q 043999          253 CGLFKNGLQKDGFEFYEKMQLNGVSPS--LYTYNCLIHEYCNEGKVSEGFKLFDEMRHREV-------ACNVVTYNTLIC  323 (574)
Q Consensus       253 ~~~~~~g~~~~a~~~~~~~~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-------~~~~~~~~~li~  323 (574)
                      -+....|+.++++.++...+..+-..+  ...-..+.-+....|..+++...+.......-       .+....-..+.-
T Consensus       382 LGlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGL  461 (963)
T 4ady_A          382 LGVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGI  461 (963)
T ss_dssp             HHHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHH
T ss_pred             hhhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHH
Confidence            456678888888888877664211122  22334444556667776778887776654321       011222233333


Q ss_pred             HHHhcCC-HHHHHHHHHHHHHCCCCCCh--hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 043999          324 GLCKEMR-VQEAERLLDQMKMAGISPNV--ITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGN  400 (574)
Q Consensus       324 ~~~~~~~-~~~A~~~~~~m~~~g~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  400 (574)
                      ++.-.|. -+++...+..+.... .+..  ..--+|...+...|+.+....++..+.+.. ..+..-...+.-++...|+
T Consensus       462 Gla~~GS~~eev~e~L~~~L~dd-~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~  539 (963)
T 4ady_A          462 GLAAMGSANIEVYEALKEVLYND-SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGR  539 (963)
T ss_dssp             HHHSTTCCCHHHHHHHHHHHHTC-CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTC
T ss_pred             HHHhcCCCCHHHHHHHHHHHhcC-CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCC
Confidence            4443343 245566666655532 1111  112234445567788888888888777642 2122223333444557899


Q ss_pred             hHHHHHHHHHHHHCCCCCCHhHH--HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 043999          401 SKMASDLVREMEERGITPSEVTY--TILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLF  478 (574)
Q Consensus       401 ~~~A~~~~~~m~~~~~~p~~~~~--~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  478 (574)
                      .+.+..+++.+... ..|....-  .++.-+|+..|+.....++++.+.+.. ..++.....+.-++...|+.+.+.+++
T Consensus       540 ~e~~~~li~~L~~~-~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv  617 (963)
T 4ady_A          540 QELADDLITKMLAS-DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIV  617 (963)
T ss_dssp             GGGGHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHT
T ss_pred             hHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHH
Confidence            99999998888764 12222222  233456788899888888999888642 233333333334455567777777777


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 043999          479 NSMWETKLEPNDVVYNMMIFGYCKEGNS-YRALRLLGEMNEKGLVPNIASYSSTIGVLC  536 (574)
Q Consensus       479 ~~~~~~~~~p~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~  536 (574)
                      +.+.+.+ .|....-..+.-+....|.. .+|++.+..+...   +|..+-...+.++.
T Consensus       618 ~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D---~d~~Vrq~Ai~ALG  672 (963)
T 4ady_A          618 QLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKD---PVDFVRQAAMIALS  672 (963)
T ss_dssp             TTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTC---SSHHHHHHHHHHHH
T ss_pred             HHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccC---CCHHHHHHHHHHHH
Confidence            7666543 45554444455555555554 6788899998763   45544444444443

>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=91.41  E-value=1  Score=32.78  Aligned_cols=62  Identities=19%  Similarity=0.228  Sum_probs=39.4

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 043999          470 NMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTI  532 (574)
Q Consensus       470 ~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  532 (574)
                      +.=+..+-++.+...++.|++....+.+.+|.+.+++..|.++++-...+ ..+...+|..++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~l   86 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI   86 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHH
Confidence            34456666666666667777777777777777777777777777776654 233334455444

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=90.90  E-value=1.1  Score=42.93  Aligned_cols=55  Identities=7%  Similarity=-0.042  Sum_probs=25.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          496 MIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQM  551 (574)
Q Consensus       496 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m  551 (574)
                      ++..+...|++++|+..++.+... .+-+...|..++.++.+.|+..+|.+.|+++
T Consensus       177 ~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~  231 (388)
T 2ff4_A          177 KAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRV  231 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            334444455555555544444443 1224444455555555555555555554443

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.82  E-value=13  Score=36.27  Aligned_cols=241  Identities=12%  Similarity=0.085  Sum_probs=138.5

Q ss_pred             cCCHHHHHHHHHHHHHC-----CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHH----h
Q 043999          328 EMRVQEAERLLDQMKMA-----GISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSN-GQSPSVVTYNVLIRAFS----K  397 (574)
Q Consensus       328 ~~~~~~A~~~~~~m~~~-----g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-g~~~~~~~~~~li~~~~----~  397 (574)
                      .+++++|++.+-.+.+.     ...........++..|...++++...+.+..+.+. |..+  .....+++.+.    .
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk--~ai~~~V~~~~~~l~~  106 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLK--LSIQYMIQKVMEYLKS  106 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSH--HHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhH--HHHHHHHHHHHHHHhc
Confidence            36788888877665542     23444566778889999999999988877766543 3222  22334444332    2


Q ss_pred             cCChHHHHHHHHHHHH--CCCC-----C---CHhHHHHHHHHHHhcCCHHHHHHHHHHHHH--CCCCCC---HHHHHHHH
Q 043999          398 AGNSKMASDLVREMEE--RGIT-----P---SEVTYTILIDSFVRSDDMEKAFEMYSLMQK--SGFSPD---VYTYGVLI  462 (574)
Q Consensus       398 ~g~~~~A~~~~~~m~~--~~~~-----p---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~---~~~~~~li  462 (574)
                      ....+....  ....+  ..+.     .   .......|...+...|++.+|..++..+..  .|..+.   ...+...+
T Consensus       107 ~~~~d~~~~--~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~  184 (445)
T 4b4t_P          107 SKSLDLNTR--ISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQM  184 (445)
T ss_dssp             HCTTHHHHH--HHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHH
T ss_pred             CCchhHHHH--HHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            232222111  11111  1111     1   112235567778888999999998888753  232221   24566677


Q ss_pred             HHHHhcCCHHHHHHHHHHHHh----CCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHH---
Q 043999          463 HGLCMKGNMKEASKLFNSMWE----TKLEPN--DVVYNMMIFGYCKEGNSYRALRLLGEMNEK-GLVPNIASYSSTI---  532 (574)
Q Consensus       463 ~~~~~~g~~~~A~~~~~~~~~----~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~~~l~---  532 (574)
                      ..|...+++.+|..+++++..    ....|+  ...+...+..+...+++.+|.+.|.++.+. ....|...+...+   
T Consensus       185 rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~  264 (445)
T 4b4t_P          185 ELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHI  264 (445)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHH
Confidence            788888999999888887642    222232  335667777788888888888888877653 1122333332222   


Q ss_pred             -HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHhhhhc
Q 043999          533 -GVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYRAKNN  572 (574)
Q Consensus       533 -~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~  572 (574)
                       .+..-.+..++-..++.........++...|..|+.+|.+
T Consensus       265 v~~~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~f~~  305 (445)
T 4b4t_P          265 VYFLVLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTT  305 (445)
T ss_dssp             HHHHHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCchHHHHHHHHhhcccccccHHHHHHHHHHHh
Confidence             2223334444444444444444444556677777777754

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=90.12  E-value=7.7  Score=43.16  Aligned_cols=148  Identities=7%  Similarity=-0.077  Sum_probs=88.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHH--------------------CC-
Q 043999          147 LLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEE--------------------MG-  205 (574)
Q Consensus       147 ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--------------------~g-  205 (574)
                      ++..+.+.+..+-+.++.....    .+...--.++.++...|++++|.+.|++...                    .. 
T Consensus       818 l~~~l~~~~~~~~~~~l~~~~~----~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~~  893 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGWLN----SDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKYH  893 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHHSC----CCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTTT
T ss_pred             HHHHHHHhhhHHHHHHHhhhcc----CCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhccccccccccc
Confidence            4444555555555544433222    2333444455555555666666655544311                    00 


Q ss_pred             -CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCh----hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 043999          206 -FSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQ----HTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSL  280 (574)
Q Consensus       206 -~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~  280 (574)
                       ...-..-|..++..+-+.+.++.+.++-....+.....+.    ..|..+.+.+...|++++|...+..+.....  -.
T Consensus       894 ~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r~  971 (1139)
T 4fhn_B          894 HQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--KK  971 (1139)
T ss_dssp             SCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--CH
T ss_pred             ccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--HH
Confidence             0111234677888888888888888877766543222121    2577788888888999999888888876543  35


Q ss_pred             hhHHHHHHHHHhcCCHHHHH
Q 043999          281 YTYNCLIHEYCNEGKVSEGF  300 (574)
Q Consensus       281 ~~~~~li~~~~~~g~~~~A~  300 (574)
                      .....|+...|..|..+.-.
T Consensus       972 ~cLr~LV~~lce~~~~~~L~  991 (1139)
T 4fhn_B          972 SCLLDFVNQLTKQGKINQLL  991 (1139)
T ss_dssp             HHHHHHHHHHHHHCCHHHHH
T ss_pred             HHHHHHHHHHHhCCChhhhh
Confidence            56777777778777766544

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=90.12  E-value=5.6  Score=44.27  Aligned_cols=151  Identities=12%  Similarity=0.074  Sum_probs=109.5

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-------------
Q 043999          179 GILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGEL----GL-------------  241 (574)
Q Consensus       179 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~-------------  241 (574)
                      ..++..+.+.+..+-+.++..-.     +.+....-.+..++...|++++|.+.|++....    +.             
T Consensus       816 ~~l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~  890 (1139)
T 4fhn_B          816 TELVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAE  890 (1139)
T ss_dssp             HHHHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccc
Confidence            34667788889998887765433     235555566778899999999999999775210    00             


Q ss_pred             -----CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 043999          242 -----VATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSL----YTYNCLIHEYCNEGKVSEGFKLFDEMRHREVA  312 (574)
Q Consensus       242 -----~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  312 (574)
                           ..-..-|..++..+.+.+.++.+.++-...++....-+.    ..|..+.+.+...|++++|...+-.+..... 
T Consensus       891 ~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~-  969 (1139)
T 4fhn_B          891 KYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL-  969 (1139)
T ss_dssp             TTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS-
T ss_pred             cccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH-
Confidence                 001234778899999999999999988877754322221    2578889999999999999999988876644 


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHH
Q 043999          313 CNVVTYNTLICGLCKEMRVQEAER  336 (574)
Q Consensus       313 ~~~~~~~~li~~~~~~~~~~~A~~  336 (574)
                       -......++...|..|+.+.-..
T Consensus       970 -r~~cLr~LV~~lce~~~~~~L~~  992 (1139)
T 4fhn_B          970 -KKSCLLDFVNQLTKQGKINQLLN  992 (1139)
T ss_dssp             -CHHHHHHHHHHHHHHCCHHHHHH
T ss_pred             -HHHHHHHHHHHHHhCCChhhhhC
Confidence             45678888888888887765443

>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=90.11  E-value=3.3  Score=32.11  Aligned_cols=72  Identities=7%  Similarity=0.033  Sum_probs=33.7

Q ss_pred             CCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 043999          487 EPNDVVYNMMIFGYCKEGNS---YRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSV  560 (574)
Q Consensus       487 ~p~~~~~~~li~~~~~~g~~---~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~  560 (574)
                      .|+..+--.+.+++.+..+.   .+++.+++++.+.+..-....+-.+.-++.+.|++++|+++.+.+++.  .|+.
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~--eP~N  111 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERNN  111 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CTTC
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh--CCCC
Confidence            34444444445555554432   345555555554321011233334444555556666666665555533  4543

>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=89.39  E-value=1.3  Score=42.55  Aligned_cols=128  Identities=14%  Similarity=0.089  Sum_probs=74.3

Q ss_pred             cchhHHHHHHHHHH---hcCChHHHHHHHHHHHhC--CCC-CCHHHHHHHHHHHHhcCCh-hHHHHHHHHcccCCCCCHH
Q 043999          104 TKSRLYESIIDAHL---KSRLSDQALFYFHQMLDS--GVR-PRSNTFNSLLIFVIKSCSF-DKGWLFFSENRCKVELDVY  176 (574)
Q Consensus       104 ~~~~~~~~li~~~~---~~g~~~~A~~~~~~~~~~--g~~-p~~~~~~~ll~~~~~~g~~-~~A~~~~~~~~~~~~~~~~  176 (574)
                      .|...|..++..-.   ..|+++.|.+.+++++..  |.. ++...           ..+ ......+++..      ..
T Consensus       110 ~D~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~~-----------~~w~~~~r~~l~~~~------~~  172 (388)
T 2ff4_A          110 CDLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRD-----------FQFVEPFATALVEDK------VL  172 (388)
T ss_dssp             BHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTT-----------STTHHHHHHHHHHHH------HH
T ss_pred             chHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCCc-----------hhHHHHHHHHHHHHH------HH
Confidence            35566777665433   458999999999998763  321 11100           011 11111222211      12


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH-----hCCCCCChhhHH
Q 043999          177 SFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIG-----ELGLVATQHTYT  249 (574)
Q Consensus       177 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~~~~  249 (574)
                      +...++..+...|+.++|...++.+.... +-+...+..+|.++.+.|+..+|++.|++..     +.|+.|...+-.
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            33445666677777777777777766542 3366677777777777777777777777653     347777665543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=89.38  E-value=2.2  Score=44.40  Aligned_cols=49  Identities=16%  Similarity=0.170  Sum_probs=24.3

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          501 CKEGNSYRALRLLGEMNEKGLVPN-IASYSSTIGVLCQDGKWPEAEVLLNQM  551 (574)
Q Consensus       501 ~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m  551 (574)
                      ...|+++-|+++.++.+..  .|+ -.+|..|..+|.+.|+++.|+-.++.+
T Consensus       348 l~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          348 LNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             hccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            3345555555555555542  232 345555555555555555555554444

>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=89.26  E-value=4.8  Score=31.20  Aligned_cols=72  Identities=14%  Similarity=0.129  Sum_probs=46.1

Q ss_pred             CCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 043999          452 SPDVYTYGVLIHGLCMKGN---MKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNI  525 (574)
Q Consensus       452 ~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  525 (574)
                      .|+..+--.+..++.+..+   ..+++.++++..+.+..-....+-.|.-++.+.|++++|.++.+.+++  +.|+.
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~--~eP~N  111 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNN  111 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TCTTC
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hCCCC
Confidence            4566555555566666554   456777777777654222345555666677788888888888888877  45553

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=87.84  E-value=2.4  Score=32.75  Aligned_cols=61  Identities=20%  Similarity=0.219  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 043999          471 MKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTI  532 (574)
Q Consensus       471 ~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  532 (574)
                      .=+..+-++.+...++.|++......+.+|.+.+++..|.++|+-...+ ..+...+|..++
T Consensus        69 ~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~l  129 (152)
T 2y69_E           69 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI  129 (152)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHH
Confidence            3455666666666677777777777777777777777777777777665 333444555554

>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=87.69  E-value=6.5  Score=28.67  Aligned_cols=59  Identities=12%  Similarity=0.148  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 043999          508 RALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILY  567 (574)
Q Consensus       508 ~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  567 (574)
                      +..+-++.+....+.|++.+..+.+.+|.+.+++..|.++++-.+.+ ..+...+|..++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~l   86 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI   86 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHH
Confidence            44444555555555566666666666666666666666666555533 122233454444

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=87.46  E-value=9.1  Score=30.10  Aligned_cols=66  Identities=14%  Similarity=0.152  Sum_probs=30.7

Q ss_pred             CCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          453 PDVYTYGVLIHGLCMKGN---MKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       453 ~~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      |+..+--.+..++.+..+   ..+++.++++....+..-.....-.|.-++.+.|++++|.++.+.+++
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~  105 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  105 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            444444344444444433   334555555555432221233333444455555555555555555555

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=85.57  E-value=12  Score=29.49  Aligned_cols=73  Identities=7%  Similarity=0.033  Sum_probs=56.1

Q ss_pred             CCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH
Q 043999          487 EPNDVVYNMMIFGYCKEGNS---YRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVS  561 (574)
Q Consensus       487 ~p~~~~~~~li~~~~~~g~~---~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  561 (574)
                      .|+..+--.+.+++.+..+.   .+++.+++++...+..-.....-.+.-++.+.|++++|+++.+.+++.  +|+..
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~--eP~n~  111 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERNNK  111 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT--CCCCH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc--CCCcH
Confidence            57788877888889887754   578999999988532212344456667999999999999999999976  78764

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=85.19  E-value=3.9  Score=33.15  Aligned_cols=120  Identities=5%  Similarity=-0.068  Sum_probs=67.3

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCCCH-------HHHHHHHHHHHhcCChhHHHHHHHHcccC---CCCC
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDS-GVRPRS-------NTFNSLLIFVIKSCSFDKGWLFFSENRCK---VELD  174 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-g~~p~~-------~~~~~ll~~~~~~g~~~~A~~~~~~~~~~---~~~~  174 (574)
                      ...+-.=++.+...|.++.|+-+.+.++.. +..|+.       .++..+.+++...|++.+|...|++....   .+.+
T Consensus        20 ~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~   99 (167)
T 3ffl_A           20 HMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKT   99 (167)
T ss_dssp             -CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC---
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcC
Confidence            345666678888899999999888876532 123332       24556678888999999999999885432   1111


Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 043999          175 VYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGE  238 (574)
Q Consensus       175 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  238 (574)
                      ..+...+.    .......         .....++...--.+..+|.+.+++++|+.+++.+..
T Consensus       100 ~s~~~~~~----~~ss~p~---------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~  150 (167)
T 3ffl_A          100 SKVRPSTG----NSASTPQ---------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPS  150 (167)
T ss_dssp             ------------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCG
T ss_pred             CCcccccc----ccCCCcc---------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCc
Confidence            11111110    0000000         001122344445577778888888888888877644

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=83.64  E-value=11  Score=29.13  Aligned_cols=59  Identities=12%  Similarity=0.154  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHh
Q 043999          509 ALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILYR  568 (574)
Q Consensus       509 A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  568 (574)
                      ..+-++.+...++.|++.+....+.+|.+.+++..|.++++-.+.+ ..+...+|..+++
T Consensus        72 lrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lq  130 (152)
T 2y69_E           72 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHH
Confidence            3444555555556666666666666666666666666666666543 2333444555543

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=81.24  E-value=33  Score=31.54  Aligned_cols=80  Identities=13%  Similarity=0.116  Sum_probs=43.7

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHH
Q 043999          349 NVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILID  428 (574)
Q Consensus       349 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~  428 (574)
                      |......+...|.+.+++.+|...|-    .|..++...+..++.-+.+.+...++              |...-.+++ 
T Consensus       135 dp~LH~~ig~~~~~e~~~~~Ae~H~i----lg~~~s~~~~a~mL~ew~~~~~~~e~--------------dlfiaRaVL-  195 (336)
T 3lpz_A          135 DPELHHVVGTLYVEEGEFEAAEKHLV----LGTKESPEVLARMEYEWYKQDESHTA--------------PLYCARAVL-  195 (336)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHT----TSCTTHHHHHHHHHHHHHHTSCGGGH--------------HHHHHHHHH-
T ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHH----hcCCchHHHHHHHHHHHHHhcCCccH--------------HHHHHHHHH-
Confidence            55666777788888888888877762    23333345555554444443332222              222222222 


Q ss_pred             HHHhcCCHHHHHHHHHHHH
Q 043999          429 SFVRSDDMEKAFEMYSLMQ  447 (574)
Q Consensus       429 ~~~~~g~~~~A~~~~~~~~  447 (574)
                      .|...+++..|..+++...
T Consensus       196 ~yL~l~n~~~A~~~~~~f~  214 (336)
T 3lpz_A          196 PYLLVANVRAANTAYRIFT  214 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHH
Confidence            2455677777777665543

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=81.09  E-value=34  Score=31.50  Aligned_cols=111  Identities=8%  Similarity=-0.020  Sum_probs=59.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHH----HHHHHCCCCCCHHhHHHHHHH
Q 043999          144 FNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVL----NQLEEMGFSPNVVIYTSLIDG  219 (574)
Q Consensus       144 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~----~~m~~~g~~p~~~~~~~li~~  219 (574)
                      +.++..-|.+++++++|++++..-.              ..+.+.|+...|.++-    +-..+.++++|......++..
T Consensus        38 ~RTi~~Ry~~~k~y~eAidLL~~GA--------------~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L  103 (336)
T 3lpz_A           38 TRLVAARYSKQGNWAAAVDILASVS--------------QTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGC  103 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH--------------HHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcCHHHHHHHHHHHH--------------HHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            4445566778888888887764422              3455666666655544    444556777777776677766


Q ss_pred             HHhcCCHH-HHHHHHHHHH----hCC--CCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 043999          220 CCKNGDIE-RAKMLFRKIG----ELG--LVATQHTYTVLICGLFKNGLQKDGFEFY  268 (574)
Q Consensus       220 ~~~~g~~~-~A~~~~~~~~----~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~  268 (574)
                      +.....-+ +=..+.+++.    +.|  ..-|+.....+...|.+.+++.+|..-|
T Consensus       104 ~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~  159 (336)
T 3lpz_A          104 LRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHL  159 (336)
T ss_dssp             HTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            65544311 1111222221    111  2224455555556666666666655544

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=80.44  E-value=14  Score=26.75  Aligned_cols=78  Identities=17%  Similarity=0.081  Sum_probs=41.5

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 043999          435 DMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLG  514 (574)
Q Consensus       435 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  514 (574)
                      ..++|..|-+-+...+.  ...+--+-+..+.+.|++++|..+.+..    +.||...|-.|-.  .+.|..+++...+.
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALce--~rlGl~s~le~rL~   92 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGN----PWPALEPWFALCE--WHLGLGAALDRRLA   92 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTC----CCGGGHHHHHHHH--HHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHHH--HhcccHHHHHHHHH
Confidence            44555555555554431  2222222334456667777766655443    3566666655543  35666666666666


Q ss_pred             HHHHCC
Q 043999          515 EMNEKG  520 (574)
Q Consensus       515 ~m~~~g  520 (574)
                      ++..+|
T Consensus        93 ~la~sg   98 (115)
T 2uwj_G           93 GLGGSS   98 (115)
T ss_dssp             HHHTCS
T ss_pred             HHHhCC
Confidence            666554

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=80.42  E-value=4.3  Score=32.92  Aligned_cols=115  Identities=10%  Similarity=0.004  Sum_probs=57.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCC-CHHHHH
Q 043999          425 ILIDSFVRSDDMEKAFEMYSLMQKSG-FSPDV-------YTYGVLIHGLCMKGNMKEASKLFNSMWETK-LEP-NDVVYN  494 (574)
Q Consensus       425 ~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~-------~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~p-~~~~~~  494 (574)
                      .=+..+...+.++.|.-+.+.+.... ..|+.       .++..+.+++...|++..|...|++.++.. .-+ +..+..
T Consensus        25 dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~  104 (167)
T 3ffl_A           25 DHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRP  104 (167)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC--------
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccc
Confidence            33555667777777777776654321 12331       245556677777777777777777765320 001 111110


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          495 MMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQML  552 (574)
Q Consensus       495 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  552 (574)
                      .+.    .......         .....++...---+..+|.+.|++++|+.+++.+.
T Consensus       105 ~~~----~~ss~p~---------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip  149 (167)
T 3ffl_A          105 STG----NSASTPQ---------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIP  149 (167)
T ss_dssp             -------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSC
T ss_pred             ccc----ccCCCcc---------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCC
Confidence            000    0000000         00112233333446678888888888888877654

>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=80.03  E-value=15  Score=26.71  Aligned_cols=78  Identities=13%  Similarity=0.042  Sum_probs=43.3

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 043999          435 DMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLG  514 (574)
Q Consensus       435 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  514 (574)
                      ..++|..|-+-+...+.  ...+--+-+..+.+.|++++|..+.+..    +.||...|-.|-.  .+.|..+++...+.
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALce--~rlGl~s~le~rL~   93 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKL----AYPDLEPWLALCE--YRLGLGSALESRLN   93 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTS----CCGGGHHHHHHHH--HHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHHH--HhcccHHHHHHHHH
Confidence            45566666555555432  2222223334566677777777665544    3566666665543  35566666666666


Q ss_pred             HHHHCC
Q 043999          515 EMNEKG  520 (574)
Q Consensus       515 ~m~~~g  520 (574)
                      ++..+|
T Consensus        94 ~la~sg   99 (116)
T 2p58_C           94 RLARSQ   99 (116)
T ss_dssp             HHTTCC
T ss_pred             HHHhCC
Confidence            666554

---

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	574
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	9e-09
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	4e-04

>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 = 55.4 bits (132), Expect = 9e-09
 Identities = 55/392 (14%), Positives = 115/392 (29%), Gaps = 20/392 (5%)

Query: 187 EAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQH 246
           +AGD   A     QL       N  +   L     +   ++R+        +        
Sbjct: 11  QAGDFEAAERHCMQLWRQ-EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQ-----NP 64

Query: 247 TYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEM 306
                   L     ++   +   +   + +       +  I+         +        
Sbjct: 65  LLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAY 124

Query: 307 RHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPN-VITYNKLIDGFCDAGE 365
                    +       G   +   +  E     +K     PN  + ++ L   F   GE
Sbjct: 125 VSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGE 184

Query: 366 TDKAFRLFNQ-LKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYT 424
              A   F + +  +        Y  L     +A     A              +   + 
Sbjct: 185 IWLAIHHFEKAVTLDPNFLDA--YINLGNVLKEARIFDRAVAAYLRALSLSPNHAV-VHG 241

Query: 425 ILIDSFVRSDDMEKAFEMYS-LMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWE 483
            L   +     ++ A + Y   ++     PD Y    L + L  KG++ EA   +N+   
Sbjct: 242 NLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCN--LANALKEKGSVAEAEDCYNTALR 299

Query: 484 TKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQD-GKWP 542
                +    N +     ++GN   A+RL  +  E  + P  A+  S +  + Q  GK  
Sbjct: 300 LC-PTHADSLNNLANIKREQGNIEEAVRLYRKALE--VFPEFAAAHSNLASVLQQQGKLQ 356

Query: 543 EAEVLLNQMLKLGLKPSVSLYNI--LYRAKNN 572
           EA +   + +++    + +  N+    +   +
Sbjct: 357 EALMHYKEAIRISPTFADAYSNMGNTLKEMQD 388

>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 = 40.8 bits (94), Expect = 4e-04
 Identities = 38/358 (10%), Positives = 103/358 (28%), Gaps = 17/358 (4%)

Query: 222 KNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEK-MQLNGVSPSL 280
           + GD E A+    ++             +L    F+         F    ++ N +    
Sbjct: 11  QAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEA 69

Query: 281 YTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQ 340
           Y+    +++   + + +            +     +     +          +       
Sbjct: 70  YSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQ-----AY 124

Query: 341 MKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGN 400
           +     +P++      +     A    +  +         Q    V ++ L   F+  G 
Sbjct: 125 VSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGE 184

Query: 401 SKMASDLVREMEERGITPSEV-TYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYG 459
             +A     +     + P+ +  Y  L +    +   ++A   Y              +G
Sbjct: 185 IWLAIHHFEKAVT--LDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHG 241

Query: 460 VLIHGLCMKGNMKEASKLFNSMWETKLEPNDV-VYNMMIFGYCKEGNSYRALRLLGEMNE 518
            L      +G +  A   +    E  L+P+    Y  +     ++G+   A         
Sbjct: 242 NLACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALR 299

Query: 519 KGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNI--LYRAKNNIE 574
                  +  +    +  + G   EA  L  + L++  + + +  N+  + + +  ++
Sbjct: 300 LCPTHADSLNNLAN-IKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQ 356

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	574
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.94
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.94
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.65
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.65
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.3
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.28
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.25
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.24
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.22
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.22
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.16
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.11
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.11
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.06
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.74
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.71
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.65
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.65
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.64
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.56
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.55
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.53
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.52
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.48
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.48
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.41
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.4
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.35
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.32
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.31
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.31
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.27
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.16
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.12
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.03
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.02
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.97
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.95
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.92
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.91
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.87
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.86
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.84
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.79
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.79
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.78
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.75
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.71
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.68
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.67
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.29
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.14
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.72
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.71
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.64
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.4
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.31
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.85
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.32
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.09
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	91.98
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	91.11
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	89.86
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	86.98

>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=99.94  E-value=8e-23  Score=199.19  Aligned_cols=383  Identities=16%  Similarity=0.065  Sum_probs=201.8

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCCh
Q 043999          112 IIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDL  191 (574)
Q Consensus       112 li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  191 (574)
                      +...+.+.|++++|++.|+++++.. +-+..++..+..++.+.|++++|...|+++....|.+..+|..++..|.+.|++
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccc
Confidence            4455667777777777777776653 224556666666666777777777777666655555666666666666666666


Q ss_pred             hHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          192 NKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKM  271 (574)
Q Consensus       192 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  271 (574)
                      ++|++.+....+... .+..............+....+............. ...............+....+...+.+.
T Consensus        84 ~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          84 QEAIEHYRHALRLKP-DFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             ccccccccccccccc-ccccccccccccccccccccccccccccccccccc-cccccccccccccccchhhhhHHHHHHh
Confidence            666666666665432 23333333444444444444444444333332221 2223333333444444444444444444


Q ss_pred             HHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChh
Q 043999          272 QLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVI  351 (574)
Q Consensus       272 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~  351 (574)
                      ..                                   ..+. +...+..+...+...|++++|...++...+.. +-+..
T Consensus       162 ~~-----------------------------------~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~  204 (388)
T d1w3ba_         162 IE-----------------------------------TQPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLD  204 (388)
T ss_dssp             HH-----------------------------------HCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             hc-----------------------------------cCcc-hhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHH
Confidence            43                                   3222 33344444444444444444444444444332 22333


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHH
Q 043999          352 TYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFV  431 (574)
Q Consensus       352 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  431 (574)
                      .+..+...+...|++++|...+++....+ +.+...+..+...+.+.|++++|...+++..+... -+..++..+...+.
T Consensus       205 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~  282 (388)
T d1w3ba_         205 AYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANALK  282 (388)
T ss_dssp             HHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHHH
T ss_pred             HHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            44444455555555555555555544432 12344444455555555555555555555554421 13445555555555


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 043999          432 RSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALR  511 (574)
Q Consensus       432 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  511 (574)
                      ..|++++|.+.++...... +.+...+..+...+.+.|++++|++.|++.++..+. +..++..+..+|.+.|++++|++
T Consensus       283 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~  360 (388)
T d1w3ba_         283 EKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALM  360 (388)
T ss_dssp             HHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTT-CHHHHHHHHHHHHTTTCCHHHHH
T ss_pred             HcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHH
Confidence            5666666666665555442 444555555666666666666666666666554222 34556666666666666666666


Q ss_pred             HHHHHHHCCCCC-CHHHHHHHHHHHHhcCC
Q 043999          512 LLGEMNEKGLVP-NIASYSSTIGVLCQDGK  540 (574)
Q Consensus       512 ~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~  540 (574)
                      .|++.++.  .| +...|..+..+|.+.|+
T Consensus       361 ~~~~al~l--~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         361 HYKEAIRI--SPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHTT--CTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHh--CCCCHHHHHHHHHHHHHcCC
Confidence            66666653  33 34556666666655553

>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=99.94  E-value=1.1e-22  Score=198.10  Aligned_cols=382  Identities=16%  Similarity=0.080  Sum_probs=296.9

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCC
Q 043999          181 LIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGL  260 (574)
Q Consensus       181 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  260 (574)
                      +...+.+.|++++|.+.++++.+.. +-+..++..+...|.+.|++++|...|++..+.++. +..+|..+...+.+.|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL-LAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHhhhhcc
Confidence            3445566677777777777776643 224566677777777777777777777777665433 55677777777777777


Q ss_pred             HHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          261 QKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQ  340 (574)
Q Consensus       261 ~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  340 (574)
                      +++|++.+....+.. +.+..............+....+............. ...............+....+...+..
T Consensus        83 ~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (388)
T d1w3ba_          83 LQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             ccccccccccccccc-cccccccccccccccccccccccccccccccccccc-cccccccccccccccchhhhhHHHHHH
Confidence            777777777777653 234444445555555566666666666555544333 455556666677788888888888888


Q ss_pred             HHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH
Q 043999          341 MKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSE  420 (574)
Q Consensus       341 m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  420 (574)
                      ..... +.+...+..+...+...|++++|...+++..+.. +.+...|..+...+...|++++|...+++...... .+.
T Consensus       161 ~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~  237 (388)
T d1w3ba_         161 AIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHA  237 (388)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCH
T ss_pred             hhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHH
Confidence            77663 4466788888999999999999999999988764 23677889999999999999999999999988643 467


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 043999          421 VTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGY  500 (574)
Q Consensus       421 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~  500 (574)
                      ..+..+...+.+.|++++|...|++..+.. +.+..++..+...+...|++++|.+.++...... +.+...+..+...+
T Consensus       238 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  315 (388)
T d1w3ba_         238 VVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIK  315 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHH
Confidence            778888999999999999999999998874 5567889999999999999999999999988764 34778899999999


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHhhhhcCC
Q 043999          501 CKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPS-VSLYNILYRAKNNIE  574 (574)
Q Consensus       501 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~~  574 (574)
                      ...|++++|++.+++..+.. +.+..++..+..++.+.|++++|...++++++.  .|+ ...|..|...|.++|
T Consensus       316 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~lg~~~~~~~  387 (388)
T d1w3ba_         316 REQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             HTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTC
T ss_pred             HHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcC
Confidence            99999999999999998852 335678889999999999999999999999964  786 458899989888765

>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=99.65  E-value=1.8e-13  Score=128.82  Aligned_cols=270  Identities=10%  Similarity=-0.020  Sum_probs=175.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 043999          249 TVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKE  328 (574)
Q Consensus       249 ~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~  328 (574)
                      --....+.+.|++++|+..|+++++.. +-+..+|..+...|...|++++|...|++..+..+. +...|..+...|...
T Consensus        23 ~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~  100 (323)
T d1fcha_          23 FEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNE  100 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-ccccccccccccccc
Confidence            345556677777777777777777653 224566777777777777777777777777665444 566677777777777


Q ss_pred             CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 043999          329 MRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLV  408 (574)
Q Consensus       329 ~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  408 (574)
                      |++++|.+.++.+....  |+..............                   .+.......+..+...+...+|...+
T Consensus       101 ~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~a~~~~  159 (323)
T d1fcha_         101 SLQRQACEILRDWLRYT--PAYAHLVTPAEEGAGG-------------------AGLGPSKRILGSLLSDSLFLEVKELF  159 (323)
T ss_dssp             TCHHHHHHHHHHHHHTS--TTTGGGCC----------------------------------CTTHHHHHHHHHHHHHHHH
T ss_pred             ccccccccchhhHHHhc--cchHHHHHhhhhhhhh-------------------cccccchhhHHHHHHhhHHHHHHHHH
Confidence            77777777777766542  2221110000000000                   00011111222334445667777788


Q ss_pred             HHHHHCCC-CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 043999          409 REMEERGI-TPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLE  487 (574)
Q Consensus       409 ~~m~~~~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  487 (574)
                      .+..+... .++..++..+...+...|++++|...+++..... +.+...|..+...|.+.|++++|.+.|+++++..+.
T Consensus       160 ~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~  238 (323)
T d1fcha_         160 LAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPG  238 (323)
T ss_dssp             HHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHhhc
Confidence            77765432 2356677778888888999999999998887764 455778888888899999999999999998875432


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC------------HHHHHHHHHHHHhcCCHHHHH
Q 043999          488 PNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPN------------IASYSSTIGVLCQDGKWPEAE  545 (574)
Q Consensus       488 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~------------~~~~~~l~~~~~~~g~~~~A~  545 (574)
                       +..+|..++.+|.+.|++++|++.|++.++.  .|+            ...|..+-.++...|+.+.+.
T Consensus       239 -~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~  305 (323)
T d1fcha_         239 -YIRSRYNLGISCINLGAHREAVEHFLEALNM--QRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  305 (323)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             -cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence             5777888999999999999999999988762  221            234555556666666665543

>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=99.65  E-value=7.6e-14  Score=131.42  Aligned_cols=228  Identities=10%  Similarity=-0.041  Sum_probs=138.0

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcC
Q 043999          110 ESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAG  189 (574)
Q Consensus       110 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g  189 (574)
                      -.....+.+.|++++|+..|+++++.. +-+..+|..+..++...|++++|...|++.....|.+...|..++..|...|
T Consensus        23 ~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          23 FEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccccccccccccccccccc
Confidence            356777889999999999999999875 3368889999999999999999999999988777788999999999999999


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHhH----------------HHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CChhhHHHHH
Q 043999          190 DLNKAFEVLNQLEEMGFSPNVVIY----------------TSLIDGCCKNGDIERAKMLFRKIGELGLV-ATQHTYTVLI  252 (574)
Q Consensus       190 ~~~~A~~~~~~m~~~g~~p~~~~~----------------~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~li  252 (574)
                      ++++|.+.+++.....  |+....                ...+..+.+.+.+++|.+.+.+..+..+. .+...+..+.
T Consensus       102 ~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~  179 (323)
T d1fcha_         102 LQRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLG  179 (323)
T ss_dssp             CHHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHH
T ss_pred             cccccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhH
Confidence            9999999999988742  322111                01111222333444444444444332211 1233344444


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 043999          253 CGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQ  332 (574)
Q Consensus       253 ~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~  332 (574)
                      ..+...|++++|+..+++..... +-+..+|..+...|.+.|++++|.+.|++..+..+. +..+|..+...|.+.|+++
T Consensus       180 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~  257 (323)
T d1fcha_         180 VLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPG-YIRSRYNLGISCINLGAHR  257 (323)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHhhc-cHHHHHHHHHHHHHCCCHH
Confidence            44444455555554444444332 112334444444444444444444444444443222 3344444444444444444


Q ss_pred             HHHHHHHHHH
Q 043999          333 EAERLLDQMK  342 (574)
Q Consensus       333 ~A~~~~~~m~  342 (574)
                      +|+..|++.+
T Consensus       258 ~A~~~~~~al  267 (323)
T d1fcha_         258 EAVEHFLEAL  267 (323)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            4444444443

>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=99.30  E-value=5.3e-10  Score=103.67  Aligned_cols=215  Identities=6%  Similarity=-0.056  Sum_probs=168.2

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHHHcccCCCCCHHHHHHHHHH
Q 043999          106 SRLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSC-SFDKGWLFFSENRCKVELDVYSFGILIKG  184 (574)
Q Consensus       106 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~li~~  184 (574)
                      ..+|+.+...+.+.+.+++|++.++++++.+ +-+..+|+....++.+.| ++++|+..++.+....|.+..+|+.+...
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~  121 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHH
Confidence            4678888888999999999999999999974 336778888888888876 48999999999988888899999999999


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCC----
Q 043999          185 CCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGL----  260 (574)
Q Consensus       185 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~----  260 (574)
                      +.+.|++++|++.++++.+... .+...|..+...+.+.|++++|++.++++++.++. +...|+.+...+.+.+.    
T Consensus       122 ~~~l~~~~eAl~~~~kal~~dp-~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHhhccHHHHHHHHhhhhhhhh-cchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccchh
Confidence            9999999999999999998643 36889999999999999999999999999987655 67788877777766555    


Q ss_pred             --HHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHH
Q 043999          261 --QKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVAC-NVVTYNTLICGL  325 (574)
Q Consensus       261 --~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~-~~~~~~~li~~~  325 (574)
                        +++|++.+.+.++.. +.+...|+.+...+. ....+++.+.++...+..+.+ +...+..++..|
T Consensus       200 ~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y  265 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLV-PHNESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIY  265 (315)
T ss_dssp             HHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             hhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHH-hcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHH
Confidence              567888888877763 235666666655543 444677777777776543332 334444555544

>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=99.28  E-value=1e-09  Score=101.67  Aligned_cols=216  Identities=11%  Similarity=0.009  Sum_probs=166.7

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHHHHHHCCCCCCHHhHHHHHHH
Q 043999          141 SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAG-DLNKAFEVLNQLEEMGFSPNVVIYTSLIDG  219 (574)
Q Consensus       141 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  219 (574)
                      ..+++.+...+.+.+.+++|+++++++....|.+..+|+....++...| ++++|++.+++..+... -+..+|..+...
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p-~~~~a~~~~~~~  121 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHH-hhhhHHHHHhHH
Confidence            4456667777888899999999999999888889999999999988876 58999999999887643 367889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCC----
Q 043999          220 CCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGK----  295 (574)
Q Consensus       220 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~----  295 (574)
                      +.+.|++++|++.++++.+..+. +..+|..+...+.+.|++++|++.++++++.+. -+...|+.+...+.+.+.    
T Consensus       122 ~~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p-~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCC-ccHHHHHHHHHHHHHccccchh
Confidence            99999999999999999887655 788999999999999999999999999998742 366778777776666555    


Q ss_pred             --HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CChhhHHHHHHHHH
Q 043999          296 --VSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGIS-PNVITYNKLIDGFC  361 (574)
Q Consensus       296 --~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~-~~~~~~~~li~~~~  361 (574)
                        +++|++.+....+..+. +...|+.+...+.. ...+++...++...+.... .+...+..++..|.
T Consensus       200 ~~~~~ai~~~~~al~~~P~-~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~  266 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLVPH-NESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYE  266 (315)
T ss_dssp             HHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHH
T ss_pred             hhhHHhHHHHHHHHHhCCC-chHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHH
Confidence              57788888888777655 77777777655443 4456777777776654322 23344555555553

>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=99.25  E-value=1.5e-09  Score=100.57  Aligned_cols=151  Identities=12%  Similarity=0.067  Sum_probs=63.8

Q ss_pred             hhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 043999          191 LNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEK  270 (574)
Q Consensus       191 ~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  270 (574)
                      .++|..++++..+...+.+...|...+..+.+.|++++|..+|+++.+..+......|...+....+.|+.+.|.++|.+
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            34455555555443223333444455555555555555555555554433222223344444444444455555555544


Q ss_pred             HHHCCCCCCHhhHHHHHHH-HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          271 MQLNGVSPSLYTYNCLIHE-YCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKM  343 (574)
Q Consensus       271 ~~~~g~~p~~~~~~~li~~-~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  343 (574)
                      +.+.+. .+...|...... +...|+.+.|..+|+.+.+..+. +...|...+..+.+.|+++.|..+|++...
T Consensus       160 al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~-~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~  231 (308)
T d2onda1         160 AREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLT  231 (308)
T ss_dssp             HHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhh-hHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            443321 122222222211 11234444444444444433221 334444444444444444444444444433

>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=99.24  E-value=8.7e-09  Score=97.13  Aligned_cols=228  Identities=13%  Similarity=0.054  Sum_probs=124.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH----CCCCCC---hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCCCHHHH
Q 043999          320 TLICGLCKEMRVQEAERLLDQMKM----AGISPN---VITYNKLIDGFCDAGETDKAFRLFNQLKSNG----QSPSVVTY  388 (574)
Q Consensus       320 ~li~~~~~~~~~~~A~~~~~~m~~----~g~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g----~~~~~~~~  388 (574)
                      .+...+...|++..+...+.....    .+....   ...+..+...+...|+++.+...+.......    .......+
T Consensus        96 ~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  175 (366)
T d1hz4a_          96 QQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  175 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHH
Confidence            334444555555555555544332    111111   1233444555666666666666666554421    11223344


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHC----CCCC--CHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHHHH
Q 043999          389 NVLIRAFSKAGNSKMASDLVREMEER----GITP--SEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPD---VYTYG  459 (574)
Q Consensus       389 ~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~  459 (574)
                      ......+...++..++...+.+....    +..+  ....+..+...+...|++++|...+....+.....+   ...+.
T Consensus       176 ~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  255 (366)
T d1hz4a_         176 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  255 (366)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHH
Confidence            44455566666666666666554431    1111  112344455566777888888877777654422211   23455


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC----CHH
Q 043999          460 VLIHGLCMKGNMKEASKLFNSMWET----KLEPN-DVVYNMMIFGYCKEGNSYRALRLLGEMNEK----GLVP----NIA  526 (574)
Q Consensus       460 ~li~~~~~~g~~~~A~~~~~~~~~~----~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p----~~~  526 (574)
                      .+...+...|++++|...+++++..    +..|+ ..++..+...|...|++++|.+.+++..+.    |...    ...
T Consensus       256 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~  335 (366)
T d1hz4a_         256 NIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGE  335 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHH
Confidence            5677788888888888888876532    33332 446777778888888888888888876542    2111    122


Q ss_pred             HHHHHHHHHHhcCCHHHHHHH
Q 043999          527 SYSSTIGVLCQDGKWPEAEVL  547 (574)
Q Consensus       527 ~~~~l~~~~~~~g~~~~A~~~  547 (574)
                      ....++..+...++.+++.+.
T Consensus       336 ~~~~~~~~l~~~~~l~e~e~~  356 (366)
T d1hz4a_         336 AMAQQLRQLIQLNTLPELEQH  356 (366)
T ss_dssp             HHHHHHHHHHHTTCSCHHHHH
T ss_pred             HHHHHHHHHHhcCCChHHHHH
Confidence            334455556666766666543

>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=99.22  E-value=5e-09  Score=96.84  Aligned_cols=187  Identities=9%  Similarity=0.011  Sum_probs=115.4

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHH
Q 043999          365 ETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYS  444 (574)
Q Consensus       365 ~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  444 (574)
                      ..++|..+|++..+...+.+...|...+..+...|+++.|..+++++.+.........|...+..+.+.|+++.|.++|+
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            34566667766665433445556666666666777777777777776654332223456666666667777777777777


Q ss_pred             HHHHCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CC
Q 043999          445 LMQKSGFSPDVYTYGVLIHG-LCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKG-LV  522 (574)
Q Consensus       445 ~~~~~~~~~~~~~~~~li~~-~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~  522 (574)
                      .+.+.+ +.+...|...... +...|+.+.|..+|+.++...+ .+...|...+..+...|+.+.|..+|++..+.. ..
T Consensus       159 ~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p-~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         159 KAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhh-hhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC
Confidence            776654 3333333333332 2335677777777777776522 256667777777777777777777777776642 23


Q ss_pred             CC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          523 PN--IASYSSTIGVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       523 p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      |+  ...|...+..-...|+.+.+.++++++.+
T Consensus       237 ~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            32  24566666666667777777777777764

>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=99.22  E-value=7.3e-09  Score=97.67  Aligned_cols=268  Identities=13%  Similarity=0.024  Sum_probs=187.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----hhhHHHH
Q 043999          286 LIHEYCNEGKVSEGFKLFDEMRHREVACN----VVTYNTLICGLCKEMRVQEAERLLDQMKMAGI-SPN----VITYNKL  356 (574)
Q Consensus       286 li~~~~~~g~~~~A~~~~~~m~~~~~~~~----~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~-~~~----~~~~~~l  356 (574)
                      ....+...|++++|++.+++..+..+..+    ...+..+...+...|++++|...+++..+... .++    ...+..+
T Consensus        18 rA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   97 (366)
T d1hz4a_          18 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   97 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            34456677777777777777766533322    23556667777788888888888877654211 111    2345566


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC----CCC--CC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC----CCCHhHHHH
Q 043999          357 IDGFCDAGETDKAFRLFNQLKSN----GQS--PS-VVTYNVLIRAFSKAGNSKMASDLVREMEERGI----TPSEVTYTI  425 (574)
Q Consensus       357 i~~~~~~g~~~~A~~~~~~~~~~----g~~--~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~----~p~~~~~~~  425 (574)
                      ...+...|++..+...+.+....    +..  +. ...+..+...+...|+++.+...+.+......    ......+..
T Consensus        98 ~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  177 (366)
T d1hz4a_          98 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  177 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHH
Confidence            77888999999999998876542    111  11 23455677788999999999999998875422    223345556


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC--CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHHHHH
Q 043999          426 LIDSFVRSDDMEKAFEMYSLMQKS--GFSPD----VYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEP---NDVVYNMM  496 (574)
Q Consensus       426 li~~~~~~g~~~~A~~~~~~~~~~--~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p---~~~~~~~l  496 (574)
                      ....+...++..++...+......  .....    ...+..+...+...|+.++|...+++........   ....+..+
T Consensus       178 ~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  257 (366)
T d1hz4a_         178 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNI  257 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHH
Confidence            667788889999999888776432  11111    2345666777889999999999999887653322   24556778


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH----CCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          497 IFGYCKEGNSYRALRLLGEMNE----KGLVPN-IASYSSTIGVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       497 i~~~~~~g~~~~A~~~~~~m~~----~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      ...+...|++++|...++++..    .+..|+ ..++..+..++.+.|++++|.+.+++.++
T Consensus       258 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         258 ARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            8899999999999999998863    244444 35677888999999999999999999875

>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=99.16  E-value=1.5e-10  Score=108.86  Aligned_cols=260  Identities=8%  Similarity=-0.031  Sum_probs=164.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHH----------HHhcCChhHHHHHHHHcccCCCCCHHH
Q 043999          109 YESIIDAHLKSRLSDQALFYFHQMLDSGVRPR-SNTFNSLLIF----------VIKSCSFDKGWLFFSENRCKVELDVYS  177 (574)
Q Consensus       109 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~ll~~----------~~~~g~~~~A~~~~~~~~~~~~~~~~~  177 (574)
                      +..++...-+.+..++|++++++.++..  |+ ...|+..-..          +...|++++|+..++......|.+...
T Consensus        32 ~~~~~~~~~~~~~~~~al~~~~~~l~~~--P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk~~~~  109 (334)
T d1dcea1          32 TQAVFQKRQAGELDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGT  109 (334)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCCcHHH
Confidence            3444444444455689999999998864  54 4445443322          223345678888888877777778888


Q ss_pred             HHHHHHHHHhcCC--hhHHHHHHHHHHHCCCCCCHHhHH-HHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 043999          178 FGILIKGCCEAGD--LNKAFEVLNQLEEMGFSPNVVIYT-SLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICG  254 (574)
Q Consensus       178 ~~~li~~~~~~g~--~~~A~~~~~~m~~~g~~p~~~~~~-~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  254 (574)
                      |..+..++...++  +++|...++++.+... ++...+. .....+...+..++|+..+++..+.++. +...|+.+...
T Consensus       110 ~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l~~~  187 (334)
T d1dcea1         110 WHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCL  187 (334)
T ss_dssp             HHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHH
T ss_pred             HHHhhHHHHHhccccHHHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHHHHHH
Confidence            8888777776654  7788888888877532 3445444 3445666778888888888888777654 67778888888


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 043999          255 LFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEA  334 (574)
Q Consensus       255 ~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A  334 (574)
                      +.+.|++++|...+....+.  .|+   .......+...+..+++...+.......+. +...+..+...+...++.++|
T Consensus       188 ~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~-~~~~~~~l~~~~~~~~~~~~a  261 (334)
T d1dcea1         188 LPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAE-PLFRCELSVEKSTVLQSELES  261 (334)
T ss_dssp             HHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCC-CSSSCCCCHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcc-hhhHHHHHHHHHHHHhhHHHH
Confidence            88888877765544433321  111   112233344556666666666666555432 444555556666666777777


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          335 ERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSN  379 (574)
Q Consensus       335 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  379 (574)
                      ...+.+..+.. +.+..++..+...+...|+.++|.+.++++.+.
T Consensus       262 ~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         262 CKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             HHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            77776666543 224455666666777777777777777777664

>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=4.8e-10  Score=105.36  Aligned_cols=232  Identities=8%  Similarity=-0.006  Sum_probs=148.2

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHCCCCCChhhHH-HHHHHHHhcCCHHH
Q 043999          292 NEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEM--RVQEAERLLDQMKMAGISPNVITYN-KLIDGFCDAGETDK  368 (574)
Q Consensus       292 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~--~~~~A~~~~~~m~~~g~~~~~~~~~-~li~~~~~~g~~~~  368 (574)
                      ..|.+++|+..++...+..+. +...|..+..++...+  +.++|...+..+.+.. +++...+. .....+...+..++
T Consensus        85 ~~~~~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~  162 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAE  162 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHH
Confidence            445567777778777776554 6666666666665554  4778888888877653 33444443 34456666788888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          369 AFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQK  448 (574)
Q Consensus       369 A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  448 (574)
                      |+..++.+.+.+.. +...|+.+...+.+.|++++|...+.+..+.  .|+   .......+...+..+++...+.....
T Consensus       163 Al~~~~~~i~~~p~-~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~  236 (334)
T d1dcea1         163 ELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLL  236 (334)
T ss_dssp             HHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            88888877776433 6777777777888888777765554443332  111   11222334455666677777777666


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HH
Q 043999          449 SGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNI-AS  527 (574)
Q Consensus       449 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~  527 (574)
                      .. +++...+..+...+...|+.++|...+.+.....+. +..+|..++.+|...|++++|++.++++.+  +.|+. ..
T Consensus       237 ~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~--ldP~~~~y  312 (334)
T d1dcea1         237 GR-AEPLFRCELSVEKSTVLQSELESCKELQELEPENKW-CLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRAAY  312 (334)
T ss_dssp             SC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHCTGGGHHHHHHHHHHHHH--HCGGGHHH
T ss_pred             hC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCch-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCcccHHH
Confidence            54 444555666666777778888888888877654322 456677777788888888888888888877  45643 34


Q ss_pred             HHHHHHHH
Q 043999          528 YSSTIGVL  535 (574)
Q Consensus       528 ~~~l~~~~  535 (574)
                      |..+...+
T Consensus       313 ~~~L~~~~  320 (334)
T d1dcea1         313 LDDLRSKF  320 (334)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444433

>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=99.11  E-value=2.8e-09  Score=95.88  Aligned_cols=149  Identities=12%  Similarity=-0.063  Sum_probs=78.5

Q ss_pred             hHHHHHHHHHHHhCCC-CC--CHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHH
Q 043999          122 SDQALFYFHQMLDSGV-RP--RSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVL  198 (574)
Q Consensus       122 ~~~A~~~~~~~~~~g~-~p--~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  198 (574)
                      .+.|+.-+++.+.... .+  ...++..+..+|.+.|++++|...|++.....|.++.+|+.+..++.+.|++++|++.|
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~   94 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAF   94 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhh
Confidence            3445555555544311 11  12244445556666666666666666665555556666666666666666666666666


Q ss_pred             HHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          199 NQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQ  272 (574)
Q Consensus       199 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  272 (574)
                      +++.+... -+..++..+..++...|++++|.+.|++..+..+. +......+...+.+.+..+....+.....
T Consensus        95 ~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (259)
T d1xnfa_          95 DSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPN-DPFRSLWLYLAEQKLDEKQAKEVLKQHFE  166 (259)
T ss_dssp             HHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             hHHHHHHh-hhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhccc-cHHHHHHHHHHHHHhhhHHHHHHHHHHhh
Confidence            66665431 13445666666666666666666666666554322 33333333333344444444444433333

>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=99.06  E-value=4.1e-09  Score=94.75  Aligned_cols=96  Identities=15%  Similarity=-0.054  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 043999          317 TYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFS  396 (574)
Q Consensus       317 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~  396 (574)
                      +|..+...|.+.|++++|+..|++.++.. +-+..+|..+..+|.+.|++++|++.|+++.+... .+..++..+...+.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHh-hhhhhHHHHHHHHH
Confidence            34444445555555555555555555442 23444455555555555555555555555554321 12334444455555


Q ss_pred             hcCChHHHHHHHHHHHHC
Q 043999          397 KAGNSKMASDLVREMEER  414 (574)
Q Consensus       397 ~~g~~~~A~~~~~~m~~~  414 (574)
                      ..|++++|...+++..+.
T Consensus       117 ~~g~~~~A~~~~~~al~~  134 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQD  134 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHhh
Confidence            555555555555555443

>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=98.74  E-value=3.5e-07  Score=77.22  Aligned_cols=130  Identities=8%  Similarity=-0.085  Sum_probs=100.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHh
Q 043999          108 LYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCE  187 (574)
Q Consensus       108 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~  187 (574)
                      .|+. ...+...|+++.|++.|+++    .+|+..+|..+..++.+.|++++|++.|++.....|.++.+|..+..++.+
T Consensus         8 l~~~-g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~   82 (192)
T d1hh8a_           8 LWNE-GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQ   82 (192)
T ss_dssp             HHHH-HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHH-HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHh
Confidence            4554 56677889999999998865    246777888889999999999999999999888778889999999999999


Q ss_pred             cCChhHHHHHHHHHHHCCCC--------------CC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 043999          188 AGDLNKAFEVLNQLEEMGFS--------------PN-VVIYTSLIDGCCKNGDIERAKMLFRKIGELGLV  242 (574)
Q Consensus       188 ~g~~~~A~~~~~~m~~~g~~--------------p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  242 (574)
                      .|++++|++.|++.......              ++ ..++..+..++.+.|++++|.+.+++..+..+.
T Consensus        83 ~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          83 TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             hccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            99999999999887653110              01 234556677777888888888888777665444

>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=98.71  E-value=3.1e-05  Score=68.82  Aligned_cols=226  Identities=14%  Similarity=-0.001  Sum_probs=129.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 043999          315 VVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCD----AGETDKAFRLFNQLKSNGQSPSVVTYNV  390 (574)
Q Consensus       315 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~~~~~~~~~  390 (574)
                      +..+..+...+.+.+++++|++.|++..+.|   +...+..|...|..    ..+...|...+......+   +......
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~   75 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHL   75 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhc
Confidence            3344455555555666666666666665554   44444445555544    445666666666665543   2233333


Q ss_pred             HHHHHHh----cCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHH----hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 043999          391 LIRAFSK----AGNSKMASDLVREMEERGITPSEVTYTILIDSFV----RSDDMEKAFEMYSLMQKSGFSPDVYTYGVLI  462 (574)
Q Consensus       391 li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~----~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  462 (574)
                      +...+..    ..+.+.|...+++..+.|..   .....+...+.    .......+...+......   .+...+..|.
T Consensus        76 l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~  149 (265)
T d1ouva_          76 LGNLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILG  149 (265)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHH
T ss_pred             cccccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhh
Confidence            3333322    34556666666666655432   11222222222    234455666666665553   3455556666


Q ss_pred             HHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 043999          463 HGLCM----KGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCK----EGNSYRALRLLGEMNEKGLVPNIASYSSTIGV  534 (574)
Q Consensus       463 ~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~  534 (574)
                      ..|..    ..+...+...++...+.|   +..+...+...|..    ..++++|+.+|++..+.|   ++..+..|...
T Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~  223 (265)
T d1ouva_         150 SLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAM  223 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             hhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHH
Confidence            66654    455667777777776643   55555566655554    457888888888888876   45566666666


Q ss_pred             HHh----cCCHHHHHHHHHHHHHcCCCC
Q 043999          535 LCQ----DGKWPEAEVLLNQMLKLGLKP  558 (574)
Q Consensus       535 ~~~----~g~~~~A~~~~~~m~~~g~~p  558 (574)
                      |.+    ..+.++|.++|++..+.|..+
T Consensus       224 y~~G~g~~~n~~~A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         224 QYNGEGVTRNEKQAIENFKKGCKLGAKG  251 (265)
T ss_dssp             HHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             HHcCCCCccCHHHHHHHHHHHHHCcCHH
Confidence            654    337888888888888777544

>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=98.65  E-value=1e-06  Score=74.29  Aligned_cols=123  Identities=7%  Similarity=-0.006  Sum_probs=57.1

Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHH
Q 043999          185 CCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDG  264 (574)
Q Consensus       185 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  264 (574)
                      +...|++++|++.|+++.    +|+..+|..+..+|...|++++|++.|++.++.++. +...|..+..++.+.|++++|
T Consensus        15 ~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~~~A   89 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKYDLA   89 (192)
T ss_dssp             HHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccHHHH
Confidence            334444444444444321    233344444444444444444444444444443322 334444444444444444444


Q ss_pred             HHHHHHHHHCC------------CC--C-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 043999          265 FEFYEKMQLNG------------VS--P-SLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVA  312 (574)
Q Consensus       265 ~~~~~~~~~~g------------~~--p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  312 (574)
                      ++.|++.+...            ..  + ...++..+...+.+.|++++|.+.++...+..+.
T Consensus        90 ~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          90 IKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             HHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            44444443210            00  0 0123445566667777777777777766655443

>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=98.65  E-value=4.9e-07  Score=82.20  Aligned_cols=168  Identities=10%  Similarity=-0.106  Sum_probs=94.9

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHcccC---C---CCCH
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLDS----GVRP-RSNTFNSLLIFVIKSCSFDKGWLFFSENRCK---V---ELDV  175 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~----g~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~---~---~~~~  175 (574)
                      ..|......|...|++++|.+.|.++.+.    +.++ -..+|..+..+|.+.|++++|.+.+++....   .   ....
T Consensus        38 ~~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~  117 (290)
T d1qqea_          38 DLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGA  117 (290)
T ss_dssp             HHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHH
Confidence            35777788888888888888888887652    1111 1345677777777788888877777765432   1   1113


Q ss_pred             HHHHHHHHHHHh-cCChhHHHHHHHHHHHC----CCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCh----
Q 043999          176 YSFGILIKGCCE-AGDLNKAFEVLNQLEEM----GFSP-NVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQ----  245 (574)
Q Consensus       176 ~~~~~li~~~~~-~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~----  245 (574)
                      .++..+...|.. .|++++|.+.+++..+.    +.++ -..++..+...+.+.|++++|++.|+++.........    
T Consensus       118 ~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~  197 (290)
T d1qqea_         118 NFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWS  197 (290)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGG
T ss_pred             HHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhh
Confidence            345555555533 46777777776665431    1111 1234555666666666666666666666543322111    


Q ss_pred             --hhHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          246 --HTYTVLICGLFKNGLQKDGFEFYEKMQLN  274 (574)
Q Consensus       246 --~~~~~li~~~~~~g~~~~a~~~~~~~~~~  274 (574)
                        ..+...+..+...|+++.|...+++..+.
T Consensus       198 ~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~  228 (290)
T d1qqea_         198 LKDYFLKKGLCQLAATDAVAAARTLQEGQSE  228 (290)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence              11223333444556666666666655543

>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=98.64  E-value=9.4e-05  Score=65.53  Aligned_cols=223  Identities=10%  Similarity=-0.020  Sum_probs=101.5

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCChhhHHH
Q 043999          175 VYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCK----NGDIERAKMLFRKIGELGLVATQHTYTV  250 (574)
Q Consensus       175 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~  250 (574)
                      +..+..|...+.+.|++++|++.|++..+.|   +...+..|...|..    ..+...|...+....+.+   +......
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~   75 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHL   75 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhc
Confidence            3444455555555566666666666655543   34444445555444    345555555555555443   2223333


Q ss_pred             HHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 043999          251 LICGLFK----NGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCN----EGKVSEGFKLFDEMRHREVACNVVTYNTLI  322 (574)
Q Consensus       251 li~~~~~----~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~li  322 (574)
                      +...+..    ..+.+.|...++...+.|.   ......+...+..    ......+...+......+   +...+..+.
T Consensus        76 l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~L~  149 (265)
T d1ouva_          76 LGNLYYSGQGVSQNTNKALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILG  149 (265)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             cccccccccccchhhHHHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhccc---ccchhhhhh
Confidence            3333322    3344555555555554432   1111222222221    223444444444443332   344444444


Q ss_pred             HHHHh----cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 043999          323 CGLCK----EMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCD----AGETDKAFRLFNQLKSNGQSPSVVTYNVLIRA  394 (574)
Q Consensus       323 ~~~~~----~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~  394 (574)
                      ..+..    ..+...+...++...+.|   +......+...|..    ..++++|..+|.+..+.|   ++..+..|...
T Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~  223 (265)
T d1ouva_         150 SLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAM  223 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             hhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHH
Confidence            44443    334455555555555443   34444444444443    345555555555555543   33344444444


Q ss_pred             HHh----cCChHHHHHHHHHHHHCC
Q 043999          395 FSK----AGNSKMASDLVREMEERG  415 (574)
Q Consensus       395 ~~~----~g~~~~A~~~~~~m~~~~  415 (574)
                      |.+    ..+.++|.+.|++..+.|
T Consensus       224 y~~G~g~~~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         224 QYNGEGVTRNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             HHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHcCCCCccCHHHHHHHHHHHHHCc
Confidence            432    224555555555555444

>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=98.56  E-value=9.4e-07  Score=67.65  Aligned_cols=96  Identities=18%  Similarity=0.136  Sum_probs=61.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 043999          462 IHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKW  541 (574)
Q Consensus       462 i~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~  541 (574)
                      ...+.+.|++++|+..|++.++..+. +...|..+..+|...|++++|+..+++..+.+ +.+...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            44556667777777777776665433 55666666677777777777777777766642 33556666666677777777


Q ss_pred             HHHHHHHHHHHHcCCCCCHH
Q 043999          542 PEAEVLLNQMLKLGLKPSVS  561 (574)
Q Consensus       542 ~~A~~~~~~m~~~g~~p~~~  561 (574)
                      ++|+..+++.++.  .|+..
T Consensus        88 ~~A~~~~~~a~~~--~p~~~  105 (117)
T d1elwa_          88 EEAKRTYEEGLKH--EANNP  105 (117)
T ss_dssp             HHHHHHHHHHHTT--CTTCH
T ss_pred             HHHHHHHHHHHHh--CCCCH
Confidence            7777777777643  45443

>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=98.55  E-value=1e-06  Score=67.48  Aligned_cols=88  Identities=8%  Similarity=-0.082  Sum_probs=35.4

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhH
Q 043999          114 DAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNK  193 (574)
Q Consensus       114 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  193 (574)
                      ..+.+.|++++|+..|++.++.. +.+...|..+..++.+.|++++|+..++......|.+...|..+..++...|++++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHHH
Confidence            33444444444444444444332 22333344344444444444444444444333333334444444444444444444


Q ss_pred             HHHHHHHHH
Q 043999          194 AFEVLNQLE  202 (574)
Q Consensus       194 A~~~~~~m~  202 (574)
                      |+..|++..
T Consensus        90 A~~~~~~a~   98 (117)
T d1elwa_          90 AKRTYEEGL   98 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444433

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.53  E-value=2.8e-06  Score=76.99  Aligned_cols=196  Identities=15%  Similarity=0.080  Sum_probs=115.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CC-CCCHhHHHHH
Q 043999          357 IDGFCDAGETDKAFRLFNQLKSN----GQSP-SVVTYNVLIRAFSKAGNSKMASDLVREMEER----GI-TPSEVTYTIL  426 (574)
Q Consensus       357 i~~~~~~g~~~~A~~~~~~~~~~----g~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~-~p~~~~~~~l  426 (574)
                      .+.|...+++++|.+.|.++.+.    +-.+ -..+|..+..+|.+.|++++|...+++..+.    |. .....++..+
T Consensus        44 a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  123 (290)
T d1qqea_          44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (290)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHH
Confidence            44566677777777777666442    1111 1245666777777777777777777765532    11 0112344555


Q ss_pred             HHHHH-hcCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC------HHHHH
Q 043999          427 IDSFV-RSDDMEKAFEMYSLMQKS----GFSPD-VYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPN------DVVYN  494 (574)
Q Consensus       427 i~~~~-~~g~~~~A~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~------~~~~~  494 (574)
                      ...|. ..|++++|.+.+++..+.    +.++. ..++..+...+...|++++|.+.|+++........      ...+.
T Consensus       124 ~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (290)
T d1qqea_         124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL  203 (290)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHH
Confidence            55553 458888888888776432    21111 24566777888888888888888888776422211      12234


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC---HHHHHHHHHHHHh--cCCHHHHHHHHHHHH
Q 043999          495 MMIFGYCKEGNSYRALRLLGEMNEKGLV-PN---IASYSSTIGVLCQ--DGKWPEAEVLLNQML  552 (574)
Q Consensus       495 ~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~---~~~~~~l~~~~~~--~g~~~~A~~~~~~m~  552 (574)
                      ..+..+...|+++.|.+.+++..+.... ++   ......++.++..  .+.+++|+..|+++.
T Consensus       204 ~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         204 KKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            4555666788888888888888764211 11   1234455555544  245777877776654

>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=98.52  E-value=1.5e-06  Score=70.85  Aligned_cols=96  Identities=5%  Similarity=0.042  Sum_probs=73.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhc
Q 043999          109 YESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEA  188 (574)
Q Consensus       109 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~  188 (574)
                      +....+.|.+.|++++|+..|++.++.+ +-+...|..+..++...|++++|+..|+++....|.+..+|..++.++...
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~   91 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMAL   91 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHc
Confidence            4556667778888888888888888764 336777777777888888888888888887776677777888888888888


Q ss_pred             CChhHHHHHHHHHHHCC
Q 043999          189 GDLNKAFEVLNQLEEMG  205 (574)
Q Consensus       189 g~~~~A~~~~~~m~~~g  205 (574)
                      |++++|.+.+++..+..
T Consensus        92 g~~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          92 GKFRAALRDYETVVKVK  108 (159)
T ss_dssp             TCHHHHHHHHHHHHHHS
T ss_pred             CCHHHHHHHHHHHHHcC
Confidence            88888888888877753

>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=98.48  E-value=2.2e-06  Score=69.80  Aligned_cols=92  Identities=10%  Similarity=0.017  Sum_probs=61.3

Q ss_pred             HHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHH
Q 043999          148 LIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIE  227 (574)
Q Consensus       148 l~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  227 (574)
                      ...+.+.|++++|+..|+++....|.+...|..+...|...|++++|.+.|++.++.. +-+..+|..+..++...|+++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~~   95 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFR   95 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCHH
Confidence            3455667777777777777666666667777777777777777777777777766643 224456666677777777777


Q ss_pred             HHHHHHHHHHhCC
Q 043999          228 RAKMLFRKIGELG  240 (574)
Q Consensus       228 ~A~~~~~~~~~~~  240 (574)
                      +|...+++..+..
T Consensus        96 eA~~~~~~a~~~~  108 (159)
T d1a17a_          96 AALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHcC
Confidence            7777777666654

>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=98.48  E-value=3.7e-07  Score=77.92  Aligned_cols=90  Identities=9%  Similarity=-0.046  Sum_probs=36.5

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCC
Q 043999          111 SIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGD  190 (574)
Q Consensus       111 ~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  190 (574)
                      .....|.+.|++++|+..|++.++.. +.+...|..+..+|.+.|++++|+..|+++....|.++.+|..++.+|.+.|+
T Consensus         9 ~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~~~~l~~   87 (201)
T d2c2la1           9 EQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEMES   87 (201)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHHHHHHCCC
Confidence            33444444444444444444444332 12333344444444444444444444444433333333344444444444444


Q ss_pred             hhHHHHHHHHH
Q 043999          191 LNKAFEVLNQL  201 (574)
Q Consensus       191 ~~~A~~~~~~m  201 (574)
                      +++|+..|++.
T Consensus        88 ~~~A~~~~~~a   98 (201)
T d2c2la1          88 YDEAIANLQRA   98 (201)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            44444444433

>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=98.41  E-value=1.9e-06  Score=73.28  Aligned_cols=101  Identities=8%  Similarity=-0.048  Sum_probs=91.0

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHH
Q 043999          138 RPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLI  217 (574)
Q Consensus       138 ~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li  217 (574)
                      +|+...+......+.+.|++++|+..|+++....|.+..+|+.+..+|.+.|++++|+..|++.++... -+..+|..+.
T Consensus         1 ~~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p-~~~~a~~~lg   79 (201)
T d2c2la1           1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLG   79 (201)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCC-CcHHHHHHHH
Confidence            367778888899999999999999999999888889999999999999999999999999999987532 2577899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC
Q 043999          218 DGCCKNGDIERAKMLFRKIGEL  239 (574)
Q Consensus       218 ~~~~~~g~~~~A~~~~~~~~~~  239 (574)
                      .+|.+.|++++|+..|++..+.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh
Confidence            9999999999999999988664

>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=98.40  E-value=0.00063  Score=61.48  Aligned_cols=136  Identities=13%  Similarity=0.144  Sum_probs=72.1

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 043999          139 PRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLID  218 (574)
Q Consensus       139 p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  218 (574)
                      ||..-...++..|.+.|.++.|..+|..+..        |..++..+.+.++++.|.+++.+..      +..+|..+..
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d--------~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~   77 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN--------FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCF   77 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC--------HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC--------HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHH
Confidence            4544455566666677777777777766553        5556666677777777777665432      4556666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcC
Q 043999          219 GCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEG  294 (574)
Q Consensus       219 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g  294 (574)
                      .+.+.....-|     .+.......++.....++..|...|.+++...+++..... -..+...++.++..|++.+
T Consensus        78 ~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          78 ACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC
T ss_pred             HHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC
Confidence            66666555433     1222222334455566677777777777777777766533 2345556667777776654

>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=98.35  E-value=1.7e-06  Score=65.57  Aligned_cols=93  Identities=14%  Similarity=0.021  Sum_probs=72.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhc
Q 043999          109 YESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEA  188 (574)
Q Consensus       109 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~  188 (574)
                      +-.+...+.+.|++++|+..|++.++.. +-+..+|..+..++.+.|++++|+..|++.....|.+..+|..+...|...
T Consensus        19 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          19 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHC
Confidence            3456677788888888888888888764 235777888888888888888888888887777777788888888888888


Q ss_pred             CChhHHHHHHHHHH
Q 043999          189 GDLNKAFEVLNQLE  202 (574)
Q Consensus       189 g~~~~A~~~~~~m~  202 (574)
                      |++++|.+.+++.+
T Consensus        98 g~~~~A~~~l~~~l  111 (112)
T d1hxia_          98 HNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHh
Confidence            88888888887653

>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=98.32  E-value=0.00076  Score=60.93  Aligned_cols=137  Identities=13%  Similarity=0.073  Sum_probs=86.0

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHH
Q 043999          172 ELDVYSFGILIKGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVL  251 (574)
Q Consensus       172 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  251 (574)
                      .+|..--..+++-|.+.|.++.|..++..+..         |..++..+.+.++++.|.+.+.+..      +..+|..+
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~   75 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEV   75 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHH
Confidence            35666666677778888999999988876542         6677888888889998888876552      56688888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 043999          252 ICGLFKNGLQKDGFEFYEKMQLNGVSPSLYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEM  329 (574)
Q Consensus       252 i~~~~~~g~~~~a~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~  329 (574)
                      ...+.+.....-+     .+.......+......++..|-..|.+++...+++...... ..+...++-++..|++.+
T Consensus        76 ~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          76 CFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC
Confidence            8888877665443     22222334455566778888888888888888888776442 336677888888888764

>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=98.31  E-value=2.2e-06  Score=65.81  Aligned_cols=92  Identities=12%  Similarity=0.111  Sum_probs=40.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHH
Q 043999          426 LIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGN---MKEASKLFNSMWETKLEPN-DVVYNMMIFGYC  501 (574)
Q Consensus       426 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~~~p~-~~~~~~li~~~~  501 (574)
                      +++.+...+++++|.+.|+.....+ +.+..++..+..++.+.++   +++|++++++++..+..|+ ..+|..+..+|.
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            3444444444555555554444433 3344444444444443222   2334444444444322222 123444444444


Q ss_pred             hcCCHHHHHHHHHHHHH
Q 043999          502 KEGNSYRALRLLGEMNE  518 (574)
Q Consensus       502 ~~g~~~~A~~~~~~m~~  518 (574)
                      +.|++++|++.|+++++
T Consensus        84 ~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHH
Confidence            44455555554444444

>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=98.31  E-value=2.9e-06  Score=65.10  Aligned_cols=106  Identities=12%  Similarity=0.029  Sum_probs=79.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCCCH-HHHHHHHHH
Q 043999          459 GVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGN---SYRALRLLGEMNEKGLVPNI-ASYSSTIGV  534 (574)
Q Consensus       459 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~  534 (574)
                      ..++..+...+++++|++.|++.+..++. +..++..+..++.+.++   +++|+.+++++...+..|+. .+|..+..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~-~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSV-SKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            45677778888899999999998886543 77888888888876544   45688899888875433332 367778888


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 043999          535 LCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILY  567 (574)
Q Consensus       535 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  567 (574)
                      |.+.|++++|.+.|+++++.  .|+..-...+.
T Consensus        82 y~~~g~~~~A~~~~~~aL~~--~P~~~~A~~l~  112 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQT--EPQNNQAKELE  112 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHh--CcCCHHHHHHH
Confidence            88999999999999999875  68766544443

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.27  E-value=4.7e-06  Score=63.01  Aligned_cols=89  Identities=12%  Similarity=0.038  Sum_probs=59.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 043999          461 LIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGK  540 (574)
Q Consensus       461 li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~  540 (574)
                      +...+.+.|++++|+..|++.+...+. +..+|..+..++.+.|++++|+..+++..+.. +.+...|..+..+|...|+
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCC
Confidence            445566677777777777777765433 56667777777777777777777777777642 2245666677777777777


Q ss_pred             HHHHHHHHHHH
Q 043999          541 WPEAEVLLNQM  551 (574)
Q Consensus       541 ~~~A~~~~~~m  551 (574)
                      +++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77777777664

>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=98.16  E-value=1.4e-05  Score=61.93  Aligned_cols=90  Identities=17%  Similarity=0.134  Sum_probs=41.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--------HHHHHHHH
Q 043999          461 LIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPN--------IASYSSTI  532 (574)
Q Consensus       461 li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--------~~~~~~l~  532 (574)
                      +...+.+.|++++|++.|++.++.++. +..+|..+..+|.+.|++++|++.++++++.  .|+        ..+|..+.
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l--~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEV--GRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHhHHHHHHHcCchHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHHH
Confidence            334444455555555555555443322 3444444555555555555555555554431  110        12333444


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 043999          533 GVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       533 ~~~~~~g~~~~A~~~~~~m~~  553 (574)
                      ..+...+++++|..++++.+.
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHh
Confidence            444445555555555555443

>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=98.12  E-value=3.8e-05  Score=62.84  Aligned_cols=126  Identities=17%  Similarity=0.005  Sum_probs=72.1

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHH
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCC  186 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~  186 (574)
                      ..+......+.+.|++++|+..|++.++........              .+.-......+      -..+|+.+..+|.
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~--------------~~~~~~~~~~~------~~~~~~nla~~y~   73 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSF--------------SNEEAQKAQAL------RLASHLNLAMCHL   73 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCC--------------CSHHHHHHHHH------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhcccc--------------chHHHhhhchh------HHHHHHHHHHHHH
Confidence            345667788999999999999999987642110000              00000000000      1224555666666


Q ss_pred             hcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 043999          187 EAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICG  254 (574)
Q Consensus       187 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  254 (574)
                      +.|++++|++.+++.++.. +.++.++..+..+|...|++++|+..|++..+.++. +......+..+
T Consensus        74 k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~-n~~~~~~l~~~  139 (170)
T d1p5qa1          74 KLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVC  139 (170)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHH
T ss_pred             hhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            7777777777776666643 225566666666677777777777777776665432 44444444333

>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=98.03  E-value=0.00011  Score=59.91  Aligned_cols=61  Identities=10%  Similarity=-0.176  Sum_probs=39.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          457 TYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       457 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      +|+.+..+|.+.|++++|+..+++.+...+. +..+|..++.+|...|++++|+..|++..+
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcccc-chhhhHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3455566666666777777766666665322 566666666666677777777777776666

>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=98.02  E-value=3.6e-05  Score=59.51  Aligned_cols=95  Identities=15%  Similarity=0.136  Sum_probs=64.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC-----HHHHHHH
Q 043999          423 YTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLE-PN-----DVVYNMM  496 (574)
Q Consensus       423 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-p~-----~~~~~~l  496 (574)
                      +..+...+.+.|++++|+..|.+.++.. +.+...+..+..+|.+.|++++|++.++++++.... +.     ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            3345566777777777777777777664 455667777777777777777777777777653111 01     2356667


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH
Q 043999          497 IFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       497 i~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      ...+...+++++|++.|++...
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHh
Confidence            7777777888888888877765

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.97  E-value=0.0001  Score=58.98  Aligned_cols=120  Identities=14%  Similarity=0.045  Sum_probs=74.4

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC----CCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHH
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLDSGVR----PRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILI  182 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~----p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li  182 (574)
                      ..+..-...+.+.|++.+|+..|.+.++.-..    ++......                 ..      +....+|+.+.
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~-----------------~~------~~~~~~~~Nla   74 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDK-----------------KK------NIEISCNLNLA   74 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHH-----------------HH------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHh-----------------hh------hHHHHHHhhHH
Confidence            45666778889999999999999998863110    11111100                 00      01233566677


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHH
Q 043999          183 KGCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVL  251 (574)
Q Consensus       183 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  251 (574)
                      .+|.+.|++++|++.+++.++.. +.++.+|..+..++...|++++|+..|++..+.++. +..+...+
T Consensus        75 ~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~-n~~~~~~l  141 (153)
T d2fbna1          75 TCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN-NLDIRNSY  141 (153)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHH
T ss_pred             HHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            77777777777777777776653 235667777777777777777777777777665432 34344333

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.95  E-value=0.00018  Score=57.50  Aligned_cols=61  Identities=10%  Similarity=-0.136  Sum_probs=33.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          457 TYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       457 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      +|..+..+|.+.|++++|++.++++++..+. +..+|..++.++...|++++|+..|++..+
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~-~~ka~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDKN-NVKALYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhccccccch-hhhhhHHhHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444555555555566665555555554322 455555555555555555555555555555

>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=97.92  E-value=5.5e-06  Score=81.25  Aligned_cols=225  Identities=12%  Similarity=-0.046  Sum_probs=95.3

Q ss_pred             HHHHHHHHHHHCCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          193 KAFEVLNQLEEMGFSPN-VVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFKNGLQKDGFEFYEKM  271 (574)
Q Consensus       193 ~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  271 (574)
                      +|.+.|++..+.  +|+ ...+..+..++...|++++|   |+++...++. ....++.  ....-...+..+.+.++..
T Consensus         4 eA~q~~~qA~~l--~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~dp~-~a~~~~~--e~~Lw~~~y~~~ie~~r~~   75 (497)
T d1ya0a1           4 QSAQYLRQAEVL--KADMTDSKLGPAEVWTSRQALQDL---YQKMLVTDLE-YALDKKV--EQDLWNHAFKNQITTLQGQ   75 (497)
T ss_dssp             HHHHHHHHHHHH--HGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHCHH-HHHHHTH--HHHHHHHHTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc--CCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcChh-hHHHHhH--HHHHHHHHHHHHHHHHHHh
Confidence            567777777653  344 34566666777777777765   5565543211 0111111  1111111234455555555


Q ss_pred             HHCCCCCCHhhHHHHHHH--HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 043999          272 QLNGVSPSLYTYNCLIHE--YCNEGKVSEGFKLFDEMRHREVACNVVTYNTLICGLCKEMRVQEAERLLDQMKMAGISPN  349 (574)
Q Consensus       272 ~~~g~~p~~~~~~~li~~--~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~~~  349 (574)
                      .+....++..-.......  +...+.++.++..++...+..+ ++...+..+...+.+.|+.++|...++......   .
T Consensus        76 ~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~  151 (497)
T d1ya0a1          76 AKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVDL-PCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---C  151 (497)
T ss_dssp             HSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHHH---H
T ss_pred             cccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCh-hhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---H
Confidence            544323332222211111  1122333444433333222211 134455555566666666666666665544321   1


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHH
Q 043999          350 VITYNKLIDGFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDS  429 (574)
Q Consensus       350 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  429 (574)
                      ..++..+.+.+...|++++|...|++..+.. +.+...|+.+...+...|+..+|...|.+..... +|-..++..|...
T Consensus       152 ~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~  229 (497)
T d1ya0a1         152 QHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKA  229 (497)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHH
Confidence            2345556666666666666666666666552 2244566666666666666666666666666542 3445555555554


Q ss_pred             HH
Q 043999          430 FV  431 (574)
Q Consensus       430 ~~  431 (574)
                      +.
T Consensus       230 ~~  231 (497)
T d1ya0a1         230 LS  231 (497)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=97.91  E-value=6e-06  Score=80.99  Aligned_cols=228  Identities=9%  Similarity=-0.047  Sum_probs=129.0

Q ss_pred             HHHHHHHHHHHHCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH-HHHHHHhcCCHHHHHHHHH
Q 043999          262 KDGFEFYEKMQLNGVSPS-LYTYNCLIHEYCNEGKVSEGFKLFDEMRHREVACNVVTYNT-LICGLCKEMRVQEAERLLD  339 (574)
Q Consensus       262 ~~a~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~-li~~~~~~~~~~~A~~~~~  339 (574)
                      -+|.+.|++..+.  +|| ...+..+...+...|++++|   |+++...    |+..... -+....-...+..+...++
T Consensus         3 ~eA~q~~~qA~~l--~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~----dp~~a~~~~~e~~Lw~~~y~~~ie~~r   73 (497)
T d1ya0a1           3 LQSAQYLRQAEVL--KADMTDSKLGPAEVWTSRQALQDL---YQKMLVT----DLEYALDKKVEQDLWNHAFKNQITTLQ   73 (497)
T ss_dssp             HHHHHHHHHHHHH--HGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHH----CHHHHHHHTHHHHHHHHHTHHHHHHHH
T ss_pred             HHHHHHHHHHHHc--CCCCHHHHhhHHHHHHHHchHHHH---HHHHHHc----ChhhHHHHhHHHHHHHHHHHHHHHHHH
Confidence            3788899988764  444 34667777888888888876   6676655    3221110 0111111112445667777


Q ss_pred             HHHHCCCCCChhhHHHHHHH--HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC
Q 043999          340 QMKMAGISPNVITYNKLIDG--FCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGIT  417 (574)
Q Consensus       340 ~m~~~g~~~~~~~~~~li~~--~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  417 (574)
                      ...+....++..-.......  ....+.++.++..+....+.. .++...+..+...+.+.|+.++|...+.+.....  
T Consensus        74 ~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--  150 (497)
T d1ya0a1          74 GQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI--  150 (497)
T ss_dssp             HHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHHH--
T ss_pred             HhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC--
Confidence            76655433443332222222  223445555555554443331 2355667778888889999999998887766532  


Q ss_pred             CCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 043999          418 PSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMI  497 (574)
Q Consensus       418 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li  497 (574)
                       ....+..+.+.+...|++++|...|++..+.. +.+...|+.|...+...|+..+|...|.+.+... .|-..++..|.
T Consensus       151 -~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~  227 (497)
T d1ya0a1         151 -CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQ  227 (497)
T ss_dssp             -HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHH
Confidence             23567778889999999999999999998874 5566899999999999999999999999998764 45778888888


Q ss_pred             HHHHhcC
Q 043999          498 FGYCKEG  504 (574)
Q Consensus       498 ~~~~~~g  504 (574)
                      ..+.+..
T Consensus       228 ~~~~~~~  234 (497)
T d1ya0a1         228 KALSKAL  234 (497)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhh
Confidence            7776543

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.87  E-value=8.1e-05  Score=60.77  Aligned_cols=128  Identities=13%  Similarity=0.010  Sum_probs=77.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhc
Q 043999          109 YESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEA  188 (574)
Q Consensus       109 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~  188 (574)
                      +......+.+.|++++|++.|.++++..  +.          ........+.       ....+.+...|..+..++.+.
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~--~~----------~~~~~~~~~~-------~~~~~~~~~~~~nla~~~~~~   90 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYV--EG----------SRAAAEDADG-------AKLQPVALSCVLNIGACKLKM   90 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHH--HH----------HHHHSCHHHH-------GGGHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhh--hh----------hhhhhhhHHH-------HHhChhhHHHHHHHHHHHHhh
Confidence            4556777889999999999998876520  00          0000000000       001123455666677777777


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 043999          189 GDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGLFK  257 (574)
Q Consensus       189 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  257 (574)
                      |++++|+..+++.++.. +.+..+|..+..++.+.|++++|++.|++..+..+. +......+..+..+
T Consensus        91 ~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~-n~~~~~~l~~~~~~  157 (169)
T d1ihga1          91 SDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKVKQK  157 (169)
T ss_dssp             TCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             cccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            77777777777777653 235667777777777777777777777777765433 44555555544433

>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=97.86  E-value=3.8e-05  Score=60.85  Aligned_cols=115  Identities=18%  Similarity=0.066  Sum_probs=72.0

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----------cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 043999          432 RSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCM----------KGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYC  501 (574)
Q Consensus       432 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----------~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~  501 (574)
                      +.+.+++|...|+...+.. |.+...+..+..+|..          .+.+++|+..|+++++..+. +..+|..+..+|.
T Consensus         9 r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~-~~~a~~~lG~~y~   86 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcch-hhHHHhhHHHHHH
Confidence            3444566666666665543 4444555555544442          24456788888887775433 5677777777776


Q ss_pred             hcC-----------CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 043999          502 KEG-----------NSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGL  556 (574)
Q Consensus       502 ~~g-----------~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  556 (574)
                      ..|           ++++|.+.|++..+  +.|+...|...+..+      .+|.+++.+..+.|+
T Consensus        87 ~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          87 SFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH------HTHHHHHHHHHHSSS
T ss_pred             HcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH------HHHHHHHHHHHHHhc
Confidence            654           35788888888888  567776665555443      466677777766654

>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=97.84  E-value=0.00013  Score=59.94  Aligned_cols=126  Identities=13%  Similarity=-0.018  Sum_probs=81.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhc
Q 043999          109 YESIIDAHLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEA  188 (574)
Q Consensus       109 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~  188 (574)
                      ...........|++++|.+.|.+.+..-  +..+.        ......+-+...-..+..   .....+..++..+.+.
T Consensus        14 ~~~~g~~~~~~g~~e~A~~~~~~AL~l~--rG~~l--------~~~~~~~w~~~~r~~l~~---~~~~a~~~la~~~~~~   80 (179)
T d2ff4a2          14 EKTAGVHAAAAGRFEQASRHLSAALREW--RGPVL--------DDLRDFQFVEPFATALVE---DKVLAHTAKAEAEIAC   80 (179)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTC--CSSTT--------GGGTTSTTHHHHHHHHHH---HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccccc--------ccCcchHHHHHHHHHHHH---HHHHHHHHHHHHHHHC
Confidence            4455577889999999999999998741  11100        000010111111111111   1345677788888888


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH-----hCCCCCChhhH
Q 043999          189 GDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIG-----ELGLVATQHTY  248 (574)
Q Consensus       189 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~~~  248 (574)
                      |++++|+..++++.+.. +-+...|..++.+|.+.|+.++|++.|+++.     +.|+.|...+-
T Consensus        81 g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~  144 (179)
T d2ff4a2          81 GRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  144 (179)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             CCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHH
Confidence            88888888888887754 2367788888888888888888888888763     35777776553

>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=97.79  E-value=0.00028  Score=57.76  Aligned_cols=122  Identities=10%  Similarity=-0.003  Sum_probs=80.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 043999          426 LIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGN  505 (574)
Q Consensus       426 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  505 (574)
                      ........|++++|.+.|......-  +....        ......+.+...-..+..    -....+..+...+.+.|+
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~--rG~~l--------~~~~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~~g~   82 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREW--RGPVL--------DDLRDFQFVEPFATALVE----DKVLAHTAKAEAEIACGR   82 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTC--CSSTT--------GGGTTSTTHHHHHHHHHH----HHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhC--ccccc--------ccCcchHHHHHHHHHHHH----HHHHHHHHHHHHHHHCCC
Confidence            3345678899999999998887642  11100        000000011111111111    123467778888899999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-----HcCCCCCHHH
Q 043999          506 SYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQML-----KLGLKPSVSL  562 (574)
Q Consensus       506 ~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~-----~~g~~p~~~~  562 (574)
                      +++|+..++++++.. +-+...|..++.+|.+.|+.++|++.|+++.     +.|+.|...+
T Consensus        83 ~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          83 ASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             chHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            999999999998852 3467888899999999999999999988874     3589998765

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.79  E-value=0.00019  Score=58.50  Aligned_cols=63  Identities=13%  Similarity=-0.103  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          456 YTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEK  519 (574)
Q Consensus       456 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  519 (574)
                      ..|..+..++.+.|++++|+..++++++..+. +..+|..++.+|...|++++|++.|++..+.
T Consensus        78 ~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~-~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          78 SCVLNIGACKLKMSDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcccchhhhhhhhhhhhhhh-hhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            34555666666677777777777776665432 5666666677777777777777777776663

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.78  E-value=0.00041  Score=56.27  Aligned_cols=124  Identities=13%  Similarity=-0.021  Sum_probs=66.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHH
Q 043999          107 RLYESIIDAHLKSRLSDQALFYFHQMLDS---GVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIK  183 (574)
Q Consensus       107 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~---g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  183 (574)
                      ..+......+.+.|++.+|+..|++.+..   ...++....                 .....+      ...+|+.+..
T Consensus        16 ~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~-----------------~~~~~~------~~~~~~Nla~   72 (168)
T d1kt1a1          16 AIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKES-----------------KASESF------LLAAFLNLAM   72 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHH-----------------HHHHHH------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhh-----------------hhcchh------HHHHHHhHHH
Confidence            44667778888999999999999887642   111111100                 000000      1223444555


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 043999          184 GCCEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGELGLVATQHTYTVLICGL  255 (574)
Q Consensus       184 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  255 (574)
                      +|.+.|++++|+..+++.++.. +.+..+|..+..++...|++++|...|++..+.++. +......+-.+.
T Consensus        73 ~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~  142 (168)
T d1kt1a1          73 CYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQIFMCQ  142 (168)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHH
T ss_pred             HHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            5666666666666666655543 234555666666666666666666666666554432 333444433333

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.75  E-value=0.00059  Score=55.29  Aligned_cols=94  Identities=9%  Similarity=-0.118  Sum_probs=66.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHH
Q 043999          456 YTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPN-IASYSSTIGV  534 (574)
Q Consensus       456 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~  534 (574)
                      .+|+.+..+|.+.|++++|+..+++.++..+. +..+|..+..+|...|++++|...|+++++.  .|+ ......+...
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~-~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~~~~~l~~~  141 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQIFMC  141 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            34666777888999999999999998886533 7788888889999999999999999999884  444 4444444444


Q ss_pred             HHhcCCH-HHHHHHHHHHH
Q 043999          535 LCQDGKW-PEAEVLLNQML  552 (574)
Q Consensus       535 ~~~~g~~-~~A~~~~~~m~  552 (574)
                      ..+.+.. +...+.+..|.
T Consensus       142 ~~~~~~~~e~~kk~~~~~f  160 (168)
T d1kt1a1         142 QKKAKEHNERDRRTYANMF  160 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhHHHHHHHHHHHHH
Confidence            3333333 23445555554

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.71  E-value=7.7e-05  Score=59.00  Aligned_cols=73  Identities=7%  Similarity=-0.127  Sum_probs=49.9

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----------CChhHHHHHHHHcccCCCCCHHHHHHHHHHH
Q 043999          116 HLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKS----------CSFDKGWLFFSENRCKVELDVYSFGILIKGC  185 (574)
Q Consensus       116 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~----------g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  185 (574)
                      |-+.+.+++|+..|+..++.. |.+..++..+..++...          +.+++|++.|+++....|.+..+|..+..+|
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y   85 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAY   85 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHH
Confidence            345567888999999888864 44677777777777644          3345677777776665666777777777776


Q ss_pred             HhcC
Q 043999          186 CEAG  189 (574)
Q Consensus       186 ~~~g  189 (574)
                      ...|
T Consensus        86 ~~~g   89 (145)
T d1zu2a1          86 TSFA   89 (145)
T ss_dssp             HHHH
T ss_pred             HHcc
Confidence            6544

>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=97.68  E-value=2.9e-05  Score=68.39  Aligned_cols=123  Identities=12%  Similarity=0.001  Sum_probs=69.3

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHHHHHHHhcCChhHHH
Q 043999          116 HLKSRLSDQALFYFHQMLDSGVRPRSNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGILIKGCCEAGDLNKAF  195 (574)
Q Consensus       116 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  195 (574)
                      ..+.|++++|+..+++.++.. +.|...+..+...++..|++++|.+.|+......|.+...+..+...+...+..+++.
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~   84 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDFA   84 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHHH
Confidence            346677777777777777764 3356677777777777777777777777766655555555555555444333333222


Q ss_pred             HHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043999          196 EVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIGEL  239 (574)
Q Consensus       196 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  239 (574)
                      .........+-+++...+......+.+.|+.++|.+.++++.+.
T Consensus        85 ~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          85 QGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            21111111111122233344445566667777777777666553

>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=97.67  E-value=5.2e-05  Score=66.67  Aligned_cols=121  Identities=12%  Similarity=0.083  Sum_probs=70.0

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHH
Q 043999          431 VRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPN-DVVYNMMIFGYCKEGNSYRA  509 (574)
Q Consensus       431 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A  509 (574)
                      .+.|++++|+..+++.++.. +.|...+..+...|+..|++++|.+.++...+.  .|+ ...+..+...+...+..+++
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHHH
Confidence            45677777777777777764 566677777777777788888887777777764  333 34444444444333333322


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043999          510 LRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       510 ~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      ..-.......+-+++...+......+.+.|+.++|...++++.+.
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            221111111111122233344455666778888888888777654

>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=97.29  E-value=0.0022  Score=50.97  Aligned_cols=92  Identities=15%  Similarity=0.052  Sum_probs=60.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCC-C----------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CCCCC-
Q 043999          462 IHGLCMKGNMKEASKLFNSMWETKLE-P----------NDVVYNMMIFGYCKEGNSYRALRLLGEMNEK-----GLVPN-  524 (574)
Q Consensus       462 i~~~~~~g~~~~A~~~~~~~~~~~~~-p----------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g~~p~-  524 (574)
                      ...+...|++++|++.|++.++.... |          ...+|+.+..+|...|++++|.+.+++.++.     ...++ 
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            34455667777777777777653111 1          1356777888888888888888887777642     11122 


Q ss_pred             ----HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          525 ----IASYSSTIGVLCQDGKWPEAEVLLNQMLK  553 (574)
Q Consensus       525 ----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  553 (574)
                          ...+..+..+|...|++++|...|++.++
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence                12456677888888899988888888764

>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=97.14  E-value=0.0011  Score=52.87  Aligned_cols=28  Identities=14%  Similarity=0.182  Sum_probs=20.8

Q ss_pred             hHHHHH--HHHHHhcCChHHHHHHHHHHHh
Q 043999          107 RLYESI--IDAHLKSRLSDQALFYFHQMLD  134 (574)
Q Consensus       107 ~~~~~l--i~~~~~~g~~~~A~~~~~~~~~  134 (574)
                      .+|..+  ...+.+.|++++|+..|++.++
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~   37 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAME   37 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345555  5566778889999888888875

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.72  E-value=0.0046  Score=44.08  Aligned_cols=60  Identities=12%  Similarity=0.064  Sum_probs=30.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCC-----CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043999          459 GVLIHGLCMKGNMKEASKLFNSMWETK-----LEPN-DVVYNMMIFGYCKEGNSYRALRLLGEMNE  518 (574)
Q Consensus       459 ~~li~~~~~~g~~~~A~~~~~~~~~~~-----~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~  518 (574)
                      -.+...+.+.|++++|...|++.++..     ..++ ..+++.+..+|.+.|++++|++.++++++
T Consensus         9 ~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~   74 (95)
T d1tjca_           9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (95)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH
Confidence            344555555566666665555554320     0111 33455555555555555555555555555

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.71  E-value=0.0037  Score=44.63  Aligned_cols=73  Identities=12%  Similarity=-0.028  Sum_probs=42.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCC-----CCCC-HHHHHHHHHHHHhcCChhHHHHHHHHcccCCCCCHHHHHHH
Q 043999          109 YESIIDAHLKSRLSDQALFYFHQMLDSG-----VRPR-SNTFNSLLIFVIKSCSFDKGWLFFSENRCKVELDVYSFGIL  181 (574)
Q Consensus       109 ~~~li~~~~~~g~~~~A~~~~~~~~~~g-----~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l  181 (574)
                      +-.+...+.+.|++++|+..|++.++..     ..++ ..+++.+..++.+.|++++|+..++++....|.+..+++.+
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl   86 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNL   86 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHH
Confidence            4466777777888888888777766431     0111 33455555666666666666666666555545555554443

>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=96.64  E-value=0.039  Score=41.91  Aligned_cols=111  Identities=11%  Similarity=-0.045  Sum_probs=60.8

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHH
Q 043999          435 DMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCK----EGNSYRAL  510 (574)
Q Consensus       435 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~  510 (574)
                      ++++|.+.|++..+.|. +.  ....|.  .....+.++|.+++++..+.|   ++.....|...|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~-~~--a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE-MF--GCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC-TT--HHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCC-hh--hhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            34555555555555441 11  111221  123345666777777666644   44444555555543    34567777


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCC
Q 043999          511 RLLGEMNEKGLVPNIASYSSTIGVLCQ----DGKWPEAEVLLNQMLKLGL  556 (574)
Q Consensus       511 ~~~~~m~~~g~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~g~  556 (574)
                      ++|++..+.|   ++.....+...|.+    ..+.++|.+++++..+.|.
T Consensus        80 ~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          80 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            7777777765   34444455555554    3467777777777776653

>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=96.40  E-value=0.063  Score=40.62  Aligned_cols=15  Identities=13%  Similarity=0.200  Sum_probs=6.8

Q ss_pred             CHHHHHHHHHHHHHC
Q 043999          365 ETDKAFRLFNQLKSN  379 (574)
Q Consensus       365 ~~~~A~~~~~~~~~~  379 (574)
                      +.++|.++|++..+.
T Consensus       110 d~~~A~~~~~~Aa~~  124 (133)
T d1klxa_         110 NEKQAVKTFEKACRL  124 (133)
T ss_dssp             CHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHC
Confidence            444444444444443

>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=95.31  E-value=0.32  Score=35.25  Aligned_cols=49  Identities=14%  Similarity=0.179  Sum_probs=26.1

Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          186 CEAGDLNKAFEVLNQLEEMGFSPNVVIYTSLIDGCCKNGDIERAKMLFRKIG  237 (574)
Q Consensus       186 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  237 (574)
                      .-.|.+++..+++.+....   .+..-||.+|--....-+-+-..++++.+-
T Consensus        13 ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG   61 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIG   61 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHG
T ss_pred             HHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHh
Confidence            3346666666666665542   244455555555555555555555555543

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=94.85  E-value=0.45  Score=34.48  Aligned_cols=141  Identities=17%  Similarity=0.102  Sum_probs=94.0

Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 043999          395 FSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGNMKEA  474 (574)
Q Consensus       395 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  474 (574)
                      +.-.|..++..+++.+.....   +..-|+.+|.-....-+-+...+.++.+-+.   -|          ...++++...
T Consensus        12 ~ildG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FD----------ls~C~Nlk~v   75 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FD----------LDKCQNLKSV   75 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SC----------GGGCSCTHHH
T ss_pred             HHHhhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhhh---cC----------chhhhcHHHH
Confidence            344577777777777766542   4445666665555555555555555554332   11          1234555555


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043999          475 SKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKL  554 (574)
Q Consensus       475 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  554 (574)
                      ...+-.+     ..+...++..++.+..+|+-+.-.++++.+.+. -+|++.....+..+|.+.|...++-.++.++.+.
T Consensus        76 v~C~~~~-----n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~  149 (161)
T d1wy6a1          76 VECGVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKK  149 (161)
T ss_dssp             HHHHHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHh-----cchHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH
Confidence            5444433     124555677778888999999999999987775 4778888888999999999999999999999998


Q ss_pred             CCC
Q 043999          555 GLK  557 (574)
Q Consensus       555 g~~  557 (574)
                      |++
T Consensus       150 G~K  152 (161)
T d1wy6a1         150 GEK  152 (161)
T ss_dssp             TCH
T ss_pred             hHH
Confidence            875

>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=93.32  E-value=0.63  Score=33.90  Aligned_cols=69  Identities=7%  Similarity=0.055  Sum_probs=32.0

Q ss_pred             CHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 043999          489 NDVVYNMMIFGYCKEG---NSYRALRLLGEMNEKGLVPNI-ASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSV  560 (574)
Q Consensus       489 ~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~  560 (574)
                      ...+--...+++.+..   +.++++.++++..+.+ +.+. ..+..+.-+|.+.|++++|.++++.+++.  .|+.
T Consensus        34 s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i--eP~n  106 (124)
T d2pqrb1          34 TIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERNN  106 (124)
T ss_dssp             CHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTC
T ss_pred             CcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc--CCCc
Confidence            3334444444444432   2345555555555431 1121 23334444555555555555555555543  4544

>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=93.09  E-value=0.47  Score=34.63  Aligned_cols=71  Identities=14%  Similarity=0.131  Sum_probs=43.8

Q ss_pred             CCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 043999          453 PDVYTYGVLIHGLCMK---GNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNI  525 (574)
Q Consensus       453 ~~~~~~~~li~~~~~~---g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  525 (574)
                      ++..+--....++.+.   .++++++.++++....+..-....+-.|.-+|.+.|++++|.+.++.+++  +.|+.
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~--ieP~n  106 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNN  106 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTC
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc--cCCCc
Confidence            4444444445555544   34567778887777643211134556667777788888888888888877  45553

>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=91.98  E-value=4.6  Score=37.15  Aligned_cols=203  Identities=9%  Similarity=0.001  Sum_probs=109.8

Q ss_pred             CCHHHHHHHHHHHHHCCCCCChhhHHHHHH----HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHH
Q 043999          329 MRVQEAERLLDQMKMAGISPNVITYNKLID----GFCDAGETDKAFRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMA  404 (574)
Q Consensus       329 ~~~~~A~~~~~~m~~~g~~~~~~~~~~li~----~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  404 (574)
                      .+.+.|..++........ .+...+..+-.    .....+..+.+...+......+.  +.....-.+......+++..+
T Consensus       228 ~d~~~a~~~l~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~w~~~~al~~~~~~~~  304 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQQ-LNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQ--STSLIERRVRMALGTGDRRGL  304 (450)
T ss_dssp             HCHHHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCC--CHHHHHHHHHHHHHHTCHHHH
T ss_pred             cChhHHHHHHHhhhhccc-ccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhccccc--chHHHHHHHHHHHHcCChHHH
Confidence            456677777766655421 22222222222    22234556667666666665532  333333344445566777777


Q ss_pred             HHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHh
Q 043999          405 SDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKSGFSPDVYTYGVLIHGLCMKGN-MKEASKLFNSMWE  483 (574)
Q Consensus       405 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~~~~  483 (574)
                      ...+..|... ......-.--+..++...|+.++|...|..+..   .++  -|.-|...  +.|. +.-.    ..  .
T Consensus       305 ~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~---~~~--fYG~LAa~--~Lg~~~~~~----~~--~  370 (450)
T d1qsaa1         305 NTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQ---QRG--FYPMVAAQ--RIGEEYELK----ID--K  370 (450)
T ss_dssp             HHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT---SCS--HHHHHHHH--HTTCCCCCC----CC--C
T ss_pred             HHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc---CCC--hHHHHHHH--HcCCCCCCC----cC--C
Confidence            7777766432 111233344556677777888888877777653   233  23322211  1121 0000    00  0


Q ss_pred             CCCCCC-HHH---HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043999          484 TKLEPN-DVV---YNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQM  551 (574)
Q Consensus       484 ~~~~p~-~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m  551 (574)
                      ....+. ...   -..-+..+...|....|...+..+... .  +......+.....+.|.++.|+....+.
T Consensus       371 ~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~-~--~~~~~~~la~lA~~~g~~~~aI~a~~~~  439 (450)
T d1qsaa1         371 APQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKS-K--SKTEQAQLARYAFNNQWWDLSVQATIAG  439 (450)
T ss_dssp             CCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT-C--CHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             CCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhC-C--CHHHHHHHHHHHHHCCChhHHHHHHHHH
Confidence            000001 000   112355677889999999999888764 2  4556667778888899999998877665

>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=91.11  E-value=0.55  Score=32.15  Aligned_cols=61  Identities=20%  Similarity=0.219  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 043999          471 MKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMNEKGLVPNIASYSSTI  532 (574)
Q Consensus       471 ~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  532 (574)
                      .=+..+-++.+...++.|++....+.+.+|.+.+++..|.++++-...+ ..++...|..++
T Consensus        22 ~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yil   82 (105)
T d1v54e_          22 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI   82 (105)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHH
Confidence            3455555666666666677777777777777777777777777666654 223344454443

>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=89.86  E-value=7.2  Score=35.72  Aligned_cols=203  Identities=8%  Similarity=-0.005  Sum_probs=126.0

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHH----HHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHH
Q 043999          294 GKVSEGFKLFDEMRHREVACNVVTYNTLI----CGLCKEMRVQEAERLLDQMKMAGISPNVITYNKLIDGFCDAGETDKA  369 (574)
Q Consensus       294 g~~~~A~~~~~~m~~~~~~~~~~~~~~li----~~~~~~~~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  369 (574)
                      .+.+.+...+......... +...+..+-    ..+...+..+.+...+......+  .+.....-.+......+++..+
T Consensus       228 ~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~~~~~  304 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGL  304 (450)
T ss_dssp             HCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCChHHH
Confidence            5778888888887664333 222232222    23334667788888888777654  3444444556666778999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043999          370 FRLFNQLKSNGQSPSVVTYNVLIRAFSKAGNSKMASDLVREMEERGITPSEVTYTILIDSFVRSDDMEKAFEMYSLMQKS  449 (574)
Q Consensus       370 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  449 (574)
                      ...+..+.... .....-..-+..++...|+.++|...|......   ++  -|..|..  .+.|..-.       +...
T Consensus       305 ~~~~~~l~~~~-~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~~---~~--fYG~LAa--~~Lg~~~~-------~~~~  369 (450)
T d1qsaa1         305 NTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQQ---RG--FYPMVAA--QRIGEEYE-------LKID  369 (450)
T ss_dssp             HHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS---CS--HHHHHHH--HHTTCCCC-------CCCC
T ss_pred             HHHHHhcCccc-ccHHHHHHHHHHHHHHcCChhhHHHHHHHHhcC---CC--hHHHHHH--HHcCCCCC-------CCcC
Confidence            99998875431 123334455678899999999999999998743   33  2333322  12222100       0000


Q ss_pred             CC--CCCH-HH---HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043999          450 GF--SPDV-YT---YGVLIHGLCMKGNMKEASKLFNSMWETKLEPNDVVYNMMIFGYCKEGNSYRALRLLGEMN  517 (574)
Q Consensus       450 ~~--~~~~-~~---~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  517 (574)
                      ..  .++. ..   -..-+..+...|+..+|...|..+...   .+......+.....+.|.++.|+....+..
T Consensus       370 ~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~---~~~~~~~~la~lA~~~g~~~~aI~a~~~~~  440 (450)
T d1qsaa1         370 KAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKS---KSKTEQAQLARYAFNNQWWDLSVQATIAGK  440 (450)
T ss_dssp             CCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT---CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             CCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhC---CCHHHHHHHHHHHHHCCChhHHHHHHHHHH
Confidence            00  0000 00   112345677899999999999988764   245566677788889999999998776654

>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=86.98  E-value=3.3  Score=28.26  Aligned_cols=59  Identities=12%  Similarity=0.148  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 043999          508 RALRLLGEMNEKGLVPNIASYSSTIGVLCQDGKWPEAEVLLNQMLKLGLKPSVSLYNILY  567 (574)
Q Consensus       508 ~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  567 (574)
                      ++.+-++.+....+.|++.+..+.+.+|.+.+++.-|.++++-...+ ..++...|..++
T Consensus        24 e~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yil   82 (105)
T d1v54e_          24 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI   82 (105)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHH
Confidence            44444555555555566666666666666666666666666555533 122334454443