Citrus Sinensis ID: 005881

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670--
Protein Sequence
MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVPDPIYSSHFEE
Secondary Structure (PSIPRED)
cccccccccHHHHHHHHHHHHccccHHHHHHHHcccccccccHHHHHHHHHHcccccHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHcccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHccccHHHHHHHHccccccccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHccHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHcccccHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHcccHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHccccccccHHHHHHHHHHHccccHHHHHHHHHHHHccccccccccEEEEccEEEEEEEcccccccHHHHHHHHHHHHHHHHHccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEEcEEEEEEEcccccccHHHHHHHHHHHHHHHHHccccccccEEEEccc
Coil and Loop (DISEMBL)
mitsgfhpnviTYNHLLLMYVKFSRINDAQKLfdempernvISWSALISGFSQIGMPEVALNYFRLMVCCvlepnyytyVGAVsacasrgdarsgkeihgrmyrsglelNSHVSNCLINMygkcgllssaqfvfdaslernsISWVSLLSSYcqcgehvhGLKIFLLSRksgvaisefSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRvfsniqlpdltAWSALIGGYAQLGKACEAIDLFVKMFssglmpsevTFSYVLGAFAdvketiggrQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTfdemdehdvVSWNALIAGHLASCHYGEAIELLKDMLfeghcpnlytysnilnissdipaiewgkqthccivkpgfdsnvVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQenkikpndntfIGVLSACVHIGLVEEGWHYFNSMIrdhgisprmdHIASVVHLFACRGQTRRAYEFiksspiepnKVVWRCLLSgckthkdlvlGRYAAEKilstdpedtsahIMLSNVYAEANMWDETAKVRKIMKEkslkkdtgcswtelqnkmhyfstsrfaqfqgiDLHEVMNQLSVhlfdggyvpdpiysshfee
Flexible Loop (DISEMBL)
MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEfiksspiepnkVVWRCLLSGCKTHKDLVLGRYAAEKIlstdpedtsaHIMLSNVYAEANMWDETAKVRKIMkekslkkdtgcsWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVPDPIYSSHFEE
Low Complexity Region (SEG)
MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVPDPIYSSHFEE
Disordered region (IsUnstruct)
*****FHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGD****KEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVPDPIY******
Disordered Region (DISOPRED)
MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVPDPIYSSHFEE
Disordered Region (DISEMBL)
MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVPDPIYSSHFEE
Disordered Region (DISPRO)
***SGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVPDPIYSSHF**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
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Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVPDPIYSSHFEE
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	672	2.2.26 [Sep-21-2011]
Q9ZUW3	868	Pentatricopeptide repeat-	yes	no	0.983	0.761	0.370	1e-130
Q9SVA5	834	Pentatricopeptide repeat-	no	no	0.973	0.784	0.349	1e-121
Q9SVP7	1064	Pentatricopeptide repeat-	no	no	0.970	0.612	0.339	1e-120
Q9FWA6	903	Pentatricopeptide repeat-	no	no	0.931	0.693	0.350	1e-119
Q9LFI1	768	Pentatricopeptide repeat-	no	no	0.962	0.842	0.361	1e-115
Q7Y211	890	Pentatricopeptide repeat-	no	no	0.973	0.734	0.340	1e-113
Q5G1T1	850	Pentatricopeptide repeat-	no	no	0.983	0.777	0.331	1e-113
P93005	727	Pentatricopeptide repeat-	no	no	0.936	0.865	0.354	1e-112
Q9SN39	871	Pentatricopeptide repeat-	no	no	0.988	0.762	0.312	1e-110
Q9STE1	857	Pentatricopeptide repeat-	no	no	0.992	0.778	0.303	1e-109

>sp|Q9ZUW3|PP172_ARATH Pentatricopeptide repeat-containing protein At2g27610 OS=Arabidopsis thaliana GN=PCMP-H60 PE=2 SV=1

 Score =  465 bits (1196), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 247/667 (37%), Positives = 391/667 (58%), Gaps = 6/667 (0%)

Query: 2   ITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVAL 61
           I  GF  +V     L+  Y+K S   D +K+FDEM ERNV++W+ LISG+++  M +  L
Sbjct: 120 IKFGFLDDVSVGTSLVDTYMKGSNFKDGRKVFDEMKERNVVTWTTLISGYARNSMNDEVL 179

Query: 62  NYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMY 121
             F  M     +PN +T+  A+   A  G    G ++H  + ++GL+    VSN LIN+Y
Sbjct: 180 TLFMRMQNEGTQPNSFTFAAALGVLAEEGVGGRGLQVHTVVVKNGLDKTIPVSNSLINLY 239

Query: 122 GKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCA 181
            KCG +  A+ +FD +  ++ ++W S++S Y   G  +  L +F   R + V +SE S A
Sbjct: 240 LKCGNVRKARILFDKTEVKSVVTWNSMISGYAANGLDLEALGMFYSMRLNYVRLSESSFA 299

Query: 182 SVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQ-L 240
           SV+  CA L  L+   Q+H  V K    FD+ +   L+  Y+KC  +  A R+F  I  +
Sbjct: 300 SVIKLCANLKELRFTEQLHCSVVKYGFLFDQNIRTALMVAYSKCTAMLDALRLFKEIGCV 359

Query: 241 PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQL 300
            ++ +W+A+I G+ Q     EA+DLF +M   G+ P+E T+S +L A       I   ++
Sbjct: 360 GNVVSWTAMISGFLQNDGKEEAVDLFSEMKRKGVRPNEFTYSVILTALP----VISPSEV 415

Query: 301 HSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHY 360
           H+ ++K  +   + V   +LD Y K   +EE+ K F  +D+ D+V+W+A++AG+  +   
Sbjct: 416 HAQVVKTNYERSSTVGTALLDAYVKLGKVEEAAKVFSGIDDKDIVAWSAMLAGYAQTGET 475

Query: 361 GEAIELLKDMLFEGHCPNLYTYSNILNISSDIPA-IEWGKQTHCCIVKPGFDSNVVIGSA 419
             AI++  ++   G  PN +T+S+ILN+ +   A +  GKQ H   +K   DS++ + SA
Sbjct: 476 EAAIKMFGELTKGGIKPNEFTFSSILNVCAATNASMGQGKQFHGFAIKSRLDSSLCVSSA 535

Query: 420 LVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN 479
           L+ MYAK G +  A +VF     K+LVSWN+M+ GYAQHG   +AL+++  M++ K+K +
Sbjct: 536 LLTMYAKKGNIESAEEVFKRQREKDLVSWNSMISGYAQHGQAMKALDVFKEMKKRKVKMD 595

Query: 480 DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFI 539
             TFIGV +AC H GLVEEG  YF+ M+RD  I+P  +H + +V L++  GQ  +A + I
Sbjct: 596 GVTFIGVFAACTHAGLVEEGEKYFDIMVRDCKIAPTKEHNSCMVDLYSRAGQLEKAMKVI 655

Query: 540 KSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWD 599
           ++ P      +WR +L+ C+ HK   LGR AAEKI++  PED++A+++LSN+YAE+  W 
Sbjct: 656 ENMPNPAGSTIWRTILAACRVHKKTELGRLAAEKIIAMKPEDSAAYVLLSNMYAESGDWQ 715

Query: 600 ETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGG 659
           E AKVRK+M E+++KK+ G SW E++NK + F     +      ++  +  LS  L D G
Sbjct: 716 ERAKVRKLMNERNVKKEPGYSWIEVKNKTYSFLAGDRSHPLKDQIYMKLEDLSTRLKDLG 775

Query: 660 YVPDPIY 666
           Y PD  Y
Sbjct: 776 YEPDTSY 782

Arabidopsis thaliana (taxid: 3702)

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

 Score =  436 bits (1122), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 230/658 (34%), Positives = 378/658 (57%), Gaps = 4/658 (0%)

Query: 1   MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVA 60
           ++ SGF  +V     L+  Y+K   I+ A+ +FD +PE++ ++W+ +ISG  ++G   V+
Sbjct: 174 LVKSGFDRDVYVGTLLIDFYLKDGNIDYARLVFDALPEKSTVTWTTMISGCVKMGRSYVS 233

Query: 61  LNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINM 120
           L  F  ++   + P+ Y     +SAC+       GK+IH  + R GLE+++ + N LI+ 
Sbjct: 234 LQLFYQLMEDNVVPDGYILSTVLSACSILPFLEGGKQIHAHILRYGLEMDASLMNVLIDS 293

Query: 121 YGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSC 180
           Y KCG + +A  +F+    +N ISW +LLS Y Q   H   +++F    K G+    ++C
Sbjct: 294 YVKCGRVIAAHKLFNGMPNKNIISWTTLLSGYKQNALHKEAMELFTSMSKFGLKPDMYAC 353

Query: 181 ASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQL 240
           +S+L +CA L  L  G Q+H+   K  L  D +V   LI++YAKC+ L  A +VF     
Sbjct: 354 SSILTSCASLHALGFGTQVHAYTIKANLGNDSYVTNSLIDMYAKCDCLTDARKVFDIFAA 413

Query: 241 PDLTAWSALIGGYAQLGKACE---AIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGG 297
            D+  ++A+I GY++LG   E   A+++F  M    + PS +TF  +L A A +      
Sbjct: 414 ADVVLFNAMIEGYSRLGTQWELHEALNIFRDMRFRLIRPSLLTFVSLLRASASLTSLGLS 473

Query: 298 RQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLAS 357
           +Q+H L+ K G +   F  + ++D YS C  L++S   FDEM   D+V WN++ AG++  
Sbjct: 474 KQIHGLMFKYGLNLDIFAGSALIDVYSNCYCLKDSRLVFDEMKVKDLVIWNSMFAGYVQQ 533

Query: 358 CHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIG 417
               EA+ L  ++      P+ +T++N++  + ++ +++ G++ HC ++K G + N  I 
Sbjct: 534 SENEEALNLFLELQLSRERPDEFTFANMVTAAGNLASVQLGQEFHCQLLKRGLECNPYIT 593

Query: 418 SALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIK 477
           +AL+DMYAKCG   DA K FD  +S+++V WN+++  YA HG G++AL++   M    I+
Sbjct: 594 NALLDMYAKCGSPEDAHKAFDSAASRDVVCWNSVISSYANHGEGKKALQMLEKMMSEGIE 653

Query: 478 PNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYE 537
           PN  TF+GVLSAC H GLVE+G   F  M+R  GI P  +H   +V L    G+  +A E
Sbjct: 654 PNYITFVGVLSACSHAGLVEDGLKQFELMLR-FGIEPETEHYVCMVSLLGRAGRLNKARE 712

Query: 538 FIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANM 597
            I+  P +P  +VWR LLSGC    ++ L  +AAE  + +DP+D+ +  MLSN+YA   M
Sbjct: 713 LIEKMPTKPAAIVWRSLLSGCAKAGNVELAEHAAEMAILSDPKDSGSFTMLSNIYASKGM 772

Query: 598 WDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHL 655
           W E  KVR+ MK + + K+ G SW  +  ++H F +   +  +   ++EV++ L V +
Sbjct: 773 WTEAKKVRERMKVEGVVKEPGRSWIGINKEVHIFLSKDKSHCKANQIYEVLDDLLVQI 830

Arabidopsis thaliana (taxid: 3702)

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

 Score =  431 bits (1109), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 224/659 (33%), Positives = 366/659 (55%)

Query: 5   GFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYF 64
           GF  +    N L+ +Y     +  A+ +F  M +R+ ++++ LI+G SQ G  E A+  F
Sbjct: 318 GFSSDTYVCNALVSLYFHLGNLISAEHIFSNMSQRDAVTYNTLINGLSQCGYGEKAMELF 377

Query: 65  RLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKC 124
           + M    LEP+  T    V AC++ G    G+++H    + G   N+ +   L+N+Y KC
Sbjct: 378 KRMHLDGLEPDSNTLASLVVACSADGTLFRGQQLHAYTTKLGFASNNKIEGALLNLYAKC 437

Query: 125 GLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVL 184
             + +A   F  +   N + W  +L +Y    +  +  +IF   +   +  ++++  S+L
Sbjct: 438 ADIETALDYFLETEVENVVLWNVMLVAYGLLDDLRNSFRIFRQMQIEEIVPNQYTYPSIL 497

Query: 185 GACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLT 244
             C  LG+L++G QIHS + K   + + +V   LI++YAK  KLD A  +       D+ 
Sbjct: 498 KTCIRLGDLELGEQIHSQIIKTNFQLNAYVCSVLIDMYAKLGKLDTAWDILIRFAGKDVV 557

Query: 245 AWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLI 304
           +W+ +I GY Q     +A+  F +M   G+   EV  +  + A A ++    G+Q+H+  
Sbjct: 558 SWTTMIAGYTQYNFDDKALTTFRQMLDRGIRSDEVGLTNAVSACAGLQALKEGQQIHAQA 617

Query: 305 IKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAI 364
              GFSS     N ++  YS+C  +EES   F++ +  D ++WNAL++G   S +  EA+
Sbjct: 618 CVSGFSSDLPFQNALVTLYSRCGKIEESYLAFEQTEAGDNIAWNALVSGFQQSGNNEEAL 677

Query: 365 ELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMY 424
            +   M  EG   N +T+ + +  +S+   ++ GKQ H  I K G+DS   + +AL+ MY
Sbjct: 678 RVFVRMNREGIDNNNFTFGSAVKAASETANMKQGKQVHAVITKTGYDSETEVCNALISMY 737

Query: 425 AKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFI 484
           AKCG ++DA K F  +S+KN VSWN ++  Y++HG G EAL+ +  M  + ++PN  T +
Sbjct: 738 AKCGSISDAEKQFLEVSTKNEVSWNAIINAYSKHGFGSEALDSFDQMIHSNVRPNHVTLV 797

Query: 485 GVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPI 544
           GVLSAC HIGLV++G  YF SM  ++G+SP+ +H   VV +    G   RA EFI+  PI
Sbjct: 798 GVLSACSHIGLVDKGIAYFESMNSEYGLSPKPEHYVCVVDMLTRAGLLSRAKEFIQEMPI 857

Query: 545 EPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKV 604
           +P+ +VWR LLS C  HK++ +G +AA  +L  +PED++ +++LSN+YA +  WD     
Sbjct: 858 KPDALVWRTLLSACVVHKNMEIGEFAAHHLLELEPEDSATYVLLSNLYAVSKKWDARDLT 917

Query: 605 RKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVPD 663
           R+ MKEK +KK+ G SW E++N +H F           ++HE    L+    + GYV D
Sbjct: 918 RQKMKEKGVKKEPGQSWIEVKNSIHSFYVGDQNHPLADEIHEYFQDLTKRASEIGYVQD 976

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FWA6|PP207_ARATH Pentatricopeptide repeat-containing protein At3g02330 OS=Arabidopsis thaliana GN=PCMP-E90 PE=2 SV=2

 Score =  429 bits (1103), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 230/656 (35%), Positives = 374/656 (57%), Gaps = 30/656 (4%)

Query: 1   MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVA 60
           ++  G   +V+  + LL MY K  R  ++ ++F  +PE+N +SWSA+I+G  Q  +  +A
Sbjct: 206 VVRVGCDTDVVAASALLDMYAKGKRFVESLRVFQGIPEKNSVSWSAIIAGCVQNNLLSLA 265

Query: 61  LNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINM 120
           L +F+ M       +   Y   + +CA+  + R G ++H    +S    +  V    ++M
Sbjct: 266 LKFFKEMQKVNAGVSQSIYASVLRSCAALSELRLGGQLHAHALKSDFAADGIVRTATLDM 325

Query: 121 YGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRK---SGVAISE 177
           Y KC  +  AQ +FD S   N  S+ ++++ Y Q     HG K  LL  +   SG+   E
Sbjct: 326 YAKCDNMQDAQILFDNSENLNRQSYNAMITGYSQ---EEHGFKALLLFHRLMSSGLGFDE 382

Query: 178 FSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSN 237
            S + V  ACA++  L  G+QI+ L  K +L  D  VA   I++Y KC+ L  A RVF  
Sbjct: 383 ISLSGVFRACALVKGLSEGLQIYGLAIKSSLSLDVCVANAAIDMYGKCQALAEAFRVFDE 442

Query: 238 IQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIG- 296
           ++  D  +W+A+I  + Q GK  E + LFV M  S + P E TF  +L A      ++G 
Sbjct: 443 MRRRDAVSWNAIIAAHEQNGKGYETLFLFVSMLRSRIEPDEFTFGSILKACTG--GSLGY 500

Query: 297 GRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLK-------------TFDEMDE-H 342
           G ++HS I+K G +S + V  +++D YSKC ++EE+ K             T +E+++ H
Sbjct: 501 GMEIHSSIVKSGMASNSSVGCSLIDMYSKCGMIEEAEKIHSRFFQRANVSGTMEELEKMH 560

Query: 343 D------VVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIE 396
           +       VSWN++I+G++      +A  L   M+  G  P+ +TY+ +L+  +++ +  
Sbjct: 561 NKRLQEMCVSWNSIISGYVMKEQSEDAQMLFTRMMEMGITPDKFTYATVLDTCANLASAG 620

Query: 397 WGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYA 456
            GKQ H  ++K    S+V I S LVDMY+KCG L+D+R +F+    ++ V+WN M+ GYA
Sbjct: 621 LGKQIHAQVIKKELQSDVYICSTLVDMYSKCGDLHDSRLMFEKSLRRDFVTWNAMICGYA 680

Query: 457 QHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRM 516
            HG G EA++++  M    IKPN  TFI +L AC H+GL+++G  YF  M RD+G+ P++
Sbjct: 681 HHGKGEEAIQLFERMILENIKPNHVTFISILRACAHMGLIDKGLEYFYMMKRDYGLDPQL 740

Query: 517 DHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLV-LGRYAAEKIL 575
            H +++V +    G+ +RA E I+  P E + V+WR LL  C  H++ V +   A   +L
Sbjct: 741 PHYSNMVDILGKSGKVKRALELIREMPFEADDVIWRTLLGVCTIHRNNVEVAEEATAALL 800

Query: 576 STDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYF 631
             DP+D+SA+ +LSNVYA+A MW++ + +R+ M+   LKK+ GCSW EL++++H F
Sbjct: 801 RLDPQDSSAYTLLSNVYADAGMWEKVSDLRRNMRGFKLKKEPGCSWVELKDELHVF 856

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFI1|PP280_ARATH Pentatricopeptide repeat-containing protein At3g53360, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E86 PE=2 SV=1

 Score =  417 bits (1071), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 236/653 (36%), Positives = 364/653 (55%), Gaps = 6/653 (0%)

Query: 9   NVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMV 68
           + I  NH+L MY K   + DA+++FD MPERN++S++++I+G+SQ G    A+  +  M+
Sbjct: 101 DTILNNHILSMYGKCGSLRDAREVFDFMPERNLVSYTSVITGYSQNGQGAEAIRLYLKML 160

Query: 69  CCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHV--SNCLINMYGKCGL 126
              L P+ + +   + ACAS  D   GK++H ++ +  LE +SH+   N LI MY +   
Sbjct: 161 QEDLVPDQFAFGSIIKACASSSDVGLGKQLHAQVIK--LESSSHLIAQNALIAMYVRFNQ 218

Query: 127 LSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGV-AISEFSCASVLG 185
           +S A  VF     ++ ISW S+++ + Q G     L         GV   +E+   S L 
Sbjct: 219 MSDASRVFYGIPMKDLISWSSIIAGFSQLGFEFEALSHLKEMLSFGVFHPNEYIFGSSLK 278

Query: 186 ACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTA 245
           AC+ L     G QIH L  K  L  +      L ++YA+C  L+ A RVF  I+ PD  +
Sbjct: 279 ACSSLLRPDYGSQIHGLCIKSELAGNAIAGCSLCDMYARCGFLNSARRVFDQIERPDTAS 338

Query: 246 WSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLII 305
           W+ +I G A  G A EA+ +F +M SSG +P  ++   +L A         G Q+HS II
Sbjct: 339 WNVIIAGLANNGYADEAVSVFSQMRSSGFIPDAISLRSLLCAQTKPMALSQGMQIHSYII 398

Query: 306 KMGFSSFTFVANTVLDFYSKCELLEESLKTFDEM-DEHDVVSWNALIAGHLASCHYGEAI 364
           K GF +   V N++L  Y+ C  L      F++  +  D VSWN ++   L      E +
Sbjct: 399 KWGFLADLTVCNSLLTMYTFCSDLYCCFNLFEDFRNNADSVSWNTILTACLQHEQPVEML 458

Query: 365 ELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMY 424
            L K ML     P+  T  N+L    +I +++ G Q HC  +K G      I + L+DMY
Sbjct: 459 RLFKLMLVSECEPDHITMGNLLRGCVEISSLKLGSQVHCYSLKTGLAPEQFIKNGLIDMY 518

Query: 425 AKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFI 484
           AKCG L  AR++FD + ++++VSW+T++VGYAQ G G EAL ++  M+   I+PN  TF+
Sbjct: 519 AKCGSLGQARRIFDSMDNRDVVSWSTLIVGYAQSGFGEEALILFKEMKSAGIEPNHVTFV 578

Query: 485 GVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPI 544
           GVL+AC H+GLVEEG   + +M  +HGISP  +H + VV L A  G+   A  FI    +
Sbjct: 579 GVLTACSHVGLVEEGLKLYATMQTEHGISPTKEHCSCVVDLLARAGRLNEAERFIDEMKL 638

Query: 545 EPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKV 604
           EP+ VVW+ LLS CKT  ++ L + AAE IL  DP +++AH++L +++A +  W+  A +
Sbjct: 639 EPDVVVWKTLLSACKTQGNVHLAQKAAENILKIDPFNSTAHVLLCSMHASSGNWENAALL 698

Query: 605 RKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFD 657
           R  MK+  +KK  G SW E+++K+H F        +  D++ V++ +   + D
Sbjct: 699 RSSMKKHDVKKIPGQSWIEIEDKIHIFFAEDIFHPERDDIYTVLHNIWSQMLD 751

Arabidopsis thaliana (taxid: 3702)

>sp|Q7Y211|PP285_ARATH Pentatricopeptide repeat-containing protein At3g57430, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H81 PE=2 SV=2

 Score =  408 bits (1048), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 229/672 (34%), Positives = 373/672 (55%), Gaps = 18/672 (2%)

Query: 9   NVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMV 68
           +V   N L+ +Y K        K+FD + ERN +SW++LIS        E+AL  FR M+
Sbjct: 132 SVTVANTLVNLYRKCGDFGAVYKVFDRISERNQVSWNSLISSLCSFEKWEMALEAFRCML 191

Query: 69  CCVLEPNYYTYVGAVSACASRGDARS---GKEIHGRMYRSGLELNSHVSNCLINMYGKCG 125
              +EP+ +T V  V+AC++         GK++H    R G ELNS + N L+ MYGK G
Sbjct: 192 DENVEPSSFTLVSVVTACSNLPMPEGLMMGKQVHAYGLRKG-ELNSFIINTLVAMYGKLG 250

Query: 126 LLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLG 185
            L+S++ +  +   R+ ++W ++LSS CQ  + +  L+        GV   EF+ +SVL 
Sbjct: 251 KLASSKVLLGSFGGRDLVTWNTVLSSLCQNEQLLEALEYLREMVLEGVEPDEFTISSVLP 310

Query: 186 ACAVLGNLKVGMQIHSLVFK-CALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLT 244
           AC+ L  L+ G ++H+   K  +L+ + FV   L+++Y  C+++    RVF  +    + 
Sbjct: 311 ACSHLEMLRTGKELHAYALKNGSLDENSFVGSALVDMYCNCKQVLSGRRVFDGMFDRKIG 370

Query: 245 AWSALIGGYAQLGKACEAIDLFVKMF-SSGLMPSEVTFSYVLGAFADVKETIGGRQLHSL 303
            W+A+I GY+Q     EA+ LF+ M  S+GL+ +  T + V+ A            +H  
Sbjct: 371 LWNAMIAGYSQNEHDKEALLLFIGMEESAGLLANSTTMAGVVPACVRSGAFSRKEAIHGF 430

Query: 304 IIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEA 363
           ++K G     FV NT++D YS+   ++ +++ F +M++ D+V+WN +I G++ S H+ +A
Sbjct: 431 VVKRGLDRDRFVQNTLMDMYSRLGKIDIAMRIFGKMEDRDLVTWNTMITGYVFSEHHEDA 490

Query: 364 IELLKDM------LFEGHC-----PNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDS 412
           + LL  M      + +G       PN  T   IL   + + A+  GK+ H   +K    +
Sbjct: 491 LLLLHKMQNLERKVSKGASRVSLKPNSITLMTILPSCAALSALAKGKEIHAYAIKNNLAT 550

Query: 413 NVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQ 472
           +V +GSALVDMYAKCG L  +RKVFD +  KN+++WN +++ Y  HG G+EA+++  MM 
Sbjct: 551 DVAVGSALVDMYAKCGCLQMSRKVFDQIPQKNVITWNVIIMAYGMHGNGQEAIDLLRMMM 610

Query: 473 ENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQT 532
              +KPN+ TFI V +AC H G+V+EG   F  M  D+G+ P  DH A VV L    G+ 
Sbjct: 611 VQGVKPNEVTFISVFAACSHSGMVDEGLRIFYVMKPDYGVEPSSDHYACVVDLLGRAGRI 670

Query: 533 RRAYEFIKSSPIEPNKV-VWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNV 591
           + AY+ +   P + NK   W  LL   + H +L +G  AA+ ++  +P   S +++L+N+
Sbjct: 671 KEAYQLMNMMPRDFNKAGAWSSLLGASRIHNNLEIGEIAAQNLIQLEPNVASHYVLLANI 730

Query: 592 YAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQL 651
           Y+ A +WD+  +VR+ MKE+ ++K+ GCSW E  +++H F     +  Q   L   +  L
Sbjct: 731 YSSAGLWDKATEVRRNMKEQGVRKEPGCSWIEHGDEVHKFVAGDSSHPQSEKLSGYLETL 790

Query: 652 SVHLFDGGYVPD 663
              +   GYVPD
Sbjct: 791 WERMRKEGYVPD 802

Arabidopsis thaliana (taxid: 3702)

>sp|Q5G1T1|PP272_ARATH Pentatricopeptide repeat-containing protein At3g49170, chloroplastic OS=Arabidopsis thaliana GN=EMB2261 PE=2 SV=1

 Score =  408 bits (1048), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 223/673 (33%), Positives = 380/673 (56%), Gaps = 12/673 (1%)

Query: 1   MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMP---ERNVISWSALISGFSQIGMP 57
           +I     P+ + YN L+ +Y K      A+ +F+ M    +R+V+SWSA+++ +   G  
Sbjct: 88  LIEFDIEPDSVLYNSLISLYSKSGDSAKAEDVFETMRRFGKRDVVSWSAMMACYGNNGRE 147

Query: 58  EVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSG-LELNSHVSNC 116
             A+  F   +   L PN Y Y   + AC++      G+   G + ++G  E +  V   
Sbjct: 148 LDAIKVFVEFLELGLVPNDYCYTAVIRACSNSDFVGVGRVTLGFLMKTGHFESDVCVGCS 207

Query: 117 LINMYGKC-GLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAI 175
           LI+M+ K      +A  VFD   E N ++W  +++   Q G     ++ FL    SG   
Sbjct: 208 LIDMFVKGENSFENAYKVFDKMSELNVVTWTLMITRCMQMGFPREAIRFFLDMVLSGFES 267

Query: 176 SEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCE---KLDLAS 232
            +F+ +SV  ACA L NL +G Q+HS   +  L  D  V   L+++YAKC     +D   
Sbjct: 268 DKFTLSSVFSACAELENLSLGKQLHSWAIRSGLVDD--VECSLVDMYAKCSADGSVDDCR 325

Query: 233 RVFSNIQLPDLTAWSALIGGYAQ-LGKACEAIDLFVKMFSSG-LMPSEVTFSYVLGAFAD 290
           +VF  ++   + +W+ALI GY +    A EAI+LF +M + G + P+  TFS    A  +
Sbjct: 326 KVFDRMEDHSVMSWTALITGYMKNCNLATEAINLFSEMITQGHVEPNHFTFSSAFKACGN 385

Query: 291 VKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNAL 350
           + +   G+Q+     K G +S + VAN+V+  + K + +E++ + F+ + E ++VS+N  
Sbjct: 386 LSDPRVGKQVLGQAFKRGLASNSSVANSVISMFVKSDRMEDAQRAFESLSEKNLVSYNTF 445

Query: 351 IAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGF 410
           + G   + ++ +A +LL ++       + +T++++L+  +++ +I  G+Q H  +VK G 
Sbjct: 446 LDGTCRNLNFEQAFKLLSEITERELGVSAFTFASLLSGVANVGSIRKGEQIHSQVVKLGL 505

Query: 411 DSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSM 470
             N  + +AL+ MY+KCG ++ A +VF+ + ++N++SW +M+ G+A+HG     LE ++ 
Sbjct: 506 SCNQPVCNALISMYSKCGSIDTASRVFNFMENRNVISWTSMITGFAKHGFAIRVLETFNQ 565

Query: 471 MQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRG 530
           M E  +KPN+ T++ +LSAC H+GLV EGW +FNSM  DH I P+M+H A +V L    G
Sbjct: 566 MIEEGVKPNEVTYVAILSACSHVGLVSEGWRHFNSMYEDHKIKPKMEHYACMVDLLCRAG 625

Query: 531 QTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSN 590
               A+EFI + P + + +VWR  L  C+ H +  LG+ AA KIL  DP + +A+I LSN
Sbjct: 626 LLTDAFEFINTMPFQADVLVWRTFLGACRVHSNTELGKLAARKILELDPNEPAAYIQLSN 685

Query: 591 VYAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQ 650
           +YA A  W+E+ ++R+ MKE++L K+ GCSW E+ +K+H F     A      +++ +++
Sbjct: 686 IYACAGKWEESTEMRRKMKERNLVKEGGCSWIEVGDKIHKFYVGDTAHPNAHQIYDELDR 745

Query: 651 LSVHLFDGGYVPD 663
           L   +   GYVPD
Sbjct: 746 LITEIKRCGYVPD 758

May play a role in embryogenesis.

Arabidopsis thaliana (taxid: 3702)

>sp|P93005|PP181_ARATH Pentatricopeptide repeat-containing protein At2g33680 OS=Arabidopsis thaliana GN=PCMP-E19 PE=3 SV=1

 Score =  405 bits (1041), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 226/638 (35%), Positives = 352/638 (55%), Gaps = 9/638 (1%)

Query: 1   MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQ---IGMP 57
           +I +G    +   N L+  Y K  ++  A  +F+ +  ++V+SW++LI+G+SQ   I   
Sbjct: 40  IIRTGASTCIQHANVLVNFYAKCGKLAKAHSIFNAIICKDVVSWNSLITGYSQNGGISSS 99

Query: 58  EVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCL 117
              +  FR M    + PN YT  G   A +S   +  G++ H  + +     + +V   L
Sbjct: 100 YTVMQLFREMRAQDILPNAYTLAGIFKAESSLQSSTVGRQAHALVVKMSSFGDIYVDTSL 159

Query: 118 INMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIF--LLSRKSGVAI 175
           + MY K GL+     VF    ERN+ +W +++S Y   G     +K+F   L  K   + 
Sbjct: 160 VGMYCKAGLVEDGLKVFAYMPERNTYTWSTMVSGYATRGRVEEAIKVFNLFLREKEEGSD 219

Query: 176 SEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAM--GLINLYAKCEKLDLASR 233
           S++   +VL + A    + +G QIH +  K  L    FVA+   L+ +Y+KCE L+ A +
Sbjct: 220 SDYVFTAVLSSLAATIYVGLGRQIHCITIKNGLL--GFVALSNALVTMYSKCESLNEACK 277

Query: 234 VFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKE 293
           +F +    +   WSA++ GY+Q G++ EA+ LF +MFS+G+ PSE T   VL A +D+  
Sbjct: 278 MFDSSGDRNSITWSAMVTGYSQNGESLEAVKLFSRMFSAGIKPSEYTIVGVLNACSDICY 337

Query: 294 TIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAG 353
              G+QLHS ++K+GF    F    ++D Y+K   L ++ K FD + E DV  W +LI+G
Sbjct: 338 LEEGKQLHSFLLKLGFERHLFATTALVDMYAKAGCLADARKGFDCLQERDVALWTSLISG 397

Query: 354 HLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSN 413
           ++ +    EA+ L + M   G  PN  T +++L   S +  +E GKQ H   +K GF   
Sbjct: 398 YVQNSDNEEALILYRRMKTAGIIPNDPTMASVLKACSSLATLELGKQVHGHTIKHGFGLE 457

Query: 414 VVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQE 473
           V IGSAL  MY+KCG L D   VF    +K++VSWN M+ G + +G G EALE++  M  
Sbjct: 458 VPIGSALSTMYSKCGSLEDGNLVFRRTPNKDVVSWNAMISGLSHNGQGDEALELFEEMLA 517

Query: 474 NKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTR 533
             ++P+D TF+ ++SAC H G VE GW YFN M    G+ P++DH A +V L +  GQ +
Sbjct: 518 EGMEPDDVTFVNIISACSHKGFVERGWFYFNMMSDQIGLDPKVDHYACMVDLLSRAGQLK 577

Query: 534 RAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYA 593
            A EFI+S+ I+    +WR LLS CK H    LG YA EK+++    ++S ++ LS +Y 
Sbjct: 578 EAKEFIESANIDHGLCLWRILLSACKNHGKCELGVYAGEKLMALGSRESSTYVQLSGIYT 637

Query: 594 EANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYF 631
                 +  +V K M+   + K+ GCSW EL+N+ H F
Sbjct: 638 ALGRMRDVERVWKHMRANGVSKEVGCSWIELKNQYHVF 675

Arabidopsis thaliana (taxid: 3702)

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

 Score =  400 bits (1029), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 208/665 (31%), Positives = 369/665 (55%), Gaps = 1/665 (0%)

Query: 4   SGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNY 63
           +GF  +    + L LMY     + +A ++FDE+     + W+ L++  ++ G    ++  
Sbjct: 123 NGFVIDSNLGSKLSLMYTNCGDLKEASRVFDEVKIEKALFWNILMNELAKSGDFSGSIGL 182

Query: 64  FRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGK 123
           F+ M+   +E + YT+     + +S      G+++HG + +SG    + V N L+  Y K
Sbjct: 183 FKKMMSSGVEMDSYTFSCVSKSFSSLRSVHGGEQLHGFILKSGFGERNSVGNSLVAFYLK 242

Query: 124 CGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASV 183
              + SA+ VFD   ER+ ISW S+++ Y   G    GL +F+    SG+ I   +  SV
Sbjct: 243 NQRVDSARKVFDEMTERDVISWNSIINGYVSNGLAEKGLSVFVQMLVSGIEIDLATIVSV 302

Query: 184 LGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDL 243
              CA    + +G  +HS+  K     +      L+++Y+KC  LD A  VF  +    +
Sbjct: 303 FAGCADSRLISLGRAVHSIGVKACFSREDRFCNTLLDMYSKCGDLDSAKAVFREMSDRSV 362

Query: 244 TAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSL 303
            +++++I GYA+ G A EA+ LF +M   G+ P   T + VL   A  +    G+++H  
Sbjct: 363 VSYTSMIAGYAREGLAGEAVKLFEEMEEEGISPDVYTVTAVLNCCARYRLLDEGKRVHEW 422

Query: 304 IIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEA 363
           I +       FV+N ++D Y+KC  ++E+   F EM   D++SWN +I G+  +C+  EA
Sbjct: 423 IKENDLGFDIFVSNALMDMYAKCGSMQEAELVFSEMRVKDIISWNTIIGGYSKNCYANEA 482

Query: 364 IELLKDMLFEGH-CPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVD 422
           + L   +L E    P+  T + +L   + + A + G++ H  I++ G+ S+  + ++LVD
Sbjct: 483 LSLFNLLLEEKRFSPDERTVACVLPACASLSAFDKGREIHGYIMRNGYFSDRHVANSLVD 542

Query: 423 MYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNT 482
           MYAKCG L  A  +FD ++SK+LVSW  M+ GY  HG G+EA+ +++ M++  I+ ++ +
Sbjct: 543 MYAKCGALLLAHMLFDDIASKDLVSWTVMIAGYGMHGFGKEAIALFNQMRQAGIEADEIS 602

Query: 483 FIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS 542
           F+ +L AC H GLV+EGW +FN M  +  I P ++H A +V + A  G   +AY FI++ 
Sbjct: 603 FVSLLYACSHSGLVDEGWRFFNIMRHECKIEPTVEHYACIVDMLARTGDLIKAYRFIENM 662

Query: 543 PIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETA 602
           PI P+  +W  LL GC+ H D+ L    AEK+   +PE+T  +++++N+YAEA  W++  
Sbjct: 663 PIPPDATIWGALLCGCRIHHDVKLAEKVAEKVFELEPENTGYYVLMANIYAEAEKWEQVK 722

Query: 603 KVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVP 662
           ++RK + ++ L+K+ GCSW E++ +++ F     +  +  ++   + ++   + + GY P
Sbjct: 723 RLRKRIGQRGLRKNPGCSWIEIKGRVNIFVAGDSSNPETENIEAFLRKVRARMIEEGYSP 782

Query: 663 DPIYS 667
              Y+
Sbjct: 783 LTKYA 787

Arabidopsis thaliana (taxid: 3702)

>sp|Q9STE1|PP333_ARATH Pentatricopeptide repeat-containing protein At4g21300 OS=Arabidopsis thaliana GN=PCMP-E36 PE=3 SV=1

 Score =  394 bits (1013), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 203/668 (30%), Positives = 360/668 (53%), Gaps = 1/668 (0%)

Query: 5   GFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYF 64
           G   N    + L+  Y+++ +I+   KLFD + +++ + W+ +++G+++ G  +  +  F
Sbjct: 168 GMDCNEFVASSLIKAYLEYGKIDVPSKLFDRVLQKDCVIWNVMLNGYAKCGALDSVIKGF 227

Query: 65  RLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKC 124
            +M    + PN  T+   +S CAS+     G ++HG +  SG++    + N L++MY KC
Sbjct: 228 SVMRMDQISPNAVTFDCVLSVCASKLLIDLGVQLHGLVVVSGVDFEGSIKNSLLSMYSKC 287

Query: 125 GLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVL 184
           G    A  +F      ++++W  ++S Y Q G     L  F     SGV     + +S+L
Sbjct: 288 GRFDDASKLFRMMSRADTVTWNCMISGYVQSGLMEESLTFFYEMISSGVLPDAITFSSLL 347

Query: 185 GACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLT 244
            + +   NL+   QIH  + + ++  D F+   LI+ Y KC  + +A  +FS     D+ 
Sbjct: 348 PSVSKFENLEYCKQIHCYIMRHSISLDIFLTSALIDAYFKCRGVSMAQNIFSQCNSVDVV 407

Query: 245 AWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLI 304
            ++A+I GY   G   +++++F  +    + P+E+T   +L     +     GR+LH  I
Sbjct: 408 VFTAMISGYLHNGLYIDSLEMFRWLVKVKISPNEITLVSILPVIGILLALKLGRELHGFI 467

Query: 305 IKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAI 364
           IK GF +   +   V+D Y+KC  +  + + F+ + + D+VSWN++I     S +   AI
Sbjct: 468 IKKGFDNRCNIGCAVIDMYAKCGRMNLAYEIFERLSKRDIVSWNSMITRCAQSDNPSAAI 527

Query: 365 ELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMY 424
           ++ + M   G C +  + S  L+  +++P+  +GK  H  ++K    S+V   S L+DMY
Sbjct: 528 DIFRQMGVSGICYDCVSISAALSACANLPSESFGKAIHGFMIKHSLASDVYSESTLIDMY 587

Query: 425 AKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIY-SMMQENKIKPNDNTF 483
           AKCG L  A  VF  +  KN+VSWN+++     HG  +++L ++  M++++ I+P+  TF
Sbjct: 588 AKCGNLKAAMNVFKTMKEKNIVSWNSIIAACGNHGKLKDSLCLFHEMVEKSGIRPDQITF 647

Query: 484 IGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSP 543
           + ++S+C H+G V+EG  +F SM  D+GI P+ +H A VV LF   G+   AYE +KS P
Sbjct: 648 LEIISSCCHVGDVDEGVRFFRSMTEDYGIQPQQEHYACVVDLFGRAGRLTEAYETVKSMP 707

Query: 544 IEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAK 603
             P+  VW  LL  C+ HK++ L   A+ K++  DP ++  ++++SN +A A  W+   K
Sbjct: 708 FPPDAGVWGTLLGACRLHKNVELAEVASSKLMDLDPSNSGYYVLISNAHANAREWESVTK 767

Query: 604 VRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVPD 663
           VR +MKE+ ++K  G SW E+  + H F +      +   ++ ++N L   L   GY+P 
Sbjct: 768 VRSLMKEREVQKIPGYSWIEINKRTHLFVSGDVNHPESSHIYSLLNSLLGELRLEGYIPQ 827

Query: 664 PIYSSHFE 671
           P    H E
Sbjct: 828 PYLPLHPE 835

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	672
359481513	755	PREDICTED: pentatricopeptide repeat-cont	0.982	0.874	0.379	1e-132
225436683	866	PREDICTED: pentatricopeptide repeat-cont	0.988	0.766	0.353	1e-130
115475988	819	Os08g0340900 [Oryza sativa Japonica Grou	0.924	0.758	0.366	1e-130
15226200	868	pentatricopeptide repeat-containing prot	0.983	0.761	0.370	1e-128
357131819	822	PREDICTED: pentatricopeptide repeat-cont	0.915	0.748	0.365	1e-128
328774757	1161	pentatricopeptide repeat protein 77 [Fun	0.931	0.539	0.350	1e-126
359488315	877	PREDICTED: pentatricopeptide repeat-cont	0.982	0.752	0.361	1e-126
356503704	855	PREDICTED: pentatricopeptide repeat-cont	0.985	0.774	0.365	1e-126
359483488	933	PREDICTED: pentatricopeptide repeat-cont	0.967	0.696	0.354	1e-126
296082505	746	unnamed protein product [Vitis vinifera]	0.983	0.886	0.362	1e-126

>gi|359481513|ref|XP_003632631.1| PREDICTED: pentatricopeptide repeat-containing protein At3g53360, mitochondrial-like [Vitis vinifera]

 Score =  479 bits (1234), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 253/666 (37%), Positives = 390/666 (58%), Gaps = 6/666 (0%)

Query: 1   MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVA 60
           M+ S  HP++   NH+L MY K   + DAQK+FD MPERNV+SW+++I+G+SQ G    A
Sbjct: 89  MLKSKSHPDLTLQNHILNMYGKCKSLKDAQKVFDAMPERNVVSWTSVIAGYSQNGQGGNA 148

Query: 61  LNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHV--SNCLI 118
           L ++  M+   + P+ +T+   + AC+S GD   G+++H  + +S  E  +H+   N LI
Sbjct: 149 LEFYFQMLQSGVMPDQFTFGSIIKACSSLGDIGLGRQLHAHVLKS--EFGAHIIAQNALI 206

Query: 119 NMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAI-SE 177
           +MY K  L+  A  VF     R+ ISW S+++ + Q G  +  L  F      GV + +E
Sbjct: 207 SMYTKSNLIIDALDVFSRMATRDLISWGSMIAGFSQLGYELEALCYFKEMLHQGVYLPNE 266

Query: 178 FSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSN 237
           F   SV  AC+ L   + G Q+H +  K  L  D F    L ++YAKC  L  A  VF  
Sbjct: 267 FIFGSVFSACSSLLQPEYGRQLHGMSIKFGLGRDVFAGCSLCDMYAKCGLLSCARVVFYQ 326

Query: 238 IQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGG 297
           I  PDL AW+A+I G+A  G A EAI  F +M   GL+P E+T   +L A     E   G
Sbjct: 327 IGRPDLVAWNAIIAGFAYGGDAKEAIAFFSQMRHQGLIPDEITVRSLLCACTSPSELYQG 386

Query: 298 RQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMD-EHDVVSWNALIAGHLA 356
            Q+H  I KMG      V NT+L  Y+KC  L +++  F+EM    D+VSWNA++   + 
Sbjct: 387 MQVHGYINKMGLDLDVPVCNTLLTMYAKCSELRDAIFFFEEMRCNADLVSWNAILTACMR 446

Query: 357 SCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVI 416
                E   LLK M    H P+  T +N+L  S++  +IE G Q HC  +K G + +  +
Sbjct: 447 HDQAEEVFRLLKLMCISQHRPDYITLTNVLGASAETVSIEIGNQVHCYALKTGLNCDTSV 506

Query: 417 GSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKI 476
            + L+D+YAKCG L  A K+FD + + ++VSW+++++GYAQ G G EAL+++  M+   +
Sbjct: 507 TNGLIDLYAKCGSLKTAHKIFDSMINPDVVSWSSLILGYAQFGYGEEALKLFKTMRRLDV 566

Query: 477 KPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAY 536
           KPN  TF+GVL+AC H+GLVEEGW  + +M ++ GI+P  +H + +V L A  G    A 
Sbjct: 567 KPNHVTFVGVLTACSHVGLVEEGWKLYGTMEKEFGIAPTREHCSCMVDLLARAGCLNEAE 626

Query: 537 EFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEAN 596
            FI     +P+ VVW+ LL+ CKTH ++ +G+ AAE IL  DP +++AH++L N+YA   
Sbjct: 627 GFIHQMAFDPDIVVWKTLLAACKTHGNVDVGKRAAENILKIDPSNSAAHVLLCNIYASKG 686

Query: 597 MWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLF 656
            W++ A++R +MK++ ++K  G SW E+++++H F        +   ++ ++ +L + + 
Sbjct: 687 NWEDVARLRSLMKQRGVRKVPGQSWIEVKDRIHVFFVEDSLHPERNKIYTMLEELLLQML 746

Query: 657 DGGYVP 662
           D GYVP
Sbjct: 747 DAGYVP 752

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225436683|ref|XP_002262885.1| PREDICTED: pentatricopeptide repeat-containing protein At2g27610-like [Vitis vinifera]

 Score =  472 bits (1215), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 237/670 (35%), Positives = 395/670 (58%), Gaps = 6/670 (0%)

Query: 2   ITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVAL 61
           I  GF  +V     L+ MY+K   + D +++FDEM  +NV+SW++L++G+ Q G+ E AL
Sbjct: 119 IKCGFVEDVSVGTSLVDMYMKTESVEDGERVFDEMRVKNVVSWTSLLAGYRQNGLNEQAL 178

Query: 62  NYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMY 121
             F  M    ++PN +T+   +   A+ G    G ++H  + +SGL+    V N ++NMY
Sbjct: 179 KLFSQMQLEGIKPNPFTFAAVLGGLAADGAVEKGVQVHTMVIKSGLDSTIFVGNSMVNMY 238

Query: 122 GKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCA 181
            K  ++S A+ VFD+   RN++SW S+++ +   G  +   ++F   R  GV +++   A
Sbjct: 239 SKSLMVSDAKAVFDSMENRNAVSWNSMIAGFVTNGLDLEAFELFYRMRLEGVKLTQTIFA 298

Query: 182 SVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQ-L 240
           +V+  CA +  +    Q+H  V K   +FD  +   L+  Y+KC ++D A ++F  +  +
Sbjct: 299 TVIKLCANIKEMSFAKQLHCQVIKNGSDFDLNIKTALMVAYSKCSEIDDAFKLFCMMHGV 358

Query: 241 PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQL 300
            ++ +W+A+I GY Q G+   A++LF +M   G+ P+  T+S +L A A V  +    Q+
Sbjct: 359 QNVVSWTAIISGYVQNGRTDRAMNLFCQMRREGVRPNHFTYSTILTANAAVSPS----QI 414

Query: 301 HSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHY 360
           H+L++K  + +   V   + D YSK     E+ K F+ +DE D+V+W+A+++G+      
Sbjct: 415 HALVVKTNYENSPSVGTALSDSYSKIGDANEAAKIFELIDEKDIVAWSAMLSGYAQMGDI 474

Query: 361 GEAIELLKDMLFEGHCPNLYTYSNILNI-SSDIPAIEWGKQTHCCIVKPGFDSNVVIGSA 419
             A+++   +  EG  PN +T+S++LN  ++   ++E GKQ H C +K GF + + + SA
Sbjct: 475 EGAVKIFLQLAKEGVEPNEFTFSSVLNACAAPTASVEQGKQFHSCSIKSGFSNALCVSSA 534

Query: 420 LVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN 479
           LV MYAK G +  A +VF     ++LVSWN+M+ GYAQHG G+++L+I+  M+   ++ +
Sbjct: 535 LVTMYAKRGNIESANEVFKRQVDRDLVSWNSMISGYAQHGCGKKSLKIFEEMRSKNLELD 594

Query: 480 DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFI 539
             TFIGV+SAC H GLV EG  YF+ M++D+ I P M+H + +V L++  G   +A + I
Sbjct: 595 GITFIGVISACTHAGLVNEGQRYFDLMVKDYHIVPTMEHYSCMVDLYSRAGMLEKAMDLI 654

Query: 540 KSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWD 599
              P      +WR LL+ C+ H ++ LG  AAEK++S  P+D++A+++LSN+YA A  W 
Sbjct: 655 NKMPFPAGATIWRTLLAACRVHLNVQLGELAAEKLISLQPQDSAAYVLLSNIYATAGNWQ 714

Query: 600 ETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGG 659
           E AKVRK+M  K +KK+ G SW E++NK   F     +  Q   ++  + +LS+ L D G
Sbjct: 715 ERAKVRKLMDMKKVKKEAGYSWIEVKNKTFSFMAGDLSHPQSDRIYLKLEELSIRLKDAG 774

Query: 660 YVPDPIYSSH 669
           Y PD  Y  H
Sbjct: 775 YYPDTKYVLH 784

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115475988|ref|NP_001061590.1| Os08g0340900 [Oryza sativa Japonica Group] gi|38423978|dbj|BAD01706.1| PPR-repeat protein-like [Oryza sativa Japonica Group] gi|38637396|dbj|BAD03655.1| PPR-repeat protein-like [Oryza sativa Japonica Group] gi|113623559|dbj|BAF23504.1| Os08g0340900 [Oryza sativa Japonica Group] gi|215686971|dbj|BAG90841.1| unnamed protein product [Oryza sativa Japonica Group]

 Score =  472 bits (1214), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 240/655 (36%), Positives = 385/655 (58%)

Query: 9   NVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMV 68
           NV     L+ +Y K   +++A  +F  +P R  ++W+ +I+G++QIG   VAL  F  M 
Sbjct: 154 NVYVGTALINLYAKLGCMDEAMLVFHALPVRTPVTWNTVITGYAQIGCGGVALELFDRMG 213

Query: 69  CCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLS 128
              + P+ +    AVSAC++ G    G++IHG  YRS  E ++ V N LI++Y KC  LS
Sbjct: 214 IEGVRPDRFVLASAVSACSALGFLEGGRQIHGYAYRSATETDTSVINVLIDLYCKCSRLS 273

Query: 129 SAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACA 188
           +A+ +FD    RN +SW +++S Y Q   +   + +F    ++G     F+C S+L +C 
Sbjct: 274 AARKLFDCMEYRNLVSWTTMISGYMQNSFNAEAITMFWNMTQAGWQPDGFACTSILNSCG 333

Query: 189 VLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSA 248
            L  +  G QIH+ V K  LE D++V   LI++YAKCE L  A  VF  +   D  +++A
Sbjct: 334 SLAAIWQGRQIHAHVIKADLEADEYVKNALIDMYAKCEHLTEARAVFDALAEDDAISYNA 393

Query: 249 LIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMG 308
           +I GY++     EA+++F +M    L PS +TF  +LG  +        +Q+H LIIK G
Sbjct: 394 MIEGYSKNRDLAEAVNIFQRMRFFSLRPSLLTFVSLLGVSSSQLAIELSKQIHGLIIKSG 453

Query: 309 FSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLK 368
            S   + A+ ++D YSKC L+ ++   F+ +   D+V WN++I GH  +    EAI+L  
Sbjct: 454 TSLDLYAASALIDVYSKCSLVNDAKTVFNMLHYKDMVIWNSMIFGHAQNEQGEEAIKLFN 513

Query: 369 DMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCG 428
            +L  G  PN +T+  ++ ++S + ++  G+Q H  I+K G D++  + +AL+DMYAKCG
Sbjct: 514 QLLLSGMAPNEFTFVALVTVASTLASMFHGQQFHAWIIKAGVDNDPHVSNALIDMYAKCG 573

Query: 429 RLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLS 488
            + + R +F+    ++++ WN+M+  YAQHG   EAL+++ +M E +++PN  TF+GVLS
Sbjct: 574 FIKEGRMLFESTCGEDVICWNSMITTYAQHGHAEEALQVFRLMGEAEVEPNYVTFVGVLS 633

Query: 489 ACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNK 548
           AC H G V EG ++FNSM  ++ I P ++H ASVV+LF   G+   A EFI+  PI+P  
Sbjct: 634 ACAHAGFVGEGLNHFNSMKSNYDIEPGIEHYASVVNLFGRSGKLHAAKEFIERMPIKPAA 693

Query: 549 VVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIM 608
            VWR LLS C    +  +GRYAAE  L  DP D+  +++LSN+YA   +W +   +R+ M
Sbjct: 694 AVWRSLLSACHLFGNAEIGRYAAEMALLADPTDSGPYVLLSNIYASKGLWADVHNLRQQM 753

Query: 609 KEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVPD 663
                 K+TGCSW E+  ++H F        +   ++ V+++L+  + + GYVPD
Sbjct: 754 DSSGTVKETGCSWIEVTKEVHTFIVRGREHPEAELIYSVLDELTSLIKNLGYVPD 808

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15226200|ref|NP_180329.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75216862|sp|Q9ZUW3.1|PP172_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At2g27610 gi|3860271|gb|AAC73039.1| putative selenium-binding protein [Arabidopsis thaliana] gi|330252926|gb|AEC08020.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  465 bits (1196), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 247/667 (37%), Positives = 391/667 (58%), Gaps = 6/667 (0%)

Query: 2   ITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVAL 61
           I  GF  +V     L+  Y+K S   D +K+FDEM ERNV++W+ LISG+++  M +  L
Sbjct: 120 IKFGFLDDVSVGTSLVDTYMKGSNFKDGRKVFDEMKERNVVTWTTLISGYARNSMNDEVL 179

Query: 62  NYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMY 121
             F  M     +PN +T+  A+   A  G    G ++H  + ++GL+    VSN LIN+Y
Sbjct: 180 TLFMRMQNEGTQPNSFTFAAALGVLAEEGVGGRGLQVHTVVVKNGLDKTIPVSNSLINLY 239

Query: 122 GKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCA 181
            KCG +  A+ +FD +  ++ ++W S++S Y   G  +  L +F   R + V +SE S A
Sbjct: 240 LKCGNVRKARILFDKTEVKSVVTWNSMISGYAANGLDLEALGMFYSMRLNYVRLSESSFA 299

Query: 182 SVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQ-L 240
           SV+  CA L  L+   Q+H  V K    FD+ +   L+  Y+KC  +  A R+F  I  +
Sbjct: 300 SVIKLCANLKELRFTEQLHCSVVKYGFLFDQNIRTALMVAYSKCTAMLDALRLFKEIGCV 359

Query: 241 PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQL 300
            ++ +W+A+I G+ Q     EA+DLF +M   G+ P+E T+S +L A       I   ++
Sbjct: 360 GNVVSWTAMISGFLQNDGKEEAVDLFSEMKRKGVRPNEFTYSVILTALP----VISPSEV 415

Query: 301 HSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHY 360
           H+ ++K  +   + V   +LD Y K   +EE+ K F  +D+ D+V+W+A++AG+  +   
Sbjct: 416 HAQVVKTNYERSSTVGTALLDAYVKLGKVEEAAKVFSGIDDKDIVAWSAMLAGYAQTGET 475

Query: 361 GEAIELLKDMLFEGHCPNLYTYSNILNISSDIPA-IEWGKQTHCCIVKPGFDSNVVIGSA 419
             AI++  ++   G  PN +T+S+ILN+ +   A +  GKQ H   +K   DS++ + SA
Sbjct: 476 EAAIKMFGELTKGGIKPNEFTFSSILNVCAATNASMGQGKQFHGFAIKSRLDSSLCVSSA 535

Query: 420 LVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN 479
           L+ MYAK G +  A +VF     K+LVSWN+M+ GYAQHG   +AL+++  M++ K+K +
Sbjct: 536 LLTMYAKKGNIESAEEVFKRQREKDLVSWNSMISGYAQHGQAMKALDVFKEMKKRKVKMD 595

Query: 480 DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFI 539
             TFIGV +AC H GLVEEG  YF+ M+RD  I+P  +H + +V L++  GQ  +A + I
Sbjct: 596 GVTFIGVFAACTHAGLVEEGEKYFDIMVRDCKIAPTKEHNSCMVDLYSRAGQLEKAMKVI 655

Query: 540 KSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWD 599
           ++ P      +WR +L+ C+ HK   LGR AAEKI++  PED++A+++LSN+YAE+  W 
Sbjct: 656 ENMPNPAGSTIWRTILAACRVHKKTELGRLAAEKIIAMKPEDSAAYVLLSNMYAESGDWQ 715

Query: 600 ETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGG 659
           E AKVRK+M E+++KK+ G SW E++NK + F     +      ++  +  LS  L D G
Sbjct: 716 ERAKVRKLMNERNVKKEPGYSWIEVKNKTYSFLAGDRSHPLKDQIYMKLEDLSTRLKDLG 775

Query: 660 YVPDPIY 666
           Y PD  Y
Sbjct: 776 YEPDTSY 782

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357131819|ref|XP_003567531.1| PREDICTED: pentatricopeptide repeat-containing protein At4g39530-like [Brachypodium distachyon]

 Score =  464 bits (1193), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 241/659 (36%), Positives = 378/659 (57%)

Query: 5   GFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYF 64
           G   NV     L+ +Y K   I+ A  +FD +P +N ++W+A+I+G+SQIG   VAL  F
Sbjct: 144 GLDGNVYVGTALINLYAKVGCIDAAMLVFDALPVKNPVTWTAVITGYSQIGQGGVALELF 203

Query: 65  RLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKC 124
             M    + P+ +    AVSAC++ G    G++ HG  YR  +E ++ V N LI++Y KC
Sbjct: 204 GKMGLDGVRPDRFVLASAVSACSALGFLEGGRQTHGYAYRIAVETDASVINALIDLYCKC 263

Query: 125 GLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVL 184
             LS A+ +FD    RN +SW ++++ Y Q       + +F    + G     F+CAS+L
Sbjct: 264 SRLSLARKLFDCMENRNLVSWTTMIAGYMQNSCDAEAMAMFWQLSQEGWQPDVFACASIL 323

Query: 185 GACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLT 244
            +C  L  +  G Q+H+   K  LE D++V   LI++YAKCE L  A  VF  +   D  
Sbjct: 324 NSCGSLAAIWQGRQVHAHAIKANLESDEYVKNSLIDMYAKCEHLTEARAVFEALAEDDAI 383

Query: 245 AWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLI 304
           +++A+I GY++LG    AID+F KM    L PS +TF  +LG  +        +Q+H LI
Sbjct: 384 SYNAMIEGYSRLGDLAGAIDVFSKMRYCSLKPSPLTFVSLLGVSSSQSAIELSKQIHGLI 443

Query: 305 IKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAI 364
           +K G S   +  ++++D YSK  L+E++   F+ M   D+V WNA+I G   +    EA+
Sbjct: 444 VKSGTSLDLYAGSSLIDVYSKFSLVEDAKAVFNLMHNRDMVIWNAMIFGLAQNEQGEEAV 503

Query: 365 ELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMY 424
           +L   +   G  PN +T+  ++ ++S + ++  G+Q H  I+K G DS+  + +AL+DMY
Sbjct: 504 KLFNQLQVSGLAPNEFTFVALVTVASTLVSMFHGQQFHAQIIKAGADSDHHVSNALIDMY 563

Query: 425 AKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFI 484
           AKCG + + R +F+    K+++ WN+M+  YAQHG   EAL ++ MM    ++PN  TF+
Sbjct: 564 AKCGFIKEGRLLFESTLGKDVICWNSMISTYAQHGQAEEALYVFRMMGGTGVEPNYVTFV 623

Query: 485 GVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPI 544
           GVLSAC H GLV+EG  +F+ M   + I P  +H ASVV+LF   G+   A EFI+  PI
Sbjct: 624 GVLSACAHAGLVDEGLRHFDFMKTKYAIEPGTEHYASVVNLFGRSGKLHAAKEFIERMPI 683

Query: 545 EPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKV 604
           EP   VWR LLS C    ++ +GRYA E  L  DP D+   +++SN+YA   +W +  K+
Sbjct: 684 EPAAAVWRSLLSACHLFGNVEIGRYATEMALLADPADSGPSVLMSNIYASRGLWSDAQKL 743

Query: 605 RKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVPD 663
           R+ M    + K+ G SW E+  ++H F        +   ++ ++++L+  L +GGY+PD
Sbjct: 744 RQGMDCAGVVKEPGYSWIEVMKEVHTFIARGREHPEADVIYSLLDELTSILKNGGYLPD 802

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|328774757|gb|AEB39778.1| pentatricopeptide repeat protein 77 [Funaria hygrometrica]

 Score =  459 bits (1181), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 233/665 (35%), Positives = 389/665 (58%)

Query: 5    GFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYF 64
            G   +V   N L+ MY +   +  A++LF+ MP+R++ISW+A+I+G+++      A+  +
Sbjct: 415  GHSSDVQIGNSLISMYARCGDLPRARELFNTMPKRDLISWNAIIAGYARREDRGEAMKLY 474

Query: 65   RLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKC 124
            + M    ++P   T++  +SAC +      GK IH  + RSG++ N H++N L+NMY +C
Sbjct: 475  KQMQSEGVKPGRVTFLHLLSACTNSSAYSDGKMIHEDILRSGIKSNGHLANALMNMYRRC 534

Query: 125  GLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVL 184
            G +  AQ VF+ +  R+ ISW S+++ + Q G +    K+FL  +K G+   + + ASVL
Sbjct: 535  GSIMEAQNVFEGTRARDIISWNSMIAGHAQHGSYEAAYKLFLEMKKEGLEPDKITFASVL 594

Query: 185  GACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLT 244
              C     L++G QIH L+ +  L+ D  +   LIN+Y +C  L  A  VF +++  ++ 
Sbjct: 595  VGCKNPEALELGRQIHMLIIESGLQLDVNLGNALINMYIRCGSLQDAYEVFHSLRHRNVM 654

Query: 245  AWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLI 304
            +W+A+IGG+A  G+  +A +LF +M + G  P + TFS +L A         G+++ + I
Sbjct: 655  SWTAMIGGFADQGEDRKAFELFWQMQNDGFKPVKSTFSSILKACMSSACLDEGKKVIAHI 714

Query: 305  IKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAI 364
            +  G+   T V N ++  YSK   + ++ K FD+M   D++SWN +IAG+  +   G A+
Sbjct: 715  LNSGYELDTGVGNALISAYSKSGSMTDARKVFDKMPNRDIMSWNKMIAGYAQNGLGGTAL 774

Query: 365  ELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMY 424
            +    M  +G   N +++ +ILN  S   A+E GK+ H  IVK     +V +G+AL+ MY
Sbjct: 775  QFAYQMQEQGVVLNKFSFVSILNACSSFSALEEGKRVHAEIVKRKMQGDVRVGAALISMY 834

Query: 425  AKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFI 484
            AKCG L +A++VFD+ + KN+V+WN M+  YAQHGL  +AL+ ++ M +  IKP+ +TF 
Sbjct: 835  AKCGSLEEAQEVFDNFTEKNVVTWNAMINAYAQHGLASKALDFFNCMDKEGIKPDGSTFT 894

Query: 485  GVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPI 544
             +LSAC H GLV EG   F+S+   HG+SP ++H   +V L    G+ + A   I   P 
Sbjct: 895  SILSACNHSGLVMEGNRIFSSLESQHGLSPTIEHYGCLVGLLGRAGRFQEAETLINQMPF 954

Query: 545  EPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKV 604
             P+  VW  LL  C+ H ++ L  +AA   L  +  + + +++LSNVYA A  WD+ AK+
Sbjct: 955  PPDAAVWETLLGACRIHGNVALAEHAANNALKLNARNPAVYVLLSNVYAAAGRWDDVAKI 1014

Query: 605  RKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVPDP 664
            R++M+ + ++K+ G SW E+ N +H F  +  +  +  +++E + +LS+ +   GY PD 
Sbjct: 1015 RRVMEGRGIRKEPGRSWIEVDNIIHEFIAADRSHPETAEIYEELKRLSLEMERAGYSPDT 1074

Query: 665  IYSSH 669
             Y  H
Sbjct: 1075 QYVLH 1079

Source: Funaria hygrometrica

Species: Funaria hygrometrica

Genus: Funaria

Family: Funariaceae

Order: Funariales

Class: Bryopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488315|ref|XP_002278668.2| PREDICTED: pentatricopeptide repeat-containing protein At3g02330-like [Vitis vinifera]

 Score =  458 bits (1179), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 239/662 (36%), Positives = 382/662 (57%)

Query: 2   ITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVAL 61
           +  GF  +V+T + LL MY K  +++ + + F  MPE+N +SWSA+I+G  Q       L
Sbjct: 201 VKMGFDCDVVTGSALLDMYAKCKKLDCSIQFFHSMPEKNWVSWSAIIAGCVQNDDLRGGL 260

Query: 62  NYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMY 121
             F+ M    +  +  T+     +CA     R G ++HG   ++    +  +    ++MY
Sbjct: 261 ELFKEMQKAGVGVSQSTFASVFRSCAGLSALRLGSQLHGHALKTDFGTDVVIGTATLDMY 320

Query: 122 GKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCA 181
            KC  LS AQ +F++    N  S+ +++  Y +  + +  L +F L +KSG+ + E S +
Sbjct: 321 MKCNNLSDAQKLFNSLPNHNLQSYNAIIVGYARSDKGIEALGMFRLLQKSGLGLDEVSLS 380

Query: 182 SVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLP 241
               ACAV+     G+Q+H L  K   + +  VA  ++++Y KC  L  A  VF  +   
Sbjct: 381 GAFRACAVIKGDLEGLQVHGLSMKSLCQSNICVANAILDMYGKCGALVEACLVFEEMVSR 440

Query: 242 DLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLH 301
           D  +W+A+I  + Q G   + + LFV M  SG+ P E T+  VL A A  +    G ++H
Sbjct: 441 DAVSWNAIIAAHEQNGNEEKTLSLFVWMLQSGMEPDEFTYGSVLKACAGWQALNCGMEIH 500

Query: 302 SLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYG 361
           + IIK      +FV   ++D YSKC ++E++ K  D + E  VVSWNA+I+G        
Sbjct: 501 NRIIKSRLGLDSFVGIALIDMYSKCGMMEKAEKLHDRLAEQTVVSWNAIISGFSLQKQSE 560

Query: 362 EAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALV 421
           EA +    ML  G  P+ +TY+ IL+  +++  +E GKQ H  I+K    S+  I S LV
Sbjct: 561 EAQKTFSKMLEMGVDPDNFTYATILDTCANLVTVELGKQIHAQIIKKELQSDAYISSTLV 620

Query: 422 DMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDN 481
           DMY+KCG + D + +F+   +++ V+WN M+ GYAQHGLG EAL+I+  MQ   +KPN  
Sbjct: 621 DMYSKCGNMQDFQLIFEKAPNRDFVTWNAMVCGYAQHGLGEEALKIFEYMQLENVKPNHA 680

Query: 482 TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS 541
           TF+ VL AC H+GLVE+G HYF+SM+ ++G+ P+++H + VV +    GQ  +A E I+ 
Sbjct: 681 TFLAVLRACGHMGLVEKGLHYFHSMLSNYGLDPQLEHYSCVVDIMGRSGQVSKALELIEG 740

Query: 542 SPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDET 601
            P E + V+WR LLS CK H ++ +   AA  IL  +PED++A+++LSN+YA A MW+E 
Sbjct: 741 MPFEADAVIWRTLLSICKIHGNVEVAEKAAYSILQLEPEDSAAYVLLSNIYANAGMWNEV 800

Query: 602 AKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYV 661
            K+RK+M+   LKK+ GCSW E+++++H F     A  +  +++E ++ L+  +   GY+
Sbjct: 801 TKLRKMMRFNGLKKEPGCSWIEIKSEVHAFLVGDKAHPRSKEIYENLDVLTDEMKWVGYM 860

Query: 662 PD 663
           PD
Sbjct: 861 PD 862

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356503704|ref|XP_003520645.1| PREDICTED: pentatricopeptide repeat-containing protein At3g53360, mitochondrial-like [Glycine max]

 Score =  458 bits (1178), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 243/664 (36%), Positives = 380/664 (57%), Gaps = 2/664 (0%)

Query: 1   MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVA 60
           ++ S   P+++  NH+L MY K   + DA+K FD M  RNV+SW+ +ISG+SQ G    A
Sbjct: 183 ILKSNCQPDLVLQNHILNMYGKCGSLKDARKAFDTMQLRNVVSWTIMISGYSQNGQENDA 242

Query: 61  LNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINM 120
           +  +  M+     P+  T+   + AC   GD   G+++HG + +SG + +    N LI+M
Sbjct: 243 IIMYIQMLQSGYFPDPLTFGSIIKACCIAGDIDLGRQLHGHVIKSGYDHHLIAQNALISM 302

Query: 121 YGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFL-LSRKSGVAISEFS 179
           Y + G +  A  VF     ++ ISW S+++ + Q G  +  L +F  + R+     +EF 
Sbjct: 303 YTRFGQIVHASDVFTMISTKDLISWASMITGFTQLGYEIEALYLFRDMFRQGFYQPNEFI 362

Query: 180 CASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQ 239
             SV  AC  L   + G QIH +  K  L  + F    L ++YAK   L  A R F  I+
Sbjct: 363 FGSVFSACRSLLEPEFGRQIHGMCAKFGLGRNVFAGCSLCDMYAKFGFLPSAIRAFYQIE 422

Query: 240 LPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQ 299
            PDL +W+A+I  ++  G   EAI  F +M  +GLMP  +TF  +L A         G Q
Sbjct: 423 SPDLVSWNAIIAAFSDSGDVNEAIYFFCQMMHTGLMPDGITFLSLLCACGSPVTINQGTQ 482

Query: 300 LHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEH-DVVSWNALIAGHLASC 358
           +HS IIK+G      V N++L  Y+KC  L ++   F ++ E+ ++VSWNA+++  L   
Sbjct: 483 IHSYIIKIGLDKEAAVCNSLLTMYTKCSNLHDAFNVFKDVSENANLVSWNAILSACLQHK 542

Query: 359 HYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGS 418
             GE   L K MLF  + P+  T + IL   +++ ++E G Q HC  VK G   +V + +
Sbjct: 543 QAGEVFRLFKLMLFSENKPDNITITTILGTCAELASLEVGNQVHCFSVKSGLVVDVSVSN 602

Query: 419 ALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKP 478
            L+DMYAKCG L  AR VF    + ++VSW++++VGYAQ GLG EAL ++ MM+   ++P
Sbjct: 603 RLIDMYAKCGSLKHARDVFGSTQNPDIVSWSSLIVGYAQFGLGHEALNLFRMMKNLGVQP 662

Query: 479 NDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEF 538
           N+ T++GVLSAC HIGLVEEGWH++N+M  + GI P  +H++ +V L A  G    A  F
Sbjct: 663 NEVTYLGVLSACSHIGLVEEGWHFYNTMEIELGIPPTREHVSCMVDLLARAGCLYEAENF 722

Query: 539 IKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMW 598
           IK     P+  +W+ LL+ CKTH ++ +   AAE IL  DP +++A ++LSN++A    W
Sbjct: 723 IKKMGFNPDITMWKTLLASCKTHGNVDIAERAAENILKLDPSNSAALVLLSNIHASVGNW 782

Query: 599 DETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDG 658
            E A++R +MK+  ++K  G SW  +++++H F +   +  Q  D++ ++  L + + D 
Sbjct: 783 KEVARLRNLMKQMGVQKVPGQSWIAVKDQIHVFFSEDNSHQQRGDIYTMLEDLWLQMLDD 842

Query: 659 GYVP 662
           GY P
Sbjct: 843 GYDP 846

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359483488|ref|XP_002273710.2| PREDICTED: pentatricopeptide repeat-containing protein At4g13650-like [Vitis vinifera]

 Score =  457 bits (1176), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 235/662 (35%), Positives = 392/662 (59%)

Query: 1   MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVA 60
           ++ SGF  +V   N L++MY K     D+++LFDE+PERNV+SW+AL S + QI     A
Sbjct: 183 VVVSGFEGDVFVANTLVVMYAKCDEFLDSKRLFDEIPERNVVSWNALFSCYVQIDFCGEA 242

Query: 61  LNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINM 120
           +  F  MV   ++PN ++    V+AC    D+  GK IHG + + G + +   +N L++M
Sbjct: 243 VGLFYEMVLSGIKPNEFSLSSMVNACTGLRDSSRGKIIHGYLIKLGYDWDPFSANALVDM 302

Query: 121 YGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSC 180
           Y K G L+ A  VF+   + + +SW ++++       H   L++    ++SG+  + F+ 
Sbjct: 303 YAKVGDLADAISVFEKIKQPDIVSWNAVIAGCVLHEHHEQALELLGQMKRSGICPNIFTL 362

Query: 181 ASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQL 240
           +S L ACA +G  ++G Q+HS + K  +E D FV++GL+++Y+KC+ L+ A   F+ +  
Sbjct: 363 SSALKACAGMGLKELGRQLHSSLMKMDMESDLFVSVGLVDMYSKCDLLEDARMAFNLLPE 422

Query: 241 PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQL 300
            DL AW+A+I GY+Q  +  EA+ LFV+M   G+  ++ T S +L + A ++     RQ+
Sbjct: 423 KDLIAWNAIISGYSQYWEDMEALSLFVEMHKEGIGFNQTTLSTILKSTAGLQVVHVCRQV 482

Query: 301 HSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHY 360
           H L +K GF S  +V N+++D Y KC  +E++ + F+E    D+VS+ ++I  +      
Sbjct: 483 HGLSVKSGFHSDIYVVNSLIDSYGKCSHVEDAERIFEECTIGDLVSFTSMITAYAQYGQG 542

Query: 361 GEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSAL 420
            EA++L  +M      P+ +  S++LN  +++ A E GKQ H  I+K GF  ++  G++L
Sbjct: 543 EEALKLFLEMQDMELKPDRFVCSSLLNACANLSAFEQGKQLHVHILKYGFVLDIFAGNSL 602

Query: 421 VDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND 480
           V+MYAKCG ++DA + F  L+ + +VSW+ M+ G AQHG GR+AL++++ M +  + PN 
Sbjct: 603 VNMYAKCGSIDDAGRAFSELTERGIVSWSAMIGGLAQHGHGRQALQLFNQMLKEGVSPNH 662

Query: 481 NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIK 540
            T + VL AC H GLV E   YF SM    G  P  +H A ++ L    G+   A E + 
Sbjct: 663 ITLVSVLGACNHAGLVTEAKLYFESMEELFGFKPMQEHYACMIDLLGRAGKINEAVELVN 722

Query: 541 SSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDE 600
             P E N  VW  LL   + HKD+ LGR AAE +   +PE +  H++L+N+YA A  W+ 
Sbjct: 723 KMPFEANASVWGALLGAARIHKDVELGRRAAEMLFILEPEKSGTHVLLANIYASAGKWEN 782

Query: 601 TAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGY 660
            A+VR++M++  +KK+ G SW E+++K++ F     + ++  +++  +++LS  +   GY
Sbjct: 783 VAEVRRLMRDSKVKKEPGMSWIEVKDKVYTFLVGDRSHYRSQEIYAKLDELSDLMDKAGY 842

Query: 661 VP 662
           VP
Sbjct: 843 VP 844

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296082505|emb|CBI21510.3| unnamed protein product [Vitis vinifera]

 Score =  457 bits (1176), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 241/664 (36%), Positives = 381/664 (57%), Gaps = 3/664 (0%)

Query: 1   MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVA 60
           +I SG   +    N L+ +  K  R+++A+ +FD+MP +N+I+WS+++S +SQ G  E A
Sbjct: 75  IIVSGLQSDTFLANILINVCSKSDRVDNARVVFDKMPHKNLITWSSMVSMYSQQGYSEEA 134

Query: 61  LNYF-RLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLIN 119
           L  F  L       PN +     + AC   G    G ++HG + RSG + + +V   LI+
Sbjct: 135 LMVFVDLQRKSGEHPNEFVLASVIRACTQLGVVEKGAQLHGFVVRSGFDQDVYVGTSLID 194

Query: 120 MYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFS 179
            Y K G +  A+ VFD   E+ +++W ++++ Y +CG     L++F   R++ V    + 
Sbjct: 195 FYSKNGNIEEARLVFDQLSEKTAVTWTTIIAGYTKCGRSAVSLELFAQMRETNVVPDRYV 254

Query: 180 CASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQ 239
            +SVL AC++L  L+ G QIH+ V +   E D  V   LI+ Y KC ++    ++F  + 
Sbjct: 255 VSSVLSACSMLEFLEGGKQIHAYVLRRGTEMDVSVVNVLIDFYTKCNRVKAGRKLFDQMV 314

Query: 240 LPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQ 299
           + ++ +W+ +I GY Q     EA+ LF +M   G  P     + VL +    +    GRQ
Sbjct: 315 VKNIISWTTMISGYMQNSFDWEAMKLFGEMNRLGWKPDGFACTSVLTSCGSREALEQGRQ 374

Query: 300 LHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCH 359
           +H+  IK    S  FV N ++D Y+K  LL ++ K FD M E +V+S+NA+I G+ +   
Sbjct: 375 VHAYTIKANLESDEFVKNGLIDMYAKSNLLIDAKKVFDVMAEQNVISYNAMIEGYSSQEK 434

Query: 360 YGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSA 419
             EA+EL  +M      PN +T++ ++  +S++ ++  G+Q H  +VK G D    + +A
Sbjct: 435 LSEALELFHEMRVRLQKPNEFTFAALITAASNLASLRHGQQFHNQLVKMGLDFCPFVTNA 494

Query: 420 LVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN 479
           LVDMYAKCG + +ARK+F+    +++V WN+M+  +AQHG   EAL ++  M +  I+PN
Sbjct: 495 LVDMYAKCGSIEEARKMFNSSIWRDVVCWNSMISTHAQHGEAEEALGMFREMMKEGIQPN 554

Query: 480 DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFI 539
             TF+ VLSAC H G VE+G ++FNSM    GI P  +H A VV L    G+   A EFI
Sbjct: 555 YVTFVAVLSACSHAGRVEDGLNHFNSM-PGFGIKPGTEHYACVVSLLGRSGKLFEAKEFI 613

Query: 540 KSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWD 599
           +  PIEP  +VWR LLS C+   ++ LG+YAAE  +STDP+D+ ++I+LSN++A   MW 
Sbjct: 614 EKMPIEPAAIVWRSLLSACRIAGNVELGKYAAEMAISTDPKDSGSYILLSNIFASKGMWA 673

Query: 600 ETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGG 659
           +  KVR  M    + K+ G SW E+ NK++ F  +R    +  D+  V++ L  H+   G
Sbjct: 674 DVKKVRDRMDSSEVVKEPGRSWIEVNNKVNVF-IARDTTHREADIGSVLDILIQHIKGAG 732

Query: 660 YVPD 663
           YVPD
Sbjct: 733 YVPD 736

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	672
TAIR|locus:2038603	868	AT2G27610 "AT2G27610" [Arabido	0.983	0.761	0.370	4.7e-119
TAIR|locus:2122551	834	AT4G39530 [Arabidopsis thalian	0.971	0.782	0.352	9.4e-114
TAIR|locus:2119440	1064	AT4G13650 [Arabidopsis thalian	0.979	0.618	0.339	2e-111
TAIR|locus:2083961	768	AT3G53360 "AT3G53360" [Arabido	0.974	0.852	0.358	5.5e-109
TAIR|locus:2082886	850	EMB2261 "embryo defective 2261	0.983	0.777	0.331	1.5e-106
TAIR|locus:2103483	890	OTP84 "ORGANELLE TRANSCRIPT PR	0.973	0.734	0.340	6.5e-106
TAIR|locus:2057630	727	AT2G33680 "AT2G33680" [Arabido	0.976	0.902	0.346	1.1e-105
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.961	0.741	0.320	7.5e-105
TAIR|locus:2095289	1028	AT3G09040 "AT3G09040" [Arabido	0.936	0.611	0.319	1.5e-104
TAIR|locus:2141171	857	AT4G21300 [Arabidopsis thalian	0.992	0.778	0.303	8.6e-104

TAIR|locus:2038603 AT2G27610 "AT2G27610" [Arabidopsis thaliana (taxid:3702)]

 Score = 1172 (417.6 bits), Expect = 4.7e-119, P = 4.7e-119
 Identities = 247/667 (37%), Positives = 391/667 (58%)

Query:     2 ITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVAL 61
             I  GF  +V     L+  Y+K S   D +K+FDEM ERNV++W+ LISG+++  M +  L
Sbjct:   120 IKFGFLDDVSVGTSLVDTYMKGSNFKDGRKVFDEMKERNVVTWTTLISGYARNSMNDEVL 179

Query:    62 NYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMY 121
               F  M     +PN +T+  A+   A  G    G ++H  + ++GL+    VSN LIN+Y
Sbjct:   180 TLFMRMQNEGTQPNSFTFAAALGVLAEEGVGGRGLQVHTVVVKNGLDKTIPVSNSLINLY 239

Query:   122 GKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCA 181
              KCG +  A+ +FD +  ++ ++W S++S Y   G  +  L +F   R + V +SE S A
Sbjct:   240 LKCGNVRKARILFDKTEVKSVVTWNSMISGYAANGLDLEALGMFYSMRLNYVRLSESSFA 299

Query:   182 SVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQ-L 240
             SV+  CA L  L+   Q+H  V K    FD+ +   L+  Y+KC  +  A R+F  I  +
Sbjct:   300 SVIKLCANLKELRFTEQLHCSVVKYGFLFDQNIRTALMVAYSKCTAMLDALRLFKEIGCV 359

Query:   241 PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQL 300
              ++ +W+A+I G+ Q     EA+DLF +M   G+ P+E T+S +L A       I   ++
Sbjct:   360 GNVVSWTAMISGFLQNDGKEEAVDLFSEMKRKGVRPNEFTYSVILTALP----VISPSEV 415

Query:   301 HSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHY 360
             H+ ++K  +   + V   +LD Y K   +EE+ K F  +D+ D+V+W+A++AG+  +   
Sbjct:   416 HAQVVKTNYERSSTVGTALLDAYVKLGKVEEAAKVFSGIDDKDIVAWSAMLAGYAQTGET 475

Query:   361 GEAIELLKDMLFEGHCPNLYTYSNILNISSDIPA-IEWGKQTHCCIVKPGFDSNVVIGSA 419
               AI++  ++   G  PN +T+S+ILN+ +   A +  GKQ H   +K   DS++ + SA
Sbjct:   476 EAAIKMFGELTKGGIKPNEFTFSSILNVCAATNASMGQGKQFHGFAIKSRLDSSLCVSSA 535

Query:   420 LVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN 479
             L+ MYAK G +  A +VF     K+LVSWN+M+ GYAQHG   +AL+++  M++ K+K +
Sbjct:   536 LLTMYAKKGNIESAEEVFKRQREKDLVSWNSMISGYAQHGQAMKALDVFKEMKKRKVKMD 595

Query:   480 DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFI 539
               TFIGV +AC H GLVEEG  YF+ M+RD  I+P  +H + +V L++  GQ  +A + I
Sbjct:   596 GVTFIGVFAACTHAGLVEEGEKYFDIMVRDCKIAPTKEHNSCMVDLYSRAGQLEKAMKVI 655

Query:   540 KSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWD 599
             ++ P      +WR +L+ C+ HK   LGR AAEKI++  PED++A+++LSN+YAE+  W 
Sbjct:   656 ENMPNPAGSTIWRTILAACRVHKKTELGRLAAEKIIAMKPEDSAAYVLLSNMYAESGDWQ 715

Query:   600 ETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGG 659
             E AKVRK+M E+++KK+ G SW E++NK + F     +      ++  +  LS  L D G
Sbjct:   716 ERAKVRKLMNERNVKKEPGYSWIEVKNKTYSFLAGDRSHPLKDQIYMKLEDLSTRLKDLG 775

Query:   660 YVPDPIY 666
             Y PD  Y
Sbjct:   776 YEPDTSY 782

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2122551 AT4G39530 [Arabidopsis thaliana (taxid:3702)]

 Score = 1122 (400.0 bits), Expect = 9.4e-114, P = 9.4e-114
 Identities = 232/659 (35%), Positives = 382/659 (57%)

Query:     1 MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVA 60
             ++ SGF  +V     L+  Y+K   I+ A+ +FD +PE++ ++W+ +ISG  ++G   V+
Sbjct:   174 LVKSGFDRDVYVGTLLIDFYLKDGNIDYARLVFDALPEKSTVTWTTMISGCVKMGRSYVS 233

Query:    61 LN-YFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLIN 119
             L  +++LM   V+ P+ Y     +SAC+       GK+IH  + R GLE+++ + N LI+
Sbjct:   234 LQLFYQLMEDNVV-PDGYILSTVLSACSILPFLEGGKQIHAHILRYGLEMDASLMNVLID 292

Query:   120 MYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFS 179
              Y KCG + +A  +F+    +N ISW +LLS Y Q   H   +++F    K G+    ++
Sbjct:   293 SYVKCGRVIAAHKLFNGMPNKNIISWTTLLSGYKQNALHKEAMELFTSMSKFGLKPDMYA 352

Query:   180 CASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQ 239
             C+S+L +CA L  L  G Q+H+   K  L  D +V   LI++YAKC+ L  A +VF    
Sbjct:   353 CSSILTSCASLHALGFGTQVHAYTIKANLGNDSYVTNSLIDMYAKCDCLTDARKVFDIFA 412

Query:   240 LPDLTAWSALIGGYAQLG---KACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIG 296
               D+  ++A+I GY++LG   +  EA+++F  M    + PS +TF  +L A A +     
Sbjct:   413 AADVVLFNAMIEGYSRLGTQWELHEALNIFRDMRFRLIRPSLLTFVSLLRASASLTSLGL 472

Query:   297 GRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLA 356
              +Q+H L+ K G +   F  + ++D YS C  L++S   FDEM   D+V WN++ AG++ 
Sbjct:   473 SKQIHGLMFKYGLNLDIFAGSALIDVYSNCYCLKDSRLVFDEMKVKDLVIWNSMFAGYVQ 532

Query:   357 SCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVI 416
                  EA+ L  ++      P+ +T++N++  + ++ +++ G++ HC ++K G + N  I
Sbjct:   533 QSENEEALNLFLELQLSRERPDEFTFANMVTAAGNLASVQLGQEFHCQLLKRGLECNPYI 592

Query:   417 GSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKI 476
              +AL+DMYAKCG   DA K FD  +S+++V WN+++  YA HG G++AL++   M    I
Sbjct:   593 TNALLDMYAKCGSPEDAHKAFDSAASRDVVCWNSVISSYANHGEGKKALQMLEKMMSEGI 652

Query:   477 KPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAY 536
             +PN  TF+GVLSAC H GLVE+G   F  M+R  GI P  +H   +V L    G+  +A 
Sbjct:   653 EPNYITFVGVLSACSHAGLVEDGLKQFELMLR-FGIEPETEHYVCMVSLLGRAGRLNKAR 711

Query:   537 EFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEAN 596
             E I+  P +P  +VWR LLSGC    ++ L  +AAE  + +DP+D+ +  MLSN+YA   
Sbjct:   712 ELIEKMPTKPAAIVWRSLLSGCAKAGNVELAEHAAEMAILSDPKDSGSFTMLSNIYASKG 771

Query:   597 MWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHL 655
             MW E  KVR+ MK + + K+ G SW  +  ++H F +   +  +   ++EV++ L V +
Sbjct:   772 MWTEAKKVRERMKVEGVVKEPGRSWIGINKEVHIFLSKDKSHCKANQIYEVLDDLLVQI 830

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 1100 (392.3 bits), Expect = 2.0e-111, P = 2.0e-111
 Identities = 224/660 (33%), Positives = 368/660 (55%)

Query:     5 GFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYF 64
             GF  +    N L+ +Y     +  A+ +F  M +R+ ++++ LI+G SQ G  E A+  F
Sbjct:   318 GFSSDTYVCNALVSLYFHLGNLISAEHIFSNMSQRDAVTYNTLINGLSQCGYGEKAMELF 377

Query:    65 RLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKC 124
             + M    LEP+  T    V AC++ G    G+++H    + G   N+ +   L+N+Y KC
Sbjct:   378 KRMHLDGLEPDSNTLASLVVACSADGTLFRGQQLHAYTTKLGFASNNKIEGALLNLYAKC 437

Query:   125 GLLSSA-QFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASV 183
               + +A  +  +  +E N + W  +L +Y    +  +  +IF   +   +  ++++  S+
Sbjct:   438 ADIETALDYFLETEVE-NVVLWNVMLVAYGLLDDLRNSFRIFRQMQIEEIVPNQYTYPSI 496

Query:   184 LGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDL 243
             L  C  LG+L++G QIHS + K   + + +V   LI++YAK  KLD A  +       D+
Sbjct:   497 LKTCIRLGDLELGEQIHSQIIKTNFQLNAYVCSVLIDMYAKLGKLDTAWDILIRFAGKDV 556

Query:   244 TAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSL 303
              +W+ +I GY Q     +A+  F +M   G+   EV  +  + A A ++    G+Q+H+ 
Sbjct:   557 VSWTTMIAGYTQYNFDDKALTTFRQMLDRGIRSDEVGLTNAVSACAGLQALKEGQQIHAQ 616

Query:   304 IIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEA 363
                 GFSS     N ++  YS+C  +EES   F++ +  D ++WNAL++G   S +  EA
Sbjct:   617 ACVSGFSSDLPFQNALVTLYSRCGKIEESYLAFEQTEAGDNIAWNALVSGFQQSGNNEEA 676

Query:   364 IELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDM 423
             + +   M  EG   N +T+ + +  +S+   ++ GKQ H  I K G+DS   + +AL+ M
Sbjct:   677 LRVFVRMNREGIDNNNFTFGSAVKAASETANMKQGKQVHAVITKTGYDSETEVCNALISM 736

Query:   424 YAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTF 483
             YAKCG ++DA K F  +S+KN VSWN ++  Y++HG G EAL+ +  M  + ++PN  T 
Sbjct:   737 YAKCGSISDAEKQFLEVSTKNEVSWNAIINAYSKHGFGSEALDSFDQMIHSNVRPNHVTL 796

Query:   484 IGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSP 543
             +GVLSAC HIGLV++G  YF SM  ++G+SP+ +H   VV +    G   RA EFI+  P
Sbjct:   797 VGVLSACSHIGLVDKGIAYFESMNSEYGLSPKPEHYVCVVDMLTRAGLLSRAKEFIQEMP 856

Query:   544 IEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAK 603
             I+P+ +VWR LLS C  HK++ +G +AA  +L  +PED++ +++LSN+YA +  WD    
Sbjct:   857 IKPDALVWRTLLSACVVHKNMEIGEFAAHHLLELEPEDSATYVLLSNLYAVSKKWDARDL 916

Query:   604 VRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVPD 663
              R+ MKEK +KK+ G SW E++N +H F           ++HE    L+    + GYV D
Sbjct:   917 TRQKMKEKGVKKEPGQSWIEVKNSIHSFYVGDQNHPLADEIHEYFQDLTKRASEIGYVQD 976

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2083961 AT3G53360 "AT3G53360" [Arabidopsis thaliana (taxid:3702)]

 Score = 1077 (384.2 bits), Expect = 5.5e-109, P = 5.5e-109
 Identities = 237/661 (35%), Positives = 367/661 (55%)

Query:     1 MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVA 60
             ++ S    + I  NH+L MY K   + DA+++FD MPERN++S++++I+G+SQ G    A
Sbjct:    93 ILNSNCKYDTILNNHILSMYGKCGSLRDAREVFDFMPERNLVSYTSVITGYSQNGQGAEA 152

Query:    61 LNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHV--SNCLI 118
             +  +  M+   L P+ + +   + ACAS  D   GK++H ++ +  LE +SH+   N LI
Sbjct:   153 IRLYLKMLQEDLVPDQFAFGSIIKACASSSDVGLGKQLHAQVIK--LESSSHLIAQNALI 210

Query:   119 NMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAI-SE 177
              MY +   +S A  VF     ++ ISW S+++ + Q G     L         GV   +E
Sbjct:   211 AMYVRFNQMSDASRVFYGIPMKDLISWSSIIAGFSQLGFEFEALSHLKEMLSFGVFHPNE 270

Query:   178 FSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSN 237
             +   S L AC+ L     G QIH L  K  L  +      L ++YA+C  L+ A RVF  
Sbjct:   271 YIFGSSLKACSSLLRPDYGSQIHGLCIKSELAGNAIAGCSLCDMYARCGFLNSARRVFDQ 330

Query:   238 IQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGG 297
             I+ PD  +W+ +I G A  G A EA+ +F +M SSG +P  ++   +L A         G
Sbjct:   331 IERPDTASWNVIIAGLANNGYADEAVSVFSQMRSSGFIPDAISLRSLLCAQTKPMALSQG 390

Query:   298 RQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEH-DVVSWNALIAGHLA 356
              Q+HS IIK GF +   V N++L  Y+ C  L      F++   + D VSWN ++   L 
Sbjct:   391 MQIHSYIIKWGFLADLTVCNSLLTMYTFCSDLYCCFNLFEDFRNNADSVSWNTILTACLQ 450

Query:   357 SCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVI 416
                  E + L K ML     P+  T  N+L    +I +++ G Q HC  +K G      I
Sbjct:   451 HEQPVEMLRLFKLMLVSECEPDHITMGNLLRGCVEISSLKLGSQVHCYSLKTGLAPEQFI 510

Query:   417 GSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKI 476
              + L+DMYAKCG L  AR++FD + ++++VSW+T++VGYAQ G G EAL ++  M+   I
Sbjct:   511 KNGLIDMYAKCGSLGQARRIFDSMDNRDVVSWSTLIVGYAQSGFGEEALILFKEMKSAGI 570

Query:   477 KPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAY 536
             +PN  TF+GVL+AC H+GLVEEG   + +M  +HGISP  +H + VV L A  G+   A 
Sbjct:   571 EPNHVTFVGVLTACSHVGLVEEGLKLYATMQTEHGISPTKEHCSCVVDLLARAGRLNEAE 630

Query:   537 EFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEAN 596
              FI    +EP+ VVW+ LLS CKT  ++ L + AAE IL  DP +++AH++L +++A + 
Sbjct:   631 RFIDEMKLEPDVVVWKTLLSACKTQGNVHLAQKAAENILKIDPFNSTAHVLLCSMHASSG 690

Query:   597 MWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLF 656
              W+  A +R  MK+  +KK  G SW E+++K+H F        +  D++ V++ +   + 
Sbjct:   691 NWENAALLRSSMKKHDVKKIPGQSWIEIEDKIHIFFAEDIFHPERDDIYTVLHNIWSQML 750

Query:   657 D 657
             D
Sbjct:   751 D 751

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2082886 EMB2261 "embryo defective 2261" [Arabidopsis thaliana (taxid:3702)]

 Score = 1054 (376.1 bits), Expect = 1.5e-106, P = 1.5e-106
 Identities = 223/673 (33%), Positives = 380/673 (56%)

Query:     1 MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMP---ERNVISWSALISGFSQIGMP 57
             +I     P+ + YN L+ +Y K      A+ +F+ M    +R+V+SWSA+++ +   G  
Sbjct:    88 LIEFDIEPDSVLYNSLISLYSKSGDSAKAEDVFETMRRFGKRDVVSWSAMMACYGNNGRE 147

Query:    58 EVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSG-LELNSHVSNC 116
               A+  F   +   L PN Y Y   + AC++      G+   G + ++G  E +  V   
Sbjct:   148 LDAIKVFVEFLELGLVPNDYCYTAVIRACSNSDFVGVGRVTLGFLMKTGHFESDVCVGCS 207

Query:   117 LINMYGKC-GLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAI 175
             LI+M+ K      +A  VFD   E N ++W  +++   Q G     ++ FL    SG   
Sbjct:   208 LIDMFVKGENSFENAYKVFDKMSELNVVTWTLMITRCMQMGFPREAIRFFLDMVLSGFES 267

Query:   176 SEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCE---KLDLAS 232
              +F+ +SV  ACA L NL +G Q+HS   +  L  D  V   L+++YAKC     +D   
Sbjct:   268 DKFTLSSVFSACAELENLSLGKQLHSWAIRSGLVDD--VECSLVDMYAKCSADGSVDDCR 325

Query:   233 RVFSNIQLPDLTAWSALIGGYAQ-LGKACEAIDLFVKMFSSG-LMPSEVTFSYVLGAFAD 290
             +VF  ++   + +W+ALI GY +    A EAI+LF +M + G + P+  TFS    A  +
Sbjct:   326 KVFDRMEDHSVMSWTALITGYMKNCNLATEAINLFSEMITQGHVEPNHFTFSSAFKACGN 385

Query:   291 VKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNAL 350
             + +   G+Q+     K G +S + VAN+V+  + K + +E++ + F+ + E ++VS+N  
Sbjct:   386 LSDPRVGKQVLGQAFKRGLASNSSVANSVISMFVKSDRMEDAQRAFESLSEKNLVSYNTF 445

Query:   351 IAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGF 410
             + G   + ++ +A +LL ++       + +T++++L+  +++ +I  G+Q H  +VK G 
Sbjct:   446 LDGTCRNLNFEQAFKLLSEITERELGVSAFTFASLLSGVANVGSIRKGEQIHSQVVKLGL 505

Query:   411 DSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSM 470
               N  + +AL+ MY+KCG ++ A +VF+ + ++N++SW +M+ G+A+HG     LE ++ 
Sbjct:   506 SCNQPVCNALISMYSKCGSIDTASRVFNFMENRNVISWTSMITGFAKHGFAIRVLETFNQ 565

Query:   471 MQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRG 530
             M E  +KPN+ T++ +LSAC H+GLV EGW +FNSM  DH I P+M+H A +V L    G
Sbjct:   566 MIEEGVKPNEVTYVAILSACSHVGLVSEGWRHFNSMYEDHKIKPKMEHYACMVDLLCRAG 625

Query:   531 QTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSN 590
                 A+EFI + P + + +VWR  L  C+ H +  LG+ AA KIL  DP + +A+I LSN
Sbjct:   626 LLTDAFEFINTMPFQADVLVWRTFLGACRVHSNTELGKLAARKILELDPNEPAAYIQLSN 685

Query:   591 VYAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQ 650
             +YA A  W+E+ ++R+ MKE++L K+ GCSW E+ +K+H F     A      +++ +++
Sbjct:   686 IYACAGKWEESTEMRRKMKERNLVKEGGCSWIEVGDKIHKFYVGDTAHPNAHQIYDELDR 745

Query:   651 LSVHLFDGGYVPD 663
             L   +   GYVPD
Sbjct:   746 LITEIKRCGYVPD 758

GO:0009507 "chloroplast" evidence=ISM

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

TAIR|locus:2103483 OTP84 "ORGANELLE TRANSCRIPT PROCESSING 84" [Arabidopsis thaliana (taxid:3702)]

 Score = 1048 (374.0 bits), Expect = 6.5e-106, P = 6.5e-106
 Identities = 229/672 (34%), Positives = 373/672 (55%)

Query:     9 NVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMV 68
             +V   N L+ +Y K        K+FD + ERN +SW++LIS        E+AL  FR M+
Sbjct:   132 SVTVANTLVNLYRKCGDFGAVYKVFDRISERNQVSWNSLISSLCSFEKWEMALEAFRCML 191

Query:    69 CCVLEPNYYTYVGAVSACASRGDARS---GKEIHGRMYRSGLELNSHVSNCLINMYGKCG 125
                +EP+ +T V  V+AC++         GK++H    R G ELNS + N L+ MYGK G
Sbjct:   192 DENVEPSSFTLVSVVTACSNLPMPEGLMMGKQVHAYGLRKG-ELNSFIINTLVAMYGKLG 250

Query:   126 LLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLG 185
              L+S++ +  +   R+ ++W ++LSS CQ  + +  L+        GV   EF+ +SVL 
Sbjct:   251 KLASSKVLLGSFGGRDLVTWNTVLSSLCQNEQLLEALEYLREMVLEGVEPDEFTISSVLP 310

Query:   186 ACAVLGNLKVGMQIHSLVFKC-ALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLT 244
             AC+ L  L+ G ++H+   K  +L+ + FV   L+++Y  C+++    RVF  +    + 
Sbjct:   311 ACSHLEMLRTGKELHAYALKNGSLDENSFVGSALVDMYCNCKQVLSGRRVFDGMFDRKIG 370

Query:   245 AWSALIGGYAQLGKACEAIDLFVKMF-SSGLMPSEVTFSYVLGAFADVKETIGGRQLHSL 303
              W+A+I GY+Q     EA+ LF+ M  S+GL+ +  T + V+ A            +H  
Sbjct:   371 LWNAMIAGYSQNEHDKEALLLFIGMEESAGLLANSTTMAGVVPACVRSGAFSRKEAIHGF 430

Query:   304 IIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEA 363
             ++K G     FV NT++D YS+   ++ +++ F +M++ D+V+WN +I G++ S H+ +A
Sbjct:   431 VVKRGLDRDRFVQNTLMDMYSRLGKIDIAMRIFGKMEDRDLVTWNTMITGYVFSEHHEDA 490

Query:   364 IELLKDM------LFEGHC-----PNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDS 412
             + LL  M      + +G       PN  T   IL   + + A+  GK+ H   +K    +
Sbjct:   491 LLLLHKMQNLERKVSKGASRVSLKPNSITLMTILPSCAALSALAKGKEIHAYAIKNNLAT 550

Query:   413 NVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQ 472
             +V +GSALVDMYAKCG L  +RKVFD +  KN+++WN +++ Y  HG G+EA+++  MM 
Sbjct:   551 DVAVGSALVDMYAKCGCLQMSRKVFDQIPQKNVITWNVIIMAYGMHGNGQEAIDLLRMMM 610

Query:   473 ENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQT 532
                +KPN+ TFI V +AC H G+V+EG   F  M  D+G+ P  DH A VV L    G+ 
Sbjct:   611 VQGVKPNEVTFISVFAACSHSGMVDEGLRIFYVMKPDYGVEPSSDHYACVVDLLGRAGRI 670

Query:   533 RRAYEFIKSSPIEPNKV-VWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNV 591
             + AY+ +   P + NK   W  LL   + H +L +G  AA+ ++  +P   S +++L+N+
Sbjct:   671 KEAYQLMNMMPRDFNKAGAWSSLLGASRIHNNLEIGEIAAQNLIQLEPNVASHYVLLANI 730

Query:   592 YAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQL 651
             Y+ A +WD+  +VR+ MKE+ ++K+ GCSW E  +++H F     +  Q   L   +  L
Sbjct:   731 YSSAGLWDKATEVRRNMKEQGVRKEPGCSWIEHGDEVHKFVAGDSSHPQSEKLSGYLETL 790

Query:   652 SVHLFDGGYVPD 663
                +   GYVPD
Sbjct:   791 WERMRKEGYVPD 802

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2057630 AT2G33680 "AT2G33680" [Arabidopsis thaliana (taxid:3702)]

 Score = 1046 (373.3 bits), Expect = 1.1e-105, P = 1.1e-105
 Identities = 231/666 (34%), Positives = 363/666 (54%)

Query:    14 NHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQ---IGMPEVALNYFRLMVCC 70
             N L+  Y K  ++  A  +F+ +  ++V+SW++LI+G+SQ   I      +  FR M   
Sbjct:    53 NVLVNFYAKCGKLAKAHSIFNAIICKDVVSWNSLITGYSQNGGISSSYTVMQLFREMRAQ 112

Query:    71 VLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSA 130
              + PN YT  G   A +S   +  G++ H  + +     + +V   L+ MY K GL+   
Sbjct:   113 DILPNAYTLAGIFKAESSLQSSTVGRQAHALVVKMSSFGDIYVDTSLVGMYCKAGLVEDG 172

Query:   131 QFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIF--LLSRKSGVAISEFSCASVLGACA 188
               VF    ERN+ +W +++S Y   G     +K+F   L  K   + S++   +VL + A
Sbjct:   173 LKVFAYMPERNTYTWSTMVSGYATRGRVEEAIKVFNLFLREKEEGSDSDYVFTAVLSSLA 232

Query:   189 VLGNLKVGMQIHSLVFKCALEFDKFVAMG--LINLYAKCEKLDLASRVFSNIQLPDLTAW 246
                 + +G QIH +  K  L    FVA+   L+ +Y+KCE L+ A ++F +    +   W
Sbjct:   233 ATIYVGLGRQIHCITIKNGLL--GFVALSNALVTMYSKCESLNEACKMFDSSGDRNSITW 290

Query:   247 SALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIK 306
             SA++ GY+Q G++ EA+ LF +MFS+G+ PSE T   VL A +D+     G+QLHS ++K
Sbjct:   291 SAMVTGYSQNGESLEAVKLFSRMFSAGIKPSEYTIVGVLNACSDICYLEEGKQLHSFLLK 350

Query:   307 MGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIEL 366
             +GF    F    ++D Y+K   L ++ K FD + E DV  W +LI+G++ +    EA+ L
Sbjct:   351 LGFERHLFATTALVDMYAKAGCLADARKGFDCLQERDVALWTSLISGYVQNSDNEEALIL 410

Query:   367 LKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAK 426
              + M   G  PN  T +++L   S +  +E GKQ H   +K GF   V IGSAL  MY+K
Sbjct:   411 YRRMKTAGIIPNDPTMASVLKACSSLATLELGKQVHGHTIKHGFGLEVPIGSALSTMYSK 470

Query:   427 CGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGV 486
             CG L D   VF    +K++VSWN M+ G + +G G EALE++  M    ++P+D TF+ +
Sbjct:   471 CGSLEDGNLVFRRTPNKDVVSWNAMISGLSHNGQGDEALELFEEMLAEGMEPDDVTFVNI 530

Query:   487 LSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEP 546
             +SAC H G VE GW YFN M    G+ P++DH A +V L +  GQ + A EFI+S+ I+ 
Sbjct:   531 ISACSHKGFVERGWFYFNMMSDQIGLDPKVDHYACMVDLLSRAGQLKEAKEFIESANIDH 590

Query:   547 NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRK 606
                +WR LLS CK H    LG YA EK+++    ++S ++ LS +Y       +  +V K
Sbjct:   591 GLCLWRILLSACKNHGKCELGVYAGEKLMALGSRESSTYVQLSGIYTALGRMRDVERVWK 650

Query:   607 IMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVPDPIY 666
              M+   + K+ GCSW EL+N+ H F           +  +++  +S  + + G+V   + 
Sbjct:   651 HMRANGVSKEVGCSWIELKNQYHVFVVGDTMHPMIEETKDLVCLVSRQMIEEGFVT-VLD 709

Query:   667 SSHFEE 672
             SS  EE
Sbjct:   710 SSFVEE 715

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 1038 (370.5 bits), Expect = 7.5e-105, P = 7.5e-105
 Identities = 208/649 (32%), Positives = 365/649 (56%)

Query:    16 LLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPN 75
             L LMY     + +A ++FDE+     + W+ L++  ++ G    ++  F+ M+   +E +
Sbjct:   135 LSLMYTNCGDLKEASRVFDEVKIEKALFWNILMNELAKSGDFSGSIGLFKKMMSSGVEMD 194

Query:    76 YYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFD 135
              YT+     + +S      G+++HG + +SG    + V N L+  Y K   + SA+ VFD
Sbjct:   195 SYTFSCVSKSFSSLRSVHGGEQLHGFILKSGFGERNSVGNSLVAFYLKNQRVDSARKVFD 254

Query:   136 ASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKV 195
                ER+ ISW S+++ Y   G    GL +F+    SG+ I   +  SV   CA    + +
Sbjct:   255 EMTERDVISWNSIINGYVSNGLAEKGLSVFVQMLVSGIEIDLATIVSVFAGCADSRLISL 314

Query:   196 GMQIHSLVFK-CALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYA 254
             G  +HS+  K C    D+F    L+++Y+KC  LD A  VF  +    + +++++I GYA
Sbjct:   315 GRAVHSIGVKACFSREDRFCNT-LLDMYSKCGDLDSAKAVFREMSDRSVVSYTSMIAGYA 373

Query:   255 QLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTF 314
             + G A EA+ LF +M   G+ P   T + VL   A  +    G+++H  I +       F
Sbjct:   374 REGLAGEAVKLFEEMEEEGISPDVYTVTAVLNCCARYRLLDEGKRVHEWIKENDLGFDIF 433

Query:   315 VANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEG 374
             V+N ++D Y+KC  ++E+   F EM   D++SWN +I G+  +C+  EA+ L   +L E 
Sbjct:   434 VSNALMDMYAKCGSMQEAELVFSEMRVKDIISWNTIIGGYSKNCYANEALSLFNLLLEEK 493

Query:   375 H-CPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDA 433
                P+  T + +L   + + A + G++ H  I++ G+ S+  + ++LVDMYAKCG L  A
Sbjct:   494 RFSPDERTVACVLPACASLSAFDKGREIHGYIMRNGYFSDRHVANSLVDMYAKCGALLLA 553

Query:   434 RKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHI 493
               +FD ++SK+LVSW  M+ GY  HG G+EA+ +++ M++  I+ ++ +F+ +L AC H 
Sbjct:   554 HMLFDDIASKDLVSWTVMIAGYGMHGFGKEAIALFNQMRQAGIEADEISFVSLLYACSHS 613

Query:   494 GLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRC 553
             GLV+EGW +FN M  +  I P ++H A +V + A  G   +AY FI++ PI P+  +W  
Sbjct:   614 GLVDEGWRFFNIMRHECKIEPTVEHYACIVDMLARTGDLIKAYRFIENMPIPPDATIWGA 673

Query:   554 LLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSL 613
             LL GC+ H D+ L    AEK+   +PE+T  +++++N+YAEA  W++  ++RK + ++ L
Sbjct:   674 LLCGCRIHHDVKLAEKVAEKVFELEPENTGYYVLMANIYAEAEKWEQVKRLRKRIGQRGL 733

Query:   614 KKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVP 662
             +K+ GCSW E++ +++ F     +  +  ++   + ++   + + GY P
Sbjct:   734 RKNPGCSWIEIKGRVNIFVAGDSSNPETENIEAFLRKVRARMIEEGYSP 782

GO:0009507 "chloroplast" evidence=ISM

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

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

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

GO:0048366 "leaf development" evidence=IMP

TAIR|locus:2095289 AT3G09040 "AT3G09040" [Arabidopsis thaliana (taxid:3702)]

 Score = 1010 (360.6 bits), Expect = 1.5e-104, Sum P(2) = 1.5e-104
 Identities = 203/635 (31%), Positives = 355/635 (55%)

Query:     2 ITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVAL 61
             I  G   N+   + L+ MY K  ++  A K+F+ + E+N + W+A+I G++  G     +
Sbjct:   354 IKLGLASNIYVGSSLVSMYSKCEKMEAAAKVFEALEEKNDVFWNAMIRGYAHNGESHKVM 413

Query:    62 NYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMY 121
               F  M       + +T+   +S CA+  D   G + H  + +  L  N  V N L++MY
Sbjct:   414 ELFMDMKSSGYNIDDFTFTSLLSTCAASHDLEMGSQFHSIIIKKKLAKNLFVGNALVDMY 473

Query:   122 GKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSC- 180
              KCG L  A+ +F+   +R++++W +++ SY Q         +F      G+ +S+ +C 
Sbjct:   474 AKCGALEDARQIFERMCDRDNVTWNTIIGSYVQDENESEAFDLFKRMNLCGI-VSDGACL 532

Query:   181 ASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQL 240
             AS L AC  +  L  G Q+H L  KC L+ D      LI++Y+KC  +  A +VFS++  
Sbjct:   533 ASTLKACTHVHGLYQGKQVHCLSVKCGLDRDLHTGSSLIDMYSKCGIIKDARKVFSSLPE 592

Query:   241 PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQL 300
               + + +ALI GY+Q     EA+ LF +M + G+ PSE+TF+ ++ A    +    G Q 
Sbjct:   593 WSVVSMNALIAGYSQ-NNLEEAVVLFQEMLTRGVNPSEITFATIVEACHKPESLTLGTQF 651

Query:   301 HSLIIKMGFSSF-TFVANTVLDFYSKCELLEESLKTFDEMDE-HDVVSWNALIAGHLASC 358
             H  I K GFSS   ++  ++L  Y     + E+   F E+     +V W  +++GH  + 
Sbjct:   652 HGQITKRGFSSEGEYLGISLLGMYMNSRGMTEACALFSELSSPKSIVLWTGMMSGHSQNG 711

Query:   359 HYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGS 418
              Y EA++  K+M  +G  P+  T+  +L + S + ++  G+  H  I     D + +  +
Sbjct:   712 FYEEALKFYKEMRHDGVLPDQATFVTVLRVCSVLSSLREGRAIHSLIFHLAHDLDELTSN 771

Query:   419 ALVDMYAKCGRLNDARKVFDHLSSK-NLVSWNTMLVGYAQHGLGREALEIYSMMQENKIK 477
              L+DMYAKCG +  + +VFD +  + N+VSWN+++ GYA++G   +AL+I+  M+++ I 
Sbjct:   772 TLIDMYAKCGDMKGSSQVFDEMRRRSNVVSWNSLINGYAKNGYAEDALKIFDSMRQSHIM 831

Query:   478 PNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYE 537
             P++ TF+GVL+AC H G V +G   F  MI  +GI  R+DH+A +V L    G  + A +
Sbjct:   832 PDEITFLGVLTACSHAGKVSDGRKIFEMMIGQYGIEARVDHVACMVDLLGRWGYLQEADD 891

Query:   538 FIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANM 597
             FI++  ++P+  +W  LL  C+ H D + G  +AEK++  +P+++SA+++LSN+YA    
Sbjct:   892 FIEAQNLKPDARLWSSLLGACRIHGDDIRGEISAEKLIELEPQNSSAYVLLSNIYASQGC 951

Query:   598 WDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFS 632
             W++   +RK+M+++ +KK  G SW +++ + H F+
Sbjct:   952 WEKANALRKVMRDRGVKKVPGYSWIDVEQRTHIFA 986

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2141171 AT4G21300 [Arabidopsis thaliana (taxid:3702)]

 Score = 1028 (366.9 bits), Expect = 8.6e-104, P = 8.6e-104
 Identities = 203/668 (30%), Positives = 360/668 (53%)

Query:     5 GFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYF 64
             G   N    + L+  Y+++ +I+   KLFD + +++ + W+ +++G+++ G  +  +  F
Sbjct:   168 GMDCNEFVASSLIKAYLEYGKIDVPSKLFDRVLQKDCVIWNVMLNGYAKCGALDSVIKGF 227

Query:    65 RLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKC 124
              +M    + PN  T+   +S CAS+     G ++HG +  SG++    + N L++MY KC
Sbjct:   228 SVMRMDQISPNAVTFDCVLSVCASKLLIDLGVQLHGLVVVSGVDFEGSIKNSLLSMYSKC 287

Query:   125 GLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVL 184
             G    A  +F      ++++W  ++S Y Q G     L  F     SGV     + +S+L
Sbjct:   288 GRFDDASKLFRMMSRADTVTWNCMISGYVQSGLMEESLTFFYEMISSGVLPDAITFSSLL 347

Query:   185 GACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLT 244
              + +   NL+   QIH  + + ++  D F+   LI+ Y KC  + +A  +FS     D+ 
Sbjct:   348 PSVSKFENLEYCKQIHCYIMRHSISLDIFLTSALIDAYFKCRGVSMAQNIFSQCNSVDVV 407

Query:   245 AWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLI 304
              ++A+I GY   G   +++++F  +    + P+E+T   +L     +     GR+LH  I
Sbjct:   408 VFTAMISGYLHNGLYIDSLEMFRWLVKVKISPNEITLVSILPVIGILLALKLGRELHGFI 467

Query:   305 IKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAI 364
             IK GF +   +   V+D Y+KC  +  + + F+ + + D+VSWN++I     S +   AI
Sbjct:   468 IKKGFDNRCNIGCAVIDMYAKCGRMNLAYEIFERLSKRDIVSWNSMITRCAQSDNPSAAI 527

Query:   365 ELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMY 424
             ++ + M   G C +  + S  L+  +++P+  +GK  H  ++K    S+V   S L+DMY
Sbjct:   528 DIFRQMGVSGICYDCVSISAALSACANLPSESFGKAIHGFMIKHSLASDVYSESTLIDMY 587

Query:   425 AKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIY-SMMQENKIKPNDNTF 483
             AKCG L  A  VF  +  KN+VSWN+++     HG  +++L ++  M++++ I+P+  TF
Sbjct:   588 AKCGNLKAAMNVFKTMKEKNIVSWNSIIAACGNHGKLKDSLCLFHEMVEKSGIRPDQITF 647

Query:   484 IGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSP 543
             + ++S+C H+G V+EG  +F SM  D+GI P+ +H A VV LF   G+   AYE +KS P
Sbjct:   648 LEIISSCCHVGDVDEGVRFFRSMTEDYGIQPQQEHYACVVDLFGRAGRLTEAYETVKSMP 707

Query:   544 IEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAK 603
               P+  VW  LL  C+ HK++ L   A+ K++  DP ++  ++++SN +A A  W+   K
Sbjct:   708 FPPDAGVWGTLLGACRLHKNVELAEVASSKLMDLDPSNSGYYVLISNAHANAREWESVTK 767

Query:   604 VRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVPD 663
             VR +MKE+ ++K  G SW E+  + H F +      +   ++ ++N L   L   GY+P 
Sbjct:   768 VRSLMKEREVQKIPGYSWIEINKRTHLFVSGDVNHPESSHIYSLLNSLLGELRLEGYIPQ 827

Query:   664 PIYSSHFE 671
             P    H E
Sbjct:   828 PYLPLHPE 835

GO:0005739 "mitochondrion" evidence=ISM

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00011403001 SubName- Full=Chromosome chr6 scaffold_305, whole genome shotgun sequence; (868 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	672
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-153
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-104
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-66
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-58
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	8e-52
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-51
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-49
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-20
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-19
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-05
pfam01535	31	pfam01535, PPR, PPR repeat	5e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	8e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-04

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

 Score =  465 bits (1197), Expect = e-153
 Identities = 223/620 (35%), Positives = 351/620 (56%), Gaps = 2/620 (0%)

Query: 14  NHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMVCCVLE 73
           N +L M+V+F  +  A  +F +MPER++ SW+ L+ G+++ G  + AL  +  M+   + 
Sbjct: 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVR 184

Query: 74  PNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFV 133
           P+ YT+   +  C    D   G+E+H  + R G EL+  V N LI MY KCG + SA+ V
Sbjct: 185 PDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLV 244

Query: 134 FDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNL 193
           FD    R+ ISW +++S Y + GE + GL++F   R+  V     +  SV+ AC +LG+ 
Sbjct: 245 FDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDE 304

Query: 194 KVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGY 253
           ++G ++H  V K     D  V   LI +Y        A +VFS ++  D  +W+A+I GY
Sbjct: 305 RLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGY 364

Query: 254 AQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFT 313
            + G   +A++ +  M    + P E+T + VL A A + +   G +LH L  + G  S+ 
Sbjct: 365 EKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYV 424

Query: 314 FVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFE 373
            VAN +++ YSKC+ ++++L+ F  + E DV+SW ++IAG   +    EA+   + ML  
Sbjct: 425 VVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT 484

Query: 374 GHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDA 433
              PN  T    L+  + I A+  GK+ H  +++ G   +  + +AL+D+Y +CGR+N A
Sbjct: 485 LK-PNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYA 543

Query: 434 RKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHI 493
              F+    K++VSWN +L GY  HG G  A+E+++ M E+ + P++ TFI +L AC   
Sbjct: 544 WNQFN-SHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRS 602

Query: 494 GLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRC 553
           G+V +G  YF+SM   + I+P + H A VV L    G+   AY FI   PI P+  VW  
Sbjct: 603 GMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGA 662

Query: 554 LLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSL 613
           LL+ C+ H+ + LG  AA+ I   DP     +I+L N+YA+A  WDE A+VRK M+E  L
Sbjct: 663 LLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGL 722

Query: 614 KKDTGCSWTELQNKMHYFST 633
             D GCSW E++ K+H F T
Sbjct: 723 TVDPGCSWVEVKGKVHAFLT 742

Length = 857

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

 Score =  332 bits (853), Expect = e-104
 Identities = 175/516 (33%), Positives = 279/516 (54%), Gaps = 13/516 (2%)

Query: 155 CGEHVHGLKIFLLSRKSG---VAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFD 211
           CG H   L++F +        +  S +   +++ AC  L +++    ++  V     E D
Sbjct: 100 CGRHREALELFEILEAGCPFTLPASTYD--ALVEACIALKSIRCVKAVYWHVESSGFEPD 157

Query: 212 KFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFS 271
           +++   ++ ++ KC  L  A R+F  +   +L +W  +IGG    G   EA  LF +M+ 
Sbjct: 158 QYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWE 217

Query: 272 SGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEE 331
            G      TF  +L A A +     G+QLH  ++K G    TFV+  ++D YSKC  +E+
Sbjct: 218 DGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIED 277

Query: 332 SLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSD 391
           +   FD M E   V+WN+++AG+    +  EA+ L  +M   G   + +T+S ++ I S 
Sbjct: 278 ARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSR 337

Query: 392 IPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTM 451
           +  +E  KQ H  +++ GF  ++V  +ALVD+Y+K GR+ DAR VFD +  KNL+SWN +
Sbjct: 338 LALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNAL 397

Query: 452 LVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHG 511
           + GY  HG G +A+E++  M    + PN  TF+ VLSAC + GL E+GW  F SM  +H 
Sbjct: 398 IAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHR 457

Query: 512 ISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAA 571
           I PR  H A ++ L    G    AY  I+ +P +P   +W  LL+ C+ HK+L LGR AA
Sbjct: 458 IKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAA 517

Query: 572 EKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMH-Y 630
           EK+    PE  + +++L N+Y  +    E AKV + +K K L     C+W E++ + H +
Sbjct: 518 EKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSF 577

Query: 631 FSTSRF-AQFQGI--DLHEVMNQLSVHLFDGGYVPD 663
           FS  R   Q + I   L E+M ++S +    GYV +
Sbjct: 578 FSGDRLHPQSREIYQKLDELMKEISEY----GYVAE 609

Length = 697

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

 Score =  233 bits (595), Expect = 3e-66
 Identities = 139/432 (32%), Positives = 226/432 (52%), Gaps = 3/432 (0%)

Query: 5   GFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYF 64
           GF  +V   N L+ MYVK   +  A+ +FD MP R+ ISW+A+ISG+ + G     L  F
Sbjct: 217 GFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELF 276

Query: 65  RLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKC 124
             M    ++P+  T    +SAC   GD R G+E+HG + ++G  ++  V N LI MY   
Sbjct: 277 FTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSL 336

Query: 125 GLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVL 184
           G    A+ VF     ++++SW +++S Y + G     L+ + L  +  V+  E + ASVL
Sbjct: 337 GSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVL 396

Query: 185 GACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLT 244
            ACA LG+L VG+++H L  +  L     VA  LI +Y+KC+ +D A  VF NI   D+ 
Sbjct: 397 SACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVI 456

Query: 245 AWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLI 304
           +W+++I G     +  EA+  F +M  + L P+ VT    L A A +   + G+++H+ +
Sbjct: 457 SWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHV 515

Query: 305 IKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAI 364
           ++ G     F+ N +LD Y +C  +  +   F+   E DVVSWN L+ G++A      A+
Sbjct: 516 LRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFN-SHEKDVVSWNILLTGYVAHGKGSMAV 574

Query: 365 ELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQT-HCCIVKPGFDSNVVIGSALVDM 423
           EL   M+  G  P+  T+ ++L   S    +  G +  H    K     N+   + +VD+
Sbjct: 575 ELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDL 634

Query: 424 YAKCGRLNDARK 435
             + G+L +A  
Sbjct: 635 LGRAGKLTEAYN 646

Length = 857

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

 Score =  208 bits (531), Expect = 4e-58
 Identities = 97/287 (33%), Positives = 161/287 (56%)

Query: 1   MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVA 60
           + +SGF P+    N +LLM+VK   + DA++LFDEMPERN+ SW  +I G    G    A
Sbjct: 149 VESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREA 208

Query: 61  LNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINM 120
              FR M     +    T+V  + A A  G AR+G+++H  + ++G+  ++ VS  LI+M
Sbjct: 209 FALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDM 268

Query: 121 YGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSC 180
           Y KCG +  A+ VFD   E+ +++W S+L+ Y   G     L ++   R SGV+I +F+ 
Sbjct: 269 YSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTF 328

Query: 181 ASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQL 240
           + ++   + L  L+   Q H+ + +     D      L++LY+K  +++ A  VF  +  
Sbjct: 329 SIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR 388

Query: 241 PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGA 287
            +L +W+ALI GY   G+  +A+++F +M + G+ P+ VTF  VL A
Sbjct: 389 KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSA 435

Length = 697

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

 Score =  190 bits (484), Expect = 8e-52
 Identities = 122/435 (28%), Positives = 201/435 (46%), Gaps = 40/435 (9%)

Query: 60  ALNYFRLM-VCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLI 118
           AL  F ++   C       TY   V AC +    R  K ++  +  SG E + ++ N ++
Sbjct: 106 ALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVL 165

Query: 119 NMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEF 178
            M+ KCG+L  A+ +FD   ERN  SW +++      G +     +F    + G      
Sbjct: 166 LMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPR 225

Query: 179 SCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNI 238
           +   +L A A LG+ + G Q+H  V K  +  D FV+  LI++Y+KC  ++ A  VF  +
Sbjct: 226 TFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM 285

Query: 239 QLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGR 298
                 AW++++ GYA  G + EA+ L+ +M  SG+   + TFS ++  F+ +      +
Sbjct: 286 PEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAK 345

Query: 299 QLHSLIIKMGFSSFTFVANTVL-DFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLAS 357
           Q H+ +I+ GF     VANT L D YSK   +E++   FD M   +++SWNALIAG+   
Sbjct: 346 QAHAGLIRTGFPL-DIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNH 404

Query: 358 CHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIG 417
               +A+E+ + M+ EG  PN  T+  +L+                              
Sbjct: 405 GRGTKAVEMFERMIAEGVAPNHVTFLAVLSACR--------------------------Y 438

Query: 418 SALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREAL--EIYSMMQENK 475
           S L +            ++F  +S  + +    M        LGRE L  E Y+M++   
Sbjct: 439 SGLSE---------QGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAP 489

Query: 476 IKPNDNTFIGVLSAC 490
            KP  N +  +L+AC
Sbjct: 490 FKPTVNMWAALLTAC 504

Length = 697

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

 Score =  190 bits (484), Expect = 3e-51
 Identities = 138/521 (26%), Positives = 239/521 (45%), Gaps = 12/521 (2%)

Query: 45  SALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYR 104
           ++ +      G  E AL     M    +  +   YV     C  +     G  +  R   
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS 114

Query: 105 SGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKI 164
           S   L   + N +++M+ + G L  A +VF    ER+  SW  L+  Y + G     L +
Sbjct: 115 SHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCL 174

Query: 165 FLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAK 224
           +     +GV    ++   VL  C  + +L  G ++H+ V +   E D  V   LI +Y K
Sbjct: 175 YHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVK 234

Query: 225 CEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYV 284
           C  +  A  VF  +   D  +W+A+I GY + G+  E ++LF  M    + P  +T + V
Sbjct: 235 CGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSV 294

Query: 285 LGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDV 344
           + A   + +   GR++H  ++K GF+    V N+++  Y       E+ K F  M+  D 
Sbjct: 295 ISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDA 354

Query: 345 VSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCC 404
           VSW A+I+G+  +    +A+E    M  +   P+  T +++L+  + +  ++ G + H  
Sbjct: 355 VSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHEL 414

Query: 405 IVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREA 464
             + G  S VV+ +AL++MY+KC  ++ A +VF ++  K+++SW +++ G   +    EA
Sbjct: 415 AERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEA 474

Query: 465 LEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEG----WHYFNSMIRDHGISPRMDHIA 520
           L  +  M    +KPN  T I  LSAC  IG +  G     H   + I   G  P      
Sbjct: 475 LIFFRQML-LTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPN----- 528

Query: 521 SVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTH 561
           +++ L+   G+   A+    S   E + V W  LL+G   H
Sbjct: 529 ALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAH 567

Length = 857

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

 Score =  185 bits (472), Expect = 1e-49
 Identities = 113/370 (30%), Positives = 181/370 (48%), Gaps = 14/370 (3%)

Query: 2   ITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVAL 61
           + +GF  +V   N L+ MY+      +A+K+F  M  ++ +SW+A+ISG+ + G+P+ AL
Sbjct: 315 VKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKAL 374

Query: 62  NYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMY 121
             + LM    + P+  T    +SACA  GD   G ++H    R GL     V+N LI MY
Sbjct: 375 ETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMY 434

Query: 122 GKCGLLSSAQFVFDASLERNSISWVSLLSSYC---QCGEHVHGLKIFLLSRKSGVAISEF 178
            KC  +  A  VF    E++ ISW S+++      +C E +    IF       +  +  
Sbjct: 435 SKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEAL----IFFRQMLLTLKPNSV 490

Query: 179 SCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNI 238
           +  + L ACA +G L  G +IH+ V +  + FD F+   L++LY +C +++ A   F N 
Sbjct: 491 TLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF-NS 549

Query: 239 QLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGR 298
              D+ +W+ L+ GY   GK   A++LF +M  SG+ P EVTF  +L A +       G 
Sbjct: 550 HEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGL 609

Query: 299 QL-HSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMD-EHDVVSWNALIAGHLA 356
           +  HS+  K   +        V+D   +   L E+    ++M    D   W AL    L 
Sbjct: 610 EYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGAL----LN 665

Query: 357 SCHYGEAIEL 366
           +C     +EL
Sbjct: 666 ACRIHRHVEL 675

Length = 857

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

 Score = 96.1 bits (239), Expect = 1e-20
 Identities = 68/280 (24%), Positives = 124/280 (44%), Gaps = 29/280 (10%)

Query: 16  LLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPN 75
           L+ MY K   I DA+ +FD MPE+  ++W+++++G++  G  E AL  +  M    +  +
Sbjct: 265 LIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSID 324

Query: 76  YYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFD 135
            +T+   +   +        K+ H  + R+G  L+   +  L+++Y K G +  A+ VFD
Sbjct: 325 QFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFD 384

Query: 136 ASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKV 195
               +N ISW +L++ Y   G     +++F      GVA +  +  +VL AC   G  + 
Sbjct: 385 RMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQ 444

Query: 196 GMQIHSLV------------FKCALE-------FDKFVAM-------GLINLYAKCEKLD 229
           G +I   +            + C +E        D+  AM         +N++A    L 
Sbjct: 445 GWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWA---ALL 501

Query: 230 LASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKM 269
            A R+  N++L  L A      G  +L      ++L+   
Sbjct: 502 TACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSS 541

Length = 697

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

 Score = 92.6 bits (230), Expect = 2e-19
 Identities = 47/153 (30%), Positives = 83/153 (54%), Gaps = 2/153 (1%)

Query: 1   MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVA 60
           +I +GF  +++    L+ +Y K+ R+ DA+ +FD MP +N+ISW+ALI+G+   G    A
Sbjct: 351 LIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKA 410

Query: 61  LNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRS-GLELNSHVSNCLIN 119
           +  F  M+   + PN+ T++  +SAC   G +  G EI   M  +  ++  +    C+I 
Sbjct: 411 VEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIE 470

Query: 120 MYGKCGLLSSA-QFVFDASLERNSISWVSLLSS 151
           + G+ GLL  A   +  A  +     W +LL++
Sbjct: 471 LLGREGLLDEAYAMIRRAPFKPTVNMWAALLTA 503

Length = 697

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

 Score = 54.7 bits (133), Expect = 6e-10
 Identities = 21/50 (42%), Positives = 32/50 (64%), Gaps = 4/50 (8%)

Query: 8  PNVITYNHLLLMYVKFSRINDAQKLFDEMPER----NVISWSALISGFSQ 53
          P+V+TYN L+  Y K  ++ +A KLF+EM +R    NV ++S LI G  +
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 = 52.8 bits (128), Expect = 3e-09
 Identities = 18/45 (40%), Positives = 28/45 (62%)

Query: 343 DVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILN 387
           DVV++N LI G+       EA++L  +M   G  PN+YTYS +++
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILID 46

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 = 52.0 bits (126), Expect = 5e-09
 Identities = 15/50 (30%), Positives = 31/50 (62%)

Query: 443 KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVH 492
            ++V++NT++ GY + G   EAL++++ M++  IKPN  T+  ++     
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 = 49.7 bits (120), Expect = 4e-08
 Identities = 17/50 (34%), Positives = 28/50 (56%)

Query: 241 PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFAD 290
           PD+  ++ LI GY + GK  EA+ LF +M   G+ P+  T+S ++     
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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 51.0 bits (122), Expect = 2e-06
 Identities = 49/266 (18%), Positives = 108/266 (40%), Gaps = 22/266 (8%)

Query: 44  WSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMY 103
           ++ LIS  ++ G  +     F  MV   +E N +T+   +  CA  G        +G M 
Sbjct: 475 YTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMR 534

Query: 104 RSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNS---------ISWVSLLSSYCQ 154
              ++ +  V N LI+  G+ G +  A   FD   E  +         I+  +L+ +   
Sbjct: 535 SKNVKPDRVVFNALISACGQSGAVDRA---FDVLAEMKAETHPIDPDHITVGALMKACAN 591

Query: 155 CGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFV 214
            G+     +++ +  +  +  +       + +C+  G+    + I+  + K  ++ D+  
Sbjct: 592 AGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVF 651

Query: 215 AMGLINLYAKCEKLDLASRVFSNIQL-------PDLTAWSALIGGYAQLGKACEAIDLFV 267
              L+++      LD A   F  +Q            ++S+L+G  +      +A++L+ 
Sbjct: 652 FSALVDVAGHAGDLDKA---FEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYE 708

Query: 268 KMFSSGLMPSEVTFSYVLGAFADVKE 293
            + S  L P+  T + ++ A  +  +
Sbjct: 709 DIKSIKLRPTVSTMNALITALCEGNQ 734

Length = 1060

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

 Score = 41.2 bits (98), Expect = 2e-05
 Identities = 13/34 (38%), Positives = 21/34 (61%)

Query: 4  SGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMP 37
           G  P+V+TYN L+    +  R+++A +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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 47.2 bits (112), Expect = 3e-05
 Identities = 55/253 (21%), Positives = 111/253 (43%), Gaps = 18/253 (7%)

Query: 241 PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSG--LMPSEVTFSYVLGAFADVKETIGGR 298
           PD   ++ALI    Q G    A D+  +M +    + P  +T   ++ A A+  +    +
Sbjct: 540 PDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAK 599

Query: 299 QLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDV----VSWNALI--A 352
           +++ +I +        V    ++  S+    + +L  +D+M +  V    V ++AL+  A
Sbjct: 600 EVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVA 659

Query: 353 GHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGK--QTHCCIVKPGF 410
           GH  +    +A E+L+D   +G      +YS+++   S+  A  W K  + +  I     
Sbjct: 660 GH--AGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSN--AKNWKKALELYEDIKSIKL 715

Query: 411 DSNVVIGSALVDMYAKCGRLNDARKVFDHLSS----KNLVSWNTMLVGYAQHGLGREALE 466
              V   +AL+    +  +L  A +V   +       N ++++ +LV   +       L+
Sbjct: 716 RPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLD 775

Query: 467 IYSMMQENKIKPN 479
           + S  +E+ IKPN
Sbjct: 776 LLSQAKEDGIKPN 788

Length = 1060

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

 Score = 41.3 bits (98), Expect = 3e-05
 Identities = 13/35 (37%), Positives = 23/35 (65%)

Query: 446 VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND 480
           V++NT++ G  + G   EALE++  M+E  I+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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 46.8 bits (111), Expect = 4e-05
 Identities = 56/258 (21%), Positives = 109/258 (42%), Gaps = 31/258 (12%)

Query: 377 PNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKV 436
           P L T++ ++++ +    I+   +    + + G  ++  + + L+   AK G+++   +V
Sbjct: 435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEV 494

Query: 437 FDHLSSK----NLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVH 492
           F  + +     N+ ++  ++ G A+ G   +A   Y +M+   +KP+   F  ++SAC  
Sbjct: 495 FHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQ 554

Query: 493 IGLVEEGWHYFNSMIRD-HGISPRMDHIASVVHLFAC--RGQTRRAYEF--------IKS 541
            G V+  +     M  + H I P  DHI     + AC   GQ  RA E         IK 
Sbjct: 555 SGAVDRAFDVLAEMKAETHPIDP--DHITVGALMKACANAGQVDRAKEVYQMIHEYNIKG 612

Query: 542 SPIEPNKVVWRCLLSG-----CKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEAN 596
           +P      V  C   G        + D+       +K +  D    SA   L +V   A 
Sbjct: 613 TPEVYTIAVNSCSQKGDWDFALSIYDDM------KKKGVKPDEVFFSA---LVDVAGHAG 663

Query: 597 MWDETAKVRKIMKEKSLK 614
             D+  ++ +  +++ +K
Sbjct: 664 DLDKAFEILQDARKQGIK 681

Length = 1060

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

 Score = 40.9 bits (97), Expect = 5e-05
 Identities = 15/40 (37%), Positives = 24/40 (60%)

Query: 40 NVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTY 79
          +V++++ LI G+ + G  E AL  F  M    ++PN YTY
Sbjct: 2  DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTY 41

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 = 40.1 bits (95), Expect = 5e-05
 Identities = 11/31 (35%), Positives = 21/31 (67%)

Query: 446 VSWNTMLVGYAQHGLGREALEIYSMMQENKI 476
           V++N+++ GY + G   EALE++  M+E  +
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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 45.6 bits (108), Expect = 8e-05
 Identities = 63/300 (21%), Positives = 120/300 (40%), Gaps = 47/300 (15%)

Query: 1   MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNV----ISWSALISGFSQIGM 56
           M+ +G   NV T+  L+    +  ++  A   +  M  +NV    + ++ALIS   Q G 
Sbjct: 498 MVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGA 557

Query: 57  PEVALNYFRLMVCCV--LEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVS 114
            + A +    M      ++P++ T    + ACA+ G     KE++  ++   ++    V 
Sbjct: 558 VDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVY 617

Query: 115 NCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGL----KIFLLSRK 170
              +N   + G    A  ++D   ++         S+      H   L    +I   +RK
Sbjct: 618 TIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARK 677

Query: 171 SGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDL 230
            G+ +   S +S++GAC+   N K  +++          ++   ++ L            
Sbjct: 678 QGIKLGTVSYSSLMGACSNAKNWKKALEL----------YEDIKSIKL------------ 715

Query: 231 ASRVFSNIQLPDLTAWSALIGGYA---QLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGA 287
                     P ++  +ALI       QL KA E +    +M   GL P+ +T+S +L A
Sbjct: 716 ---------RPTVSTMNALITALCEGNQLPKALEVLS---EMKRLGLCPNTITYSILLVA 763

Length = 1060

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

 Score = 43.3 bits (102), Expect = 5e-04
 Identities = 86/385 (22%), Positives = 153/385 (39%), Gaps = 69/385 (17%)

Query: 218 LINLYAKCEKLDLASRVFSNIQL----PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSG 273
           LI+  AK  K+D    VF  +       ++  + ALI G A+ G+  +A   +  M S  
Sbjct: 478 LISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKN 537

Query: 274 LMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESL 333
           + P  V F+                   +LI   G S     A  VL      E+  E+ 
Sbjct: 538 VKPDRVVFN-------------------ALISACGQSGAVDRAFDVL-----AEMKAET- 572

Query: 334 KTFDEMDEHDVVSWNALIAGHLASCHYGE---AIELLKDMLFEGH---CPNLYTYSNILN 387
              D     D ++  AL+    A  + G+   A E+ + M+ E +    P +YT +  +N
Sbjct: 573 HPIDP----DHITVGALMK---ACANAGQVDRAKEVYQ-MIHEYNIKGTPEVYTIA--VN 622

Query: 388 ISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNL-- 445
             S     ++    +  + K G   + V  SALVD+    G L+ A ++      + +  
Sbjct: 623 SCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL 682

Query: 446 --VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYF 503
             VS+++++   +     ++ALE+Y  ++  K++P  +T   +++A      + +     
Sbjct: 683 GTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVL 742

Query: 504 NSMIRDHGISPRMDHIASVVHLFACRGQTRRA--------YEFIKSSPIEPNKVVWRCLL 555
           + M +  G+ P    I   + L A     R+             K   I+PN V+ RC+ 
Sbjct: 743 SEM-KRLGLCPNT--ITYSILLVASE---RKDDADVGLDLLSQAKEDGIKPNLVMCRCIT 796

Query: 556 SGCKT--HKDLVLGRYAAEKILSTD 578
             C     K   LG    E ++S D
Sbjct: 797 GLCLRRFEKACALG----EPVVSFD 817

Length = 1060

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

 Score = 37.4 bits (88), Expect = 5e-04
 Identities = 13/34 (38%), Positives = 19/34 (55%)

Query: 345 VSWNALIAGHLASCHYGEAIELLKDMLFEGHCPN 378
           V++N LI G   +    EA+EL K+M   G  P+
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	672
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.97
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.97
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.96
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.95
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.9
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.86
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.86
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.86
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.83
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.83
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.83
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.83
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.82
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.81
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.8
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.79
PRK14574	822	hmsH outer membrane protein; Provisional	99.79
PRK14574	822	hmsH outer membrane protein; Provisional	99.77
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.76
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.75
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.75
KOG2076	895	consensus RNA polymerase III transcription factor	99.74
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.74
KOG2076	895	consensus RNA polymerase III transcription factor	99.73
KOG2003	840	consensus TPR repeat-containing protein [General f	99.7
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.69
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.69
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.61
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.57
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.56
KOG2003	840	consensus TPR repeat-containing protein [General f	99.55
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.55
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.54
KOG1126	638	consensus DNA-binding cell division cycle control	99.54
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.54
KOG1126	638	consensus DNA-binding cell division cycle control	99.53
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.52
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.51
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.51
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.47
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.45
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.42
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.4
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.39
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.39
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.38
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.36
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.33
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.32
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.31
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.3
PF13041	50	PPR_2: PPR repeat family	99.29
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.28
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.28
PF13041	50	PPR_2: PPR repeat family	99.28
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.26
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.26
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.25
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.25
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.22
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.22
PRK11189	296	lipoprotein NlpI; Provisional	99.19
KOG1129	478	consensus TPR repeat-containing protein [General f	99.17
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.16
PRK12370	553	invasion protein regulator; Provisional	99.12
PRK12370	553	invasion protein regulator; Provisional	99.1
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.09
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.07
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.06
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.06
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.05
PRK11189	296	lipoprotein NlpI; Provisional	99.04
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.04
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.0
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.0
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.0
KOG1125	579	consensus TPR repeat-containing protein [General f	98.97
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.91
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.91
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.9
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.9
KOG1129	478	consensus TPR repeat-containing protein [General f	98.9
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.86
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.85
PF12854	34	PPR_1: PPR repeat	98.84
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.83
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.82
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.82
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.82
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.82
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.76
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.76
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.76
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.75
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.75
PRK15359	144	type III secretion system chaperone protein SscB;	98.74
PRK04841	903	transcriptional regulator MalT; Provisional	98.73
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.69
PRK15359	144	type III secretion system chaperone protein SscB;	98.68
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.67
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.64
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.6
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.6
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.6
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.59
PLN02789	320	farnesyltranstransferase	98.58
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.53
PF12854	34	PPR_1: PPR repeat	98.53
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.53
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.46
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.42
PLN02789	320	farnesyltranstransferase	98.4
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.38
PRK04841	903	transcriptional regulator MalT; Provisional	98.36
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.36
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.35
KOG1125	579	consensus TPR repeat-containing protein [General f	98.33
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.32
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.31
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.31
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.3
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.26
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.2
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.2
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.19
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.18
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.17
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.13
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.12
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.12
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.1
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.09
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.08
COG3898	531	Uncharacterized membrane-bound protein [Function u	98.08
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.08
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.06
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.05
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.01
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.0
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.99
KOG0553	304	consensus TPR repeat-containing protein [General f	97.98
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.93
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.93
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.92
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.9
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.9
KOG0553	304	consensus TPR repeat-containing protein [General f	97.89
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.88
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.83
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.82
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.81
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.79
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.78
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.77
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.74
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.74
PRK15331	165	chaperone protein SicA; Provisional	97.73
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.73
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.71
PF13371	73	TPR_9: Tetratricopeptide repeat	97.71
PF13431	34	TPR_17: Tetratricopeptide repeat	97.7
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.7
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.65
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.62
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.62
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.57
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.55
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.51
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.51
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.45
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.43
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.41
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.34
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.34
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.34
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.33
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.32
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.3
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.29
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.28
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.28
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.24
PF12688	120	TPR_5: Tetratrico peptide repeat	97.24
PF13428	44	TPR_14: Tetratricopeptide repeat	97.23
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.22
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.19
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.15
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.15
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.13
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.13
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.12
PF12688	120	TPR_5: Tetratrico peptide repeat	97.11
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.1
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.06
PRK10803	263	tol-pal system protein YbgF; Provisional	97.02
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.01
PRK10803	263	tol-pal system protein YbgF; Provisional	97.0
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.99
PF13371	73	TPR_9: Tetratricopeptide repeat	96.92
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.86
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.79
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.77
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.77
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.7
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.67
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.67
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.61
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.59
PRK11906	458	transcriptional regulator; Provisional	96.49
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.47
PF14432	116	DYW_deaminase: DYW family of nucleic acid deaminas	96.41
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.33
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.32
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.27
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.24
KOG4555	175	consensus TPR repeat-containing protein [Function	96.15
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.13
PRK11906	458	transcriptional regulator; Provisional	96.06
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.06
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.06
PF13512	142	TPR_18: Tetratricopeptide repeat	96.04
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.03
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.01
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.97
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.89
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.82
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.8
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.6
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	95.55
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.51
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.5
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.46
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.44
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.43
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.39
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.35
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.32
KOG4555	175	consensus TPR repeat-containing protein [Function	95.11
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.08
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.01
KOG3941	406	consensus Intermediate in Toll signal transduction	94.97
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.93
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	94.89
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.83
KOG4234	271	consensus TPR repeat-containing protein [General f	94.76
PRK15331	165	chaperone protein SicA; Provisional	94.74
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.69
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.58
KOG1585	308	consensus Protein required for fusion of vesicles	94.49
PF13512	142	TPR_18: Tetratricopeptide repeat	94.44
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.35
COG4105	254	ComL DNA uptake lipoprotein [General function pred	94.28
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.28
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.2
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	94.09
KOG1258	577	consensus mRNA processing protein [RNA processing	94.07
PRK11619	644	lytic murein transglycosylase; Provisional	94.04
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.88
KOG4648	536	consensus Uncharacterized conserved protein, conta	93.87
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.66
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.48
KOG3941	406	consensus Intermediate in Toll signal transduction	93.48
KOG2610	491	consensus Uncharacterized conserved protein [Funct	93.35
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	93.24
PF13428	44	TPR_14: Tetratricopeptide repeat	93.18
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.16
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	92.92
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.91
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	92.86
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	92.46
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.01
KOG4570	418	consensus Uncharacterized conserved protein [Funct	92.0
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	91.97
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	91.03
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	90.91
KOG1585	308	consensus Protein required for fusion of vesicles	90.73
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	90.71
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	90.61
COG3629	280	DnrI DNA-binding transcriptional activator of the	90.45
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	90.23
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	90.05
PRK09687	280	putative lyase; Provisional	89.98
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	89.94
PRK09687	280	putative lyase; Provisional	89.93
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	89.86
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	89.73
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	89.62
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	89.47
COG3629	280	DnrI DNA-binding transcriptional activator of the	89.32
KOG1258	577	consensus mRNA processing protein [RNA processing	89.29
PRK12798	421	chemotaxis protein; Reviewed	89.24
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	89.15
PRK10941	269	hypothetical protein; Provisional	89.08
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	89.03
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	88.74
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	88.51
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	88.46
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	88.27
KOG4570	418	consensus Uncharacterized conserved protein [Funct	87.9
PF13431	34	TPR_17: Tetratricopeptide repeat	87.82
KOG4648	536	consensus Uncharacterized conserved protein, conta	87.82
KOG1586	288	consensus Protein required for fusion of vesicles	87.65
COG4455	273	ImpE Protein of avirulence locus involved in tempe	87.3
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	87.06
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	86.96
COG3947	361	Response regulator containing CheY-like receiver a	86.93
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	86.7
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	86.31
KOG3364	149	consensus Membrane protein involved in organellar	85.9
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	85.78
PHA02875	413	ankyrin repeat protein; Provisional	85.6
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	85.53
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	85.45
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	85.4
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	85.06
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	84.85
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	84.73
KOG1586	288	consensus Protein required for fusion of vesicles	84.66
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	84.54
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	84.44
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	84.16
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	83.3
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	83.21
COG4455	273	ImpE Protein of avirulence locus involved in tempe	83.02
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	82.43
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	82.39
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	82.37
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	82.3
PF13762	145	MNE1: Mitochondrial splicing apparatus component	82.09
KOG1941	518	consensus Acetylcholine receptor-associated protei	82.01
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	81.84
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	81.73
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	81.66
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	81.52
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	81.17
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	81.11
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	80.97
smart00386	33	HAT HAT (Half-A-TPR) repeats. Present in several R	80.28

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=9.4e-110  Score=916.92  Aligned_cols=668  Identities=34%  Similarity=0.626  Sum_probs=658.8

Q ss_pred             cccCCCCCcchhhHHHHHHhcCCChhHHHHHhccCCCCCcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHH
Q 005881            2 ITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVG   81 (672)
Q Consensus         2 ~~~g~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~   81 (672)
                      .+.|..+++.++|+|+.+|++.|+++.|.++|++|++||+++||.+|.+|++.|++++|+++|++|...|+.||..||++
T Consensus       113 ~~~~~~~~~~~~n~li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~  192 (857)
T PLN03077        113 LSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPC  192 (857)
T ss_pred             HHcCCCCCchHHHHHHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHH
Confidence            45678899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCCCCcccHHHHHHHHHhcCChHHH
Q 005881           82 AVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHG  161 (672)
Q Consensus        82 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  161 (672)
                      ++++|+..+++..+.+++..+.+.|+.||..++++||.+|+++|++++|.++|++|+.+|.++||++|.+|++.|++++|
T Consensus       193 ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eA  272 (857)
T PLN03077        193 VLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEG  272 (857)
T ss_pred             HHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCC
Q 005881          162 LKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLP  241 (672)
Q Consensus       162 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  241 (672)
                      +++|.+|...|+.||..||+.+|.+|++.|+++.+.+++..+.+.|+.||..+|++|+.+|+++|++++|.++|++|..|
T Consensus       273 l~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~  352 (857)
T PLN03077        273 LELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK  352 (857)
T ss_pred             HHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHH
Q 005881          242 DLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLD  321 (672)
Q Consensus       242 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  321 (672)
                      |..+||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.+.++++.+.+.|+.|+..++|+|++
T Consensus       353 d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~  432 (857)
T PLN03077        353 DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIE  432 (857)
T ss_pred             CeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHH
Q 005881          322 FYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQT  401 (672)
Q Consensus       322 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~  401 (672)
                      +|+++|++++|.++|++|.++|.++||++|.+|++.|+.++|+++|++|.. ++.||..||+.++.+|++.|+++.+.++
T Consensus       433 ~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i  511 (857)
T PLN03077        433 MYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEI  511 (857)
T ss_pred             HHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHH
Confidence            999999999999999999999999999999999999999999999999986 6999999999999999999999999999


Q ss_pred             HHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH
Q 005881          402 HCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDN  481 (672)
Q Consensus       402 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  481 (672)
                      +..+.+.|+.++..++|+|+++|+++|++++|.++|+.+ .+|..+||+||.+|+++|+.++|+++|++|.+.|+.||..
T Consensus       512 ~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~  590 (857)
T PLN03077        512 HAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEV  590 (857)
T ss_pred             HHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcc
Confidence            999999999999999999999999999999999999999 9999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 005881          482 TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTH  561 (672)
Q Consensus       482 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~  561 (672)
                      ||+.++.+|++.|++++|.++|+.|.+++++.|+..+|++|+++|+++|++++|.+++++|+++||..+|++|+.+|..+
T Consensus       591 T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~  670 (857)
T PLN03077        591 TFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIH  670 (857)
T ss_pred             cHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Confidence            99999999999999999999999998889999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCCccCCceeEEEeCCEEEEEEeccccCCCh
Q 005881          562 KDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQG  641 (672)
Q Consensus       562 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  641 (672)
                      |+.+.|+.+.+++++++|+++..|..|+++|+..|+|++|.++++.|+++|++|+||+|||++++++|.|++||..||+.
T Consensus       671 ~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d~~h~~~  750 (857)
T PLN03077        671 RHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQI  750 (857)
T ss_pred             CChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEECCEEEEEecCCCCCcch
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCccCCCCCCCCCC
Q 005881          642 IDLHEVMNQLSVHLFDGGYVPDPIYSSHFE  671 (672)
Q Consensus       642 ~~~~~~l~~~~~~~~~~g~~~~~~~~~~~~  671 (672)
                      .+||..|+.+..+|++.||+|||..++|+.
T Consensus       751 ~~i~~~l~~l~~~~~~~g~~~~~~~~~~~~  780 (857)
T PLN03077        751 KEINTVLEGFYEKMKASGLAGSESSSMDEI  780 (857)
T ss_pred             HHHHHHHHHHHHHHHhCCcCCCcchhcccc
Confidence            999999999999999999999999988653

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

Probab=100.00  E-value=1.7e-86  Score=714.68  Aligned_cols=533  Identities=32%  Similarity=0.568  Sum_probs=525.4

Q ss_pred             CCcccHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHH
Q 005881          140 RNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSG-VAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGL  218 (672)
Q Consensus       140 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  218 (672)
                      ++..+|+.+|.++.+.|++++|+++|+.|...+ ..||..||+.++.+|++.++++.+.+++..+.+.|+.||..+++.|
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            477899999999999999999999999999864 7899999999999999999999999999999999999999999999


Q ss_pred             HHHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHH
Q 005881          219 INLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGR  298 (672)
Q Consensus       219 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~  298 (672)
                      +.+|+++|+++.|.++|++|++||..+||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|..+.+.
T Consensus       165 i~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~  244 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQ  244 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC
Q 005881          299 QLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPN  378 (672)
Q Consensus       299 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~  378 (672)
                      +++..+.+.|+.++..++|+|+++|+++|++++|.++|++|.++|+++||++|.+|++.|++++|+++|++|.+.|+.||
T Consensus       245 ~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd  324 (697)
T PLN03081        245 QLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSID  324 (697)
T ss_pred             HHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhc
Q 005881          379 LYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQH  458 (672)
Q Consensus       379 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~  458 (672)
                      ..||+.++.+|++.|+++.|.+++..+.+.|+.|+..++++|+++|+++|++++|.++|++|.++|+.+||+||.+|+++
T Consensus       325 ~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~  404 (697)
T PLN03081        325 QFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNH  404 (697)
T ss_pred             HHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHH
Q 005881          459 GLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEF  538 (672)
Q Consensus       459 g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  538 (672)
                      |+.++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|.+++++.|+..+|++|+++|+++|++++|.++
T Consensus       405 G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~  484 (697)
T PLN03081        405 GRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAM  484 (697)
T ss_pred             CCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999998889999999999999999999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCCccCCc
Q 005881          539 IKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTG  618 (672)
Q Consensus       539 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  618 (672)
                      +++++.+|+..+|++++.+|..+|+.+.|+.+++++++++|++...|..|+++|++.|+|++|.++++.|+++|+++.||
T Consensus       485 ~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g  564 (697)
T PLN03081        485 IRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPA  564 (697)
T ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeEEEeCCEEEEEEeccccCCChHHHHHHHHHHHHHHHhCCccCCCCCCCCCCC
Q 005881          619 CSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVPDPIYSSHFEE  672 (672)
Q Consensus       619 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~g~~~~~~~~~~~~~  672 (672)
                      +||+++++.+|.|++||..||+..++|+.|.++..+|++.||+||+.+++||++
T Consensus       565 ~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~~~~~~~~~  618 (697)
T PLN03081        565 CTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENELLPDVD  618 (697)
T ss_pred             eeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCCcchhhcccc
Confidence            999999999999999999999999999999999999999999999999999875

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.4e-82  Score=701.26  Aligned_cols=573  Identities=25%  Similarity=0.404  Sum_probs=551.7

Q ss_pred             CCcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHH
Q 005881           39 RNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLI  118 (672)
Q Consensus        39 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  118 (672)
                      ++..++|.++.+|++.|++++|+.+|+.|.+.|++|+..+|..++++|.+.+.+..+.+++..+.+.|..++..++|+|+
T Consensus        49 ~~~~~~n~~i~~l~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~li  128 (857)
T PLN03077         49 SSTHDSNSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAML  128 (857)
T ss_pred             cchhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHHHH
Confidence            67788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCChHHHHHHhhccCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHH
Q 005881          119 NMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQ  198 (672)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~  198 (672)
                      .+|+++|+++.|.++|++|+++|+.+||++|.+|++.|++++|+++|++|...|+.||..||+.+|++|+..+++..+.+
T Consensus       129 ~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~  208 (857)
T PLN03077        129 SMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGRE  208 (857)
T ss_pred             HHHHhCCChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh
Q 005881          199 IHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSE  278 (672)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  278 (672)
                      ++..+.+.|+.||..++++|+.+|+++|+++.|.++|++|+++|..+||++|.+|++.|++++|+++|++|...|+.||.
T Consensus       209 ~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~  288 (857)
T PLN03077        209 VHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDL  288 (857)
T ss_pred             HHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcC
Q 005881          279 VTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASC  358 (672)
Q Consensus       279 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~  358 (672)
                      .||+.++.+|++.|+.+.+.+++..+.+.|+.||..+||+|+.+|+++|++++|.++|++|..||.++||++|.+|++.|
T Consensus       289 ~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g  368 (857)
T PLN03077        289 MTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNG  368 (857)
T ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHh
Q 005881          359 HYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFD  438 (672)
Q Consensus       359 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  438 (672)
                      ++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.|+.|+..++++|+++|+++|++++|.++|+
T Consensus       369 ~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~  448 (857)
T PLN03077        369 LPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFH  448 (857)
T ss_pred             CHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHH
Q 005881          439 HLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDH  518 (672)
Q Consensus       439 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~  518 (672)
                      +|.++|+++||++|.+|++.|+.++|+++|++|.. +++||..||..++.+|++.|+++.+.+++..+. +.|+.++..+
T Consensus       449 ~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~-~~g~~~~~~~  526 (857)
T PLN03077        449 NIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVL-RTGIGFDGFL  526 (857)
T ss_pred             hCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHH-HhCCCcccee
Confidence            99999999999999999999999999999999986 599999999999999999999999999999987 5699999999


Q ss_pred             HHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhc--CCCCCCchHHHHHHHHHhcC
Q 005881          519 IASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILS--TDPEDTSAHIMLSNVYAEAN  596 (672)
Q Consensus       519 ~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~p~~~~~~~~l~~~~~~~g  596 (672)
                      +++|+++|+++|++++|.++|+.+  .||..+|++++.+|.++|+.++|..+|+++.+  ..| |..+|..+...|.+.|
T Consensus       527 ~naLi~~y~k~G~~~~A~~~f~~~--~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~P-d~~T~~~ll~a~~~~g  603 (857)
T PLN03077        527 PNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNP-DEVTFISLLCACSRSG  603 (857)
T ss_pred             chHHHHHHHHcCCHHHHHHHHHhc--CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CcccHHHHHHHHhhcC
Confidence            999999999999999999999887  78899999999999999999999999998876  456 6777888888899999


Q ss_pred             ChHHHHHHHHHHh-hCCCccC
Q 005881          597 MWDETAKVRKIMK-EKSLKKD  616 (672)
Q Consensus       597 ~~~~a~~~~~~~~-~~~~~~~  616 (672)
                      ++++|.++|+.|. +.++.++
T Consensus       604 ~v~ea~~~f~~M~~~~gi~P~  624 (857)
T PLN03077        604 MVTQGLEYFHSMEEKYSITPN  624 (857)
T ss_pred             hHHHHHHHHHHHHHHhCCCCc
Confidence            9999999999888 5566554

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=4.6e-70  Score=587.76  Aligned_cols=528  Identities=18%  Similarity=0.240  Sum_probs=477.7

Q ss_pred             CCCcchhhHHHHHHhcCCChhHHHHHhccCCCCCc-----chHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHH
Q 005881            7 HPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNV-----ISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVG   81 (672)
Q Consensus         7 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~   81 (672)
                      .++...|..++..+++.|++++|.++|++|++++.     ..++.++.+|.+.|.+++|+.+|+.|..    ||..+|+.
T Consensus       367 ~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn~  442 (1060)
T PLN03218        367 KRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNM  442 (1060)
T ss_pred             CCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHHH
Confidence            46677899999999999999999999999987554     4566778889999999999999999974    99999999


Q ss_pred             HHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccC----CCCcccHHHHHHHHHhcCC
Q 005881           82 AVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASL----ERNSISWVSLLSSYCQCGE  157 (672)
Q Consensus        82 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~g~  157 (672)
                      ++.+|++.|+++.|.++|+.|.+.|+.||..+|+.||.+|+++|++++|.++|++|.    .||..+|+.||.+|++.|+
T Consensus       443 LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~  522 (1060)
T PLN03218        443 LMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQ  522 (1060)
T ss_pred             HHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcC
Confidence            999999999999999999999999999999999999999999999999999999997    4799999999999999999


Q ss_pred             hHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHH--hcCCCcHHHHHHHHHHhhcCCChhHHHHHH
Q 005881          158 HVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFK--CALEFDKFVAMGLINLYAKCEKLDLASRVF  235 (672)
Q Consensus       158 ~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  235 (672)
                      +++|+++|+.|...|+.||..||+.+|.+|++.|+++.|.+++++|.+  .|+.||..+|+.||.+|++.|++++|.++|
T Consensus       523 ~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf  602 (1060)
T PLN03218        523 VAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVY  602 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            999999999999999999999999999999999999999999999986  578999999999999999999999999999


Q ss_pred             hcCCC----CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCC
Q 005881          236 SNIQL----PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSS  311 (672)
Q Consensus       236 ~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  311 (672)
                      +.|.+    |+..+||.+|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++++.|.+.|+.|
T Consensus       603 ~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~p  682 (1060)
T PLN03218        603 QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL  682 (1060)
T ss_pred             HHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            99974    67799999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHHccCChHHHHHHHhhCC----CCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHH
Q 005881          312 FTFVANTVLDFYSKCELLEESLKTFDEMD----EHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILN  387 (672)
Q Consensus       312 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  387 (672)
                      +..+|++||.+|++.|++++|.++|++|.    .||..+||+||.+|++.|++++|+++|++|...|+.||..||+.++.
T Consensus       683 d~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~  762 (1060)
T PLN03218        683 GTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLV  762 (1060)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            99999999999999999999999999995    49999999999999999999999999999999999999999999999


Q ss_pred             HHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHH
Q 005881          388 ISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEI  467 (672)
Q Consensus       388 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  467 (672)
                      +|++.|+++.|.+++..|.+.|+.|+..+|++++.++.+  ++++|.++.+.+..     |+. .......+..++|+.+
T Consensus       763 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        763 ASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLR--RFEKACALGEPVVS-----FDS-GRPQIENKWTSWALMV  834 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH--HHHHHhhhhhhhhh-----hhc-cccccccchHHHHHHH
Confidence            999999999999999999999999999999999976432  35555544333221     110 0111112234579999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC---CC
Q 005881          468 YSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS---PI  544 (672)
Q Consensus       468 ~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~  544 (672)
                      |++|++.|+.||..||..++.+++..+..+.+..+++.|. ..+..|+..+|+++++++++.  .++|..++++|   ++
T Consensus       835 f~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~-~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~Gi  911 (1060)
T PLN03218        835 YRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLG-ISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLGV  911 (1060)
T ss_pred             HHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhc-cCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcCC
Confidence            9999999999999999999988888899998888888775 446777889999999998432  47899999864   67


Q ss_pred             CCCHH
Q 005881          545 EPNKV  549 (672)
Q Consensus       545 ~p~~~  549 (672)
                      .|+..
T Consensus       912 ~p~~~  916 (1060)
T PLN03218        912 VPSVS  916 (1060)
T ss_pred             CCCcc
Confidence            77654

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

Probab=100.00  E-value=9.4e-70  Score=584.96  Aligned_cols=473  Identities=24%  Similarity=0.372  Sum_probs=459.0

Q ss_pred             CCcchHHHHHHHHHcCCCchhHHHHHHHhHhCC-CCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHH
Q 005881           39 RNVISWSALISGFSQIGMPEVALNYFRLMVCCV-LEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCL  117 (672)
Q Consensus        39 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  117 (672)
                      ++..+|+.+|.++.+.|++++|+++|+.|...+ +.||..+|+.++.+|++.++++.+.+++..|.+.|+.||..+|+.|
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            467799999999999999999999999998764 7899999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCChHHHHHHhhccCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHH
Q 005881          118 INMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGM  197 (672)
Q Consensus       118 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~  197 (672)
                      +++|+++|+++.|.++|++|++||.++||++|.+|++.|++++|+++|++|.+.|+.|+..||..++.+|+..|..+.+.
T Consensus       165 i~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~  244 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQ  244 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC
Q 005881          198 QIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPS  277 (672)
Q Consensus       198 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  277 (672)
                      +++..+.+.|+.+|..++++|+++|+++|++++|.++|+.|+++|+.+||.+|.+|++.|++++|+++|++|.+.|+.||
T Consensus       245 ~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd  324 (697)
T PLN03081        245 QLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSID  324 (697)
T ss_pred             HHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhc
Q 005881          278 EVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLAS  357 (672)
Q Consensus       278 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~  357 (672)
                      ..||+.++.+|++.|+++.|.+++..|.+.|+.|+..++++|+++|+++|++++|.++|++|.++|+.+||+||.+|++.
T Consensus       325 ~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~  404 (697)
T PLN03081        325 QFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNH  404 (697)
T ss_pred             HHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHh-cCCCCcccHHHHHHHHHHhcCCHHHHHHH
Q 005881          358 CHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVK-PGFDSNVVIGSALVDMYAKCGRLNDARKV  436 (672)
Q Consensus       358 ~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  436 (672)
                      |+.++|+++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+ .|+.|+..+|+.++++|++.|++++|.++
T Consensus       405 G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~  484 (697)
T PLN03081        405 GRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAM  484 (697)
T ss_pred             CCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999986 69999999999999999999999999999


Q ss_pred             HhhCC-CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC
Q 005881          437 FDHLS-SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP  514 (672)
Q Consensus       437 ~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p  514 (672)
                      ++++. +|+..+|++|+.+|..+|+++.|..+++++.+  +.|+ ..+|..++..|++.|++++|.++++.|. ..|+..
T Consensus       485 ~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~--~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~-~~g~~k  561 (697)
T PLN03081        485 IRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYG--MGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLK-RKGLSM  561 (697)
T ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhC--CCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHH-HcCCcc
Confidence            99997 79999999999999999999999999999976  5665 5699999999999999999999999997 447653

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=8.3e-66  Score=554.86  Aligned_cols=531  Identities=16%  Similarity=0.175  Sum_probs=376.9

Q ss_pred             CCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCC-CCChhHHHHHHHHHHhcCChHHHHHHhhccCCCCcccHHHHHH
Q 005881           72 LEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGL-ELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLS  150 (672)
Q Consensus        72 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~  150 (672)
                      ..++...|..++..|++.|++++|.++|++|.+.|+ .++..+++.++..|.+.|..++|.++|+.|..||..+|+.++.
T Consensus       366 ~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~  445 (1060)
T PLN03218        366 GKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMS  445 (1060)
T ss_pred             CCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            346677788888888899999999999999998885 5677788888899999999999999999998889999999999


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhH
Q 005881          151 SYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDL  230 (672)
Q Consensus       151 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  230 (672)
                      +|++.|+++.|.++|+.|.+.|+.||..+|+.+|.+|++.|+++.|.+++++|.+.|+.||..+|+.||.+|++.|++++
T Consensus       446 a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~ee  525 (1060)
T PLN03218        446 VCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAK  525 (1060)
T ss_pred             HHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHH
Confidence            99999999999999999999999999999999999999999999999999988888888877777777777777777777


Q ss_pred             HHHHHhcCC----CCCcchHHHHHHHHHhcCChhHHHHHHHHHHH--CCCCCChhhHHHHHHHhhccCCchhHHHHHHHH
Q 005881          231 ASRVFSNIQ----LPDLTAWSALIGGYAQLGKACEAIDLFVKMFS--SGLMPSEVTFSYVLGAFADVKETIGGRQLHSLI  304 (672)
Q Consensus       231 a~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~  304 (672)
                      |.++|+.|.    .||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..||+.++.+|++.|++++|.++|+.|
T Consensus       526 Al~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M  605 (1060)
T PLN03218        526 AFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMI  605 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            776666664    36666666666666666666666666666654  456666666666666666666666666666666


Q ss_pred             HHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCC----CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChH
Q 005881          305 IKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDE----HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLY  380 (672)
Q Consensus       305 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~  380 (672)
                      .+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+    ||..+|+++|.+|++.|++++|.++|++|.+.|+.||..
T Consensus       606 ~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~  685 (1060)
T PLN03218        606 HEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTV  685 (1060)
T ss_pred             HHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHH
Confidence            6666666666666666666666666666666666653    555666666666666666666666666666666666666


Q ss_pred             HHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCchhHHHHHHHHH
Q 005881          381 TYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS----SKNLVSWNTMLVGYA  456 (672)
Q Consensus       381 t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~  456 (672)
                      +|+.++.+|++.|++++|.++|+.|.+.|+.|+..+|++||.+|++.|++++|.++|++|.    .||..+|+.++.+|+
T Consensus       686 tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~  765 (1060)
T PLN03218        686 SYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASE  765 (1060)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            6666666666666666666666666666666666666666666666666666666666554    356666666666666


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHH
Q 005881          457 QHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAY  536 (672)
Q Consensus       457 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  536 (672)
                      +.|++++|.++|++|.+.|+.||..+|+.++..|.  +.++++..+.+.+. .+  .+        .......+..++|.
T Consensus       766 k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~--~~y~ka~~l~~~v~-~f--~~--------g~~~~~n~w~~~Al  832 (1060)
T PLN03218        766 RKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCL--RRFEKACALGEPVV-SF--DS--------GRPQIENKWTSWAL  832 (1060)
T ss_pred             HCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--HHHHHHhhhhhhhh-hh--hc--------cccccccchHHHHH
Confidence            66666666666666666666666666666654443  23444444433322 10  00        00011122346788


Q ss_pred             HHHHhC---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHh-cCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          537 EFIKSS---PIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKIL-STDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       537 ~~~~~~---~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                      .+|++|   ++.||..+|+.++..+...+..+.+...++.+. .-.+.+..+|..+++.+.+.  .++|..+++.|.+.|
T Consensus       833 ~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~G  910 (1060)
T PLN03218        833 MVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLG  910 (1060)
T ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcC
Confidence            898876   789999999999977777888888888887653 33445778888998876322  368999999999999


Q ss_pred             CccCC
Q 005881          613 LKKDT  617 (672)
Q Consensus       613 ~~~~~  617 (672)
                      +.+..
T Consensus       911 i~p~~  915 (1060)
T PLN03218        911 VVPSV  915 (1060)
T ss_pred             CCCCc
Confidence            97664

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

Probab=100.00  E-value=1.8e-34  Score=327.86  Aligned_cols=579  Identities=12%  Similarity=0.005  Sum_probs=339.7

Q ss_pred             HHhcCCChhHHHHHhccCCC---CCcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhH
Q 005881           19 MYVKFSRINDAQKLFDEMPE---RNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSG   95 (672)
Q Consensus        19 ~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a   95 (672)
                      .+.+.|++++|...|+++.+   .+...+..+...+.+.|++++|...++.+.... +.+...+..+...+...|++++|
T Consensus       304 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A  382 (899)
T TIGR02917       304 SEYQLGNLEQAYQYLNQILKYAPNSHQARRLLASIQLRLGRVDEAIATLSPALGLD-PDDPAALSLLGEAYLALGDFEKA  382 (899)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            34444555555555544432   123334444555555555555555555554432 23344455555555555555555


Q ss_pred             HHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCCC---CcccHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005881           96 KEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLER---NSISWVSLLSSYCQCGEHVHGLKIFLLSRKSG  172 (672)
Q Consensus        96 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  172 (672)
                      .+.++.+.+... .+...+..+...+...|++++|.+.|+.....   +...+..++..+.+.|++++|+++++.+... 
T Consensus       383 ~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-  460 (899)
T TIGR02917       383 AEYLAKATELDP-ENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGRADLLLILSYLRSGQFDKALAAAKKLEKK-  460 (899)
T ss_pred             HHHHHHHHhcCC-CCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHh-
Confidence            555555554431 23444555555555555555555555544322   2233444555556666666666666665543 


Q ss_pred             CCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCC---CCcchHHHH
Q 005881          173 VAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQL---PDLTAWSAL  249 (672)
Q Consensus       173 ~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l  249 (672)
                      ..++..++..+...+...|+++.|.+.+..+.+... .+...+..+...+...|++++|.+.|+.+..   .+..++..+
T Consensus       461 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l  539 (899)
T TIGR02917       461 QPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEP-DFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILAL  539 (899)
T ss_pred             CCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHH
Confidence            233445566666666666666666666666655432 2344455566666666666666666665542   334455666


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCCh
Q 005881          250 IGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELL  329 (672)
Q Consensus       250 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  329 (672)
                      ...+.+.|+.++|...++++...+ +.+...+..+...+...|+++.|..+++.+.+.. +.+..++..+..+|.+.|++
T Consensus       540 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  617 (899)
T TIGR02917       540 AGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDL  617 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCH
Confidence            666666666666666666665543 2334445556666666666666666666665433 34455666666666666777


Q ss_pred             HHHHHHHhhCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHH
Q 005881          330 EESLKTFDEMDE---HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIV  406 (672)
Q Consensus       330 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~  406 (672)
                      ++|...|+.+.+   .+...+..+...+.+.|++++|...|+++.+.. +.+..++..+...+...|+++.|..+++.+.
T Consensus       618 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  696 (899)
T TIGR02917       618 NKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQ  696 (899)
T ss_pred             HHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            777666666543   234456666666666677777777766666541 2234556666666666677777777666666


Q ss_pred             hcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC--CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHH
Q 005881          407 KPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS--SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFI  484 (672)
Q Consensus       407 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  484 (672)
                      +.. +.+...+..+...+.+.|++++|.+.|+.+.  .|+..++..++..+...|++++|.+.++++.+.. +.+...+.
T Consensus       697 ~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~  774 (899)
T TIGR02917       697 KQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRT  774 (899)
T ss_pred             hhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence            554 3344555666666666777777777776654  3444556666666677777777777777666642 33445666


Q ss_pred             HHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC
Q 005881          485 GVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHK  562 (672)
Q Consensus       485 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g  562 (672)
                      .+...|...|+.++|...|+++.+.  .+++...+..++..+...|+ .+|++++++. ...| ++..+..+...+...|
T Consensus       775 ~la~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g  851 (899)
T TIGR02917       775 ALAELYLAQKDYDKAIKHYRTVVKK--APDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKG  851 (899)
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcC
Confidence            6666666677777777777766632  12345666666777777776 6676666542 2333 3445556666666777


Q ss_pred             CHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          563 DLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       563 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      ++++|...++++++.+|.++.++..++.+|.+.|++++|.+++++|.
T Consensus       852 ~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       852 EADRALPLLRKAVNIAPEAAAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             CHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            77777777777777777777777777777777777777777776664

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=3.8e-33  Score=317.00  Aligned_cols=518  Identities=13%  Similarity=0.069  Sum_probs=300.7

Q ss_pred             HHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCCC---CcccHHHHHHHHHhcCChHHH
Q 005881           85 ACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLER---NSISWVSLLSSYCQCGEHVHG  161 (672)
Q Consensus        85 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a  161 (672)
                      .+...|+++.|...+..+.+.. +.+...+..+...+.+.|++++|...++.+...   +...+..+...+.+.|++++|
T Consensus       304 ~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  382 (899)
T TIGR02917       304 SEYQLGNLEQAYQYLNQILKYA-PNSHQARRLLASIQLRLGRVDEAIATLSPALGLDPDDPAALSLLGEAYLALGDFEKA  382 (899)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            3444555555555555555543 223445555566666666666666666654432   344566666666666777777


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcC---------------------------------
Q 005881          162 LKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCAL---------------------------------  208 (672)
Q Consensus       162 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---------------------------------  208 (672)
                      .+.|+++.+.. ..+...+..+...+...|+++.|...+..+.+...                                 
T Consensus       383 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  461 (899)
T TIGR02917       383 AEYLAKATELD-PENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGRADLLLILSYLRSGQFDKALAAAKKLEKKQ  461 (899)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            77766665532 11233344444445555555555555555544332                                 


Q ss_pred             CCcHHHHHHHHHHhhcCCChhHHHHHHhcCCC---CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHH
Q 005881          209 EFDKFVAMGLINLYAKCEKLDLASRVFSNIQL---PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVL  285 (672)
Q Consensus       209 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll  285 (672)
                      +.+..++..+...|...|+.++|...|+++.+   .+...+..+...+...|++++|...++++...+ +.+..++..+.
T Consensus       462 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~  540 (899)
T TIGR02917       462 PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALA  540 (899)
T ss_pred             CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            22333444444444444444444444444321   122233344444444445555555554444432 12333444444


Q ss_pred             HHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCC---CCcccHHHHHHHHHhcCChhH
Q 005881          286 GAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDE---HDVVSWNALIAGHLASCHYGE  362 (672)
Q Consensus       286 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~  362 (672)
                      ..+.+.|+.+++...+..+.+.+ +.+...+..+...|.+.|++++|..+++.+.+   .+...|..+...+...|++++
T Consensus       541 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  619 (899)
T TIGR02917       541 GLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNK  619 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHH
Confidence            44445555555555555554433 22333444555555555555555555555542   234455566666666666666


Q ss_pred             HHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC
Q 005881          363 AIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSS  442 (672)
Q Consensus       363 A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  442 (672)
                      |+..|+++.+.. +.+...+..+...+...|++++|...++.+.+.. +.+...+..++..+...|++++|.++++.+.+
T Consensus       620 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  697 (899)
T TIGR02917       620 AVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQK  697 (899)
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            666666665432 1233445555555666666666666666655543 22345555666666666666666666666542


Q ss_pred             ---CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHH
Q 005881          443 ---KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHI  519 (672)
Q Consensus       443 ---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~  519 (672)
                         .+...+..+...+...|++++|.+.|+++...  .|+..++..+..++.+.|++++|.+.++.+.+.  .+.+...+
T Consensus       698 ~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~--~~~~~~~~  773 (899)
T TIGR02917       698 QHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLASGNTAEAVKTLEAWLKT--HPNDAVLR  773 (899)
T ss_pred             hCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHH
Confidence               34445666666777777777777777777764  355566666777777777777777777776642  23356777


Q ss_pred             HHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCC
Q 005881          520 ASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANM  597 (672)
Q Consensus       520 ~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  597 (672)
                      ..++..|...|++++|.+.|+++ ...| ++..+..+...+...|+ .+|+..+++++++.|+++..+..++.+|...|+
T Consensus       774 ~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~  852 (899)
T TIGR02917       774 TALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGE  852 (899)
T ss_pred             HHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCC
Confidence            77777888888888888887763 2233 56677777777777777 778888888888888888888888888888888


Q ss_pred             hHHHHHHHHHHhhCCC
Q 005881          598 WDETAKVRKIMKEKSL  613 (672)
Q Consensus       598 ~~~a~~~~~~~~~~~~  613 (672)
                      +++|.+.++++.+.+.
T Consensus       853 ~~~A~~~~~~a~~~~~  868 (899)
T TIGR02917       853 ADRALPLLRKAVNIAP  868 (899)
T ss_pred             HHHHHHHHHHHHhhCC
Confidence            8888888888876544

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

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.97  E-value=1.4e-25  Score=254.27  Aligned_cols=576  Identities=10%  Similarity=0.010  Sum_probs=352.3

Q ss_pred             HHHHHhcCCChhHHHHHhccCCC---CCcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccH-------------
Q 005881           16 LLLMYVKFSRINDAQKLFDEMPE---RNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTY-------------   79 (672)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~-------------   79 (672)
                      .++.....++.+.|.+.++++..   .|+..+..++..+.+.|+.++|.+.++++.+..  |+...+             
T Consensus        34 q~~~~~~~~~~d~a~~~l~kl~~~~p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~--P~~~~~~~~~~~~~~~~~~  111 (1157)
T PRK11447         34 QVRLGEATHREDLVRQSLYRLELIDPNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQLA--PDSNAYRSSRTTMLLSTPE  111 (1157)
T ss_pred             HHHHHHhhCChHHHHHHHHHHHccCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC--CCChHHHHHHHHHHhcCCc
Confidence            34455556666666666666543   245556666666666666666666666666543  333221             


Q ss_pred             ----HHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHH-HHHHHhcCChHHHHHHhhccCCC---CcccHHHHHHH
Q 005881           80 ----VGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCL-INMYGKCGLLSSAQFVFDASLER---NSISWVSLLSS  151 (672)
Q Consensus        80 ----~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l-i~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~  151 (672)
                          ....+.+...|++++|.+.++.+.+... |+....... .......|+.++|++.++++...   +...+..+...
T Consensus       112 ~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~p-~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~l  190 (1157)
T PRK11447        112 GRQALQQARLLATTGRTEEALASYDKLFNGAP-PELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRNTLALL  190 (1157)
T ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHHHccCCC-CChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence                1222345566666666666666665432 222111111 11112346666666666665542   33445556666


Q ss_pred             HHhcCChHHHHHHHHHHHhCC------------------------------------------------------CCCCh
Q 005881          152 YCQCGEHVHGLKIFLLSRKSG------------------------------------------------------VAISE  177 (672)
Q Consensus       152 ~~~~g~~~~a~~~~~~m~~~g------------------------------------------------------~~p~~  177 (672)
                      +...|++++|++.++++....                                                      ..|+.
T Consensus       191 l~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~  270 (1157)
T PRK11447        191 LFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAF  270 (1157)
T ss_pred             HHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcch
Confidence            666666666666666654321                                                      01110


Q ss_pred             hhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCC--CCc---chHHHH---
Q 005881          178 FSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQL--PDL---TAWSAL---  249 (672)
Q Consensus       178 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~~~---~~~~~l---  249 (672)
                      .. ...-..+...|++++|...++..++... .+...+..|...|.+.|+.++|...|++..+  |+.   ..|..+   
T Consensus       271 ~~-~~~G~~~~~~g~~~~A~~~l~~aL~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~  348 (1157)
T PRK11447        271 RA-RAQGLAAVDSGQGGKAIPELQQAVRANP-KDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKV  348 (1157)
T ss_pred             HH-HHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHh
Confidence            00 0112233456677777777777666532 2455666667777777777777777766543  221   112111   


Q ss_pred             ---------HHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHH
Q 005881          250 ---------IGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVL  320 (672)
Q Consensus       250 ---------i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  320 (672)
                               ...+.+.|++++|...|++..+.. +.+...+..+-..+...|++++|.+.++.+.+.. +.+...+..+.
T Consensus       349 ~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~  426 (1157)
T PRK11447        349 NRYWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLA  426 (1157)
T ss_pred             hhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence                     234556677777777777776652 1233344455566667777777777777776654 22334445555


Q ss_pred             HHHHccCChHHHHHHHhhCCCCC------------cccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC-hHHHHHHHH
Q 005881          321 DFYSKCELLEESLKTFDEMDEHD------------VVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPN-LYTYSNILN  387 (672)
Q Consensus       321 ~~~~~~~~~~~a~~~~~~~~~~~------------~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~  387 (672)
                      ..|. .++.++|...++.+....            ...+..+...+...|++++|++.|++.++.  .|+ ...+..+..
T Consensus       427 ~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~--~P~~~~~~~~LA~  503 (1157)
T PRK11447        427 NLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLAL--DPGSVWLTYRLAQ  503 (1157)
T ss_pred             HHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            5553 345677777776654311            112334455667788888888888888765  453 445556667


Q ss_pred             HHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCC----Cch---------hHHHHHHH
Q 005881          388 ISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSK----NLV---------SWNTMLVG  454 (672)
Q Consensus       388 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~---------~~~~li~~  454 (672)
                      .+.+.|++++|...++.+.+... .+...+..+...+...++.++|...++.+...    +..         .+..+...
T Consensus       504 ~~~~~G~~~~A~~~l~~al~~~P-~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~  582 (1157)
T PRK11447        504 DLRQAGQRSQADALMRRLAQQKP-NDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANR  582 (1157)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHH
Confidence            78888888888888888776432 23334444445566778888888888877632    111         12234566


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChH
Q 005881          455 YAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTR  533 (672)
Q Consensus       455 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~  533 (672)
                      +...|+.++|.++++   .  .+++...+..+...+.+.|++++|+..|+.+.+   ..| +...+..++.+|...|+++
T Consensus       583 l~~~G~~~eA~~~l~---~--~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~---~~P~~~~a~~~la~~~~~~g~~~  654 (1157)
T PRK11447        583 LRDSGKEAEAEALLR---Q--QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLT---REPGNADARLGLIEVDIAQGDLA  654 (1157)
T ss_pred             HHHCCCHHHHHHHHH---h--CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHH
Confidence            778888888888776   2  244555667778888888899999988888873   345 5678888888888889999


Q ss_pred             HHHHHHHhCC-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc------hHHHHHHHHHhcCChHHHHHHH
Q 005881          534 RAYEFIKSSP-IEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTS------AHIMLSNVYAEANMWDETAKVR  605 (672)
Q Consensus       534 ~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~------~~~~l~~~~~~~g~~~~a~~~~  605 (672)
                      +|++.++... ..| +...+..+..++...|++++|.+.++++++..|+++.      .+..++.++...|++++|.+.+
T Consensus       655 eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y  734 (1157)
T PRK11447        655 AARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETY  734 (1157)
T ss_pred             HHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9988887643 344 3445666777778888999999999988887765543      4556788888889999999999


Q ss_pred             HHHhh
Q 005881          606 KIMKE  610 (672)
Q Consensus       606 ~~~~~  610 (672)
                      ++...
T Consensus       735 ~~Al~  739 (1157)
T PRK11447        735 KDAMV  739 (1157)
T ss_pred             HHHHh
Confidence            88865

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.97  E-value=5e-25  Score=249.75  Aligned_cols=556  Identities=10%  Similarity=-0.001  Sum_probs=411.7

Q ss_pred             CcchhhHHHHHHhcCCChhHHHHHhccCCC--CCcchH-----------------HHHHHHHHcCCCchhHHHHHHHhHh
Q 005881            9 NVITYNHLLLMYVKFSRINDAQKLFDEMPE--RNVISW-----------------SALISGFSQIGMPEVALNYFRLMVC   69 (672)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~~~~~~-----------------~~li~~~~~~g~~~~a~~~~~~m~~   69 (672)
                      |+.++..+...+.+.|+.++|.+.+++..+  |+...+                 ..+.+.+...|++++|++.|+.+.+
T Consensus        61 ~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~  140 (1157)
T PRK11447         61 NPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPDSNAYRSSRTTMLLSTPEGRQALQQARLLATTGRTEEALASYDKLFN  140 (1157)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHhcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHcc
Confidence            466778888899999999999999999876  433222                 2234468889999999999999987


Q ss_pred             CCCCCCcc-cHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCCCCc------
Q 005881           70 CVLEPNYY-TYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNS------  142 (672)
Q Consensus        70 ~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~------  142 (672)
                      .+ +|+.. ............|+.++|.+.++.+.+..+ .+...+..+...+...|+.++|...|+++.....      
T Consensus       141 ~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P-~~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa  218 (1157)
T PRK11447        141 GA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYP-GNTGLRNTLALLLFSSGRRDEGFAVLEQMAKSPAGRDAAA  218 (1157)
T ss_pred             CC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHccCCHHHHHHHHHHHhhCCCchHHHH
Confidence            53 34432 111122223356899999999999999863 3677888899999999999999998886532100      


Q ss_pred             -----------------ccHH----------------------------------HHHHHHHhcCChHHHHHHHHHHHhC
Q 005881          143 -----------------ISWV----------------------------------SLLSSYCQCGEHVHGLKIFLLSRKS  171 (672)
Q Consensus       143 -----------------~~~~----------------------------------~li~~~~~~g~~~~a~~~~~~m~~~  171 (672)
                                       ..+.                                  .....+...|++++|+..|++..+.
T Consensus       219 ~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~G~~~~~~g~~~~A~~~l~~aL~~  298 (1157)
T PRK11447        219 QLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQGLAAVDSGQGGKAIPELQQAVRA  298 (1157)
T ss_pred             HHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence                             0000                                  1123456789999999999999875


Q ss_pred             CCCC-ChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCc-HHHH------------HHHHHHhhcCCChhHHHHHHhc
Q 005881          172 GVAI-SEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFD-KFVA------------MGLINLYAKCEKLDLASRVFSN  237 (672)
Q Consensus       172 g~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~------------~~li~~~~~~g~~~~a~~~~~~  237 (672)
                        .| +...+..+-..+.+.|++++|...++..++...... ...+            ..+...+.+.|++++|...|++
T Consensus       299 --~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~  376 (1157)
T PRK11447        299 --NPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQ  376 (1157)
T ss_pred             --CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence              44 567788888889999999999999999988754322 1112            1224567789999999999998


Q ss_pred             CCC---CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-hhhHHHHHHHhhccCCchhHHHHHHHHHHhCCC---
Q 005881          238 IQL---PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPS-EVTFSYVLGAFADVKETIGGRQLHSLIIKMGFS---  310 (672)
Q Consensus       238 ~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---  310 (672)
                      ...   .+...+..+...+...|++++|++.|++..+..  |+ ...+..+...+ ..++.++|..+++.+......   
T Consensus       377 Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~--p~~~~a~~~L~~l~-~~~~~~~A~~~l~~l~~~~~~~~~  453 (1157)
T PRK11447        377 ARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD--PGNTNAVRGLANLY-RQQSPEKALAFIASLSASQRRSID  453 (1157)
T ss_pred             HHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHH-HhcCHHHHHHHHHhCCHHHHHHHH
Confidence            864   344567778899999999999999999998753  44 33444455555 446788898888765432110   


Q ss_pred             -----CchHHHHHHHHHHHccCChHHHHHHHhhCCC--C-CcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC-hHH
Q 005881          311 -----SFTFVANTVLDFYSKCELLEESLKTFDEMDE--H-DVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPN-LYT  381 (672)
Q Consensus       311 -----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~t  381 (672)
                           .....+..+...+...|++++|...|++..+  | +...+..+...|.+.|++++|...++++.+.  .|+ ...
T Consensus       454 ~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~--~P~~~~~  531 (1157)
T PRK11447        454 DIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQ--KPNDPEQ  531 (1157)
T ss_pred             HHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHH
Confidence                 1122345567788899999999999999865  3 4456777888999999999999999999865  443 333


Q ss_pred             HHHHHHHHcCcCchHHHHHHHHHHHhcCCCCccc---------HHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHH
Q 005881          382 YSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVV---------IGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTML  452 (672)
Q Consensus       382 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li  452 (672)
                      +..+...+...++.++|...++.+......+...         .+..+...+...|+.++|.++++. ...+...+..+.
T Consensus       532 ~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-~p~~~~~~~~La  610 (1157)
T PRK11447        532 VYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-QPPSTRIDLTLA  610 (1157)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-CCCCchHHHHHH
Confidence            3333445677899999999988865433222211         122456678889999999999984 344556778889


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccC
Q 005881          453 VGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRG  530 (672)
Q Consensus       453 ~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g  530 (672)
                      ..+.+.|++++|++.|++..+.  .|+ ...+..+...+...|++++|...++.+.   ...| +...+..+..++...|
T Consensus       611 ~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll---~~~p~~~~~~~~la~~~~~~g  685 (1157)
T PRK11447        611 DWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIEVDIAQGDLAAARAQLAKLP---ATANDSLNTQRRVALAWAALG  685 (1157)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHh---ccCCCChHHHHHHHHHHHhCC
Confidence            9999999999999999999995  454 5688899999999999999999999876   3455 4567778899999999


Q ss_pred             ChHHHHHHHHhCC-CC---C----CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 005881          531 QTRRAYEFIKSSP-IE---P----NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDP  579 (672)
Q Consensus       531 ~~~~A~~~~~~~~-~~---p----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  579 (672)
                      ++++|.++++++- ..   |    +...+..+...+...|+.++|+..|++++....
T Consensus       686 ~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~  742 (1157)
T PRK11447        686 DTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVASG  742 (1157)
T ss_pred             CHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcC
Confidence            9999999998742 22   2    224556667788999999999999999987553

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.96  E-value=5.1e-23  Score=222.28  Aligned_cols=559  Identities=10%  Similarity=0.008  Sum_probs=351.0

Q ss_pred             cCCChhHHHHHhccCCC--C-CcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHH
Q 005881           22 KFSRINDAQKLFDEMPE--R-NVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEI   98 (672)
Q Consensus        22 ~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~   98 (672)
                      ..|++++|+..|+...+  | +..++..+.+.|...|++++|+..+++..+.  .|+...|..++..+   +++++|..+
T Consensus        56 ~~Gd~~~A~~~l~~Al~~dP~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~l--dP~n~~~~~~La~i---~~~~kA~~~  130 (987)
T PRK09782         56 KNNDEATAIREFEYIHQQVPDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKR--HPGDARLERSLAAI---PVEVKSVTT  130 (987)
T ss_pred             hCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHHHHHHHHh---ccChhHHHH
Confidence            44999999999999876  3 4667889999999999999999999999885  45555555544333   889999999


Q ss_pred             HHHHHHhCCCCChhHHHHHHHH--------HHhcCChHHHHHHhhccCCCC--cccHHH-HHHHHHhcCChHHHHHHHHH
Q 005881           99 HGRMYRSGLELNSHVSNCLINM--------YGKCGLLSSAQFVFDASLERN--SISWVS-LLSSYCQCGEHVHGLKIFLL  167 (672)
Q Consensus        99 ~~~~~~~g~~~~~~~~~~li~~--------~~~~g~~~~a~~~~~~~~~~~--~~~~~~-li~~~~~~g~~~~a~~~~~~  167 (672)
                      ++++.+..+ -+..++..+...        |.+.+...++++  .+...++  ..+... +...|.+.|++++|++++.+
T Consensus       131 ye~l~~~~P-~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~--lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~  207 (987)
T PRK09782        131 VEELLAQQK-ACDAVPTLRCRSEVGQNALRLAQLPVARAQLN--DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNE  207 (987)
T ss_pred             HHHHHHhCC-CChhHHHHHHHHhhccchhhhhhHHHHHHHHH--HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHH
Confidence            999999863 356666666665        777777777776  3333343  333344 48899999999999999999


Q ss_pred             HHhCCCCCChhhHHHHHHHHhc-cCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCC-----C
Q 005881          168 SRKSGVAISEFSCASVLGACAV-LGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQL-----P  241 (672)
Q Consensus       168 m~~~g~~p~~~t~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~  241 (672)
                      +.+.+... ..-...+-.++.. .++ +.+..+++.    .+..++.+...+...|.+.|+.++|.+++++++.     |
T Consensus       208 L~k~~pl~-~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~  281 (987)
T PRK09782        208 ARQQNTLS-AAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDA  281 (987)
T ss_pred             HHhcCCCC-HHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCC
Confidence            99986433 3334444445555 355 666666442    3446888999999999999999999999998862     2


Q ss_pred             CcchHH------------------------------HHHHHHHhcCChhHHHHHHHHHHHCCCCCChhh-----------
Q 005881          242 DLTAWS------------------------------ALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVT-----------  280 (672)
Q Consensus       242 ~~~~~~------------------------------~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t-----------  280 (672)
                      ...+|-                              .++..+.+.++++-+.++..      ..|....           
T Consensus       282 ~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~r~~~~~~~  355 (987)
T PRK09782        282 QEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLA------TLPANEMLEERYAVSVAT  355 (987)
T ss_pred             ccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhc------CCCcchHHHHHHhhcccc
Confidence            222211                              11344455555554444321      1222211           


Q ss_pred             -----------------------HHHHHHHhhccCCchhHHHHHHHHHHh-C-CCCchHHHHHHHHHHHccCC---hHHH
Q 005881          281 -----------------------FSYVLGAFADVKETIGGRQLHSLIIKM-G-FSSFTFVANTVLDFYSKCEL---LEES  332 (672)
Q Consensus       281 -----------------------~~~ll~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~~~~~~li~~~~~~~~---~~~a  332 (672)
                                             ...+--.....|+.++|.+++...... + ...+....+-|+..|.+.+.   ..++
T Consensus       356 ~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~  435 (987)
T PRK09782        356 RNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKV  435 (987)
T ss_pred             CchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHH
Confidence                                   111111223445566666666655542 1 12234444566666666655   2222


Q ss_pred             HHHHh-------------------------hCCC---C--CcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHH
Q 005881          333 LKTFD-------------------------EMDE---H--DVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTY  382 (672)
Q Consensus       333 ~~~~~-------------------------~~~~---~--~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~  382 (672)
                      ..+-.                         ....   +  +...|..+..++.. +++++|+..+.+....  .|+....
T Consensus       436 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~  512 (987)
T PRK09782        436 AILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQH  512 (987)
T ss_pred             HHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHH
Confidence            22211                         0000   1  33445555555554 6666777766666554  4554443


Q ss_pred             HHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHH---HHHHHhcC
Q 005881          383 SNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTM---LVGYAQHG  459 (672)
Q Consensus       383 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l---i~~~~~~g  459 (672)
                      ..+...+...|++++|...++.+...  +|+...+..+...+.+.|++++|.+.++...+.++...+..   .......|
T Consensus       513 L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~G  590 (987)
T PRK09782        513 RAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPG  590 (987)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCC
Confidence            33344445677777777777765443  23333344555666677777777777776654333222222   22233447


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHH
Q 005881          460 LGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEF  538 (672)
Q Consensus       460 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~  538 (672)
                      ++++|+..+++..+  +.|+...+..+..++.+.|++++|...+++..   ...| +...+..+..++...|+.++|++.
T Consensus       591 r~~eAl~~~~~AL~--l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL---~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~  665 (987)
T PRK09782        591 QPELALNDLTRSLN--IAPSANAYVARATIYRQRHNVPAAVSDLRAAL---ELEPNNSNYQAALGYALWDSGDIAQSREM  665 (987)
T ss_pred             CHHHHHHHHHHHHH--hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH---HhCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            77777777777776  35666666777777777777777777777666   3345 456666777777777777777777


Q ss_pred             HHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          539 IKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       539 ~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +++ +...| +...+..+..++...|++++|+..++++++++|++.......+++..+..+++.|.+.+++...
T Consensus       666 l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~  739 (987)
T PRK09782        666 LERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQALITPLTPEQNQQRFNFRRLHEEVGRRWT  739 (987)
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhh
Confidence            764 33445 4456666777777777777777777777777777777777777777777777777776665543

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.95  E-value=8.5e-22  Score=212.93  Aligned_cols=550  Identities=10%  Similarity=-0.023  Sum_probs=382.7

Q ss_pred             HHHHHHHH--HcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHH
Q 005881           44 WSALISGF--SQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMY  121 (672)
Q Consensus        44 ~~~li~~~--~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~  121 (672)
                      +-.+..+.  ...|++++|+..|++..+.. |-+..++..+...+...|+.++|....++..+... -|...+..+ ..+
T Consensus        45 ~~~f~~a~~~~~~Gd~~~A~~~l~~Al~~d-P~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP-~n~~~~~~L-a~i  121 (987)
T PRK09782         45 YPRLDKALKAQKNNDEATAIREFEYIHQQV-PDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRHP-GDARLERSL-AAI  121 (987)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc-ccHHHHHHH-HHh
Confidence            34444444  33499999999999998864 33466788899999999999999999999998853 344444444 222


Q ss_pred             HhcCChHHHHHHhhccCCC---CcccHHHHHHH--------HHhcCChHHHHHHHHHHHhCCCCCChhhHHHH-HHHHhc
Q 005881          122 GKCGLLSSAQFVFDASLER---NSISWVSLLSS--------YCQCGEHVHGLKIFLLSRKSGVAISEFSCASV-LGACAV  189 (672)
Q Consensus       122 ~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~--------~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l-l~~~~~  189 (672)
                         ++.++|..+++++...   +...+..+...        |.+.   ++|.+.++ .......|+....... .+.+..
T Consensus       122 ---~~~~kA~~~ye~l~~~~P~n~~~~~~la~~~~~~~~l~y~q~---eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~  194 (987)
T PRK09782        122 ---PVEVKSVTTVEELLAQQKACDAVPTLRCRSEVGQNALRLAQL---PVARAQLN-DATFAASPEGKTLRTDLLQRAIY  194 (987)
T ss_pred             ---ccChhHHHHHHHHHHhCCCChhHHHHHHHHhhccchhhhhhH---HHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHH
Confidence               8899999999987653   34455555444        5555   55555555 4443445556655555 888999


Q ss_pred             cCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhc-CCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHHHH
Q 005881          190 LGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAK-CEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVK  268 (672)
Q Consensus       190 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  268 (672)
                      .++++.+..++..+.+.+.. +......|..+|.. .++ +.+..+++...+.+...+..+...|.+.|+.++|..++++
T Consensus       195 l~dw~~Ai~lL~~L~k~~pl-~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~  272 (987)
T PRK09782        195 LKQWSQADTLYNEARQQNTL-SAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIE  272 (987)
T ss_pred             HhCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHh
Confidence            99999999999999998754 35556667778887 466 8888887765567888899999999999999999999999


Q ss_pred             HHHCCCC-CChhhHHHHH------------------------------HHhhccCCchhHHHHHHHH--------HHhCC
Q 005881          269 MFSSGLM-PSEVTFSYVL------------------------------GAFADVKETIGGRQLHSLI--------IKMGF  309 (672)
Q Consensus       269 m~~~~~~-p~~~t~~~ll------------------------------~~~~~~~~~~~a~~~~~~~--------~~~~~  309 (672)
                      +...-.. |...++..++                              ..+.+.++++.++++...-        .-.+.
T Consensus       273 ~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~  352 (987)
T PRK09782        273 NKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVS  352 (987)
T ss_pred             CcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhc
Confidence            8654222 3333332222                              2223333333333321100        00000


Q ss_pred             --------------------CCchHHHHHHHHHHHccCChHHHHHHHhhCCC--CC----cccHHHHHHHHHhcCC---h
Q 005881          310 --------------------SSFTFVANTVLDFYSKCELLEESLKTFDEMDE--HD----VVSWNALIAGHLASCH---Y  360 (672)
Q Consensus       310 --------------------~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~----~~~~~~li~~~~~~~~---~  360 (672)
                                          +-+....-.+.-...+.|+.++|..+|+..-.  ++    ....+-++..|.+.+.   .
T Consensus       353 ~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~  432 (987)
T PRK09782        353 VATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATP  432 (987)
T ss_pred             cccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccch
Confidence                                11222222222334456778888888887654  11    1233355666666655   3


Q ss_pred             hHHHHH----------------------HHHHHhC-CCCCC---hHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcc
Q 005881          361 GEAIEL----------------------LKDMLFE-GHCPN---LYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNV  414 (672)
Q Consensus       361 ~~A~~~----------------------~~~m~~~-g~~p~---~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  414 (672)
                      .++..+                      ....... +..|+   ...+..+-.++.. ++.++|...+.......  |+.
T Consensus       433 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~  509 (987)
T PRK09782        433 AKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDA  509 (987)
T ss_pred             HHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--Cch
Confidence            333333                      1111111 22233   3444445444544 78888888777776654  443


Q ss_pred             cHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHhh
Q 005881          415 VIGSALVDMYAKCGRLNDARKVFDHLSS--KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDN-TFIGVLSACV  491 (672)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~  491 (672)
                      .....+...+...|++++|...|+++..  ++...+..+...+.+.|++++|...|++.++..  |+.. .+..+...+.
T Consensus       510 ~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~l~  587 (987)
T PRK09782        510 WQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQRY  587 (987)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHH
Confidence            3333344555689999999999998763  455567777888999999999999999999853  5443 3444445556


Q ss_pred             ccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHh-CCCCCC-HHHHHHHHHHHHhcCCHHHHHH
Q 005881          492 HIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS-SPIEPN-KVVWRCLLSGCKTHKDLVLGRY  569 (672)
Q Consensus       492 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~-~~~~~~l~~~~~~~g~~~~a~~  569 (672)
                      ..|++++|...+++..   ...|+...+..+..++.+.|+.++|.+.+++ +...|+ ...+..+...+...|+.++|+.
T Consensus       588 ~~Gr~~eAl~~~~~AL---~l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~  664 (987)
T PRK09782        588 IPGQPELALNDLTRSL---NIAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSRE  664 (987)
T ss_pred             hCCCHHHHHHHHHHHH---HhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            7799999999999888   4567888999999999999999999999986 456674 5567777778999999999999


Q ss_pred             HHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCC
Q 005881          570 AAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       570 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  613 (672)
                      .++++++++|+++.++..++.+|...|++++|...+++..+..+
T Consensus       665 ~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P  708 (987)
T PRK09782        665 MLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDID  708 (987)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999999999999999876443

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

Probab=99.90  E-value=4.6e-20  Score=176.72  Aligned_cols=443  Identities=13%  Similarity=0.081  Sum_probs=331.3

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHH-HHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhc
Q 005881          146 VSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLG-ACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAK  224 (672)
Q Consensus       146 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  224 (672)
                      ..|..-..+.|++++|++.-...-...  |+..--..++. .+....+.+...+--....+. .+.-..+|+.+.+.+-.
T Consensus        52 l~lah~~yq~gd~~~a~~h~nmv~~~d--~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~-~~q~ae~ysn~aN~~ke  128 (966)
T KOG4626|consen   52 LELAHRLYQGGDYKQAEKHCNMVGQED--PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRK-NPQGAEAYSNLANILKE  128 (966)
T ss_pred             HHHHHHHHhccCHHHHHHHHhHhhccC--CCcccceeeehhhhhcccchhhhhhhhhhhhhc-cchHHHHHHHHHHHHHH
Confidence            334445556677777766544433321  11111111222 222333333322222222221 12235577778888888


Q ss_pred             CCChhHHHHHHhcCCC---CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHH-HhhccCCchhHHHH
Q 005881          225 CEKLDLASRVFSNIQL---PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLG-AFADVKETIGGRQL  300 (672)
Q Consensus       225 ~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~-~~~~~~~~~~a~~~  300 (672)
                      .|++++|...++.+.+   ..+..|..+..++...|+.+.|.+.|.+..+.  .|+.....+-+. ..-..|.+++|...
T Consensus       129 rg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~c  206 (966)
T KOG4626|consen  129 RGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKAC  206 (966)
T ss_pred             hchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHHH
Confidence            8888888888887764   34567888888888899999999888887764  465554433332 23346778888888


Q ss_pred             HHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCc---ccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC
Q 005881          301 HSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDV---VSWNALIAGHLASCHYGEAIELLKDMLFEGHCP  377 (672)
Q Consensus       301 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p  377 (672)
                      +.+.++.. +.-..+|+.|...+...|++..|+.-|++...-|+   ..|-.|...|...+.+++|+..+.+....  .|
T Consensus       207 YlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l--rp  283 (966)
T KOG4626|consen  207 YLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNL--RP  283 (966)
T ss_pred             HHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc--CC
Confidence            77777654 23345677788888889999999999998876443   36777888889999999999998888754  66


Q ss_pred             C-hHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCchhHHHHHH
Q 005881          378 N-LYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSS---KNLVSWNTMLV  453 (672)
Q Consensus       378 ~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~  453 (672)
                      + ...+..+-..|...|.++.|...+++.++... .-+..|+.|.+++-..|++.+|.+.+.....   ....+.+.|..
T Consensus       284 n~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P-~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgn  362 (966)
T KOG4626|consen  284 NHAVAHGNLACIYYEQGLLDLAIDTYKRALELQP-NFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGN  362 (966)
T ss_pred             cchhhccceEEEEeccccHHHHHHHHHHHHhcCC-CchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHH
Confidence            4 34566666677889999999999999887642 2456789999999999999999999998873   34457888999


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCch-HHHHHHHHHhhccCC
Q 005881          454 GYAQHGLGREALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRM-DHIASVVHLFACRGQ  531 (672)
Q Consensus       454 ~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~  531 (672)
                      .|...|.+++|..+|....+  +.|.- ..++.|...|-..|++++|+..+++..   .+.|+. +.|+.+...|...|+
T Consensus       363 i~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~P~fAda~~NmGnt~ke~g~  437 (966)
T KOG4626|consen  363 IYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---RIKPTFADALSNMGNTYKEMGD  437 (966)
T ss_pred             HHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---hcCchHHHHHHhcchHHHHhhh
Confidence            99999999999999999998  67776 479999999999999999999999887   788975 889999999999999


Q ss_pred             hHHHHHHHHh-CCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHH
Q 005881          532 TRRAYEFIKS-SPIEPN-KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETA  602 (672)
Q Consensus       532 ~~~A~~~~~~-~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  602 (672)
                      ...|.+.+.+ +.+.|. ....+.|...+...|++.+|++.|+.++++.|+.+.+|..++.++.-..+|.+--
T Consensus       438 v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~vcdw~D~d  510 (966)
T KOG4626|consen  438 VSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIVCDWTDYD  510 (966)
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHHhcccchH
Confidence            9999999875 567775 4478889999999999999999999999999999999999999987777776633

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

Probab=99.86  E-value=4e-19  Score=170.38  Aligned_cols=419  Identities=15%  Similarity=0.127  Sum_probs=327.5

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCC---CCcchHHHHHHHHHhcCC
Q 005881          182 SVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQL---PDLTAWSALIGGYAQLGK  258 (672)
Q Consensus       182 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~  258 (672)
                      .+.+...+.|++.+|++--..+-+.... +....-.+-..+....+.+.....-....+   .-..+|..+...+-..|+
T Consensus        53 ~lah~~yq~gd~~~a~~h~nmv~~~d~t-~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~kerg~  131 (966)
T KOG4626|consen   53 ELAHRLYQGGDYKQAEKHCNMVGQEDPT-NTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKERGQ  131 (966)
T ss_pred             HHHHHHHhccCHHHHHHHHhHhhccCCC-cccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHhch
Confidence            3444455678888887765554433211 111122222345555555544332222222   234578889999999999


Q ss_pred             hhHHHHHHHHHHHCCCCC-ChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHH-HHHHHHHHHccCChHHHHHHH
Q 005881          259 ACEAIDLFVKMFSSGLMP-SEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFV-ANTVLDFYSKCELLEESLKTF  336 (672)
Q Consensus       259 ~~~a~~~~~~m~~~~~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~li~~~~~~~~~~~a~~~~  336 (672)
                      .++|+.+++.+.+.  +| ....|..+-.++...|+.+.|.+.+.+.++.+  |+... .+.+-......|++.+|...+
T Consensus       132 ~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lgnLlka~Grl~ea~~cY  207 (966)
T KOG4626|consen  132 LQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLGNLLKAEGRLEEAKACY  207 (966)
T ss_pred             HHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchhHHHHhhcccchhHHHH
Confidence            99999999999885  45 35568888889999999999999999888754  43332 233445566689999999888


Q ss_pred             hhCCC--CC-cccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC-hHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCC
Q 005881          337 DEMDE--HD-VVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPN-LYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDS  412 (672)
Q Consensus       337 ~~~~~--~~-~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  412 (672)
                      .+..+  |. .+.|+.|...+-.+|+...|+..|++..+.  .|+ ...|..+-+.+...+.++.|...+....... +.
T Consensus       208 lkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn  284 (966)
T KOG4626|consen  208 LKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PN  284 (966)
T ss_pred             HHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-Cc
Confidence            77655  33 468999999999999999999999999865  554 3467777778888888888888777766543 22


Q ss_pred             cccHHHHHHHHHHhcCCHHHHHHHHhhCCC--CC-chhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHH
Q 005881          413 NVVIGSALVDMYAKCGRLNDARKVFDHLSS--KN-LVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NTFIGVLS  488 (672)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~  488 (672)
                      ....+..+.-.|-..|.+|-|+..+++..+  |+ +..|+.|..++...|++.+|.+.|.+.+.  +.|+. ...+.|..
T Consensus       285 ~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~--l~p~hadam~NLgn  362 (966)
T KOG4626|consen  285 HAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALR--LCPNHADAMNNLGN  362 (966)
T ss_pred             chhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHH--hCCccHHHHHHHHH
Confidence            345566677778899999999999999874  44 35899999999999999999999999998  56776 47889999


Q ss_pred             HhhccCcHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHhhccCChHHHHHHHHh-CCCCCCH-HHHHHHHHHHHhcCCHH
Q 005881          489 ACVHIGLVEEGWHYFNSMIRDHGISPR-MDHIASVVHLFACRGQTRRAYEFIKS-SPIEPNK-VVWRCLLSGCKTHKDLV  565 (672)
Q Consensus       489 ~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~~-~~~~~l~~~~~~~g~~~  565 (672)
                      .+...|..++|..+|....   .+.|. ....+.|...|..+|++++|+..+++ +.++|.. .+++.+...|...|+.+
T Consensus       363 i~~E~~~~e~A~~ly~~al---~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v~  439 (966)
T KOG4626|consen  363 IYREQGKIEEATRLYLKAL---EVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDVS  439 (966)
T ss_pred             HHHHhccchHHHHHHHHHH---hhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhHH
Confidence            9999999999999999776   66776 47789999999999999999999986 5788964 48899999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCC
Q 005881          566 LGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       566 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  613 (672)
                      .|.+.+.+++..+|.-++++..|+.+|...|+..+|++-++...+-.+
T Consensus       440 ~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkP  487 (966)
T KOG4626|consen  440 AAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKP  487 (966)
T ss_pred             HHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCC
Confidence            999999999999999999999999999999999999999998876443

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

Probab=99.86  E-value=2.2e-17  Score=176.25  Aligned_cols=248  Identities=15%  Similarity=0.024  Sum_probs=196.7

Q ss_pred             cCChhHHHHHHHHHHhCC-CCCC-hHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHH
Q 005881          357 SCHYGEAIELLKDMLFEG-HCPN-LYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDAR  434 (672)
Q Consensus       357 ~~~~~~A~~~~~~m~~~g-~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  434 (672)
                      .+++++|++.|++....+ ..|+ ...+..+...+...|++++|...++..++... .....+..+...+...|++++|.
T Consensus       307 ~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P-~~~~~~~~la~~~~~~g~~~eA~  385 (615)
T TIGR00990       307 DESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDP-RVTQSYIKRASMNLELGDPDKAE  385 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHCCCHHHHH
Confidence            467888888888888764 2343 34555666667788888888888888876532 23456677888888999999999


Q ss_pred             HHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhh
Q 005881          435 KVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDH  510 (672)
Q Consensus       435 ~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  510 (672)
                      ..|+.+.   ..+...|..+...+...|++++|+..|++.++.  .|+ ...+..+...+.+.|++++|+..|+....  
T Consensus       386 ~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~--  461 (615)
T TIGR00990       386 EDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL--DPDFIFSHIQLGVTQYKEGSIASSMATFRRCKK--  461 (615)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--
Confidence            9998876   345678888999999999999999999999984  555 45677888889999999999999998874  


Q ss_pred             CCCC-chHHHHHHHHHhhccCChHHHHHHHHh-CCCCCCH-------H-HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 005881          511 GISP-RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEPNK-------V-VWRCLLSGCKTHKDLVLGRYAAEKILSTDPE  580 (672)
Q Consensus       511 ~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~~-------~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  580 (672)
                       ..| +...+..++.++...|++++|.+.|++ +.+.|+.       . .++.....+...|++++|...++++++++|+
T Consensus       462 -~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~  540 (615)
T TIGR00990       462 -NFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPE  540 (615)
T ss_pred             -hCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCC
Confidence             345 578899999999999999999999986 3444431       1 1122222344579999999999999999999


Q ss_pred             CCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          581 DTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       581 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +..++..++.+|.+.|++++|.+.+++..+
T Consensus       541 ~~~a~~~la~~~~~~g~~~eAi~~~e~A~~  570 (615)
T TIGR00990       541 CDIAVATMAQLLLQQGDVDEALKLFERAAE  570 (615)
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            999999999999999999999999998865

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

Probab=99.86  E-value=8.5e-17  Score=162.92  Aligned_cols=577  Identities=15%  Similarity=0.073  Sum_probs=403.3

Q ss_pred             hhHHHHHhccCCCCCcch-HHHHHHHH--HcCCCchhHHHHHHHhHhCC--CCCCcccHHHHHHHHhcCCChhhHHHHHH
Q 005881           26 INDAQKLFDEMPERNVIS-WSALISGF--SQIGMPEVALNYFRLMVCCV--LEPNYYTYVGAVSACASRGDARSGKEIHG  100 (672)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~-~~~li~~~--~~~g~~~~a~~~~~~m~~~~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  100 (672)
                      .+.|...|....+.++.. .-.+.+++  ...|++..|+.+|.......  .+||..  ..+..++.+.++.+.|...|.
T Consensus       146 ~~~A~a~F~~Vl~~sp~Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~r--Igig~Cf~kl~~~~~a~~a~~  223 (1018)
T KOG2002|consen  146 MDDADAQFHFVLKQSPDNILALLGKARIAYNKKDYRGALKYYKKALRINPACKADVR--IGIGHCFWKLGMSEKALLAFE  223 (1018)
T ss_pred             HHHHHHHHHHHHhhCCcchHHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCcc--chhhhHHHhccchhhHHHHHH
Confidence            578888888776522221 11233444  44689999999999976533  344443  234456678899999999999


Q ss_pred             HHHHhCCCCChhHHHHHHHHHHhc---CChHHHHHHhhccC---CCCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 005881          101 RMYRSGLELNSHVSNCLINMYGKC---GLLSSAQFVFDASL---ERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVA  174 (672)
Q Consensus       101 ~~~~~g~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  174 (672)
                      ...+..+ -++.++-.|-..-...   ..+..+..++...-   ..|++..+.|...|.-.|+++.++.+...+......
T Consensus       224 ralqLdp-~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~  302 (1018)
T KOG2002|consen  224 RALQLDP-TCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKENNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTEN  302 (1018)
T ss_pred             HHHhcCh-hhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhh
Confidence            9887643 1222332222222222   33445555555432   248889999999999999999999999998875321


Q ss_pred             --CChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCC--CC-cchHHHH
Q 005881          175 --ISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQL--PD-LTAWSAL  249 (672)
Q Consensus       175 --p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~~-~~~~~~l  249 (672)
                        .-...|-.+-+++-..|++++|...|-+..+.........+-.|..+|.+.|+++.+...|+.+.+  || ..+...+
T Consensus       303 ~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iL  382 (1018)
T KOG2002|consen  303 KSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKIL  382 (1018)
T ss_pred             hHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHH
Confidence              223467888899999999999999998887765443345566788999999999999999999874  33 3445555


Q ss_pred             HHHHHhcC----ChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHH----HHhCCCCchHHHHHHHH
Q 005881          250 IGGYAQLG----KACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLI----IKMGFSSFTFVANTVLD  321 (672)
Q Consensus       250 i~~~~~~~----~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~li~  321 (672)
                      ...|...+    ..+.|..++.+....- +.|...|..+-..+. .++......++..+    ...+-.+.+.+.|.+..
T Consensus       383 G~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e-~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvas  460 (1018)
T KOG2002|consen  383 GCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLE-QTDPWASLDAYGNALDILESKGKQIPPEVLNNVAS  460 (1018)
T ss_pred             HhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHH-hcChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHH
Confidence            56666554    4566666666665542 334445544444443 44444445555544    45566788899999999


Q ss_pred             HHHccCChHHHHHHHhhCCC-------CCcc------cHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHH-HHHHHH
Q 005881          322 FYSKCELLEESLKTFDEMDE-------HDVV------SWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYT-YSNILN  387 (672)
Q Consensus       322 ~~~~~~~~~~a~~~~~~~~~-------~~~~------~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t-~~~ll~  387 (672)
                      .+...|++.+|...|++...       +|..      +--.+...+-..++++.|.+.|....+.  .|.-.+ |..+..
T Consensus       461 lhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~  538 (1018)
T KOG2002|consen  461 LHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGC  538 (1018)
T ss_pred             HHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhH
Confidence            99999999999999987653       2321      1122444555677899999999999876  565443 333332


Q ss_pred             HHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC-----CCCchhHHHHHHHHHh-----
Q 005881          388 ISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS-----SKNLVSWNTMLVGYAQ-----  457 (672)
Q Consensus       388 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~-----  457 (672)
                      .....+...+|...+....... ..++..++.+.+.+.+...+..|.+-|..+.     .+|+.+.-+|...|.+     
T Consensus       539 ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~  617 (1018)
T KOG2002|consen  539 MARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNP  617 (1018)
T ss_pred             HHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhccc
Confidence            3334567778888888777643 3355566677778888888888888555544     3455555455554432     


Q ss_pred             -------cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccC
Q 005881          458 -------HGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRG  530 (672)
Q Consensus       458 -------~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  530 (672)
                             .+..++|+++|.+.+... +-|...-+.+.-.++..|++.+|..+|....+..  .-..++|..++++|..+|
T Consensus       618 ~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~--~~~~dv~lNlah~~~e~~  694 (1018)
T KOG2002|consen  618 SRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREAT--SDFEDVWLNLAHCYVEQG  694 (1018)
T ss_pred             ccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHH--hhCCceeeeHHHHHHHHH
Confidence                   245678999999988853 4555677778888899999999999999987543  235578899999999999


Q ss_pred             ChHHHHHHHHhC----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhc-----------
Q 005881          531 QTRRAYEFIKSS----PIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEA-----------  595 (672)
Q Consensus       531 ~~~~A~~~~~~~----~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-----------  595 (672)
                      ++..|++.|+..    .-+.+..+.+.|..++...|.+.+|......++.+.|.++....+++-+..+.           
T Consensus       695 qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t  774 (1018)
T KOG2002|consen  695 QYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRT  774 (1018)
T ss_pred             HHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhccccc
Confidence            999999999752    23447778899999999999999999999999999999998887777665443           


Q ss_pred             --------CChHHHHHHHHHHhhCCC
Q 005881          596 --------NMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       596 --------g~~~~a~~~~~~~~~~~~  613 (672)
                              +..++|.++|..+...+-
T Consensus       775 ~eev~~a~~~le~a~r~F~~ls~~~d  800 (1018)
T KOG2002|consen  775 LEEVLEAVKELEEARRLFTELSKNGD  800 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence                    466788888888876444

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.83  E-value=2.4e-18  Score=174.46  Aligned_cols=287  Identities=13%  Similarity=0.083  Sum_probs=186.9

Q ss_pred             ccCChHHHHHHHhhCCC--C-CcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC---hHHHHHHHHHHcCcCchHHH
Q 005881          325 KCELLEESLKTFDEMDE--H-DVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPN---LYTYSNILNISSDIPAIEWG  398 (672)
Q Consensus       325 ~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~---~~t~~~ll~~~~~~~~~~~a  398 (672)
                      ..|++++|...|.++.+  | +..++..+...+...|++++|..+++.+...+..++   ...+..+...+...|+++.|
T Consensus        47 ~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A  126 (389)
T PRK11788         47 LNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRA  126 (389)
T ss_pred             hcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            34444444444444433  1 222344444445555555555555555544321111   12334444445555555555


Q ss_pred             HHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCC--C------chhHHHHHHHHHhcCChHHHHHHHHH
Q 005881          399 KQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSK--N------LVSWNTMLVGYAQHGLGREALEIYSM  470 (672)
Q Consensus       399 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~------~~~~~~li~~~~~~g~~~~A~~~~~~  470 (672)
                      ..++..+.+.. +.+..++..++..+.+.|++++|.+.++.+.+.  +      ...|..+...+...|++++|.+.|++
T Consensus       127 ~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  205 (389)
T PRK11788        127 EELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKK  205 (389)
T ss_pred             HHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            55555554431 223445566666677777777777777666421  1      11345567777888888889888888


Q ss_pred             HHHCCCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc--hHHHHHHHHHhhccCChHHHHHHHHhC-CCCC
Q 005881          471 MQENKIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR--MDHIASVVHLFACRGQTRRAYEFIKSS-PIEP  546 (672)
Q Consensus       471 m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p  546 (672)
                      +.+.  .|+ ...+..+...+.+.|++++|.++++++...   .|+  ...+..++.+|...|++++|.+.++++ ...|
T Consensus       206 al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~---~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p  280 (389)
T PRK11788        206 ALAA--DPQCVRASILLGDLALAQGDYAAAIEALERVEEQ---DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYP  280 (389)
T ss_pred             HHhH--CcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            8874  344 456777778888889999999988888732   343  456778888899999999999888764 3467


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHh---cCChHHHHHHHHHHhhCCCccCCc
Q 005881          547 NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAE---ANMWDETAKVRKIMKEKSLKKDTG  618 (672)
Q Consensus       547 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~  618 (672)
                      +...+..+...+.+.|++++|...++++++..|++.. +..+...+..   .|+.+++..++++|.+++++++|.
T Consensus       281 ~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~-~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        281 GADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRG-FHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             CchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHH-HHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            7777778888899999999999999999999997654 4444444443   568999999999999888888876

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.83  E-value=4.7e-17  Score=172.82  Aligned_cols=350  Identities=10%  Similarity=-0.033  Sum_probs=265.4

Q ss_pred             cCCChhHHHHHHhcCCC------CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhH
Q 005881          224 KCEKLDLASRVFSNIQL------PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGG  297 (672)
Q Consensus       224 ~~g~~~~a~~~~~~~~~------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a  297 (672)
                      +..+++...-.|...++      .+......++..+.+.|++++|..+++........+.. .+..+..+....|+++.|
T Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~-~l~~l~~~~l~~g~~~~A   95 (656)
T PRK15174         17 KQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNGRD-LLRRWVISPLASSQPDAV   95 (656)
T ss_pred             hhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCchh-HHHHHhhhHhhcCCHHHH
Confidence            34444444444444432      12333455677888899999999999988876444333 334444566678999999


Q ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCC--C-CcccHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 005881          298 RQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDE--H-DVVSWNALIAGHLASCHYGEAIELLKDMLFEG  374 (672)
Q Consensus       298 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g  374 (672)
                      ...++.+.+.. +.+...+..+...+...|++++|...+++...  | +...+..+...+...|++++|...++++....
T Consensus        96 ~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~  174 (656)
T PRK15174         96 LQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEV  174 (656)
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC
Confidence            99999988775 34456677788899999999999999998865  3 45678888889999999999999999887653


Q ss_pred             CCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCchhHHHH
Q 005881          375 HCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSS---KNLVSWNTM  451 (672)
Q Consensus       375 ~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l  451 (672)
                        |+.......+..+...|++++|...++.+.+....++......+...+.+.|++++|...|+....   .+...+..+
T Consensus       175 --P~~~~a~~~~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~L  252 (656)
T PRK15174        175 --PPRGDMIATCLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSL  252 (656)
T ss_pred             --CCCHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence              333322222344778899999999999887765444444555667788899999999999998763   345678889


Q ss_pred             HHHHHhcCChHH----HHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHH
Q 005881          452 LVGYAQHGLGRE----ALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHL  525 (672)
Q Consensus       452 i~~~~~~g~~~~----A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~  525 (672)
                      ...+...|++++    |...|++..+.  .|+. ..+..+...+...|++++|...+++...   ..| +...+..+..+
T Consensus       253 g~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~---l~P~~~~a~~~La~~  327 (656)
T PRK15174        253 GLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLA---THPDLPYVRAMYARA  327 (656)
T ss_pred             HHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHH
Confidence            999999999986    89999999984  5654 5788889999999999999999998874   356 45678888999


Q ss_pred             hhccCChHHHHHHHHhC-CCCCCHHHHH-HHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 005881          526 FACRGQTRRAYEFIKSS-PIEPNKVVWR-CLLSGCKTHKDLVLGRYAAEKILSTDPEDT  582 (672)
Q Consensus       526 ~~~~g~~~~A~~~~~~~-~~~p~~~~~~-~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  582 (672)
                      |.+.|++++|.+.++++ ...|+...+. .+..++...|+.++|...++++++..|++.
T Consensus       328 l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~  386 (656)
T PRK15174        328 LRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHL  386 (656)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhc
Confidence            99999999999999874 3567654443 345668889999999999999999999764

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.83  E-value=4.8e-18  Score=172.27  Aligned_cols=299  Identities=15%  Similarity=0.066  Sum_probs=178.6

Q ss_pred             HHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCC---hhHHHHHHHHHHhc
Q 005881           48 ISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELN---SHVSNCLINMYGKC  124 (672)
Q Consensus        48 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~---~~~~~~li~~~~~~  124 (672)
                      ...+...|++++|+..|+++.+.+ +.+..++..+...+...|++++|..+++.+.+.+..++   ...+..+...|.+.
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            344566788888888888887753 33445677777777888888888888887776532221   24556667777777


Q ss_pred             CChHHHHHHhhccCC---CCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHH
Q 005881          125 GLLSSAQFVFDASLE---RNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHS  201 (672)
Q Consensus       125 g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~  201 (672)
                      |+++.|..+|+++.+   .+..+++.++..+.+.|++++|.+.++.+.+.+..+....                      
T Consensus       121 g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~----------------------  178 (389)
T PRK11788        121 GLLDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVE----------------------  178 (389)
T ss_pred             CCHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHH----------------------
Confidence            777777777776654   2445666667777777777777777776665432221100                      


Q ss_pred             HHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCC--C-CcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh
Q 005881          202 LVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQL--P-DLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSE  278 (672)
Q Consensus       202 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  278 (672)
                               ....+..+...+.+.|+.++|...|+++.+  | +...+..+...+.+.|++++|.+.++++...+.....
T Consensus       179 ---------~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~  249 (389)
T PRK11788        179 ---------IAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLS  249 (389)
T ss_pred             ---------HHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHH
Confidence                     011223334444455555555555554432  1 2334555666677777777777777777654322223


Q ss_pred             hhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCC--CCcccHHHHHHHHHh
Q 005881          279 VTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDE--HDVVSWNALIAGHLA  356 (672)
Q Consensus       279 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~li~~~~~  356 (672)
                      .++..+..++...|+.++|...++.+.+..  |+...+..+...+.+.|++++|..+++++.+  |+...++.++..+..
T Consensus       250 ~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~~  327 (389)
T PRK11788        250 EVLPKLMECYQALGDEAEGLEFLRRALEEY--PGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHLA  327 (389)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhhh
Confidence            445555566666666666666666655543  3333445666666666666666666665543  555566666655553


Q ss_pred             ---cCChhHHHHHHHHHHhCCCCCChH
Q 005881          357 ---SCHYGEAIELLKDMLFEGHCPNLY  380 (672)
Q Consensus       357 ---~~~~~~A~~~~~~m~~~g~~p~~~  380 (672)
                         .|+.++++.++++|.+.++.|++.
T Consensus       328 ~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        328 EAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             ccCCccchhHHHHHHHHHHHHHhCCCC
Confidence               346666777777776666555544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.83  E-value=3.8e-16  Score=169.71  Aligned_cols=362  Identities=9%  Similarity=0.039  Sum_probs=203.0

Q ss_pred             HHHHHHHhhcCCChhHHHHHHhcCC---CCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhcc
Q 005881          215 AMGLINLYAKCEKLDLASRVFSNIQ---LPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADV  291 (672)
Q Consensus       215 ~~~li~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~  291 (672)
                      +..+...+.+.|++++|..+|+...   ..+...+..+...+...|++++|+..+++..+.  .|+...+..+..++...
T Consensus        52 ~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~--~P~~~~~~~la~~l~~~  129 (765)
T PRK10049         52 YAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEALVKAKQLVSG--APDKANLLALAYVYKRA  129 (765)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHC
Confidence            4444444444444444444444422   122333444455555566666666666655544  22222244444445555


Q ss_pred             CCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcc--------cHHHHHHHHH-----hcC
Q 005881          292 KETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVV--------SWNALIAGHL-----ASC  358 (672)
Q Consensus       292 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--------~~~~li~~~~-----~~~  358 (672)
                      |+.+.|...++.+.+... .+..++..+..++...+..+.|...++.... ++.        ....++....     ..+
T Consensus       130 g~~~~Al~~l~~al~~~P-~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~-~p~~~~~l~~~~~~~~~r~~~~~~~~~~~  207 (765)
T PRK10049        130 GRHWDELRAMTQALPRAP-QTQQYPTEYVQALRNNRLSAPALGAIDDANL-TPAEKRDLEADAAAELVRLSFMPTRSEKE  207 (765)
T ss_pred             CCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCChHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHhhcccccChhH
Confidence            555555555555555432 2333334455555566666666666665554 111        0011111111     111


Q ss_pred             Ch---hHHHHHHHHHHhC-CCCCChH-HHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHH
Q 005881          359 HY---GEAIELLKDMLFE-GHCPNLY-TYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDA  433 (672)
Q Consensus       359 ~~---~~A~~~~~~m~~~-g~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  433 (672)
                      ++   ++|++.++.+.+. ...|+.. .+..                               .....+..+...|++++|
T Consensus       208 r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~-------------------------------a~~d~l~~Ll~~g~~~eA  256 (765)
T PRK10049        208 RYAIADRALAQYDALEALWHDNPDATADYQR-------------------------------ARIDRLGALLARDRYKDV  256 (765)
T ss_pred             HHHHHHHHHHHHHHHHhhcccCCccchHHHH-------------------------------HHHHHHHHHHHhhhHHHH
Confidence            12   3444444444432 1111110 0000                               000001223455777778


Q ss_pred             HHHHhhCCCCC---ch-hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-----HHHHHHHHHHhhccCcHHHHHHHHH
Q 005881          434 RKVFDHLSSKN---LV-SWNTMLVGYAQHGLGREALEIYSMMQENKIKPN-----DNTFIGVLSACVHIGLVEEGWHYFN  504 (672)
Q Consensus       434 ~~~~~~~~~~~---~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-----~~~~~~ll~~~~~~g~~~~a~~~~~  504 (672)
                      +..|+.+.+.+   +. .-..+...|...|++++|+..|+++.+.  .|.     ......+..++...|++++|...++
T Consensus       257 ~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~--~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~  334 (765)
T PRK10049        257 ISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYH--PETIADLSDEELADLFYSLLESENYPGALTVTA  334 (765)
T ss_pred             HHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhc--CCCCCCCChHHHHHHHHHHHhcccHHHHHHHHH
Confidence            77777776422   11 1122456777788888888888877653  222     2345556666777888888888887


Q ss_pred             HhHHhhC----------CCCc---hHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHH
Q 005881          505 SMIRDHG----------ISPR---MDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRY  569 (672)
Q Consensus       505 ~~~~~~~----------~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~  569 (672)
                      .+.....          ..|+   ...+..++.++...|++++|++.++++ ...| +...+..+...+...|++++|++
T Consensus       335 ~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~  414 (765)
T PRK10049        335 HTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAEN  414 (765)
T ss_pred             HHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHH
Confidence            7763211          1122   234556777888888888888888763 3345 45677777888888888999999


Q ss_pred             HHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCC
Q 005881          570 AAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       570 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  613 (672)
                      .++++++++|+++..+..++..+...|+|++|.++++.+.+..+
T Consensus       415 ~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~P  458 (765)
T PRK10049        415 ELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREP  458 (765)
T ss_pred             HHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC
Confidence            99999888898888888888888888899999888888876533

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

Probab=99.82  E-value=1.6e-15  Score=153.93  Aligned_cols=541  Identities=12%  Similarity=0.068  Sum_probs=379.3

Q ss_pred             chhHHHHHHHhHhCCCCCCcccHHHHHHHHh--cCCChhhHHHHHHHHHHhCC--CCChhHHHHHHHHHHhcCChHHHHH
Q 005881           57 PEVALNYFRLMVCCVLEPNYYTYVGAVSACA--SRGDARSGKEIHGRMYRSGL--ELNSHVSNCLINMYGKCGLLSSAQF  132 (672)
Q Consensus        57 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~~g~--~~~~~~~~~li~~~~~~g~~~~a~~  132 (672)
                      .+.|...|....+.. ++|.-  ..+.++|.  ..+++..|..+|........  .||+.+  .+-..+.++|+.+.|+.
T Consensus       146 ~~~A~a~F~~Vl~~s-p~Nil--~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~rI--gig~Cf~kl~~~~~a~~  220 (1018)
T KOG2002|consen  146 MDDADAQFHFVLKQS-PDNIL--ALLGKARIAYNKKDYRGALKYYKKALRINPACKADVRI--GIGHCFWKLGMSEKALL  220 (1018)
T ss_pred             HHHHHHHHHHHHhhC-CcchH--HHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCccc--hhhhHHHhccchhhHHH
Confidence            488999998887753 34443  34555654  67899999999999877643  455443  33355678999999999


Q ss_pred             HhhccCCCCcccHHHHHHH---HHhc---CChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHh
Q 005881          133 VFDASLERNSISWVSLLSS---YCQC---GEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKC  206 (672)
Q Consensus       133 ~~~~~~~~~~~~~~~li~~---~~~~---g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~  206 (672)
                      .|.+..+-|+..-++++..   -...   ..+..++.++...-... .-++...+.+-..+.-.|+++.+..+...+...
T Consensus       221 a~~ralqLdp~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~  299 (1018)
T KOG2002|consen  221 AFERALQLDPTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKEN-NENPVALNHLANHFYFKKDYERVWHLAEHAIKN  299 (1018)
T ss_pred             HHHHHHhcChhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHh
Confidence            9998887666444444322   1222   23455666555554331 234566777778888999999999999998876


Q ss_pred             cCC--CcHHHHHHHHHHhhcCCChhHHHHHHhcCCC--CCc--chHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-hh
Q 005881          207 ALE--FDKFVAMGLINLYAKCEKLDLASRVFSNIQL--PDL--TAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPS-EV  279 (672)
Q Consensus       207 ~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~  279 (672)
                      ...  .-...|-.+..+|-..|++++|...|-+...  ++.  ..+--+...+...|+.+.+...|+.....  .|| ..
T Consensus       300 t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~--~p~~~e  377 (1018)
T KOG2002|consen  300 TENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQ--LPNNYE  377 (1018)
T ss_pred             hhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHh--CcchHH
Confidence            522  1233466788999999999999999987764  332  34456788999999999999999999876  354 44


Q ss_pred             hHHHHHHHhhccC----CchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhC--------CCCCcccH
Q 005881          280 TFSYVLGAFADVK----ETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEM--------DEHDVVSW  347 (672)
Q Consensus       280 t~~~ll~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~--------~~~~~~~~  347 (672)
                      |...+-..|+..+    ..+.|..++....+.- +.|...|-.+..+|....-+ .+...+...        ....+...
T Consensus       378 tm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~~-~sL~~~~~A~d~L~~~~~~ip~E~L  455 (1018)
T KOG2002|consen  378 TMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTDPW-ASLDAYGNALDILESKGKQIPPEVL  455 (1018)
T ss_pred             HHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcChH-HHHHHHHHHHHHHHHcCCCCCHHHH
Confidence            5555545555553    3455666666555544 45666676666666554332 224444332        23567788


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhC---CCCCChH------HHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHH
Q 005881          348 NALIAGHLASCHYGEAIELLKDMLFE---GHCPNLY------TYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGS  418 (672)
Q Consensus       348 ~~li~~~~~~~~~~~A~~~~~~m~~~---g~~p~~~------t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  418 (672)
                      |.+.......|.+.+|...|.+....   ...+|..      +--.+-...-..++.+.|.+.+..+.+.... -+..|-
T Consensus       456 NNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~-YId~yl  534 (1018)
T KOG2002|consen  456 NNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPG-YIDAYL  534 (1018)
T ss_pred             HhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCch-hHHHHH
Confidence            99999999999999999999998765   2233332      2222334555677999999999999886421 122222


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHhhc--
Q 005881          419 ALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENK-IKPNDNTFIGVLSACVH--  492 (672)
Q Consensus       419 ~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~ll~~~~~--  492 (672)
                      .+.-+....+...+|...+....   +.++..|..+...+.....+..|.+-|+...+.- ..+|..+..+|.+.|..  
T Consensus       535 Rl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l  614 (1018)
T KOG2002|consen  535 RLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQAL  614 (1018)
T ss_pred             HhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHh
Confidence            22222223367788888888876   5677788888889999999999998777766542 23677777777765543  


Q ss_pred             ----------cCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhCC--CCCCHHHHHHHHHHHH
Q 005881          493 ----------IGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSSP--IEPNKVVWRCLLSGCK  559 (672)
Q Consensus       493 ----------~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~  559 (672)
                                .+..++|+++|....   ...| +...-+.++-+++..|++.+|.++|.+..  ......+|-.+...|.
T Consensus       615 ~~~~rn~ek~kk~~~KAlq~y~kvL---~~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~  691 (1018)
T KOG2002|consen  615 HNPSRNPEKEKKHQEKALQLYGKVL---RNDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYV  691 (1018)
T ss_pred             cccccChHHHHHHHHHHHHHHHHHH---hcCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHH
Confidence                      234677888887776   3345 67778889999999999999999998752  2235567889999999


Q ss_pred             hcCCHHHHHHHHHHHhcCC--CCCCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          560 THKDLVLGRYAAEKILSTD--PEDTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       560 ~~g~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      ..|++..|.+.|+..++..  .+++.....|+.++.+.|+|.+|.+........
T Consensus       692 e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~  745 (1018)
T KOG2002|consen  692 EQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHL  745 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            9999999999999998643  357788889999999999999999998877653

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.81  E-value=1.3e-16  Score=169.48  Aligned_cols=352  Identities=9%  Similarity=-0.040  Sum_probs=274.4

Q ss_pred             HHhcCChhHHHHHHHHHHHC--CCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChH
Q 005881          253 YAQLGKACEAIDLFVKMFSS--GLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLE  330 (672)
Q Consensus       253 ~~~~~~~~~a~~~~~~m~~~--~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  330 (672)
                      +.+..+|+.-.-.|..-.++  .-.-+......++..+.+.|+.+.|..++...+.....+....+ .++.+....|+++
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~-~l~~~~l~~g~~~   93 (656)
T PRK15174         15 LLKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLR-RWVISPLASSQPD   93 (656)
T ss_pred             hhhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHH-HHhhhHhhcCCHH
Confidence            34555555544444433221  11123344566778889999999999999999988755544444 4556667799999


Q ss_pred             HHHHHHhhCCC--C-CcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC-hHHHHHHHHHHcCcCchHHHHHHHHHHH
Q 005881          331 ESLKTFDEMDE--H-DVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPN-LYTYSNILNISSDIPAIEWGKQTHCCIV  406 (672)
Q Consensus       331 ~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~  406 (672)
                      +|...|+++..  | +...+..+...+.+.|++++|+..++++...  .|+ ...+..+...+...|+.++|...++.+.
T Consensus        94 ~A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~  171 (656)
T PRK15174         94 AVLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKELQAISLARTQA  171 (656)
T ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCChHHHHHHHHHHH
Confidence            99999999875  3 4557888888999999999999999999875  554 5567778889999999999999999887


Q ss_pred             hcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCC----CchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHH
Q 005881          407 KPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSK----NLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNT  482 (672)
Q Consensus       407 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  482 (672)
                      .....+.. .+..+ ..+...|++++|...++.+.+.    +...+..+...+...|++++|+..++++.+.. +.+...
T Consensus       172 ~~~P~~~~-a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~  248 (656)
T PRK15174        172 QEVPPRGD-MIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAAL  248 (656)
T ss_pred             HhCCCCHH-HHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHH
Confidence            66544333 33333 3477889999999999987643    23344556778899999999999999999853 333457


Q ss_pred             HHHHHHHhhccCcHHH----HHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCCC-HHHHHHHH
Q 005881          483 FIGVLSACVHIGLVEE----GWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEPN-KVVWRCLL  555 (672)
Q Consensus       483 ~~~ll~~~~~~g~~~~----a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~  555 (672)
                      +..+...+...|++++    |...|+++.   ...| +...+..++.++.+.|++++|...+++. ...|+ ...+..+.
T Consensus       249 ~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al---~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La  325 (656)
T PRK15174        249 RRSLGLAYYQSGRSREAKLQAAEHWRHAL---QFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYA  325 (656)
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHHHH---hhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            7788889999999986    899999887   4456 5688999999999999999999999863 45564 55677788


Q ss_pred             HHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCC
Q 005881          556 SGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       556 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  613 (672)
                      ..+...|++++|...++++++.+|+++..+..++.++...|++++|.+.+++..+...
T Consensus       326 ~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P  383 (656)
T PRK15174        326 RALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARA  383 (656)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCh
Confidence            8899999999999999999999998887777789999999999999999999876544

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.80  E-value=3.3e-15  Score=137.58  Aligned_cols=444  Identities=11%  Similarity=0.105  Sum_probs=289.5

Q ss_pred             cchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHh--cCCChhhH-HHHHHHHHHhCCCCChhHHHHH
Q 005881           41 VISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACA--SRGDARSG-KEIHGRMYRSGLELNSHVSNCL  117 (672)
Q Consensus        41 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~--~~~~~~~a-~~~~~~~~~~g~~~~~~~~~~l  117 (672)
                      +++=|.|+. ...+|..+.+.-+|+.|...|++.+...-..+++..+  ...+..-+ .+-|-.|.+.|-. +..+|   
T Consensus       116 V~~E~nL~k-mIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~-S~~sW---  190 (625)
T KOG4422|consen  116 VETENNLLK-MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGED-STSSW---  190 (625)
T ss_pred             hcchhHHHH-HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccc-ccccc---
Confidence            345555554 4567788889999999999988888777666665543  22332222 2334444444422 22232   


Q ss_pred             HHHHHhcCChHHHHHHhhccCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHH
Q 005881          118 INMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGM  197 (672)
Q Consensus       118 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~  197 (672)
                           +.|.+.+   ++-+...+...++..||.++++--..+.|.++|++......+.+..+|+.+|.+-+-.    .++
T Consensus       191 -----K~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K  258 (625)
T KOG4422|consen  191 -----KSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGK  258 (625)
T ss_pred             -----ccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccH
Confidence                 2344433   4444555677899999999999999999999999999998999999999999886533    347


Q ss_pred             HHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC
Q 005881          198 QIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPS  277 (672)
Q Consensus       198 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  277 (672)
                      .+..+|.+..+.||..|+|+++.+..+.|+++.|.+                           .|++++.+|++-|+.|.
T Consensus       259 ~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~---------------------------aalqil~EmKeiGVePs  311 (625)
T KOG4422|consen  259 KLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARK---------------------------AALQILGEMKEIGVEPS  311 (625)
T ss_pred             HHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHH---------------------------HHHHHHHHHHHhCCCcc
Confidence            889999999999999999888888888888877764                           35677788888888888


Q ss_pred             hhhHHHHHHHhhccCCchhH-HHHHHHHHH----hCCC----CchHHHHHHHHHHHccCChHHHHHHHhhCCC-------
Q 005881          278 EVTFSYVLGAFADVKETIGG-RQLHSLIIK----MGFS----SFTFVANTVLDFYSKCELLEESLKTFDEMDE-------  341 (672)
Q Consensus       278 ~~t~~~ll~~~~~~~~~~~a-~~~~~~~~~----~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-------  341 (672)
                      ..+|..+|.-+.+.++..+. ..++.++..    ..++    .+...+...+..|.+..+.+-|.++-.-...       
T Consensus       312 LsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~i  391 (625)
T KOG4422|consen  312 LSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFI  391 (625)
T ss_pred             hhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhc
Confidence            88888888887777776543 233333322    2222    2344556667777777777777766554443       


Q ss_pred             -CC---cccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHH
Q 005881          342 -HD---VVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIG  417 (672)
Q Consensus       342 -~~---~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  417 (672)
                       ++   ..-|..+....|+....+.-+..|+.|+-.-+-|+..+...++++....+.++-..+++..++..|........
T Consensus       392 g~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~  471 (625)
T KOG4422|consen  392 GPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLR  471 (625)
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHH
Confidence             11   23456677778888889999999999998888899999999999999999999999999998887744333322


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhc-CChHH-HHHHHHHHHHCCCCCCHHHHHHHHHHhhccCc
Q 005881          418 SALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQH-GLGRE-ALEIYSMMQENKIKPNDNTFIGVLSACVHIGL  495 (672)
Q Consensus       418 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~-A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  495 (672)
                      .-+...+++..            ..|+...-..+-...++. -++.+ ....-.+|.+..++|.  ..+..+-.+.+.|.
T Consensus       472 eeil~~L~~~k------------~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~t--~l~~ia~Ll~R~G~  537 (625)
T KOG4422|consen  472 EEILMLLARDK------------LHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWPAT--SLNCIAILLLRAGR  537 (625)
T ss_pred             HHHHHHHhcCC------------CCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCChh--HHHHHHHHHHHcch
Confidence            22222222221            012211111111111111 01111 1222345555444443  34444555677888


Q ss_pred             HHHHHHHHHHhHHhhCCCCchHHHH---HHHHHhhccCChHHHHHHHHhC
Q 005881          496 VEEGWHYFNSMIRDHGISPRMDHIA---SVVHLFACRGQTRRAYEFIKSS  542 (672)
Q Consensus       496 ~~~a~~~~~~~~~~~~~~p~~~~~~---~l~~~~~~~g~~~~A~~~~~~~  542 (672)
                      .++|.++|..+.++..-.|.....+   -+++.-.+.+....|...++-+
T Consensus       538 ~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a  587 (625)
T KOG4422|consen  538 TQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLA  587 (625)
T ss_pred             HHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            8888888887765544444444444   4455556677777777776644

>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=99.79  E-value=2.6e-15  Score=160.32  Aligned_cols=249  Identities=12%  Similarity=0.047  Sum_probs=157.8

Q ss_pred             CchhHHHHHHHHHHhC-C-CCchHHHHHHHHHHHccCChHHHHHHHhhCCC--CC-cccHHHHHHHHHhcCChhHHHHHH
Q 005881          293 ETIGGRQLHSLIIKMG-F-SSFTFVANTVLDFYSKCELLEESLKTFDEMDE--HD-VVSWNALIAGHLASCHYGEAIELL  367 (672)
Q Consensus       293 ~~~~a~~~~~~~~~~~-~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~-~~~~~~li~~~~~~~~~~~A~~~~  367 (672)
                      ++++|.+.++...+.+ . +.....++.+..++...|++++|...|+...+  |+ ...|..+...+...|++++|+..|
T Consensus       309 ~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~  388 (615)
T TIGR00990       309 SYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPRVTQSYIKRASMNLELGDPDKAEEDF  388 (615)
T ss_pred             hHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            3444444444444332 1 11222344444445555555555555555433  21 223444445555555555555555


Q ss_pred             HHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC---CC
Q 005881          368 KDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSS---KN  444 (672)
Q Consensus       368 ~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~  444 (672)
                      ++..+.  .|                                  .+..++..+...+...|++++|...|++..+   .+
T Consensus       389 ~~al~~--~p----------------------------------~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~  432 (615)
T TIGR00990       389 DKALKL--NS----------------------------------EDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDF  432 (615)
T ss_pred             HHHHHh--CC----------------------------------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccC
Confidence            555433  22                                  2344556667777778888888888877763   33


Q ss_pred             chhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCch-H-----
Q 005881          445 LVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRM-D-----  517 (672)
Q Consensus       445 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-~-----  517 (672)
                      ...|..+...+.+.|++++|+..|++.+..  .|+ ...+..+...+...|++++|+..|+....   +.|+. .     
T Consensus       433 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~---l~p~~~~~~~~~  507 (615)
T TIGR00990       433 IFSHIQLGVTQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIE---LEKETKPMYMNV  507 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHh---cCCccccccccH
Confidence            456777788888889999999999888874  444 46777888888888999999998888763   33321 1     


Q ss_pred             --HHHHHHHHhhccCChHHHHHHHHh-CCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 005881          518 --HIASVVHLFACRGQTRRAYEFIKS-SPIEPNK-VVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDT  582 (672)
Q Consensus       518 --~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  582 (672)
                        .++.....+...|++++|.+++++ +.+.|+. ..+..+...+.+.|++++|...|++++++.+...
T Consensus       508 ~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~~~  576 (615)
T TIGR00990       508 LPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAELARTEG  576 (615)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhccHH
Confidence              122222334456899999999876 4556644 4678888889999999999999999999887543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.79  E-value=6.6e-15  Score=156.59  Aligned_cols=435  Identities=11%  Similarity=0.074  Sum_probs=276.5

Q ss_pred             HHHHhcCChHHHHHHhhccCCCCcc---cHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhH---HHHHHHHhccCC
Q 005881          119 NMYGKCGLLSSAQFVFDASLERNSI---SWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSC---ASVLGACAVLGN  192 (672)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~---~~ll~~~~~~~~  192 (672)
                      -...+.|+++.|+..|++..+.+..   ....++..+...|+.++|+..+++..    .|+...+   ..+...+...|+
T Consensus        42 ii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~----~p~n~~~~~llalA~ly~~~gd  117 (822)
T PRK14574         42 IIRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQ----SSMNISSRGLASAARAYRNEKR  117 (822)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhc----cCCCCCHHHHHHHHHHHHHcCC
Confidence            3456788888888888887654333   23377777778888888888888876    3332222   222445667788


Q ss_pred             hHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHh--cCChhHHHHHHHHHH
Q 005881          193 LKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQ--LGKACEAIDLFVKMF  270 (672)
Q Consensus       193 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~--~~~~~~a~~~~~~m~  270 (672)
                      ++.|.++++.+++.... ++.++..++..|...++.++|.+.++.+.+.+......+..++..  .++..+|+..++++.
T Consensus       118 yd~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll  196 (822)
T PRK14574        118 WDQALALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAV  196 (822)
T ss_pred             HHHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHH
Confidence            88888888888776544 245555667777777777778777777764333222223333333  445545777777777


Q ss_pred             HCCCCCC-hhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHH
Q 005881          271 SSGLMPS-EVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNA  349 (672)
Q Consensus       271 ~~~~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  349 (672)
                      +..  |+ ...+.....+..+.|-...|.++...-      |+..+-......     +.+.+.+..+--..++.     
T Consensus       197 ~~~--P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~------p~~f~~~~~~~l-----~~~~~a~~vr~a~~~~~-----  258 (822)
T PRK14574        197 RLA--PTSEEVLKNHLEILQRNRIVEPALRLAKEN------PNLVSAEHYRQL-----ERDAAAEQVRMAVLPTR-----  258 (822)
T ss_pred             HhC--CCCHHHHHHHHHHHHHcCCcHHHHHHHHhC------ccccCHHHHHHH-----HHHHHHHHHhhcccccc-----
Confidence            652  43 333455555555666555555444431      111110000000     01111111111100000     


Q ss_pred             HHHHHHhcCC---hhHHHHHHHHHHhC-CCCCChH-HH----HHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHH
Q 005881          350 LIAGHLASCH---YGEAIELLKDMLFE-GHCPNLY-TY----SNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSAL  420 (672)
Q Consensus       350 li~~~~~~~~---~~~A~~~~~~m~~~-g~~p~~~-t~----~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  420 (672)
                           ....+   .+.|+.-++.+... +..|... -|    .--+-++...++...+...++.+...+.+....+-.++
T Consensus       259 -----~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~  333 (822)
T PRK14574        259 -----SETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWA  333 (822)
T ss_pred             -----cchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHH
Confidence                 00111   34455555555542 2223221 11    22345677788888888888888887766566677888


Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCC---------CchhHHHHHHHHHhcCChHHHHHHHHHHHHCCC-----------CCCH
Q 005881          421 VDMYAKCGRLNDARKVFDHLSSK---------NLVSWNTMLVGYAQHGLGREALEIYSMMQENKI-----------KPND  480 (672)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~~~---------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-----------~p~~  480 (672)
                      .++|...+++++|..+|+.+...         +......|.-+|..++++++|..+++++.+.-.           .||+
T Consensus       334 adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~  413 (822)
T PRK14574        334 ASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPND  413 (822)
T ss_pred             HHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCc
Confidence            89999999999999999887532         122246678888899999999999999887311           1222


Q ss_pred             --H-HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCCC-HHHHHHH
Q 005881          481 --N-TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEPN-KVVWRCL  554 (672)
Q Consensus       481 --~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l  554 (672)
                        . .+..++..+...|++.+|++.++.+..   ..| |......+.+++...|.+.+|++.++.. .+.|+ ..+....
T Consensus       414 d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~---~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~  490 (822)
T PRK14574        414 DWIEGQTLLVQSLVALNDLPTAQKKLEDLSS---TAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQ  490 (822)
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHH
Confidence              2 344556677889999999999999873   355 7889999999999999999999999763 35674 4466677


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCCCch
Q 005881          555 LSGCKTHKDLVLGRYAAEKILSTDPEDTSA  584 (672)
Q Consensus       555 ~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  584 (672)
                      +..+...+++++|..+.+.+++..|+++..
T Consensus       491 ~~~al~l~e~~~A~~~~~~l~~~~Pe~~~~  520 (822)
T PRK14574        491 AETAMALQEWHQMELLTDDVISRSPEDIPS  520 (822)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhhCCCchhH
Confidence            777888899999999999999999988754

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.77  E-value=1.3e-14  Score=154.37  Aligned_cols=436  Identities=11%  Similarity=0.051  Sum_probs=273.1

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCh--hhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCC
Q 005881          150 SSYCQCGEHVHGLKIFLLSRKSGVAISE--FSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEK  227 (672)
Q Consensus       150 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  227 (672)
                      -...+.|+++.|++.|++..+.  .|+.  ..+ .++..+...|+.++|...++..+ ............+...|...|+
T Consensus        42 ii~~r~Gd~~~Al~~L~qaL~~--~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~-~p~n~~~~~llalA~ly~~~gd  117 (822)
T PRK14574         42 IIRARAGDTAPVLDYLQEESKA--GPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQ-SSMNISSRGLASAARAYRNEKR  117 (822)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhh--CccchhhHH-HHHHHHHHcCCcHHHHHHHHHhc-cCCCCCHHHHHHHHHHHHHcCC
Confidence            3456778888888888877764  3443  122 55566666677777777776666 1111122233333456666677


Q ss_pred             hhHHHHHHhcCCC--C-CcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHH
Q 005881          228 LDLASRVFSNIQL--P-DLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLI  304 (672)
Q Consensus       228 ~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~  304 (672)
                      +++|.++|+++.+  | +...+..++..+.+.++.++|+..++++...  .|+...+..+...+...++..+|.+.++.+
T Consensus       118 yd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekl  195 (822)
T PRK14574        118 WDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEA  195 (822)
T ss_pred             HHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            7777777766653  2 2334445556666667777777776666554  344444433333333344444466666666


Q ss_pred             HHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHH
Q 005881          305 IKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSN  384 (672)
Q Consensus       305 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~  384 (672)
                      .+.. +.+...+..++.+..+.|-...|.++..+-+.  ..+-......     +.+.|.+    +++.+..|+.     
T Consensus       196 l~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~--~f~~~~~~~l-----~~~~~a~----~vr~a~~~~~-----  258 (822)
T PRK14574        196 VRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPN--LVSAEHYRQL-----ERDAAAE----QVRMAVLPTR-----  258 (822)
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCcc--ccCHHHHHHH-----HHHHHHH----HHhhcccccc-----
Confidence            6654 33455555566666666666666655554332  1111000000     0111111    1111111110     


Q ss_pred             HHHHHcCcCc---hHHHHHHHHHHHhc-CCCCc-ccHH-HH---HHHHHHhcCCHHHHHHHHhhCCCCC--c--hhHHHH
Q 005881          385 ILNISSDIPA---IEWGKQTHCCIVKP-GFDSN-VVIG-SA---LVDMYAKCGRLNDARKVFDHLSSKN--L--VSWNTM  451 (672)
Q Consensus       385 ll~~~~~~~~---~~~a~~~~~~~~~~-~~~~~-~~~~-~~---l~~~~~~~g~~~~A~~~~~~~~~~~--~--~~~~~l  451 (672)
                           ....+   .+.+..-++.+... +-.|. ...+ .+   .+-++.+.|++.++++.|+.+..+.  +  .+-..+
T Consensus       259 -----~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~  333 (822)
T PRK14574        259 -----SETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWA  333 (822)
T ss_pred             -----cchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHH
Confidence                 01112   23344444444432 22232 1222 22   2345678899999999999998432  2  355678


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCC-----CCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhC----------CCCch
Q 005881          452 LVGYAQHGLGREALEIYSMMQENK-----IKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHG----------ISPRM  516 (672)
Q Consensus       452 i~~~~~~g~~~~A~~~~~~m~~~g-----~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~----------~~p~~  516 (672)
                      ..+|...+++++|+.+|+++....     ..++......|..++..++++++|..+++.+.+...          -.|++
T Consensus       334 adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~  413 (822)
T PRK14574        334 ASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPND  413 (822)
T ss_pred             HHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCc
Confidence            899999999999999999997643     122333457899999999999999999999975211          12332


Q ss_pred             ---HHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHH
Q 005881          517 ---DHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNV  591 (672)
Q Consensus       517 ---~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  591 (672)
                         .....++..+...|++.+|++.++++ ...| |...+..+...+...|.+.+|++.++.+..++|++..+....+.+
T Consensus       414 d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~  493 (822)
T PRK14574        414 DWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAET  493 (822)
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHH
Confidence               44556788889999999999999875 3456 777888899999999999999999999999999999999999999


Q ss_pred             HHhcCChHHHHHHHHHHhhCCC
Q 005881          592 YAEANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       592 ~~~~g~~~~a~~~~~~~~~~~~  613 (672)
                      +...|+|++|.++.+.+.++.+
T Consensus       494 al~l~e~~~A~~~~~~l~~~~P  515 (822)
T PRK14574        494 AMALQEWHQMELLTDDVISRSP  515 (822)
T ss_pred             HHhhhhHHHHHHHHHHHHhhCC
Confidence            9999999999999987766544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.76  E-value=4.7e-14  Score=153.44  Aligned_cols=397  Identities=13%  Similarity=0.053  Sum_probs=212.9

Q ss_pred             HHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCC
Q 005881           47 LISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGL  126 (672)
Q Consensus        47 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  126 (672)
                      .+......|+.++|+++|.+..... +.+...+..+...+...|++++|..+++..++.. +.+...+..+...+...|+
T Consensus        21 ~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~   98 (765)
T PRK10049         21 WLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQ   98 (765)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCC
Confidence            3445556666666666666665421 2333345566666666666666666666666553 2234445555556666666


Q ss_pred             hHHHHHHhhccCC--C-CcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHH
Q 005881          127 LSSAQFVFDASLE--R-NSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLV  203 (672)
Q Consensus       127 ~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~  203 (672)
                      .++|...+++...  | +.. |..+...+...|++++|+..++++.+.  .|+                           
T Consensus        99 ~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~--~P~---------------------------  148 (765)
T PRK10049         99 YDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPR--APQ---------------------------  148 (765)
T ss_pred             HHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCC---------------------------
Confidence            6666666655432  1 333 555555555566666666666555553  222                           


Q ss_pred             HHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCC-CCc------chHHHHHHHHH-----hcCCh---hHHHHHHHH
Q 005881          204 FKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQL-PDL------TAWSALIGGYA-----QLGKA---CEAIDLFVK  268 (672)
Q Consensus       204 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~------~~~~~li~~~~-----~~~~~---~~a~~~~~~  268 (672)
                             +...+..+..++...|..+.|...++.... |+.      ......+....     ..+++   ++|+..++.
T Consensus       149 -------~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~  221 (765)
T PRK10049        149 -------TQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDA  221 (765)
T ss_pred             -------CHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHH
Confidence                   222223334444444555555555544442 110      01111111111     11223   567777777


Q ss_pred             HHHC-CCCCChh-hHHH----HHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCC
Q 005881          269 MFSS-GLMPSEV-TFSY----VLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEH  342 (672)
Q Consensus       269 m~~~-~~~p~~~-t~~~----ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  342 (672)
                      +.+. ...|+.. .+..    .+.++...++.++|...|+.+.+.+.+........+..+|...|++++|...|+++...
T Consensus       222 ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~  301 (765)
T PRK10049        222 LEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYH  301 (765)
T ss_pred             HHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhc
Confidence            7653 2223221 1111    12334455667777777777666543211111222455667777777777777765432


Q ss_pred             C-------cccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChH-HHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCc-
Q 005881          343 D-------VVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLY-TYSNILNISSDIPAIEWGKQTHCCIVKPGFDSN-  413 (672)
Q Consensus       343 ~-------~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-  413 (672)
                      +       ......+..++...|++++|.+.++++...  .|... .+..                       ....|+ 
T Consensus       302 ~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~--~P~~~~~~~~-----------------------~~~~p~~  356 (765)
T PRK10049        302 PETIADLSDEELADLFYSLLESENYPGALTVTAHTINN--SPPFLRLYGS-----------------------PTSIPND  356 (765)
T ss_pred             CCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhc--CCceEeecCC-----------------------CCCCCCc
Confidence            1       122344555666777777777777777654  22111 0000                       000122 


Q ss_pred             --ccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHH
Q 005881          414 --VVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NTFIGVL  487 (672)
Q Consensus       414 --~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll  487 (672)
                        ...+..+...+...|++++|++.++++.   ..+...+..+...+...|++++|++.+++...  +.|+. ..+....
T Consensus       357 ~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~--l~Pd~~~l~~~~a  434 (765)
T PRK10049        357 DWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEV--LEPRNINLEVEQA  434 (765)
T ss_pred             hHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh--hCCCChHHHHHHH
Confidence              1233455666777788888888887765   23455677777778888888888888888777  35664 3455555


Q ss_pred             HHhhccCcHHHHHHHHHHhHHh
Q 005881          488 SACVHIGLVEEGWHYFNSMIRD  509 (672)
Q Consensus       488 ~~~~~~g~~~~a~~~~~~~~~~  509 (672)
                      ..+...|++++|..+++.+.+.
T Consensus       435 ~~al~~~~~~~A~~~~~~ll~~  456 (765)
T PRK10049        435 WTALDLQEWRQMDVLTDDVVAR  456 (765)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHh
Confidence            6677778888888888887743

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.75  E-value=1.2e-14  Score=134.02  Aligned_cols=257  Identities=14%  Similarity=0.132  Sum_probs=182.6

Q ss_pred             CCcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHH
Q 005881           39 RNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLI  118 (672)
Q Consensus        39 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  118 (672)
                      .+..+|..+|.++|+-...+.|.++|++-.....+.+..+||.+|.+-.-.    ..+++..+|......||..|+|+++
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 KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMTPNLFTFNALL  280 (625)
T ss_pred             CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcCCchHhHHHHH
Confidence            466778888888888888888888888888777788888888888765433    3377888888888888888888888


Q ss_pred             HHHHhcCChHHHHHHhhccCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHH-HH
Q 005881          119 NMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKV-GM  197 (672)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~-a~  197 (672)
                      +..++.|+++.|...                           |++++.+|++.|+.|.-.+|..+|...++.++..+ +.
T Consensus       281 ~c~akfg~F~~ar~a---------------------------alqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as  333 (625)
T KOG4422|consen  281 SCAAKFGKFEDARKA---------------------------ALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVAS  333 (625)
T ss_pred             HHHHHhcchHHHHHH---------------------------HHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhH
Confidence            888888888777543                           45666777777777777777777777766666543 33


Q ss_pred             HHHHHHHHh--c--C----CCcHHHHHHHHHHhhcCCChhHHHHHHhcCCC--------CC---cchHHHHHHHHHhcCC
Q 005881          198 QIHSLVFKC--A--L----EFDKFVAMGLINLYAKCEKLDLASRVFSNIQL--------PD---LTAWSALIGGYAQLGK  258 (672)
Q Consensus       198 ~~~~~~~~~--~--~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--------~~---~~~~~~li~~~~~~~~  258 (672)
                      .+..++...  |  +    +.|...+..-+..+.+..+.+-|.++-.-...        ++   ..-|..+....++...
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            344443322  2  1    12334455555555566666666655443321        11   1235567778888889


Q ss_pred             hhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHcc
Q 005881          259 ACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKC  326 (672)
Q Consensus       259 ~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  326 (672)
                      .+.-...|+.|.-+-.-|+..+...++++....+.++-..+++..++..|-.........++..+++.
T Consensus       414 ~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~  481 (625)
T KOG4422|consen  414 IDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARD  481 (625)
T ss_pred             HHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcC
Confidence            99999999999988888999999999999999999999999999999888655555544444444443

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

Probab=99.75  E-value=3.9e-12  Score=123.84  Aligned_cols=485  Identities=10%  Similarity=0.032  Sum_probs=371.8

Q ss_pred             CChHHHHHHhhccCC---CCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHH
Q 005881          125 GLLSSAQFVFDASLE---RNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHS  201 (672)
Q Consensus       125 g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~  201 (672)
                      ...++|+-++.+..+   .+..    |.-+|++..-++.|..+++..++. +..+...|.+....=-..|+.+....+.+
T Consensus       390 E~~~darilL~rAveccp~s~d----LwlAlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~  464 (913)
T KOG0495|consen  390 EEPEDARILLERAVECCPQSMD----LWLALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIID  464 (913)
T ss_pred             cChHHHHHHHHHHHHhccchHH----HHHHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHH
Confidence            344445555554332   1223    334566667788899999988875 66677788777776678888888888776


Q ss_pred             HHH----HhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCC------CCcchHHHHHHHHHhcCChhHHHHHHHHHHH
Q 005881          202 LVF----KCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQL------PDLTAWSALIGGYAQLGKACEAIDLFVKMFS  271 (672)
Q Consensus       202 ~~~----~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  271 (672)
                      .-+    ..|+..+..-|-.=...+-..|..-.+..+...+..      .--.+|+.-...|.+.+.++-|..+|....+
T Consensus       465 rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alq  544 (913)
T KOG0495|consen  465 RGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQ  544 (913)
T ss_pred             HHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHh
Confidence            643    457888877777777777777777776666665531      2335788888899999999999999988876


Q ss_pred             CCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCC---CCcccHH
Q 005881          272 SGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDE---HDVVSWN  348 (672)
Q Consensus       272 ~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~  348 (672)
                      . .+-+...+......--..|..+....+++.+...- +-....+-.....+-..|++..|+.++...-+   .+...|-
T Consensus       545 v-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwl  622 (913)
T KOG0495|consen  545 V-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWL  622 (913)
T ss_pred             h-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHH
Confidence            4 23344455555555556777888888888887764 34455666667777788999999999988765   3445787


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcC
Q 005881          349 ALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCG  428 (672)
Q Consensus       349 ~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  428 (672)
                      +-+.....+.+++.|..+|.+....  .|+...|.--++.---.++.++|.+++++.++. ++.-...|-.+.+.+-+.+
T Consensus       623 aavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~  699 (913)
T KOG0495|consen  623 AAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQME  699 (913)
T ss_pred             HHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHH
Confidence            8888888999999999999998864  666666666666666678899999999888775 3445567888889999999


Q ss_pred             CHHHHHHHHhhCCC--CC-chhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHH
Q 005881          429 RLNDARKVFDHLSS--KN-LVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNS  505 (672)
Q Consensus       429 ~~~~A~~~~~~~~~--~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  505 (672)
                      +++.|++.|..-.+  |+ +..|-.|...--+.|+..+|..+|++.+-.+ +-|...|...+..-.+.|+.+.|..+..+
T Consensus       700 ~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmak  778 (913)
T KOG0495|consen  700 NIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAK  778 (913)
T ss_pred             HHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999987663  44 4578888888888899999999999998875 55667899999999999999999999888


Q ss_pred             hHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchH
Q 005881          506 MIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAH  585 (672)
Q Consensus       506 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  585 (672)
                      ..++  .+.+...|.--|.+..+.++-..+.+.+++..  -|+.+.-.+...+....+++.|..-|+++++.+|++-.+|
T Consensus       779 ALQe--cp~sg~LWaEaI~le~~~~rkTks~DALkkce--~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~w  854 (913)
T KOG0495|consen  779 ALQE--CPSSGLLWAEAIWLEPRPQRKTKSIDALKKCE--HDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAW  854 (913)
T ss_pred             HHHh--CCccchhHHHHHHhccCcccchHHHHHHHhcc--CCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHH
Confidence            8754  34466788888999999999888888888864  4666666777788899999999999999999999999999


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhhCCCccCCceeEEEeCC
Q 005881          586 IMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQN  626 (672)
Q Consensus       586 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  626 (672)
                      ..+-..+...|.-++-.+++.+...  .++.-|..|..+..
T Consensus       855 a~fykfel~hG~eed~kev~~~c~~--~EP~hG~~W~avSK  893 (913)
T KOG0495|consen  855 AWFYKFELRHGTEEDQKEVLKKCET--AEPTHGELWQAVSK  893 (913)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHhc--cCCCCCcHHHHHhh
Confidence            9999999999999999999998865  34456777864443

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

Probab=99.74  E-value=8.3e-13  Score=133.63  Aligned_cols=581  Identities=13%  Similarity=0.038  Sum_probs=363.6

Q ss_pred             hcCCChhHHHHHhccCCC---CCcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHH
Q 005881           21 VKFSRINDAQKLFDEMPE---RNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKE   97 (672)
Q Consensus        21 ~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~   97 (672)
                      .-.|+.++|.+++.++..   .+...|..|...|-+.|+.++++..+-..--.. |-|..-|..+.......|++.+|.-
T Consensus       150 farg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~~  228 (895)
T KOG2076|consen  150 FARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQARY  228 (895)
T ss_pred             HHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHHH
Confidence            344999999999999876   467789999999999999999988776554332 4456788888888999999999999


Q ss_pred             HHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCCCCc----c----cHHHHHHHHHhcCChHHHHHHHHHHH
Q 005881           98 IHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNS----I----SWVSLLSSYCQCGEHVHGLKIFLLSR  169 (672)
Q Consensus        98 ~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~----~----~~~~li~~~~~~g~~~~a~~~~~~m~  169 (672)
                      ++.+.++.. +++....-.-...|-+.|+...|.+.|.++...+.    .    .--.++..+...++-+.|++.++...
T Consensus       229 cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~  307 (895)
T KOG2076|consen  229 CYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGAL  307 (895)
T ss_pred             HHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            999999986 34555666677889999999999888877655332    1    12234566677777788998888777


Q ss_pred             hC-CCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcC---------------------------CCcHHH-HHHHHH
Q 005881          170 KS-GVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCAL---------------------------EFDKFV-AMGLIN  220 (672)
Q Consensus       170 ~~-g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---------------------------~~~~~~-~~~li~  220 (672)
                      .. +-..+...++.++..+.+...++.+............                           .++..+ ...+..
T Consensus       308 s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL  387 (895)
T KOG2076|consen  308 SKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICL  387 (895)
T ss_pred             hhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhh
Confidence            63 2334455666777777777777777666655554211                           222223 111111


Q ss_pred             HhhcCCChhHHHHHHhcCC----CCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchh
Q 005881          221 LYAKCEKLDLASRVFSNIQ----LPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIG  296 (672)
Q Consensus       221 ~~~~~g~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~  296 (672)
                      ...+.+...++..-|-...    ..++..|..+..+|.+.|++.+|+.+|..+.....--+...|..+-.++-..|..+.
T Consensus       388 ~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~  467 (895)
T KOG2076|consen  388 VHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEE  467 (895)
T ss_pred             hcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHH
Confidence            2223333334433332221    234556788889999999999999999999887655667788888889999999999


Q ss_pred             HHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcc------------cHHHHHHHHHhcCChhHHH
Q 005881          297 GRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVV------------SWNALIAGHLASCHYGEAI  364 (672)
Q Consensus       297 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~------------~~~~li~~~~~~~~~~~A~  364 (672)
                      |.+.++.++... +.+..+--+|...+.+.|+.++|.+++..+..||..            ..-.....+.+.|+.++=+
T Consensus       468 A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi  546 (895)
T KOG2076|consen  468 AIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFI  546 (895)
T ss_pred             HHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHH
Confidence            999999988764 334455567888899999999999999998776622            1122334566777777655


Q ss_pred             HHHHHHHhCC----------------------CCCChHHHHHHHHHHcCcCchHHHHHHHHH------HHhcCCCCcc--
Q 005881          365 ELLKDMLFEG----------------------HCPNLYTYSNILNISSDIPAIEWGKQTHCC------IVKPGFDSNV--  414 (672)
Q Consensus       365 ~~~~~m~~~g----------------------~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~------~~~~~~~~~~--  414 (672)
                      .+-..|+...                      ..-...+.-.+..+-.+.++.....+-...      ....++..+.  
T Consensus       547 ~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsiddwf  626 (895)
T KOG2076|consen  547 NTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSIDDWF  626 (895)
T ss_pred             HHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHHHHH
Confidence            4444443211                      111122222233333333332222111111      1111222111  


Q ss_pred             cHHHHHHHHHHhcCCHHHHHHHHhhCCCCC-----ch----hHHHHHHHHHhcCChHHHHHHHHHHHHC-CC--CCCHH-
Q 005881          415 VIGSALVDMYAKCGRLNDARKVFDHLSSKN-----LV----SWNTMLVGYAQHGLGREALEIYSMMQEN-KI--KPNDN-  481 (672)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----~~----~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~--~p~~~-  481 (672)
                      ..+.-++..+++.++.++|..+...+...+     ..    .-...+.+.+..+++..|...++.|... +.  .|... 
T Consensus       627 el~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~~~q~~  706 (895)
T KOG2076|consen  627 ELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLDVYQLN  706 (895)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhhhHHHH
Confidence            234557778889999999999888776321     11    2244556677888999999888888764 11  22222 


Q ss_pred             HHHHHHHHhhc-----------------------------------cCcHHHHHHHHHHhHHhhCCCCch-HHHHHHHHH
Q 005881          482 TFIGVLSACVH-----------------------------------IGLVEEGWHYFNSMIRDHGISPRM-DHIASVVHL  525 (672)
Q Consensus       482 ~~~~ll~~~~~-----------------------------------~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~  525 (672)
                      .|+..++...+                                   .+.+..|+..+-...   ...|+. -+--+|+.+
T Consensus       707 l~n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~---~~~pd~Pl~nl~lgla  783 (895)
T KOG2076|consen  707 LWNLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAF---RQNPDSPLINLCLGLA  783 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHH---HhCCCCcHHHHHHHHH
Confidence            23322222222                                   244555555544433   334442 222222222


Q ss_pred             hh----------ccCChHHHHHHHHh---CCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC---------
Q 005881          526 FA----------CRGQTRRAYEFIKS---SPI-EPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDT---------  582 (672)
Q Consensus       526 ~~----------~~g~~~~A~~~~~~---~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~---------  582 (672)
                      +.          |.-.+-....++++   +.. .....++-.+..+|...|=...|...|++++++.|.+.         
T Consensus       784 fih~a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~~~p~~~~~~~~d~~d  863 (895)
T KOG2076|consen  784 FIHLALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLEVSPKDVTDPKEDNYD  863 (895)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhCCCccccccccCCccc
Confidence            21          11122333444432   211 11344566678888888888888888888888876421         


Q ss_pred             ---chHHHHHHHHHhcCChHHHHHHHHH
Q 005881          583 ---SAHIMLSNVYAEANMWDETAKVRKI  607 (672)
Q Consensus       583 ---~~~~~l~~~~~~~g~~~~a~~~~~~  607 (672)
                         .+-.+|.-+|...|+.+-|.++.++
T Consensus       864 LrkeAA~NL~LIY~~SGn~~lArqil~k  891 (895)
T KOG2076|consen  864 LRKEAAYNLHLIYKKSGNMQLARQILEK  891 (895)
T ss_pred             HHHHHHhhhhhhhccCCcHHHHHHHHHh
Confidence               2344677788888888888887764

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

Probab=99.74  E-value=4.5e-15  Score=148.77  Aligned_cols=512  Identities=13%  Similarity=0.050  Sum_probs=261.0

Q ss_pred             cccCCCCCcchhhHHHHHHhcCCChhHHHHHhccCCC----CCcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcc
Q 005881            2 ITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPE----RNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYY   77 (672)
Q Consensus         2 ~~~g~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~   77 (672)
                      ...|+.||-+||..++..||..|+.+.|- +|..|.-    -+...++.++.+..++++.+.+.           .|.+.
T Consensus        17 e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep~aD   84 (1088)
T KOG4318|consen   17 EISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EPLAD   84 (1088)
T ss_pred             HHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CCchh
Confidence            45799999999999999999999999999 8877764    23445667777777776666554           46667


Q ss_pred             cHHHHHHHHhcCCChhhHHHHHH---HHH----HhCCC-CChhH-------------HHHHHHHHHhcCChHHHHHHhhc
Q 005881           78 TYVGAVSACASRGDARSGKEIHG---RMY----RSGLE-LNSHV-------------SNCLINMYGKCGLLSSAQFVFDA  136 (672)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~---~~~----~~g~~-~~~~~-------------~~~li~~~~~~g~~~~a~~~~~~  136 (672)
                      ||..++.+|...||+..-..+-.   .+.    ..|+. |....             -...+....-.|-++.+.+++..
T Consensus        85 tyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~  164 (1088)
T KOG4318|consen   85 TYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAK  164 (1088)
T ss_pred             HHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhh
Confidence            77777777777776544222211   111    11210 00000             01111112222333333333322


Q ss_pred             cC---------------------------------C-CCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHH
Q 005881          137 SL---------------------------------E-RNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCAS  182 (672)
Q Consensus       137 ~~---------------------------------~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~  182 (672)
                      ++                                 + ++..+|.+++..-.-+|+.+.|..++..|++.|+..+..-|-.
T Consensus       165 ~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwp  244 (1088)
T KOG4318|consen  165 VPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWP  244 (1088)
T ss_pred             CCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchh
Confidence            22                                 1 4556667777777777777777777777777777766665555


Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcC-----
Q 005881          183 VLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLG-----  257 (672)
Q Consensus       183 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~-----  257 (672)
                      +|-+   .++...+..+++-|...|+.|+..|+...+..+...|....+....     ++...+.+-+..-+-.|     
T Consensus       245 Ll~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~s-----q~~hg~tAavrsaa~rg~~a~k  316 (1088)
T KOG4318|consen  245 LLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGS-----QLAHGFTAAVRSAACRGLLANK  316 (1088)
T ss_pred             hhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhccccc-----chhhhhhHHHHHHHhcccHhHH
Confidence            5544   5666666777777777777777777666555555544422221111     11111111111111112     


Q ss_pred             Ch-----hHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCC---CCchHHHHHHHHHHHcc---
Q 005881          258 KA-----CEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGF---SSFTFVANTVLDFYSKC---  326 (672)
Q Consensus       258 ~~-----~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~li~~~~~~---  326 (672)
                      +.     .-....+.+..-.|+......|...... ...|.-+.++++-..+..--.   ..++..+..++.-|.+.   
T Consensus       317 ~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~l-~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrqyFrr~e~  395 (1088)
T KOG4318|consen  317 RLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEKL-RHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQYFRRIER  395 (1088)
T ss_pred             HHHHHHHHHHHHHhhHHHHhccccchHHHHHHHHH-HHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHHHHHHHHh
Confidence            11     1111111111112333333333222222 224555555555444432111   11122233333322221   


Q ss_pred             -------------------CChHHHHHHHhhCCC----------------CCccc-----------HHHHHHHHHhcCCh
Q 005881          327 -------------------ELLEESLKTFDEMDE----------------HDVVS-----------WNALIAGHLASCHY  360 (672)
Q Consensus       327 -------------------~~~~~a~~~~~~~~~----------------~~~~~-----------~~~li~~~~~~~~~  360 (672)
                                         ....+..++......                +...+           -+.++..++..-+.
T Consensus       396 ~~~~~i~~~~qgls~~l~se~tp~vsell~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~n~  475 (1088)
T KOG4318|consen  396 HICSRIYYAGQGLSLNLNSEDTPRVSELLENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEYNK  475 (1088)
T ss_pred             hHHHHHHHHHHHHHhhhchhhhHHHHHHHHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHHH
Confidence                               111111111111110                01111           12233334443333


Q ss_pred             hHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhc--CCCCcccHHHHHHHHHHhcCCHHHHHHHHh
Q 005881          361 GEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKP--GFDSNVVIGSALVDMYAKCGRLNDARKVFD  438 (672)
Q Consensus       361 ~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  438 (672)
                      .+++..-+..... .-|  ..|..+++-|......+.|..+.++....  .+..+...+..+.+.+.+.+...++..++.
T Consensus       476 lK~l~~~ekye~~-lf~--g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL~  552 (1088)
T KOG4318|consen  476 LKILCDEEKYEDL-LFA--GLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTILY  552 (1088)
T ss_pred             HHHHHHHHHHHHH-Hhh--hHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHHh
Confidence            4443322222211 111  45677777777777777777777776543  344566666777777777777888887777


Q ss_pred             hCCC-----CC-chhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCC
Q 005881          439 HLSS-----KN-LVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGI  512 (672)
Q Consensus       439 ~~~~-----~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  512 (672)
                      ++.+     ++ ..+.--+..+.+..|+.+...++++-....|+.-+    .-++....+.++...|.++++....++..
T Consensus       553 e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~et----gPl~~vhLrkdd~s~a~ea~e~~~qkyk~  628 (1088)
T KOG4318|consen  553 EDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSET----GPLWMVHLRKDDQSAAQEAPEPEEQKYKP  628 (1088)
T ss_pred             hhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhhc----ccceEEEeeccchhhhhhcchHHHHHhcC
Confidence            7763     11 12334455666677777777777777766665432    22334455566667777766666555555


Q ss_pred             CC-chHHHHHHHH------------------HhhccCChHHHHHHHHh
Q 005881          513 SP-RMDHIASVVH------------------LFACRGQTRRAYEFIKS  541 (672)
Q Consensus       513 ~p-~~~~~~~l~~------------------~~~~~g~~~~A~~~~~~  541 (672)
                      .| +.+.+..++.                  .|.+.|+..+|.++.+.
T Consensus       629 ~P~~~e~lcrlv~ke~td~~qk~mDls~~iq~f~k~g~~~~a~di~et  676 (1088)
T KOG4318|consen  629 YPKDLEGLCRLVYKETTDSPQKTMDLSIPIQKFEKLGSCVDAGDITET  676 (1088)
T ss_pred             ChHHHHHHHHHHHhhccccHHHHHhhcchhHHHHhcccccchhhcccc
Confidence            55 2344444333                  25566666666666553

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

Probab=99.73  E-value=1.1e-12  Score=132.69  Aligned_cols=518  Identities=14%  Similarity=0.111  Sum_probs=276.1

Q ss_pred             CChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhc---cCCCCcccHHHHHHHHHhcCChHHHHHHHH
Q 005881           90 GDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDA---SLERNSISWVSLLSSYCQCGEHVHGLKIFL  166 (672)
Q Consensus        90 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  166 (672)
                      |++++|..++.++++.. +.+...|-.|-..|-..|+.+++...+--   +...|..-|..+.....+.|+++.|.-+|.
T Consensus       153 g~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy~  231 (895)
T KOG2076|consen  153 GDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYCYS  231 (895)
T ss_pred             CCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHHHH
Confidence            66666666666666654 23455566666666666666666544432   222344556666666666666666666666


Q ss_pred             HHHhCCCCCCh-hhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHH----HHHhhcCCChhHHHHHHhcCCC-
Q 005881          167 LSRKSGVAISE-FSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGL----INLYAKCEKLDLASRVFSNIQL-  240 (672)
Q Consensus       167 ~m~~~g~~p~~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l----i~~~~~~g~~~~a~~~~~~~~~-  240 (672)
                      +.++.  .|+. ..+---...|-+.|+...|..-+.++.+...+.|..-...+    +..|...++-+.|.+.++.... 
T Consensus       232 rAI~~--~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~  309 (895)
T KOG2076|consen  232 RAIQA--NPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSK  309 (895)
T ss_pred             HHHhc--CCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence            66553  2222 22222333445566666666666666555443332222222    2334444555556555555432 


Q ss_pred             ----CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC----------------------ChhhH----HHHHHHhhc
Q 005881          241 ----PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMP----------------------SEVTF----SYVLGAFAD  290 (672)
Q Consensus       241 ----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p----------------------~~~t~----~~ll~~~~~  290 (672)
                          -+...++.++..|.+...++.+......+......+                      +...|    ..+.-++.+
T Consensus       310 ~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~  389 (895)
T KOG2076|consen  310 EKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVH  389 (895)
T ss_pred             ccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhc
Confidence                233455666666666666666666666555411111                      11111    122233344


Q ss_pred             cCCchhHHHHHHHHHHhC--CCCchHHHHHHHHHHHccCChHHHHHHHhhCCC----CCcccHHHHHHHHHhcCChhHHH
Q 005881          291 VKETIGGRQLHSLIIKMG--FSSFTFVANTVLDFYSKCELLEESLKTFDEMDE----HDVVSWNALIAGHLASCHYGEAI  364 (672)
Q Consensus       291 ~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~A~  364 (672)
                      .+..+...-+.....+..  ..-+...|.-+.++|...|.+.+|..+|..+..    .+...|-.+..+|...|.+++|+
T Consensus       390 L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~  469 (895)
T KOG2076|consen  390 LKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAI  469 (895)
T ss_pred             ccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHH
Confidence            555555555555555555  233455666666677777777777777766654    24456666666666777777777


Q ss_pred             HHHHHHHhCCCCCChH-HHHHHHHHHcCcCchHHHHHHHHHHH--------hcCCCCcccHHHHHHHHHHhcCCHHHHHH
Q 005881          365 ELLKDMLFEGHCPNLY-TYSNILNISSDIPAIEWGKQTHCCIV--------KPGFDSNVVIGSALVDMYAKCGRLNDARK  435 (672)
Q Consensus       365 ~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  435 (672)
                      +.|+..+..  .|+.. .-..|-..+.+.|+.++|.+.+..+.        ..+..|...+.-...+.+.+.|+.++=..
T Consensus       470 e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~  547 (895)
T KOG2076|consen  470 EFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFIN  547 (895)
T ss_pred             HHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHH
Confidence            777666654  44332 22223334556666666666666533        12233444443344445555555444222


Q ss_pred             HHhhCC-----------------------------------------------------------------CCCch----
Q 005881          436 VFDHLS-----------------------------------------------------------------SKNLV----  446 (672)
Q Consensus       436 ~~~~~~-----------------------------------------------------------------~~~~~----  446 (672)
                      +-..|.                                                                 .-...    
T Consensus       548 t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsiddwfe  627 (895)
T KOG2076|consen  548 TASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSIDDWFE  627 (895)
T ss_pred             HHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHHHHHH
Confidence            111110                                                                 00001    


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCC--CCCH-H-HH-HHHHHHhhccCcHHHHHHHHHHhHHhhCCCCch---HH
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMMQENKI--KPND-N-TF-IGVLSACVHIGLVEEGWHYFNSMIRDHGISPRM---DH  518 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~-~-~~-~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~---~~  518 (672)
                      .+.-++.++++.+++++|+.+...+....+  .++. . .+ ...+.++...+++..|...++.|...++...++   ..
T Consensus       628 l~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~~~q~~l  707 (895)
T KOG2076|consen  628 LFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLDVYQLNL  707 (895)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhhhHHHHH
Confidence            134467788899999999999988877532  2222 1 22 334556678899999999999988665444332   44


Q ss_pred             HHHHHHHhhc-----------------------------------cCChHHHHHHHHh-CCCCCCHHHHHHHHHH-H---
Q 005881          519 IASVVHLFAC-----------------------------------RGQTRRAYEFIKS-SPIEPNKVVWRCLLSG-C---  558 (672)
Q Consensus       519 ~~~l~~~~~~-----------------------------------~g~~~~A~~~~~~-~~~~p~~~~~~~l~~~-~---  558 (672)
                      |++....+.+                                   ++.+.-|+..+-+ ....|+.+..+.+++. +   
T Consensus       708 ~n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~~pd~Pl~nl~lglafih~  787 (895)
T KOG2076|consen  708 WNLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQNPDSPLINLCLGLAFIHL  787 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHH
Confidence            5533333322                                   3334444433221 1122332222222211 1   


Q ss_pred             -------HhcCCHHHHHHHHHHHhcCCCC--CCchHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          559 -------KTHKDLVLGRYAAEKILSTDPE--DTSAHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       559 -------~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                             .+|-.+.++...+.+..++...  .-.+..+++.+|-..|-..-|...+++..+-.
T Consensus       788 a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~~~  850 (895)
T KOG2076|consen  788 ALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLEVS  850 (895)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhCCC
Confidence                   1112234455555555544432  45678899999999999999999999987643

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

Probab=99.70  E-value=2.9e-14  Score=132.33  Aligned_cols=270  Identities=13%  Similarity=0.102  Sum_probs=192.2

Q ss_pred             HHHccCChHHHHHHHhhCCCCCcccHHHH-----HHHHHh-cCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCch
Q 005881          322 FYSKCELLEESLKTFDEMDEHDVVSWNAL-----IAGHLA-SCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAI  395 (672)
Q Consensus       322 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~l-----i~~~~~-~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~  395 (672)
                      -|.+.|+++.|.++++-..+.|..+-++-     .--|.+ ..++..|.++-+...... +-+......--+.....|++
T Consensus       428 ~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~  506 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDL  506 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcH
Confidence            35566777777766666655443322221     112222 234555555544443221 11222222222234456777


Q ss_pred             HHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHH
Q 005881          396 EWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQ  472 (672)
Q Consensus       396 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  472 (672)
                      ++|...+++.....-......||. .-.+-+.|++++|.+.|-++.   ..+....-.+...|-...++..|++++.+..
T Consensus       507 dka~~~ykeal~ndasc~ealfni-glt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~  585 (840)
T KOG2003|consen  507 DKAAEFYKEALNNDASCTEALFNI-GLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQAN  585 (840)
T ss_pred             HHHHHHHHHHHcCchHHHHHHHHh-cccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhc
Confidence            777777777776543333333332 334667899999999998765   5667777778888999999999999998876


Q ss_pred             HCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCCCHHH
Q 005881          473 ENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEPNKVV  550 (672)
Q Consensus       473 ~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~  550 (672)
                      .. ++.|+.....|...|-+.|+-.+|.+.+-.   .+...| +.++...|..-|....-+++|..+|++. -+.|+..-
T Consensus       586 sl-ip~dp~ilskl~dlydqegdksqafq~~yd---syryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~k  661 (840)
T KOG2003|consen  586 SL-IPNDPAILSKLADLYDQEGDKSQAFQCHYD---SYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSK  661 (840)
T ss_pred             cc-CCCCHHHHHHHHHHhhcccchhhhhhhhhh---cccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHH
Confidence            64 455567788899999999999999988753   344455 8899999999999999999999999875 47899999


Q ss_pred             HHHHHHHHH-hcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCC
Q 005881          551 WRCLLSGCK-THKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANM  597 (672)
Q Consensus       551 ~~~l~~~~~-~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  597 (672)
                      |..++..|. +.|+++.|...|+...+..|.+...+..|+++....|.
T Consensus       662 wqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  662 WQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            999998875 56999999999999999999999999999998887774

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

Probab=99.69  E-value=3.9e-13  Score=135.13  Aligned_cols=524  Identities=13%  Similarity=0.032  Sum_probs=285.7

Q ss_pred             HHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCCCCc
Q 005881           63 YFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNS  142 (672)
Q Consensus        63 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  142 (672)
                      ++-.+...|+.|+..||.+++..||..|+.+.|- +|..|.-...+.+..+++.++......++.+.+.       +|..
T Consensus        12 fla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~a   83 (1088)
T KOG4318|consen   12 FLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPLA   83 (1088)
T ss_pred             HHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCch
Confidence            4455556666666666666666666666666666 6666666655556666666666666666655543       4556


Q ss_pred             ccHHHHHHHHHhcCChHHHHHHHHH-H-------HhCCCCCChhhHHHHHHHHhcc-CCh------HHHHHHHHHHHHhc
Q 005881          143 ISWVSLLSSYCQCGEHVHGLKIFLL-S-------RKSGVAISEFSCASVLGACAVL-GNL------KVGMQIHSLVFKCA  207 (672)
Q Consensus       143 ~~~~~li~~~~~~g~~~~a~~~~~~-m-------~~~g~~p~~~t~~~ll~~~~~~-~~~------~~a~~~~~~~~~~~  207 (672)
                      .+|..|..+|.+.|+... ++..++ |       ...|+.-...-+-..+++|-.. .+.      ..-+.+++..++.+
T Consensus        84 Dtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll  162 (1088)
T KOG4318|consen   84 DTYTNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLL  162 (1088)
T ss_pred             hHHHHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666666443 111111 1       1122221111222222221110 000      01112233333332


Q ss_pred             C-CCc-----HHHHHHHHHHhhc-CCChhHHHHHHhcCCC-CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChh
Q 005881          208 L-EFD-----KFVAMGLINLYAK-CEKLDLASRVFSNIQL-PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEV  279 (672)
Q Consensus       208 ~-~~~-----~~~~~~li~~~~~-~g~~~~a~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  279 (672)
                      . .|.     ++..  +++-... ...+++-..+.+...+ ++..+|.++++.-..+|+.+.|..++.+|++.|++.+.+
T Consensus       163 ~~~Pvsa~~~p~~v--fLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~H  240 (1088)
T KOG4318|consen  163 AKVPVSAWNAPFQV--FLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAH  240 (1088)
T ss_pred             hhCCcccccchHHH--HHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccc
Confidence            1 110     1111  1222221 2234444444444444 899999999999999999999999999999999999999


Q ss_pred             hHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCC
Q 005881          280 TFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCH  359 (672)
Q Consensus       280 t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~  359 (672)
                      -|..++-+   .++......++.-|.+.|+.|+..++...+-.+.+.|....+...     .+....+++-...-.-.| 
T Consensus       241 yFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~-----sq~~hg~tAavrsaa~rg-  311 (1088)
T KOG4318|consen  241 YFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEG-----SQLAHGFTAAVRSAACRG-  311 (1088)
T ss_pred             cchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccc-----cchhhhhhHHHHHHHhcc-
Confidence            99999877   888889999999999999999999999888777776553222211     122222222222222222 


Q ss_pred             hhHHHH------------HHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhc
Q 005881          360 YGEAIE------------LLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKC  427 (672)
Q Consensus       360 ~~~A~~------------~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  427 (672)
                       ..|.+            .+.+..-.|+......|....... ..|.-+...++...+.......+.    .-+++|   
T Consensus       312 -~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~l~-hQgk~e~veqlvg~l~npt~r~s~----~~V~a~---  382 (1088)
T KOG4318|consen  312 -LLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEKLR-HQGKGEEVEQLVGQLLNPTLRDSG----QNVDAF---  382 (1088)
T ss_pred             -cHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHHHHH-HcCCCchHHHHHhhhcCCccccCc----chHHHH---
Confidence             22222            222222234433333343333222 255555666665555433222111    111111   


Q ss_pred             CCHHHHHHHHhhCCCCCchhHHHHHHHHHh---cCChHHHHHHHHHH------------HH----CCCCC-------CHH
Q 005881          428 GRLNDARKVFDHLSSKNLVSWNTMLVGYAQ---HGLGREALEIYSMM------------QE----NKIKP-------NDN  481 (672)
Q Consensus       428 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~---~g~~~~A~~~~~~m------------~~----~g~~p-------~~~  481 (672)
                        -+.+..+|.++..+....-.....+...   ..+..+..++....            ..    .-..|       =..
T Consensus       383 --~~~lrqyFrr~e~~~~~~i~~~~qgls~~l~se~tp~vsell~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~ird  460 (1088)
T KOG4318|consen  383 --GALLRQYFRRIERHICSRIYYAGQGLSLNLNSEDTPRVSELLENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRD  460 (1088)
T ss_pred             --HHHHHHHHHHHHhhHHHHHHHHHHHHHhhhchhhhHHHHHHHHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHH
Confidence              1123344444443322211111112111   11122222222211            10    00111       001


Q ss_pred             HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCC-----CCCCHHHHHHHHH
Q 005881          482 TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSP-----IEPNKVVWRCLLS  556 (672)
Q Consensus       482 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~p~~~~~~~l~~  556 (672)
                      .-+.++..|++.-+..++...-+... +.-+ |  ..|..|++.+......++|..+.++..     ..-|..-+..+.+
T Consensus       461 i~~ql~l~l~se~n~lK~l~~~ekye-~~lf-~--g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~d  536 (1088)
T KOG4318|consen  461 IANQLHLTLNSEYNKLKILCDEEKYE-DLLF-A--GLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQD  536 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHh-h--hHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHH
Confidence            23345555666556666665443332 2222 2  678899999999999999999988764     2224455677888


Q ss_pred             HHHhcCCHHHHHHHHHHHhc---CCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCCccCCceeEE
Q 005881          557 GCKTHKDLVLGRYAAEKILS---TDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWT  622 (672)
Q Consensus       557 ~~~~~g~~~~a~~~~~~~~~---~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  622 (672)
                      ...+.+....+..+.+...+   ..|........+.+-.+..|+.+...++.+-+...|+.. .|.-|.
T Consensus       537 LL~r~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e-tgPl~~  604 (1088)
T KOG4318|consen  537 LLQRLAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE-TGPLWM  604 (1088)
T ss_pred             HHHHhHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh-cccceE
Confidence            88888888888888877654   344445556677777888999999999999888888765 466563

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

Probab=99.69  E-value=5.4e-11  Score=116.11  Aligned_cols=508  Identities=13%  Similarity=0.083  Sum_probs=391.8

Q ss_pred             HHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCC-
Q 005881           61 LNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLE-  139 (672)
Q Consensus        61 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-  139 (672)
                      .+++++.++. + |+.+   .|-++.....+.+.|.-++....+.- +.+..    |.-+|++..-++.|..+++...+ 
T Consensus       366 ~RVlRKALe~-i-P~sv---~LWKaAVelE~~~darilL~rAvecc-p~s~d----LwlAlarLetYenAkkvLNkaRe~  435 (913)
T KOG0495|consen  366 KRVLRKALEH-I-PRSV---RLWKAAVELEEPEDARILLERAVECC-PQSMD----LWLALARLETYENAKKVLNKAREI  435 (913)
T ss_pred             HHHHHHHHHh-C-CchH---HHHHHHHhccChHHHHHHHHHHHHhc-cchHH----HHHHHHHHHHHHHHHHHHHHHHhh
Confidence            4455555553 2 3332   23344445566667888888777653 22333    34456666678888888876544 


Q ss_pred             --CCcccHHHHHHHHHhcCChHHHHHHHHH----HHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCC--c
Q 005881          140 --RNSISWVSLLSSYCQCGEHVHGLKIFLL----SRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEF--D  211 (672)
Q Consensus       140 --~~~~~~~~li~~~~~~g~~~~a~~~~~~----m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~  211 (672)
                        .+...|.+-...--.+|+.+...+++.+    +...|+..+...|..=..+|-..|..-.+..+....+.-|++.  -
T Consensus       436 iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~  515 (913)
T KOG0495|consen  436 IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDR  515 (913)
T ss_pred             CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchh
Confidence              4777888877777788988888877654    5567999999999999999999999999999999999888764  3


Q ss_pred             HHHHHHHHHHhhcCCChhHHHHHHhcCCC---CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHh
Q 005881          212 KFVAMGLINLYAKCEKLDLASRVFSNIQL---PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAF  288 (672)
Q Consensus       212 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~  288 (672)
                      ..+|..-...+.+.+.++-|+.+|....+   .+...|......--..|..++-..+|++....- +-....+.......
T Consensus       516 ~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~  594 (913)
T KOG0495|consen  516 KSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEK  594 (913)
T ss_pred             HhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHH
Confidence            56788888889999999999999987764   345667777766667899999999999998862 22333344444556


Q ss_pred             hccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCC--CCcccHHHHHHHHHhcCChhHHHHH
Q 005881          289 ADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDE--HDVVSWNALIAGHLASCHYGEAIEL  366 (672)
Q Consensus       289 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~~  366 (672)
                      -..|++..|..++..+.+.... +..++-.-+..-....+++.|+.+|.+...  +....|.--+...--.+..++|+++
T Consensus       595 w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rl  673 (913)
T KOG0495|consen  595 WKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRL  673 (913)
T ss_pred             HhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHH
Confidence            6789999999999999887643 778888889999999999999999998875  5666776666666678899999999


Q ss_pred             HHHHHhCCCCCChH-HHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC---C
Q 005881          367 LKDMLFEGHCPNLY-TYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS---S  442 (672)
Q Consensus       367 ~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~  442 (672)
                      +++.++.  -|+-. .|..+-..+-+.++++.|+..|..-.+. ++..+..|-.|...--+.|.+-.|+.+|++..   .
T Consensus       674 lEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNP  750 (913)
T KOG0495|consen  674 LEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNP  750 (913)
T ss_pred             HHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCC
Confidence            9998875  56544 5566666778888888888877655443 34466778888888888999999999999887   3


Q ss_pred             CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHH
Q 005881          443 KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASV  522 (672)
Q Consensus       443 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  522 (672)
                      .|...|-..|..-.+.|+.+.|..+..+.++. .+-+...|..-|...-+.++-......+++      ..-|+.+...+
T Consensus       751 k~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks~DALkk------ce~dphVllai  823 (913)
T KOG0495|consen  751 KNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKSIDALKK------CEHDPHVLLAI  823 (913)
T ss_pred             CcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchHHHHHHHh------ccCCchhHHHH
Confidence            56679999999999999999999999998886 455557788888877777776666665543      35577888899


Q ss_pred             HHHhhccCChHHHHHHHHh-CCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHH
Q 005881          523 VHLFACRGQTRRAYEFIKS-SPIEPN-KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSN  590 (672)
Q Consensus       523 ~~~~~~~g~~~~A~~~~~~-~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  590 (672)
                      ...+-...+++.|.+.|.+ ....|| ..+|.-+...+.++|.-++-..++.+...-+|.+-..|.....
T Consensus       824 a~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~~EP~hG~~W~avSK  893 (913)
T KOG0495|consen  824 AKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCETAEPTHGELWQAVSK  893 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCCCcHHHHHhh
Confidence            9999999999999999976 455664 5588889999999999999999999999999988777765543

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

Probab=99.61  E-value=1.6e-15  Score=145.29  Aligned_cols=254  Identities=15%  Similarity=0.135  Sum_probs=110.3

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHH-HHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCC
Q 005881          351 IAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNI-LNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGR  429 (672)
Q Consensus       351 i~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~l-l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  429 (672)
                      ...+.+.|++++|++++++.......|+...|-.+ ...+...++.+.|...++.+...+.. ++..+..++.. ...++
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~   92 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGD   92 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccccc
Confidence            33444556666666666444333223333333332 23344455666666666666554322 44455666666 67888


Q ss_pred             HHHHHHHHhhCC--CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHhhccCcHHHHHHHHHHh
Q 005881          430 LNDARKVFDHLS--SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENK-IKPNDNTFIGVLSACVHIGLVEEGWHYFNSM  506 (672)
Q Consensus       430 ~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  506 (672)
                      +++|.+++....  .+++..+..++..+...++++++.+++++..... .+++...|..+...+.+.|+.++|.+.+++.
T Consensus        93 ~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~a  172 (280)
T PF13429_consen   93 PEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKA  172 (280)
T ss_dssp             -------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999988887764  3566677888888999999999999999987643 3455567888888899999999999999998


Q ss_pred             HHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 005881          507 IRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSSP--IEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTS  583 (672)
Q Consensus       507 ~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  583 (672)
                      .+   ..| +......++..+...|+.+++.++++...  ...|+..|..+..++...|+.++|...++++++.+|+|+.
T Consensus       173 l~---~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~  249 (280)
T PF13429_consen  173 LE---LDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPL  249 (280)
T ss_dssp             HH---H-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HH
T ss_pred             HH---cCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccccccc
Confidence            84   366 57888899999999999999777776431  1235567888999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          584 AHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       584 ~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      ....+++++...|+.++|.+++++..
T Consensus       250 ~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  250 WLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHHHHHHT----------------
T ss_pred             cccccccccccccccccccccccccc
Confidence            99999999999999999999998764

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

Probab=99.57  E-value=1.1e-11  Score=116.07  Aligned_cols=360  Identities=16%  Similarity=0.153  Sum_probs=229.0

Q ss_pred             CCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHH--HH
Q 005881          208 LEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSY--VL  285 (672)
Q Consensus       208 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~--ll  285 (672)
                      ...|.+.+-...-.+.+.|..+.|...|......-+..|.+.+....-.-+.+.+..+    . .|...|...+..  +.
T Consensus       160 ~~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~~l----~-~~l~~~~h~M~~~F~~  234 (559)
T KOG1155|consen  160 GEKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILSIL----V-VGLPSDMHWMKKFFLK  234 (559)
T ss_pred             ccchhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHHHH----H-hcCcccchHHHHHHHH
Confidence            3344443333333445667777787777766543344444443322222222222111    1 122222222211  22


Q ss_pred             HHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHH
Q 005881          286 GAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIE  365 (672)
Q Consensus       286 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  365 (672)
                      .++....+.+++.+-.+.....|++.+...-+....+.-...+++.|+.+|+++.+.|+.-                   
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYR-------------------  295 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYR-------------------  295 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCc-------------------
Confidence            3444444555555555555666665555544444444444445555555555444322110                   


Q ss_pred             HHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCC-
Q 005881          366 LLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKN-  444 (672)
Q Consensus       366 ~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-  444 (672)
                                --|..+|+.++-.-.....+.---+..  ..-..++  +.|...+.+-|+-.++-+.|...|++..+.| 
T Consensus       296 ----------l~dmdlySN~LYv~~~~skLs~LA~~v--~~idKyR--~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp  361 (559)
T KOG1155|consen  296 ----------LDDMDLYSNVLYVKNDKSKLSYLAQNV--SNIDKYR--PETCCIIANYYSLRSEHEKAVMYFKRALKLNP  361 (559)
T ss_pred             ----------chhHHHHhHHHHHHhhhHHHHHHHHHH--HHhccCC--ccceeeehhHHHHHHhHHHHHHHHHHHHhcCc
Confidence                      013344444442222111111000000  0111223  3445667788888899999999999988544 


Q ss_pred             --chhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHH
Q 005881          445 --LVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIAS  521 (672)
Q Consensus       445 --~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~  521 (672)
                        ...|+.|..-|...++...|++-+++.++-. +.|...|-.|.++|.-.+.+.=|+-+|++..   ...| |...|.+
T Consensus       362 ~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~---~~kPnDsRlw~a  437 (559)
T KOG1155|consen  362 KYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKAL---ELKPNDSRLWVA  437 (559)
T ss_pred             chhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHH---hcCCCchHHHHH
Confidence              4589999999999999999999999999942 4455789999999999999999999999876   6677 7899999


Q ss_pred             HHHHhhccCChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhc-------CCCCCCchHHHHHHHH
Q 005881          522 VVHLFACRGQTRRAYEFIKSS--PIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILS-------TDPEDTSAHIMLSNVY  592 (672)
Q Consensus       522 l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-------~~p~~~~~~~~l~~~~  592 (672)
                      |+++|.+.++.++|.+.|++.  ..+.+...+..|...+.+.++.++|.+.|++-++       .+|+...+..-|+.-+
T Consensus       438 LG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f  517 (559)
T KOG1155|consen  438 LGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYF  517 (559)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHH
Confidence            999999999999999999874  2234567888999999999999999999999887       4454555666788889


Q ss_pred             HhcCChHHHHHHHHHHh
Q 005881          593 AEANMWDETAKVRKIMK  609 (672)
Q Consensus       593 ~~~g~~~~a~~~~~~~~  609 (672)
                      .+.+++++|........
T Consensus       518 ~k~~~~~~As~Ya~~~~  534 (559)
T KOG1155|consen  518 KKMKDFDEASYYATLVL  534 (559)
T ss_pred             HhhcchHHHHHHHHHHh
Confidence            99999999999877654

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

Probab=99.56  E-value=8.5e-10  Score=103.85  Aligned_cols=492  Identities=12%  Similarity=0.078  Sum_probs=343.2

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHhhccCC---CCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChh-hHHHHHH
Q 005881          110 NSHVSNCLINMYGKCGLLSSAQFVFDASLE---RNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEF-SCASVLG  185 (672)
Q Consensus       110 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~ll~  185 (672)
                      +...|-....-=...+++..|..+|++...   ++...|--.+..-.++.....|..+++.....  -|... .|-..+.
T Consensus        72 ~~~~WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~y  149 (677)
T KOG1915|consen   72 NMQVWIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIY  149 (677)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHH
Confidence            344444444444456778888888887654   46667877888888888999999999888764  33322 3333343


Q ss_pred             HHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCC--CCCcchHHHHHHHHHhcCChhHHH
Q 005881          186 ACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQ--LPDLTAWSALIGGYAQLGKACEAI  263 (672)
Q Consensus       186 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~  263 (672)
                      .=-..|++..|.++|..-..  -.|+...|.+.|+.=.+...++.|..+++...  .|++..|--....=-+.|+...+.
T Consensus       150 mEE~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR  227 (677)
T KOG1915|consen  150 MEEMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALAR  227 (677)
T ss_pred             HHHHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHH
Confidence            44567889999999988765  47889999999999999999999999998865  588888888888778889999888


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHh----hccCCchhHHHHHHHHHHhCCCC-chHHHHHHHHHHHccCChHHHHHHH--
Q 005881          264 DLFVKMFSSGLMPSEVTFSYVLGAF----ADVKETIGGRQLHSLIIKMGFSS-FTFVANTVLDFYSKCELLEESLKTF--  336 (672)
Q Consensus       264 ~~~~~m~~~~~~p~~~t~~~ll~~~----~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~--  336 (672)
                      .+|....+.  --|...-..+..++    .+...++.|.-++...++.-... ....|..+...=-+-|+........  
T Consensus       228 ~VyerAie~--~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~  305 (677)
T KOG1915|consen  228 SVYERAIEF--LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVG  305 (677)
T ss_pred             HHHHHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhh
Confidence            888877653  12233333333333    45677888888888888763322 2445555555555566644433332  


Q ss_pred             ------hhCCCC---CcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChH--HHHH---H-HH-HH---cCcCchHH
Q 005881          337 ------DEMDEH---DVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLY--TYSN---I-LN-IS---SDIPAIEW  397 (672)
Q Consensus       337 ------~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~--t~~~---l-l~-~~---~~~~~~~~  397 (672)
                            +.+...   |-.+|-..+..--..|+.+...++|++.+.. ++|-..  .+..   | |+ +|   ....+++.
T Consensus       306 KRk~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~er  384 (677)
T KOG1915|consen  306 KRKFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVER  384 (677)
T ss_pred             hhhhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence                  222222   4456777777777889999999999999875 455221  1111   1 11 22   35788999


Q ss_pred             HHHHHHHHHhcCCCCcccHHHHHHHHHH----hcCCHHHHHHHHhhCC--CCCchhHHHHHHHHHhcCChHHHHHHHHHH
Q 005881          398 GKQTHCCIVKPGFDSNVVIGSALVDMYA----KCGRLNDARKVFDHLS--SKNLVSWNTMLVGYAQHGLGREALEIYSMM  471 (672)
Q Consensus       398 a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  471 (672)
                      ++++++..++ =++....++.-+--+|+    ++.++..|.+++....  -|-..++...|..-.+.++++.+..+|++.
T Consensus       385 tr~vyq~~l~-lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkf  463 (677)
T KOG1915|consen  385 TRQVYQACLD-LIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKF  463 (677)
T ss_pred             HHHHHHHHHh-hcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            9999999988 34556666666555554    6789999999998876  477778888888889999999999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-CCCCCHHH
Q 005881          472 QENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-PIEPNKVV  550 (672)
Q Consensus       472 ~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~  550 (672)
                      ++-+ +-|..+|......-...|+.+.|..+|+-++....+....-.|.+.|+.=...|.++.|..+++++ .-.+-..+
T Consensus       464 le~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~kv  542 (677)
T KOG1915|consen  464 LEFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVKV  542 (677)
T ss_pred             HhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccchH
Confidence            9953 334468888888888899999999999988754333333456777788878999999999999874 33455557


Q ss_pred             HHHHHHHHH-----hcC-----------CHHHHHHHHHHHhc----CCCCCC--chHHHHHHHHHhcCChHHHHHHHHHH
Q 005881          551 WRCLLSGCK-----THK-----------DLVLGRYAAEKILS----TDPEDT--SAHIMLSNVYAEANMWDETAKVRKIM  608 (672)
Q Consensus       551 ~~~l~~~~~-----~~g-----------~~~~a~~~~~~~~~----~~p~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~  608 (672)
                      |-++...-.     +.+           +...|..+|+++..    .+|...  ..+...-++-...|...+...+-.+|
T Consensus       543 WisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~~~k~~~~KeeR~~LLEaw~~~E~~~G~~~d~~~V~s~m  622 (677)
T KOG1915|consen  543 WISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANTYLKESTPKEERLMLLEAWKNMEETFGTEGDVERVQSKM  622 (677)
T ss_pred             HHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCchhhHHHHHHhc
Confidence            877765533     334           56788999998864    334221  22334445556677777777777777


Q ss_pred             hh
Q 005881          609 KE  610 (672)
Q Consensus       609 ~~  610 (672)
                      ++
T Consensus       623 Pk  624 (677)
T KOG1915|consen  623 PK  624 (677)
T ss_pred             cH
Confidence            64

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

Probab=99.55  E-value=2.2e-11  Score=113.52  Aligned_cols=435  Identities=12%  Similarity=0.062  Sum_probs=258.1

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHH-HHHHHhccCChHHHHHHHHHHHHhcCCCcHHH----HHHHHHHhh
Q 005881          149 LSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCAS-VLGACAVLGNLKVGMQIHSLVFKCALEFDKFV----AMGLINLYA  223 (672)
Q Consensus       149 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~li~~~~  223 (672)
                      ..-|.-+....+|+..|+-..+...-|+.-.... +-..+.+.+.+.+|...++..+..-+..+..+    .+.+--.+.
T Consensus       208 aqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvtfi  287 (840)
T KOG2003|consen  208 AQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVTFI  287 (840)
T ss_pred             HHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCeeEE
Confidence            3445555667777777777777666666543322 22234455666777777766665433322222    222223445


Q ss_pred             cCCChhHHHHHHhcCCC--CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHH
Q 005881          224 KCEKLDLASRVFSNIQL--PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLH  301 (672)
Q Consensus       224 ~~g~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~  301 (672)
                      +.|+++.|..-|+...+  ||..+--.++-++...|+-++..+.|.+|..--..||..-|-       +.          
T Consensus       288 q~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi-------~~----------  350 (840)
T KOG2003|consen  288 QAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYI-------KE----------  350 (840)
T ss_pred             ecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCccccc-------CC----------
Confidence            56666666666655442  444433333333444555555566666665443333332220       00          


Q ss_pred             HHHHHhCCCCchHHHHHHHH-----HHHccC--ChHH----HHHHHhhCCCCCccc---HH------------------H
Q 005881          302 SLIIKMGFSSFTFVANTVLD-----FYSKCE--LLEE----SLKTFDEMDEHDVVS---WN------------------A  349 (672)
Q Consensus       302 ~~~~~~~~~~~~~~~~~li~-----~~~~~~--~~~~----a~~~~~~~~~~~~~~---~~------------------~  349 (672)
                            .-.|+....|..+.     -.-+.+  +.++    +.+++.-+..|+...   |.                  .
T Consensus       351 ------~ddp~~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~  424 (840)
T KOG2003|consen  351 ------KDDPDDNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEIN  424 (840)
T ss_pred             ------cCCcchHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhh
Confidence                  01122222222111     111111  1111    112222222222110   10                  1


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCChHHH--HHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhc
Q 005881          350 LIAGHLASCHYGEAIELLKDMLFEGHCPNLYTY--SNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKC  427 (672)
Q Consensus       350 li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~--~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  427 (672)
                      -..-|.++|+++.|+++++-+.+..-+.-...-  .+.+.......++..|.++-+......-- +......-.+.-...
T Consensus       425 ka~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dry-n~~a~~nkgn~~f~n  503 (840)
T KOG2003|consen  425 KAGELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRY-NAAALTNKGNIAFAN  503 (840)
T ss_pred             HHHHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccccc-CHHHhhcCCceeeec
Confidence            123478899999999999988765433322222  22333333455677777776665543210 111111111223346


Q ss_pred             CCHHHHHHHHhhCCCCCchhHHHH---HHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHH
Q 005881          428 GRLNDARKVFDHLSSKNLVSWNTM---LVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFN  504 (672)
Q Consensus       428 g~~~~A~~~~~~~~~~~~~~~~~l---i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  504 (672)
                      |++++|.+.+.+....|..+-.+|   ...+-..|+.++|++.|-++..- +.-+......+...|-...+..+|++++.
T Consensus       504 gd~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~  582 (840)
T KOG2003|consen  504 GDLDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLM  582 (840)
T ss_pred             CcHHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHH
Confidence            999999999999998877654444   34567889999999999887653 23344566677788888899999999987


Q ss_pred             HhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHH-HhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC
Q 005881          505 SMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFI-KSSPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPED  581 (672)
Q Consensus       505 ~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~-~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  581 (672)
                      ...   .+.| |+..++.|.++|-+.|+...|.+.. +....-| +..+..-|...|....-.+.++..|+++--+.|+.
T Consensus       583 q~~---slip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~  659 (840)
T KOG2003|consen  583 QAN---SLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQ  659 (840)
T ss_pred             Hhc---ccCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccH
Confidence            654   5555 7899999999999999999999885 4433333 45555556666777777899999999999999976


Q ss_pred             CchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          582 TSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       582 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      ......++.++.+.|+++.|.++++....+
T Consensus       660 ~kwqlmiasc~rrsgnyqka~d~yk~~hrk  689 (840)
T KOG2003|consen  660 SKWQLMIASCFRRSGNYQKAFDLYKDIHRK  689 (840)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            666667888899999999999999988653

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

Probab=99.55  E-value=2.1e-11  Score=115.01  Aligned_cols=211  Identities=14%  Similarity=0.087  Sum_probs=149.1

Q ss_pred             CchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHH
Q 005881          393 PAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYS  469 (672)
Q Consensus       393 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~  469 (672)
                      |+.-.+.+-++..++....+. ..|--+..+|....+.++-...|+...   ..|+.+|..-...+.-.+++++|..=|+
T Consensus       340 g~~~~a~~d~~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~  418 (606)
T KOG0547|consen  340 GDSLGAQEDFDAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQ  418 (606)
T ss_pred             CCchhhhhhHHHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444332221 113444555777777777777777665   3445566666666666677888888888


Q ss_pred             HHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHh-CCCCCC
Q 005881          470 MMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS-SPIEPN  547 (672)
Q Consensus       470 ~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~  547 (672)
                      +.+.  +.|+. ..|..+.-+..+.+.++++...|++..++  ++--+++|+.....+..+++++.|.+.++. +.+.|.
T Consensus       419 Kai~--L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~  494 (606)
T KOG0547|consen  419 KAIS--LDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK--FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPR  494 (606)
T ss_pred             HHhh--cChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccc
Confidence            8877  55655 46777777777888888888888888754  344568888888888888888888888875 334443


Q ss_pred             ---------HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          548 ---------KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       548 ---------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                               +.+-..++- .+-.+|+..|..+++++++++|...-+|..|+.+-.+.|+.++|+++|++..
T Consensus       495 ~~~~~v~~~plV~Ka~l~-~qwk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  495 EHLIIVNAAPLVHKALLV-LQWKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             cccccccchhhhhhhHhh-hchhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence                     222223332 3345999999999999999999999999999999999999999999999764

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

Probab=99.54  E-value=6.5e-11  Score=113.97  Aligned_cols=196  Identities=13%  Similarity=0.107  Sum_probs=155.8

Q ss_pred             CCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCc---hhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005881          411 DSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNL---VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVL  487 (672)
Q Consensus       411 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll  487 (672)
                      +....+|-++.--|.-.|+.++|++.|.+...-|.   ..|-.+..+|+-.|..+.|+..+...-+. ++-....+..+.
T Consensus       309 P~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlg  387 (611)
T KOG1173|consen  309 PSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLG  387 (611)
T ss_pred             CCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHH
Confidence            33556667777777778999999999988775443   48888999999999999999988887664 333344555666


Q ss_pred             HHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC--------CCCC-CHHHHHHHHHH
Q 005881          488 SACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS--------PIEP-NKVVWRCLLSG  557 (672)
Q Consensus       488 ~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~--------~~~p-~~~~~~~l~~~  557 (672)
                      --|.+.++.+.|.++|....   ++.| |+-+++-++-+.-..+.+.+|..+|+..        +.++ =..+++.|..+
T Consensus       388 mey~~t~n~kLAe~Ff~~A~---ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~  464 (611)
T KOG1173|consen  388 MEYMRTNNLKLAEKFFKQAL---AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHA  464 (611)
T ss_pred             HHHHHhccHHHHHHHHHHHH---hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHH
Confidence            67888899999999998776   7777 6677777777777888899998888642        1111 23356778888


Q ss_pred             HHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          558 CKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       558 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      |++.+.+++|+..+++++.+.|.++.+|..++-+|...|+++.|.+.|.+...
T Consensus       465 ~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~  517 (611)
T KOG1173|consen  465 YRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALA  517 (611)
T ss_pred             HHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999998754

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

Probab=99.54  E-value=7.5e-13  Score=129.82  Aligned_cols=275  Identities=12%  Similarity=0.077  Sum_probs=212.2

Q ss_pred             ChHHHHHHHhhCCC--CCcc-cHHHHHHHHHhcCChhHHHHHHHHHHhCCC--CCChHHHHHHHHHHcCcCchHHHHHHH
Q 005881          328 LLEESLKTFDEMDE--HDVV-SWNALIAGHLASCHYGEAIELLKDMLFEGH--CPNLYTYSNILNISSDIPAIEWGKQTH  402 (672)
Q Consensus       328 ~~~~a~~~~~~~~~--~~~~-~~~~li~~~~~~~~~~~A~~~~~~m~~~g~--~p~~~t~~~ll~~~~~~~~~~~a~~~~  402 (672)
                      +..+|...|..+++  +|+. ....+..+|...+++++|.++|+...+...  .-+...|++.+--+-+.    .+...+
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~Ls~L  409 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VALSYL  409 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHHHHH
Confidence            45678888888655  3443 234456788888999999999998876521  12455666665433221    111122


Q ss_pred             H-HHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCC---chhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC
Q 005881          403 C-CIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKN---LVSWNTMLVGYAQHGLGREALEIYSMMQENKIKP  478 (672)
Q Consensus       403 ~-~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  478 (672)
                      . .+++ .-+..+.+|.++.++|.-+++.+.|++.|++..+.|   ..+|+.+..-+.....+|+|...|+..+.  +.|
T Consensus       410 aq~Li~-~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~--~~~  486 (638)
T KOG1126|consen  410 AQDLID-TDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG--VDP  486 (638)
T ss_pred             HHHHHh-hCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc--CCc
Confidence            2 2222 224578899999999999999999999999988544   46888888888999999999999999877  566


Q ss_pred             CH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHH
Q 005881          479 ND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCL  554 (672)
Q Consensus       479 ~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l  554 (672)
                      +. ..|..+...|.+.++++.|.-.|+++.   .+.| +......++..+-+.|+.++|++++++. ..+| |+..--.-
T Consensus       487 rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~---~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~  563 (638)
T KOG1126|consen  487 RHYNAWYGLGTVYLKQEKLEFAEFHFQKAV---EINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHR  563 (638)
T ss_pred             hhhHHHHhhhhheeccchhhHHHHHHHhhh---cCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHH
Confidence            66 478889999999999999999999887   7788 4567778888999999999999999874 3445 55555555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          555 LSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       555 ~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                      +..+...+++++|++.+|++.++-|++...+..++.+|.+.|+.+.|..-|.-+.+.+
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ld  621 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLD  621 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCC
Confidence            6667788999999999999999999999999999999999999999999888776533

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

Probab=99.54  E-value=1.1e-10  Score=109.77  Aligned_cols=415  Identities=11%  Similarity=0.056  Sum_probs=292.0

Q ss_pred             cCCChhHHHHHHhcCCC---CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHH
Q 005881          224 KCEKLDLASRVFSNIQL---PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQL  300 (672)
Q Consensus       224 ~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~  300 (672)
                      ..+++..|..+|+....   .++..|--.+..=.++..+..|..+++.....=...|..-| .-+..--..|+...|.++
T Consensus        85 sq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWy-KY~ymEE~LgNi~gaRqi  163 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWY-KYIYMEEMLGNIAGARQI  163 (677)
T ss_pred             hHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHH-HHHHHHHHhcccHHHHHH
Confidence            34566777777777653   45566666677777778888888888877654222233222 223333456888888888


Q ss_pred             HHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCC--CCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC
Q 005881          301 HSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMD--EHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPN  378 (672)
Q Consensus       301 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~  378 (672)
                      |+.-.+  ..|+...+++.|+.=.+-+.++.|..++++..  .|++.+|--...--.++|+...|..+|...++.  -.|
T Consensus       164 ferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~--~~~  239 (677)
T KOG1915|consen  164 FERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEF--LGD  239 (677)
T ss_pred             HHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--hhh
Confidence            887765  47888999999999888899999999998865  488888877777778889888888888887764  223


Q ss_pred             hHHHHHHHHHH----cCcCchHHHHHHHHHHHhcCCCC-cccHHHHHHHHHHhcCCHHHHHHH--------HhhCCCC--
Q 005881          379 LYTYSNILNIS----SDIPAIEWGKQTHCCIVKPGFDS-NVVIGSALVDMYAKCGRLNDARKV--------FDHLSSK--  443 (672)
Q Consensus       379 ~~t~~~ll~~~----~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~--------~~~~~~~--  443 (672)
                      ...-..++.++    .+...++.|..+++..+..-... ....|..+...=-+-|+.......        ++.+.+.  
T Consensus       240 d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~np  319 (677)
T KOG1915|consen  240 DEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKNP  319 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhCC
Confidence            33333333333    35667888888888887653222 233444444433344554333322        2222233  


Q ss_pred             -CchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-------HHHHHHHHh---hccCcHHHHHHHHHHhHHhhCC
Q 005881          444 -NLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDN-------TFIGVLSAC---VHIGLVEEGWHYFNSMIRDHGI  512 (672)
Q Consensus       444 -~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-------~~~~ll~~~---~~~g~~~~a~~~~~~~~~~~~~  512 (672)
                       |-.+|--.+..-...|+.+...++|++.+.. ++|-..       .|.-+--+|   ....+++.+.++|+...   .+
T Consensus       320 ~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l---~l  395 (677)
T KOG1915|consen  320 YNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACL---DL  395 (677)
T ss_pred             CCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH---hh
Confidence             4457877888888889999999999999986 666432       222222222   45788999999999887   35


Q ss_pred             CC-chHHHH----HHHHHhhccCChHHHHHHHH-hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHH
Q 005881          513 SP-RMDHIA----SVVHLFACRGQTRRAYEFIK-SSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHI  586 (672)
Q Consensus       513 ~p-~~~~~~----~l~~~~~~~g~~~~A~~~~~-~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  586 (672)
                      -| ..-++.    .......|+.++..|.+++- .+|.-|....+...+..-.+.++++....+|++-++-.|.+..+|.
T Consensus       396 IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~~W~  475 (677)
T KOG1915|consen  396 IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPENCYAWS  475 (677)
T ss_pred             cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhHHHH
Confidence            55 334444    34444568999999999985 5788899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhCCCccCCceeEEEeCCEEEEEEeccccCCChHHHHHHHHHH
Q 005881          587 MLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQL  651 (672)
Q Consensus       587 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  651 (672)
                      ..+.+-...|+++.|..+|+...+......|...|    .....|.....-+..++.+|+.|...
T Consensus       476 kyaElE~~LgdtdRaRaifelAi~qp~ldmpellw----kaYIdFEi~~~E~ekaR~LYerlL~r  536 (677)
T KOG1915|consen  476 KYAELETSLGDTDRARAIFELAISQPALDMPELLW----KAYIDFEIEEGEFEKARALYERLLDR  536 (677)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHH----HHhhhhhhhcchHHHHHHHHHHHHHh
Confidence            99999999999999999999998877666676667    22334444445566666677665543

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

Probab=99.53  E-value=2.2e-12  Score=126.56  Aligned_cols=247  Identities=11%  Similarity=0.085  Sum_probs=193.2

Q ss_pred             ChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCC--CCcccHHHHHHHHHHhcCCHHHHHHH
Q 005881          359 HYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGF--DSNVVIGSALVDMYAKCGRLNDARKV  436 (672)
Q Consensus       359 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~  436 (672)
                      +..+|+..|...... +.-+......+-.+|...++++++..+|+.+.+...  .-+..+|++.+--+-+.=.+..--+-
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~  412 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQD  412 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHH
Confidence            467899999994443 334446667778899999999999999999987532  23667777776444332112111122


Q ss_pred             HhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc
Q 005881          437 FDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKP-NDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR  515 (672)
Q Consensus       437 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~  515 (672)
                      +-...+..+.+|.++..+|.-+++.+.|++.|++.++  +.| ...+|..+..-+.....+|.|...|+..+   ++.|.
T Consensus       413 Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQ--ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al---~~~~r  487 (638)
T KOG1126|consen  413 LIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQ--LDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL---GVDPR  487 (638)
T ss_pred             HHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhc--cCCccchhhhhcCChhhhhHHHHhHHHHHHhhh---cCCch
Confidence            2223345678999999999999999999999999999  677 45788888888888999999999998776   44442


Q ss_pred             -hHHHHHHHHHhhccCChHHHHHHHHh-CCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHH
Q 005881          516 -MDHIASVVHLFACRGQTRRAYEFIKS-SPIEPNKV-VWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVY  592 (672)
Q Consensus       516 -~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  592 (672)
                       -..|-.|+-.|.++++++.|.-.|++ ..+.|... ....+...+.+.|+.++|++++++++.++|.|+-.-+..+.++
T Consensus       488 hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il  567 (638)
T KOG1126|consen  488 HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASIL  567 (638)
T ss_pred             hhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHH
Confidence             23444567789999999999999976 57888555 4455566688899999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHhhC
Q 005881          593 AEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       593 ~~~g~~~~a~~~~~~~~~~  611 (672)
                      ...+++++|.+.++++++-
T Consensus       568 ~~~~~~~eal~~LEeLk~~  586 (638)
T KOG1126|consen  568 FSLGRYVEALQELEELKEL  586 (638)
T ss_pred             HhhcchHHHHHHHHHHHHh
Confidence            9999999999999999863

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.52  E-value=1.5e-11  Score=123.36  Aligned_cols=275  Identities=7%  Similarity=0.001  Sum_probs=170.3

Q ss_pred             cCChHHHHHHHhhCCCC--Cccc-HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHH--HHHHHHcCcCchHHHHH
Q 005881          326 CELLEESLKTFDEMDEH--DVVS-WNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYS--NILNISSDIPAIEWGKQ  400 (672)
Q Consensus       326 ~~~~~~a~~~~~~~~~~--~~~~-~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~--~ll~~~~~~~~~~~a~~  400 (672)
                      .|+++.|.+.+....+.  ++.. |-.......+.|+++.|.+.+.++.+.  .|+.....  .....+...|+.+.|..
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            46666666655554432  1111 211222335666666666666666543  44443222  22345556666666666


Q ss_pred             HHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCc---h--------hHHHHHHHHHhcCChHHHHHHHH
Q 005881          401 THCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNL---V--------SWNTMLVGYAQHGLGREALEIYS  469 (672)
Q Consensus       401 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~--------~~~~li~~~~~~g~~~~A~~~~~  469 (672)
                      .++.+.+.. +.++.....+...|.+.|++++|.+++..+.+...   .        +|..++.......+.+...++|+
T Consensus       175 ~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~  253 (398)
T PRK10747        175 GVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWK  253 (398)
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            666666554 22455566677777777777777777776663211   1        22333333334445556666666


Q ss_pred             HHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-C
Q 005881          470 MMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-N  547 (672)
Q Consensus       470 ~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~  547 (672)
                      ..... .+.+......+..++...|+.++|...+++..+   ..|+.....  +.+....++.+++++.+++. ...| |
T Consensus       254 ~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~---~~~~~~l~~--l~~~l~~~~~~~al~~~e~~lk~~P~~  327 (398)
T PRK10747        254 NQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLK---RQYDERLVL--LIPRLKTNNPEQLEKVLRQQIKQHGDT  327 (398)
T ss_pred             hCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCHHHHH--HHhhccCCChHHHHHHHHHHHhhCCCC
Confidence            65443 344566777788888888888888888877763   345553322  22333457888888877653 3455 4


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          548 KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +..+..+...|...+++++|+..|+++++..|+ ...+..++.++.+.|+.++|.+.+++-..
T Consensus       328 ~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~-~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        328 PLLWSTLGQLLMKHGEWQEASLAFRAALKQRPD-AYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            445667778888899999999999999999884 46677889999999999999888886643

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

Probab=99.51  E-value=2.2e-10  Score=107.58  Aligned_cols=254  Identities=11%  Similarity=0.094  Sum_probs=199.7

Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCC--CCcccHHHHHHHHHHhcCC
Q 005881          352 AGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGF--DSNVVIGSALVDMYAKCGR  429 (672)
Q Consensus       352 ~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~  429 (672)
                      .++....+.++++.-.......|..-+...-+..-.+.....++++|..+|+.+.+...  -.|..+|+.++-.-..+.+
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~sk  314 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSK  314 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHH
Confidence            45555567778888777777777665555555555556678899999999999988743  1256677666533322223


Q ss_pred             HHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHhhccCcHHHHHHHHHHhHH
Q 005881          430 LNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDN-TFIGVLSACVHIGLVEEGWHYFNSMIR  508 (672)
Q Consensus       430 ~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~  508 (672)
                      +.--....-.+.+--+.|...+..-|+-.++.++|...|++.++  +.|... .|..+..-|....+...|++.++.++ 
T Consensus       315 Ls~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALk--LNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAv-  391 (559)
T KOG1155|consen  315 LSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALK--LNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAV-  391 (559)
T ss_pred             HHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHh--cCcchhHHHHHhhHHHHHhcccHHHHHHHHHHH-
Confidence            32222222233344455667777888889999999999999999  567664 67777788999999999999999988 


Q ss_pred             hhCCCC-chHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchH
Q 005881          509 DHGISP-RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAH  585 (672)
Q Consensus       509 ~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  585 (672)
                        .+.| |-..|-.|+.+|.-.+...=|+=+|++ ...+| |...|.+|...|.+.++.++|+..|.+++..+-.+..++
T Consensus       392 --di~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l  469 (559)
T KOG1155|consen  392 --DINPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSAL  469 (559)
T ss_pred             --hcCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHH
Confidence              6677 779999999999999999999999986 45778 777999999999999999999999999999988888999


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          586 IMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       586 ~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ..|+++|.+.++.++|.+.+++-.+
T Consensus       470 ~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  470 VRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            9999999999999999999987765

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.51  E-value=1.9e-11  Score=122.50  Aligned_cols=287  Identities=9%  Similarity=-0.023  Sum_probs=186.3

Q ss_pred             cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHH
Q 005881          256 LGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKT  335 (672)
Q Consensus       256 ~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  335 (672)
                      .|+++.|.+.+....+..-.| ...|.....+....|+.+.+.+.+..+.+....+...........+...|+++.|...
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p-~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~  175 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQP-VVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHG  175 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccch-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHH
Confidence            466666665555443321111 1122222333355666666666666655432222212222335566777777777777


Q ss_pred             HhhCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCC
Q 005881          336 FDEMDE---HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDS  412 (672)
Q Consensus       336 ~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  412 (672)
                      ++++.+   .++.....+...|.+.|++++|.+++..+.+.+..++. .+..+-                          
T Consensus       176 l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~-~~~~l~--------------------------  228 (398)
T PRK10747        176 VDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEE-HRAMLE--------------------------  228 (398)
T ss_pred             HHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHH-HHHHHH--------------------------
Confidence            777665   24455666777788888888888888888776544221 111000                          


Q ss_pred             cccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005881          413 NVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSA  489 (672)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  489 (672)
                       ...+..++.......+.+...++++.+.   ..++.....+...+...|+.++|.+++++..+.  +||....  ++.+
T Consensus       229 -~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~  303 (398)
T PRK10747        229 -QQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIP  303 (398)
T ss_pred             -HHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHh
Confidence             0011222333333445666677777665   356677888889999999999999999998884  5555322  2334


Q ss_pred             hhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCCHHHH
Q 005881          490 CVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEPNKVVWRCLLSGCKTHKDLVLG  567 (672)
Q Consensus       490 ~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~~~~~~~l~~~~~~~g~~~~a  567 (672)
                      ....++.+++....+...+.   .| |+..+.++..++.+.|++++|.+.|++ +...|+...+..+...+.+.|+.++|
T Consensus       304 ~l~~~~~~~al~~~e~~lk~---~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A  380 (398)
T PRK10747        304 RLKTNNPEQLEKVLRQQIKQ---HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEA  380 (398)
T ss_pred             hccCCChHHHHHHHHHHHhh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHH
Confidence            44568999999999888743   45 567788999999999999999999986 45779998888889999999999999


Q ss_pred             HHHHHHHhcCC
Q 005881          568 RYAAEKILSTD  578 (672)
Q Consensus       568 ~~~~~~~~~~~  578 (672)
                      .+++++.+.+.
T Consensus       381 ~~~~~~~l~~~  391 (398)
T PRK10747        381 AAMRRDGLMLT  391 (398)
T ss_pred             HHHHHHHHhhh
Confidence            99999998764

>TIGR00540 hemY_coli hemY protein

Probab=99.47  E-value=1.4e-10  Score=116.99  Aligned_cols=288  Identities=10%  Similarity=-0.009  Sum_probs=143.8

Q ss_pred             hcCChhHHHHHHHHHHHCCCCCChhh-HHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHH
Q 005881          255 QLGKACEAIDLFVKMFSSGLMPSEVT-FSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESL  333 (672)
Q Consensus       255 ~~~~~~~a~~~~~~m~~~~~~p~~~t-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  333 (672)
                      ..|+++.|.+.+.+..+.  .|+... +-....+....|+.+.+.+.+..+.+....+...+.......+...|+++.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            467777777777665543  343322 22333445566666666666666654432222223333456666667777777


Q ss_pred             HHHhhCCC--C-CcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCC
Q 005881          334 KTFDEMDE--H-DVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGF  410 (672)
Q Consensus       334 ~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  410 (672)
                      ..++.+.+  | +...+..+...+.+.|++++|.+++..+.+.+..+.. .+..+-.                       
T Consensus       174 ~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~-~~~~l~~-----------------------  229 (409)
T TIGR00540       174 HGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDE-EFADLEQ-----------------------  229 (409)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHH-HHHHHHH-----------------------
Confidence            77666654  2 3445556666677777777777777777666532211 1110000                       


Q ss_pred             CCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHH---H
Q 005881          411 DSNVVIGSALVDMYAKCGRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTF---I  484 (672)
Q Consensus       411 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~---~  484 (672)
                          ..+..++..-......+...+.++....   .++..+..+...+...|+.++|.+++++..+.  .||....   .
T Consensus       230 ----~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~  303 (409)
T TIGR00540       230 ----KAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPL  303 (409)
T ss_pred             ----HHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHH
Confidence                0011111111112233444455555542   46677777888888888888888888888885  4444321   1


Q ss_pred             HHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHH---hCCCCCCHHHHHHHHHHHHhc
Q 005881          485 GVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIK---SSPIEPNKVVWRCLLSGCKTH  561 (672)
Q Consensus       485 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~---~~~~~p~~~~~~~l~~~~~~~  561 (672)
                      .........++.+.+.+.++...+...-.|+.....+++..+.+.|++++|.+.|+   .....|+...+..+...+.+.
T Consensus       304 l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~  383 (409)
T TIGR00540       304 CLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQA  383 (409)
T ss_pred             HHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHc
Confidence            11111223355555555555544221111111333344444444444444444444   122334444444444444444


Q ss_pred             CCHHHHHHHHHHH
Q 005881          562 KDLVLGRYAAEKI  574 (672)
Q Consensus       562 g~~~~a~~~~~~~  574 (672)
                      |+.++|.++++++
T Consensus       384 g~~~~A~~~~~~~  396 (409)
T TIGR00540       384 GDKAEAAAMRQDS  396 (409)
T ss_pred             CCHHHHHHHHHHH
Confidence            4444444444443

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.

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

Probab=99.45  E-value=3.6e-08  Score=96.76  Aligned_cols=516  Identities=11%  Similarity=0.097  Sum_probs=283.4

Q ss_pred             cHHHHHHHHhcCCChhhHHHHHHHHHHh-CCCCChhHHHHHHHHHHhcCChHHHHHHhhccCCCCcccHHHHHHHHHhcC
Q 005881           78 TYVGAVSACASRGDARSGKEIHGRMYRS-GLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCG  156 (672)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g  156 (672)
                      .|..-+..+..+|++......|+..+.. .+.-...+|...+......|-.+-+.+++++..+-++..-+-.|..++..+
T Consensus       104 Iwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d  183 (835)
T KOG2047|consen  104 IWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSD  183 (835)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcc
Confidence            3444444455555555555555555543 122233455555555555555566666666555545455555566666666


Q ss_pred             ChHHHHHHHHHHHhCC------CCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcC--CCc--HHHHHHHHHHhhcCC
Q 005881          157 EHVHGLKIFLLSRKSG------VAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCAL--EFD--KFVAMGLINLYAKCE  226 (672)
Q Consensus       157 ~~~~a~~~~~~m~~~g------~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~--~~~~~~li~~~~~~g  226 (672)
                      ++++|-+.+.......      -+.+...|..+-...++..+.-....+ +.+++.|+  -+|  ...|.+|.+-|.+.|
T Consensus       184 ~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnv-daiiR~gi~rftDq~g~Lw~SLAdYYIr~g  262 (835)
T KOG2047|consen  184 RLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNV-DAIIRGGIRRFTDQLGFLWCSLADYYIRSG  262 (835)
T ss_pred             chHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCH-HHHHHhhcccCcHHHHHHHHHHHHHHHHhh
Confidence            6666666655544321      122223333333333333322222211 11222222  122  456777788888888


Q ss_pred             ChhHHHHHHhcCCC--CCcchHHHHHHHHHhc----------------C------ChhHHHHHHHHHHHCCC--------
Q 005881          227 KLDLASRVFSNIQL--PDLTAWSALIGGYAQL----------------G------KACEAIDLFVKMFSSGL--------  274 (672)
Q Consensus       227 ~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~----------------~------~~~~a~~~~~~m~~~~~--------  274 (672)
                      .+++|..++++...  .++.-|..+.++|++-                +      +++-.+.-|+.+...+.        
T Consensus       263 ~~ekarDvyeeai~~v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlL  342 (835)
T KOG2047|consen  263 LFEKARDVYEEAIQTVMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLL  342 (835)
T ss_pred             hhHHHHHHHHHHHHhheehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHH
Confidence            88888887776542  2233333333333321                1      12222333444333210        


Q ss_pred             CCChhhHHHHHH-HhhccCCchhHHHHHHHHHHhC-----CCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcc---
Q 005881          275 MPSEVTFSYVLG-AFADVKETIGGRQLHSLIIKMG-----FSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVV---  345 (672)
Q Consensus       275 ~p~~~t~~~ll~-~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~---  345 (672)
                      ..|+.....-++ .-...|+..+....+.++++.-     ...-...|-.+.+.|-..|+++.|+.+|++..+-+-.   
T Consensus       343 RQn~~nV~eW~kRV~l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~  422 (835)
T KOG2047|consen  343 RQNPHNVEEWHKRVKLYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVE  422 (835)
T ss_pred             hcCCccHHHHHhhhhhhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchH
Confidence            111111111111 1122345555666666666531     1122346778899999999999999999998774333   


Q ss_pred             ----cHHHHHHHHHhcCChhHHHHHHHHHHhCCCC----------C-------ChHHHHHHHHHHcCcCchHHHHHHHHH
Q 005881          346 ----SWNALIAGHLASCHYGEAIELLKDMLFEGHC----------P-------NLYTYSNILNISSDIPAIEWGKQTHCC  404 (672)
Q Consensus       346 ----~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~----------p-------~~~t~~~ll~~~~~~~~~~~a~~~~~~  404 (672)
                          +|..-...-.++.+++.|++++++....-..          |       +...|+..+..--..|-++..+.+++.
T Consensus       423 dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdr  502 (835)
T KOG2047|consen  423 DLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDR  502 (835)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence                3444445556778899999988877542111          1       112344445555567788888899999


Q ss_pred             HHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCch-hHHHHHHHHHhc---CChHHHHHHHHHHHHCCC
Q 005881          405 IVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS----SKNLV-SWNTMLVGYAQH---GLGREALEIYSMMQENKI  476 (672)
Q Consensus       405 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~-~~~~li~~~~~~---g~~~~A~~~~~~m~~~g~  476 (672)
                      ++...+.. +.+.-.....+-...-++++.+++++-.    -|++. .|+..+.-+.+.   ...+.|..+|++.++ |.
T Consensus       503 iidLriaT-Pqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~C  580 (835)
T KOG2047|consen  503 IIDLRIAT-PQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GC  580 (835)
T ss_pred             HHHHhcCC-HHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cC
Confidence            98876532 2222222333455667899999998865    25553 788777666542   378999999999999 67


Q ss_pred             CCCHHHHHHHHHH--hhccCcHHHHHHHHHHhHHhhCCCCc--hHHHHHHHHH----hhc---cCChHHHHHHHHhCCCC
Q 005881          477 KPNDNTFIGVLSA--CVHIGLVEEGWHYFNSMIRDHGISPR--MDHIASVVHL----FAC---RGQTRRAYEFIKSSPIE  545 (672)
Q Consensus       477 ~p~~~~~~~ll~~--~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~----~~~---~g~~~~A~~~~~~~~~~  545 (672)
                      +|...-+..|+-+  --+-|....|+.++++...  ++++.  .+.|+..+.-    |+-   .+-+++|++.      -
T Consensus       581 pp~~aKtiyLlYA~lEEe~GLar~amsiyerat~--~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~------L  652 (835)
T KOG2047|consen  581 PPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS--AVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIES------L  652 (835)
T ss_pred             CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHh------C
Confidence            8777544444333  2345888889999988653  44443  3556655442    211   1223333333      2


Q ss_pred             CCHHHHHH---HHHHHHhcCCHHHHHHHHHHHhcCC-CC-CCchHHHHHHHHHhcCChHHHHHH
Q 005881          546 PNKVVWRC---LLSGCKTHKDLVLGRYAAEKILSTD-PE-DTSAHIMLSNVYAEANMWDETAKV  604 (672)
Q Consensus       546 p~~~~~~~---l~~~~~~~g~~~~a~~~~~~~~~~~-p~-~~~~~~~l~~~~~~~g~~~~a~~~  604 (672)
                      |+..+-..   ....-.+.|.++.|..+|...-++. |. ++..|...-..-.+.|+-+-..++
T Consensus       653 p~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrHGnedT~keM  716 (835)
T KOG2047|consen  653 PDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGNEDTYKEM  716 (835)
T ss_pred             ChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCCHHHHHHH
Confidence            33332222   2223456788888888888777654 42 556666776677777774433333

>TIGR00540 hemY_coli hemY protein

Probab=99.42  E-value=2.6e-10  Score=115.08  Aligned_cols=279  Identities=9%  Similarity=0.005  Sum_probs=173.7

Q ss_pred             ccCChHHHHHHHhhCCC--CCcc-cHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChH--HHHHHHHHHcCcCchHHHH
Q 005881          325 KCELLEESLKTFDEMDE--HDVV-SWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLY--TYSNILNISSDIPAIEWGK  399 (672)
Q Consensus       325 ~~~~~~~a~~~~~~~~~--~~~~-~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~~~~~~~~~~~a~  399 (672)
                      ..|+++.|.+.+....+  |+.. .+-.......+.|+++.|.+.+.+..+.  .|+..  ........+...|+++.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~--~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAEL--AGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            35666666666655443  2211 1222234455556666666666666543  23332  2222344555666666666


Q ss_pred             HHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCC---CchhHH----HHHHHHHhcCChHHHHHHHHHHH
Q 005881          400 QTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSK---NLVSWN----TMLVGYAQHGLGREALEIYSMMQ  472 (672)
Q Consensus       400 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~----~li~~~~~~g~~~~A~~~~~~m~  472 (672)
                      ..++.+.+.. +-++.+...+...|...|++++|.+.+..+.+.   +...+.    ....+....+..+++.+.+..+.
T Consensus       174 ~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~  252 (409)
T TIGR00540       174 HGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWW  252 (409)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            6666666654 224455667777777777787777777776632   222221    11112223333333444555555


Q ss_pred             HCC---CCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHH---HHHHHHHhhccCChHHHHHHHHh-CCCC
Q 005881          473 ENK---IKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDH---IASVVHLFACRGQTRRAYEFIKS-SPIE  545 (672)
Q Consensus       473 ~~g---~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~---~~~l~~~~~~~g~~~~A~~~~~~-~~~~  545 (672)
                      +..   .+.+...+..+...+...|+.++|.+.+++..+.   .|+...   .....-.....++.+.+.+.+++ ....
T Consensus       253 ~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~---~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~  329 (409)
T TIGR00540       253 KNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK---LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNV  329 (409)
T ss_pred             HHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh---CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhC
Confidence            532   1136677888889999999999999999988843   454331   11122222345778888888865 3344


Q ss_pred             CCH---HHHHHHHHHHHhcCCHHHHHHHHH--HHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          546 PNK---VVWRCLLSGCKTHKDLVLGRYAAE--KILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       546 p~~---~~~~~l~~~~~~~g~~~~a~~~~~--~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      |+.   ....++...|.+.|++++|.+.++  .+++..|++ ..+..++.++.+.|+.++|.+++++...
T Consensus       330 p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~-~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       330 DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDA-NDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            533   556788888999999999999999  578888954 5577999999999999999999997643

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.

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

Probab=99.40  E-value=1.1e-09  Score=101.46  Aligned_cols=284  Identities=10%  Similarity=-0.001  Sum_probs=168.3

Q ss_pred             cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHH
Q 005881          256 LGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKT  335 (672)
Q Consensus       256 ~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  335 (672)
                      .|++..|.++..+-.+.+-.| ...|.....+.-..|+.+.+.+++.++.+..-.++..+.-+........|+++.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            578888888887766665333 3345555566677788888888888877775566677777777778888888888777


Q ss_pred             HhhCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCC
Q 005881          336 FDEMDE---HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDS  412 (672)
Q Consensus       336 ~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  412 (672)
                      .++..+   .++........+|.+.|++.+...++..|.+.|.-.+...-                 ++           
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~-----------------~l-----------  227 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAA-----------------RL-----------  227 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHH-----------------HH-----------
Confidence            766544   56667777888888888888888888888888765443211                 00           


Q ss_pred             cccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005881          413 NVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSA  489 (672)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  489 (672)
                      ...+++.+++-....+..+.-...++..+   +.++..-.+++.-+.+.|+.++|.++.++..+++..|+-.+    +-.
T Consensus       228 e~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~----~~~  303 (400)
T COG3071         228 EQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCR----LIP  303 (400)
T ss_pred             HHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHH----HHh
Confidence            11223334443333344444444555555   34455556667777778888888888888877776666222    223


Q ss_pred             hhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 005881          490 CVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS-SPIEPNKVVWRCLLSGCKTHKDLVLGR  568 (672)
Q Consensus       490 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~~~~~~~l~~~~~~~g~~~~a~  568 (672)
                      +.+.++.+.-++..+.-.+.++..  +..+.+|+..|.+.+.+.+|.+.|+. ++..|+...|.-+..++.+.|+...|.
T Consensus       304 ~l~~~d~~~l~k~~e~~l~~h~~~--p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~  381 (400)
T COG3071         304 RLRPGDPEPLIKAAEKWLKQHPED--PLLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAE  381 (400)
T ss_pred             hcCCCCchHHHHHHHHHHHhCCCC--hhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHH
Confidence            445555555555444443332222  23444444444444444444444442 233444444444444444444444444


Q ss_pred             HHHHHH
Q 005881          569 YAAEKI  574 (672)
Q Consensus       569 ~~~~~~  574 (672)
                      +..+++
T Consensus       382 ~~r~e~  387 (400)
T COG3071         382 QVRREA  387 (400)
T ss_pred             HHHHHH
Confidence            444444

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.39  E-value=7.7e-11  Score=110.33  Aligned_cols=197  Identities=13%  Similarity=0.078  Sum_probs=163.4

Q ss_pred             cccHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005881          413 NVVIGSALVDMYAKCGRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSA  489 (672)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  489 (672)
                      ....+..+...|...|++++|.+.+++..+   .+...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            345567788889999999999999998763   345678888899999999999999999999863 3445677788888


Q ss_pred             hhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHH
Q 005881          490 CVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLG  567 (672)
Q Consensus       490 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a  567 (672)
                      +...|++++|...++..............+..+..++...|++++|.+.+++. ...| +...+..+...+...|++++|
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999998743222234567888899999999999999999763 3344 456788888889999999999


Q ss_pred             HHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          568 RYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       568 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ...++++++..|.++..+..++.++...|++++|....+.+..
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       189 RAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            9999999999888888888999999999999999999887754

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.

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

Probab=99.39  E-value=1.5e-07  Score=92.56  Aligned_cols=531  Identities=14%  Similarity=0.159  Sum_probs=297.7

Q ss_pred             chhhHHHHHHhcCCChhHHHHHhccCCC-----CCcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHH
Q 005881           11 ITYNHLLLMYVKFSRINDAQKLFDEMPE-----RNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSA   85 (672)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~   85 (672)
                      ..|-..+..+.++|++...+..|+....     .....|...+....+.|-++-++.+|++.++.  .|  ..-.--+..
T Consensus       103 RIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~--~P--~~~eeyie~  178 (835)
T KOG2047|consen  103 RIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV--AP--EAREEYIEY  178 (835)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc--CH--HHHHHHHHH
Confidence            3444555555666666666666665432     23334666666666666666677777666542  22  224455555


Q ss_pred             HhcCCChhhHHHHHHHHHHhC------CCCChhHHHHHHHHHHhcCCh---HHHHHHhhccCCC--C--cccHHHHHHHH
Q 005881           86 CASRGDARSGKEIHGRMYRSG------LELNSHVSNCLINMYGKCGLL---SSAQFVFDASLER--N--SISWVSLLSSY  152 (672)
Q Consensus        86 ~~~~~~~~~a~~~~~~~~~~g------~~~~~~~~~~li~~~~~~g~~---~~a~~~~~~~~~~--~--~~~~~~li~~~  152 (672)
                      ++..+++++|.+.+..+....      .+.+-..|..+.+..++.-+.   -....++..+..+  |  ...|.+|...|
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            666666666666666655321      133445555555555543221   1122333333332  2  34577777777


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHH-HhcCCCcHHHHHHHHHHhhcCCChhHH
Q 005881          153 CQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVF-KCALEFDKFVAMGLINLYAKCEKLDLA  231 (672)
Q Consensus       153 ~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~li~~~~~~g~~~~a  231 (672)
                      .+.|.+++|.++|++....-  .+..-|..+.++|+.-..-..+..+- ... +.+-+-+.             -+++-.
T Consensus       259 Ir~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~FEE~~~~~~me-~a~~~~~n~ed~-------------~dl~~~  322 (835)
T KOG2047|consen  259 IRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQFEESCVAAKME-LADEESGNEEDD-------------VDLELH  322 (835)
T ss_pred             HHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHHHHHHHHHHHh-hhhhcccChhhh-------------hhHHHH
Confidence            77777777777776665531  22233344444443211111000000 000 00100000             012222


Q ss_pred             HHHHhcCCC---------------CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC------hhhHHHHHHHhhc
Q 005881          232 SRVFSNIQL---------------PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPS------EVTFSYVLGAFAD  290 (672)
Q Consensus       232 ~~~~~~~~~---------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~------~~t~~~ll~~~~~  290 (672)
                      ..-|+.+..               .++..|..-+.  +..|+..+....+.+.... +.|.      ...+..+-+.|-+
T Consensus       323 ~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~  399 (835)
T KOG2047|consen  323 MARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYEN  399 (835)
T ss_pred             HHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHh
Confidence            222332221               23344444333  3456777777788777654 3332      2236667778888


Q ss_pred             cCCchhHHHHHHHHHHhCCCCc---hHHHHHHHHHHHccCChHHHHHHHhhCCC---------------------CCccc
Q 005881          291 VKETIGGRQLHSLIIKMGFSSF---TFVANTVLDFYSKCELLEESLKTFDEMDE---------------------HDVVS  346 (672)
Q Consensus       291 ~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~---------------------~~~~~  346 (672)
                      .|+++.|+.+|+...+..++.-   ..+|-.-..+=.+..+++.|.++.+....                     ++...
T Consensus       400 ~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlki  479 (835)
T KOG2047|consen  400 NGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKI  479 (835)
T ss_pred             cCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHH
Confidence            9999999999999888765543   33444444555667788888888876542                     12334


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHH--HHHHHHHHcCcCchHHHHHHHHHHHhcCCCCc-ccHHHHHHHH
Q 005881          347 WNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYT--YSNILNISSDIPAIEWGKQTHCCIVKPGFDSN-VVIGSALVDM  423 (672)
Q Consensus       347 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t--~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~  423 (672)
                      |...+.---..|-++....++++++...+......  |..+   +-...-++++.++++.-+..--.|. -.+|+..+.-
T Consensus       480 Ws~y~DleEs~gtfestk~vYdriidLriaTPqii~NyAmf---LEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtk  556 (835)
T KOG2047|consen  480 WSMYADLEESLGTFESTKAVYDRIIDLRIATPQIIINYAMF---LEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTK  556 (835)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHHHHHH---HHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHH
Confidence            55556555566788888888888887654322222  2222   2344456677777766555433333 3566766665


Q ss_pred             HHh---cCCHHHHHHHHhhCCCCCch-hHHHHHHHH----HhcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHhhcc
Q 005881          424 YAK---CGRLNDARKVFDHLSSKNLV-SWNTMLVGY----AQHGLGREALEIYSMMQENKIKPND--NTFIGVLSACVHI  493 (672)
Q Consensus       424 ~~~---~g~~~~A~~~~~~~~~~~~~-~~~~li~~~----~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~  493 (672)
                      +.+   .-.++.|+.+|++..+.-+. .-..+--.|    -+.|-...|+.++++.... +++..  ..|+..|.-....
T Consensus       557 fi~rygg~klEraRdLFEqaL~~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~-v~~a~~l~myni~I~kaae~  635 (835)
T KOG2047|consen  557 FIKRYGGTKLERARDLFEQALDGCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSA-VKEAQRLDMYNIYIKKAAEI  635 (835)
T ss_pred             HHHHhcCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHH
Confidence            554   24789999999988742111 111122223    3468888999999997654 56655  3677777654444


Q ss_pred             CcHHHHHHHHHHhHHhhCCCCch---HHHHHHHHHhhccCChHHHHHHHHhCC--CCC--CHHHHHHHHHHHHhcCCHHH
Q 005881          494 GLVEEGWHYFNSMIRDHGISPRM---DHIASVVHLFACRGQTRRAYEFIKSSP--IEP--NKVVWRCLLSGCKTHKDLVL  566 (672)
Q Consensus       494 g~~~~a~~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p--~~~~~~~l~~~~~~~g~~~~  566 (672)
                      =-+.....+|++.++.   -|+.   +......++=.+.|..+.|..++....  ..|  +...|.+.-..-.++|+-+.
T Consensus       636 yGv~~TR~iYekaIe~---Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrHGnedT  712 (835)
T KOG2047|consen  636 YGVPRTREIYEKAIES---LPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGNEDT  712 (835)
T ss_pred             hCCcccHHHHHHHHHh---CChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCCHHH
Confidence            3445566777777743   4554   334445566688999999999986421  234  67789988888899999555


Q ss_pred             HHHHH
Q 005881          567 GRYAA  571 (672)
Q Consensus       567 a~~~~  571 (672)
                      -+..+
T Consensus       713 ~keML  717 (835)
T KOG2047|consen  713 YKEML  717 (835)
T ss_pred             HHHHH
Confidence            44443

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

Probab=99.38  E-value=2.4e-12  Score=123.27  Aligned_cols=251  Identities=14%  Similarity=0.083  Sum_probs=59.3

Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHH-HhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCCh
Q 005881          251 GGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLG-AFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELL  329 (672)
Q Consensus       251 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  329 (672)
                      ..+.+.|++++|++++++......+|+...|..++. .+...++.+.|.+.++.+...+.. ++..+..++.. ...+++
T Consensus        16 ~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~~   93 (280)
T PF13429_consen   16 RLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGDP   93 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-cccccc
Confidence            344455555555555543332221233333333222 223344455555555554443322 23333444444 455555


Q ss_pred             HHHHHHHhhCCC--CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHh
Q 005881          330 EESLKTFDEMDE--HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVK  407 (672)
Q Consensus       330 ~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  407 (672)
                      ++|..++...-+  ++...+..++..+.+.++++++.+++++.....-.                               
T Consensus        94 ~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~-------------------------------  142 (280)
T PF13429_consen   94 EEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAA-------------------------------  142 (280)
T ss_dssp             ------------------------H-HHHTT-HHHHHHHHHHHHH-T---------------------------------
T ss_pred             cccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCC-------------------------------
Confidence            555555544322  34444555555566666666666666665432211                               


Q ss_pred             cCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC--CC-CchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHH
Q 005881          408 PGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS--SK-NLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFI  484 (672)
Q Consensus       408 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  484 (672)
                         +.+...+..+...+.+.|+.++|.+.+++..  .| |....+.++..+...|+.+++.++++...+.. +.|...+.
T Consensus       143 ---~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~  218 (280)
T PF13429_consen  143 ---PDSARFWLALAEIYEQLGDPDKALRDYRKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWD  218 (280)
T ss_dssp             ----T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCH
T ss_pred             ---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHH
Confidence               1223333344444444444444444444443  12 23344444444444555554444444444431 22333344


Q ss_pred             HHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHH
Q 005881          485 GVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIK  540 (672)
Q Consensus       485 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  540 (672)
                      .+..++...|+.++|...|++..+.  .+.|+.....+++++...|+.++|.++.+
T Consensus       219 ~la~~~~~lg~~~~Al~~~~~~~~~--~p~d~~~~~~~a~~l~~~g~~~~A~~~~~  272 (280)
T PF13429_consen  219 ALAAAYLQLGRYEEALEYLEKALKL--NPDDPLWLLAYADALEQAGRKDEALRLRR  272 (280)
T ss_dssp             HHHHHHHHHT-HHHHHHHHHHHHHH--STT-HHHHHHHHHHHT-------------
T ss_pred             HHHHHhccccccccccccccccccc--ccccccccccccccccccccccccccccc
Confidence            4444455555555555555544421  11244444455555555555555554443

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.36  E-value=2.7e-08  Score=99.88  Aligned_cols=495  Identities=13%  Similarity=0.080  Sum_probs=267.6

Q ss_pred             HcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHh---cCCChhhH-------------------HHH----HHHHHHh
Q 005881           52 SQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACA---SRGDARSG-------------------KEI----HGRMYRS  105 (672)
Q Consensus        52 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~---~~~~~~~a-------------------~~~----~~~~~~~  105 (672)
                      ...+.++.++.-+.....++.+.+..++..+..++.   -.++.+++                   ...    +.++...
T Consensus       238 ~~~~~~~~~i~s~~~~l~~~w~~~~l~ka~l~~~~~~f~~~~~~Ee~~Lllli~es~i~Re~~~d~ilslm~~~~k~r~~  317 (799)
T KOG4162|consen  238 KKLSGPKEAIKSYRRALLRSWSLDPLTKARLYKGFALFLPKSGQEEVILLLLIEESLIPRENIEDAILSLMLLLRKLRLK  317 (799)
T ss_pred             cCCCCchHHHHhhhHHhhcccccchhHHHHHhhcccccCCCCcHHHHHHHHHHHhhccccccHHHHHHHHHHHHHHHHHh
Confidence            345677777777777776666666666666554432   33344433                   111    1111122


Q ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHhhccCCC---CcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhH-H
Q 005881          106 GLELNSHVSNCLINMYGKCGLLSSAQFVFDASLER---NSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSC-A  181 (672)
Q Consensus       106 g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~-~  181 (672)
                      .+.-|..+|..|.-+...+|+++.+.+.|++...-   ....|+.+-..+.-.|.-..|+.+++.-....-.|+..+- .
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~L  397 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLL  397 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHH
Confidence            33446677777777777777777777777764432   3455777777777777777777777666554333443333 3


Q ss_pred             HHHHHHh-ccCChHHHHHHHHHHHHhc-C---CCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHhc
Q 005881          182 SVLGACA-VLGNLKVGMQIHSLVFKCA-L---EFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQL  256 (672)
Q Consensus       182 ~ll~~~~-~~~~~~~a~~~~~~~~~~~-~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~  256 (672)
                      ..-+.|. +.+..+++...-.+++... -   ...+..+..+.-+|...-.            +.+..+        -+.
T Consensus       398 masklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~------------~a~~~s--------eR~  457 (799)
T KOG4162|consen  398 MASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQAR------------QANLKS--------ERD  457 (799)
T ss_pred             HHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhh------------cCCChH--------HHH
Confidence            3333332 4445555555444444311 0   0111111111111110000            000000        011


Q ss_pred             CChhHHHHHHHHHHHCC-CCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHH
Q 005881          257 GKACEAIDLFVKMFSSG-LMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKT  335 (672)
Q Consensus       257 ~~~~~a~~~~~~m~~~~-~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  335 (672)
                      ....++++.+++..+.+ -.|+...|..+  -++-.++.+.|.+...+..+.+-..+...+..|.-.+...+++.+|..+
T Consensus       458 ~~h~kslqale~av~~d~~dp~~if~lal--q~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~v  535 (799)
T KOG4162|consen  458 ALHKKSLQALEEAVQFDPTDPLVIFYLAL--QYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDV  535 (799)
T ss_pred             HHHHHHHHHHHHHHhcCCCCchHHHHHHH--HHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHH
Confidence            12346677777776643 23444444333  3445566777777777777776666667777777677777777777776


Q ss_pred             HhhCCCC---CcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCC
Q 005881          336 FDEMDEH---DVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDS  412 (672)
Q Consensus       336 ~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  412 (672)
                      .+...+.   |-.....-+..-..-++.++++.....+..---  +...+.                             
T Consensus       536 vd~al~E~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we--~~~~~q-----------------------------  584 (799)
T KOG4162|consen  536 VDAALEEFGDNHVLMDGKIHIELTFNDREEALDTCIHKLALWE--AEYGVQ-----------------------------  584 (799)
T ss_pred             HHHHHHHhhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHH--hhhhHh-----------------------------
Confidence            6654431   111111112222334555555555554432100  000000                             


Q ss_pred             cccHHHHHHHHHHhcCCHHHHHHHHhhCC-----C-CCchhHHHHHHHHHhcC---ChHHHHHHHHHHHHCCCC--CC--
Q 005881          413 NVVIGSALVDMYAKCGRLNDARKVFDHLS-----S-KNLVSWNTMLVGYAQHG---LGREALEIYSMMQENKIK--PN--  479 (672)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~-~~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~g~~--p~--  479 (672)
                                   ..++-....+....+.     . ..+.++..+..-....+   ..+..      +...-+.  |+  
T Consensus       585 -------------~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~------Lp~s~~~~~~~~~  645 (799)
T KOG4162|consen  585 -------------QTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELK------LPSSTVLPGPDSL  645 (799)
T ss_pred             -------------hhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccc------cCcccccCCCCch
Confidence                         0000111111111111     0 00111111111111000   00000      1111111  22  


Q ss_pred             ----HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHh-CCCCCC-HHHHH
Q 005881          480 ----DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEPN-KVVWR  552 (672)
Q Consensus       480 ----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~-~~~~~  552 (672)
                          ...|......+.+.+..++|...+.+..   ++.| ....|...+..+...|.+++|.+.|.. +.+.|+ +.+..
T Consensus       646 ~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~---~~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP~hv~s~~  722 (799)
T KOG4162|consen  646 WYLLQKLWLLAADLFLLSGNDDEARSCLLEAS---KIDPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALDPDHVPSMT  722 (799)
T ss_pred             HHHHHHHHHHHHHHHHhcCCchHHHHHHHHHH---hcchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCCCCcHHHH
Confidence                1234455566777888888887776654   4555 567778788889999999999988864 567885 45778


Q ss_pred             HHHHHHHhcCCHHHHHH--HHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCCccCCceeEE
Q 005881          553 CLLSGCKTHKDLVLGRY--AAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWT  622 (672)
Q Consensus       553 ~l~~~~~~~g~~~~a~~--~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  622 (672)
                      ++...+.+.|+...|..  .+..+++++|.++.+|..++.++.+.|+.++|.+-|....+-.. ..|-.+|.
T Consensus       723 Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~-S~PV~pFs  793 (799)
T KOG4162|consen  723 ALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEE-SNPVLPFS  793 (799)
T ss_pred             HHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhcc-CCCccccc
Confidence            88888899998888888  99999999999999999999999999999999999997765332 33444453

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.33  E-value=9.6e-07  Score=91.25  Aligned_cols=462  Identities=15%  Similarity=0.150  Sum_probs=263.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHhhccCC--C-----CcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 005881          114 SNCLINMYGKCGLLSSAQFVFDASLE--R-----NSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGA  186 (672)
Q Consensus       114 ~~~li~~~~~~g~~~~a~~~~~~~~~--~-----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~  186 (672)
                      +..+.+.|.+.|-...|.+.+..+..  +     +...-..+ -.|.-.-.++.+++.++.|...+++-+-.+...+..-
T Consensus       609 ra~IAqLCEKAGL~qraLehytDl~DIKR~vVhth~L~pEwL-v~yFg~lsve~s~eclkaml~~NirqNlQi~VQvatk  687 (1666)
T KOG0985|consen  609 RAEIAQLCEKAGLLQRALEHYTDLYDIKRVVVHTHLLNPEWL-VNYFGSLSVEDSLECLKAMLSANIRQNLQIVVQVATK  687 (1666)
T ss_pred             HHHHHHHHHhcchHHHHHHhcccHHHHHHHHHHhccCCHHHH-HHHHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            55667778888888888887766543  1     11111112 2333445678888888888888887777766666655


Q ss_pred             HhccCChHHHHHHHHHHHHh-----------cCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCC---------------
Q 005881          187 CAVLGNLKVGMQIHSLVFKC-----------ALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQL---------------  240 (672)
Q Consensus       187 ~~~~~~~~~a~~~~~~~~~~-----------~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---------------  240 (672)
                      |+..=..+...++|+.....           ++.-|+.+.-..|.+.++.|++.+.+++.++-.-               
T Consensus       688 y~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicresn~YdpErvKNfLkeAkL  767 (1666)
T KOG0985|consen  688 YHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRESNCYDPERVKNFLKEAKL  767 (1666)
T ss_pred             HHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhccccCCHHHHHHHHHhccc
Confidence            55544445555555544321           3456777777888899999988888887754320               


Q ss_pred             ----C------------CcchH---H---HHHHHHHhc------------------------------------------
Q 005881          241 ----P------------DLTAW---S---ALIGGYAQL------------------------------------------  256 (672)
Q Consensus       241 ----~------------~~~~~---~---~li~~~~~~------------------------------------------  256 (672)
                          |            |.+.|   |   -.|..|.+.                                          
T Consensus       768 ~DqlPLiiVCDRf~fVhdlvlYLyrnn~~kyIE~yVQkvNps~~p~VvG~LLD~dC~E~~ik~Li~~v~gq~~~deLv~E  847 (1666)
T KOG0985|consen  768 TDQLPLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRTPQVVGALLDVDCSEDFIKNLILSVRGQFPVDELVEE  847 (1666)
T ss_pred             cccCceEEEecccccHHHHHHHHHHhhHHHHHHHHHhhcCCcccchhhhhhhcCCCcHHHHHHHHHHHhccCChHHHHHH
Confidence                0            11111   0   112222222                                          


Q ss_pred             ----CChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhH-H--------HHHHH-HHHh-----------C---
Q 005881          257 ----GKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGG-R--------QLHSL-IIKM-----------G---  308 (672)
Q Consensus       257 ----~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a-~--------~~~~~-~~~~-----------~---  308 (672)
                          ++..--+..++.....|. .|..|++.+...|..+++-.+. .        .+... ..++           |   
T Consensus       848 vEkRNRLklLlp~LE~~i~eG~-~d~a~hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkYCEKRDP~lA~vaYerGqcD  926 (1666)
T KOG0985|consen  848 VEKRNRLKLLLPWLESLIQEGS-QDPATHNALAKIYIDSNNNPERFLKENPYYDSKVVGKYCEKRDPHLACVAYERGQCD  926 (1666)
T ss_pred             HHhhhhHHHHHHHHHHHHhccC-cchHHHhhhhheeecCCCChHHhcccCCcchhhHHhhhhcccCCceEEEeecccCCc
Confidence                111112222233333332 3556666666555444321111 0        00000 0010           1   


Q ss_pred             -----CCCchHHHHHHHHHHHccCChHHHHHHHhhCC----------------C-CCcccHHHHHHHHHhcCChhHHHHH
Q 005881          309 -----FSSFTFVANTVLDFYSKCELLEESLKTFDEMD----------------E-HDVVSWNALIAGHLASCHYGEAIEL  366 (672)
Q Consensus       309 -----~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~----------------~-~~~~~~~~li~~~~~~~~~~~A~~~  366 (672)
                           +......|..+.+.+.+..+.+--.+++.+-.                + .|+..-+..+.++...+-+.+-+++
T Consensus       927 ~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIEL 1006 (1666)
T KOG0985|consen  927 LELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIEL 1006 (1666)
T ss_pred             HHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHH
Confidence                 11112233334444444444443333332110                0 3444455566777777777777777


Q ss_pred             HHHHHhCCCCC-ChHHHHH-HHH---------------------------HHcCcCchHHHHHHHHHHHhcCCCCcccHH
Q 005881          367 LKDMLFEGHCP-NLYTYSN-ILN---------------------------ISSDIPAIEWGKQTHCCIVKPGFDSNVVIG  417 (672)
Q Consensus       367 ~~~m~~~g~~p-~~~t~~~-ll~---------------------------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  417 (672)
                      ++++.-....- ....... ++-                           .+...+-+++|..+|+..     ..+....
T Consensus      1007 LEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~iai~~~LyEEAF~ifkkf-----~~n~~A~ 1081 (1666)
T KOG0985|consen 1007 LEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIAIENQLYEEAFAIFKKF-----DMNVSAI 1081 (1666)
T ss_pred             HHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHHhhhhHHHHHHHHHHHh-----cccHHHH
Confidence            77765321111 0011111 111                           111122222333333221     1111111


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHH
Q 005881          418 SALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVE  497 (672)
Q Consensus       418 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~  497 (672)
                      +.|++   ..+.+++|.++-++..+|  ..|..+..+-.+.|...+|++-|-+      .-|+..|..++..+.+.|.++
T Consensus      1082 ~VLie---~i~~ldRA~efAe~~n~p--~vWsqlakAQL~~~~v~dAieSyik------adDps~y~eVi~~a~~~~~~e 1150 (1666)
T KOG0985|consen 1082 QVLIE---NIGSLDRAYEFAERCNEP--AVWSQLAKAQLQGGLVKDAIESYIK------ADDPSNYLEVIDVASRTGKYE 1150 (1666)
T ss_pred             HHHHH---HhhhHHHHHHHHHhhCCh--HHHHHHHHHHHhcCchHHHHHHHHh------cCCcHHHHHHHHHHHhcCcHH
Confidence            22221   234555555555554443  5799999999999999999987743      234567999999999999999


Q ss_pred             HHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC
Q 005881          498 EGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILST  577 (672)
Q Consensus       498 ~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  577 (672)
                      +-.+++.... +...+|..+  +.|+-+|++.+++.+-.+++.    -||..-...+.+-|...|.++.|+-+|.     
T Consensus      1151 dLv~yL~MaR-kk~~E~~id--~eLi~AyAkt~rl~elE~fi~----gpN~A~i~~vGdrcf~~~~y~aAkl~y~----- 1218 (1666)
T KOG0985|consen 1151 DLVKYLLMAR-KKVREPYID--SELIFAYAKTNRLTELEEFIA----GPNVANIQQVGDRCFEEKMYEAAKLLYS----- 1218 (1666)
T ss_pred             HHHHHHHHHH-HhhcCccch--HHHHHHHHHhchHHHHHHHhc----CCCchhHHHHhHHHhhhhhhHHHHHHHH-----
Confidence            9999986554 545666655  468999999999999888775    3677777888888999999999998887     


Q ss_pred             CCCCCchHHHHHHHHHhcCChHHHHHHHHHH
Q 005881          578 DPEDTSAHIMLSNVYAEANMWDETAKVRKIM  608 (672)
Q Consensus       578 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  608 (672)
                         +.+-|..|+..+...|.++.|...-++.
T Consensus      1219 ---~vSN~a~La~TLV~LgeyQ~AVD~aRKA 1246 (1666)
T KOG0985|consen 1219 ---NVSNFAKLASTLVYLGEYQGAVDAARKA 1246 (1666)
T ss_pred             ---HhhhHHHHHHHHHHHHHHHHHHHHhhhc
Confidence               5566788888888888888887766654

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

Probab=99.32  E-value=5.8e-09  Score=96.76  Aligned_cols=284  Identities=13%  Similarity=0.021  Sum_probs=176.8

Q ss_pred             cCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHH
Q 005881          155 CGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRV  234 (672)
Q Consensus       155 ~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  234 (672)
                      .|+|..|.++..+-.+.+-.| ...|.....+.-..|+.+.+-+.+.++.+....++..+.-+........|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            577888888877766655333 3445566666677888888888888887765566677777777777788888777766


Q ss_pred             HhcCC---CCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCC
Q 005881          235 FSNIQ---LPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSS  311 (672)
Q Consensus       235 ~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  311 (672)
                      .++..   ..+.........+|.+.|++.+...++.+|.+.|+--|...-                 +           .
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~-----------------~-----------l  227 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAA-----------------R-----------L  227 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHH-----------------H-----------H
Confidence            65544   356667777888888888888888888888887754443211                 0           0


Q ss_pred             chHHHHHHHHHHHccCChHHHHHHHhhCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHH
Q 005881          312 FTFVANTVLDFYSKCELLEESLKTFDEMDE---HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNI  388 (672)
Q Consensus       312 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~  388 (672)
                      ...+++.+++-....+..+.-...++..+.   .++..-.+++.-+.+.|+.++|.++..+..+.+..|+..+    +-.
T Consensus       228 e~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~----~~~  303 (400)
T COG3071         228 EQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCR----LIP  303 (400)
T ss_pred             HHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHH----HHh
Confidence            122345555555555555555566666664   4566666778888889999999999988888877666222    224


Q ss_pred             HcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC--CCCchhHHHHHHHHHhcCChHHHHH
Q 005881          389 SSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS--SKNLVSWNTMLVGYAQHGLGREALE  466 (672)
Q Consensus       389 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~  466 (672)
                      +.+.++.+.-.+..+...+.. +.++..+.+|...|.+.+.+.+|...|+...  .|+..+|+-+..++.+.|++.+|.+
T Consensus       304 ~l~~~d~~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~  382 (400)
T COG3071         304 RLRPGDPEPLIKAAEKWLKQH-PEDPLLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQ  382 (400)
T ss_pred             hcCCCCchHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHH
Confidence            445555554444444433321 1122445555555555555555555555443  3444555555555555555555555


Q ss_pred             HHHHHH
Q 005881          467 IYSMMQ  472 (672)
Q Consensus       467 ~~~~m~  472 (672)
                      .+++..
T Consensus       383 ~r~e~L  388 (400)
T COG3071         383 VRREAL  388 (400)
T ss_pred             HHHHHH
Confidence            554443

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

Probab=99.31  E-value=2e-09  Score=96.62  Aligned_cols=300  Identities=12%  Similarity=0.118  Sum_probs=176.5

Q ss_pred             cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhC-CCCc--hHHHHHHHHHHHccCChHHH
Q 005881          256 LGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMG-FSSF--TFVANTVLDFYSKCELLEES  332 (672)
Q Consensus       256 ~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~li~~~~~~~~~~~a  332 (672)
                      .++.++|.++|-+|.+.. +.+..+-.++-+.+-+.|..+.|.++++.+.++. .+.+  ....-.|..-|...|-+|.|
T Consensus        48 s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            466777888887777631 1222233344455666677777777776665532 1111  12233455666777777777


Q ss_pred             HHHHhhCCCCCc---ccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcC
Q 005881          333 LKTFDEMDEHDV---VSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPG  409 (672)
Q Consensus       333 ~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~  409 (672)
                      +.+|..+.+.+.   .....|+..|-+..++++|++.-+++.+.|-++..+-.                           
T Consensus       127 E~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eI---------------------------  179 (389)
T COG2956         127 EDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEI---------------------------  179 (389)
T ss_pred             HHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHH---------------------------
Confidence            777777665322   24455667777777777777777776665444332211                           


Q ss_pred             CCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCch---hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 005881          410 FDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLV---SWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGV  486 (672)
Q Consensus       410 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  486 (672)
                          ...|.-|...+....+++.|..++.+..+.|+.   .--.+...+...|++++|++.|+...+++..--......|
T Consensus       180 ----AqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L  255 (389)
T COG2956         180 ----AQFYCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEML  255 (389)
T ss_pred             ----HHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHH
Confidence                112334444555567778888888777643332   3333456677888888888888888886433223456777


Q ss_pred             HHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHH-HhCCCCCCHHHHHHHHHHHHhcCCHH
Q 005881          487 LSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFI-KSSPIEPNKVVWRCLLSGCKTHKDLV  565 (672)
Q Consensus       487 l~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~-~~~~~~p~~~~~~~l~~~~~~~g~~~  565 (672)
                      ..+|.+.|+.+++...+.++.+   ..+..+.-..+.+......-.+.|..++ +.+.-+|+...+..++..-...    
T Consensus       256 ~~~Y~~lg~~~~~~~fL~~~~~---~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l~d----  328 (389)
T COG2956         256 YECYAQLGKPAEGLNFLRRAME---TNTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHLAD----  328 (389)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHH---ccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhhcc----
Confidence            7888888888888888877763   3455555555555554444455555544 3445566666665555432111    


Q ss_pred             HHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCCccCCceeE
Q 005881          566 LGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSW  621 (672)
Q Consensus       566 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  621 (672)
                                                 +..|++.+...+++.|..+.++..|....
T Consensus       329 ---------------------------aeeg~~k~sL~~lr~mvge~l~~~~~YRC  357 (389)
T COG2956         329 ---------------------------AEEGRAKESLDLLRDMVGEQLRRKPRYRC  357 (389)
T ss_pred             ---------------------------ccccchhhhHHHHHHHHHHHHhhcCCcee
Confidence                                       12245666677777777666666654443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.30  E-value=1.7e-08  Score=91.68  Aligned_cols=134  Identities=10%  Similarity=0.108  Sum_probs=89.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCC-CchHHHH-HHHH
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGIS-PRMDHIA-SVVH  524 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~-p~~~~~~-~l~~  524 (672)
                      --.++...+.-..++++++-+++....-= .-|...-..+..+.+..|++.+|.++|-.+.   +.+ .+..+|. .|..
T Consensus       361 GRQsmAs~fFL~~qFddVl~YlnSi~sYF-~NdD~Fn~N~AQAk~atgny~eaEelf~~is---~~~ikn~~~Y~s~LAr  436 (557)
T KOG3785|consen  361 GRQSMASYFFLSFQFDDVLTYLNSIESYF-TNDDDFNLNLAQAKLATGNYVEAEELFIRIS---GPEIKNKILYKSMLAR  436 (557)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcchhhhHHHHHHHHhcChHHHHHHHhhhc---ChhhhhhHHHHHHHHH
Confidence            34455566666667777777777776642 2333333347778888888888888886654   222 2334444 4567


Q ss_pred             HhhccCChHHHHHHHHhCCCCCCHHHHHHHH-HHHHhcCCHHHHHHHHHHHhcCCCCCCchH
Q 005881          525 LFACRGQTRRAYEFIKSSPIEPNKVVWRCLL-SGCKTHKDLVLGRYAAEKILSTDPEDTSAH  585 (672)
Q Consensus       525 ~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~-~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  585 (672)
                      +|.++++.+-|.+++-++.-..+..+...++ .-|.+.+.+--|-++|+.+-.++| +++.|
T Consensus       437 Cyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP-~pEnW  497 (557)
T KOG3785|consen  437 CYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDP-TPENW  497 (557)
T ss_pred             HHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCC-Ccccc
Confidence            8888999999998887775333444444444 458899999899999999888888 44433

>PF13041 PPR_2: PPR repeat family

Probab=99.29  E-value=5e-12  Score=84.07  Aligned_cols=50  Identities=30%  Similarity=0.499  Sum_probs=44.2

Q ss_pred             CCcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhc
Q 005881           39 RNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACAS   88 (672)
Q Consensus        39 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   88 (672)
                      ||+++||++|.+|++.|++++|+++|++|.+.|++||..||++++++|++
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            78888999999999999999999999999988999999999999888864

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.28  E-value=6.7e-07  Score=92.35  Aligned_cols=548  Identities=14%  Similarity=0.097  Sum_probs=296.9

Q ss_pred             hhHHHHHHhcCCChhHHHHHhccCCC--CCcchHHHH-----HHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHH
Q 005881           13 YNHLLLMYVKFSRINDAQKLFDEMPE--RNVISWSAL-----ISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSA   85 (672)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~l-----i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~   85 (672)
                      +..+.+.|-+.|-...|++.|..+..  +.+++ +.+     +-.|.-.-.++.+++.++.|...++..|..+...+..-
T Consensus       609 ra~IAqLCEKAGL~qraLehytDl~DIKR~vVh-th~L~pEwLv~yFg~lsve~s~eclkaml~~NirqNlQi~VQvatk  687 (1666)
T KOG0985|consen  609 RAEIAQLCEKAGLLQRALEHYTDLYDIKRVVVH-THLLNPEWLVNYFGSLSVEDSLECLKAMLSANIRQNLQIVVQVATK  687 (1666)
T ss_pred             HHHHHHHHHhcchHHHHHHhcccHHHHHHHHHH-hccCCHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            55667778889999999999888764  22211 111     22344444688899999999988888888877777766


Q ss_pred             HhcCCChhhHHHHHHHHHHh-----------CCCCChhHHHHHHHHHHhcCChHHHHHHhhccCC---------------
Q 005881           86 CASRGDARSGKEIHGRMYRS-----------GLELNSHVSNCLINMYGKCGLLSSAQFVFDASLE---------------  139 (672)
Q Consensus        86 ~~~~~~~~~a~~~~~~~~~~-----------g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---------------  139 (672)
                      |...-..+...++|+.....           ++.-|+.+.-..|.+.++.|++.+.+++.++-.-               
T Consensus       688 y~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicresn~YdpErvKNfLkeAkL  767 (1666)
T KOG0985|consen  688 YHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRESNCYDPERVKNFLKEAKL  767 (1666)
T ss_pred             HHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhccccCCHHHHHHHHHhccc
Confidence            66655556666666665532           2456788888899999999999999888754210               


Q ss_pred             ----C-----CcccH-H------------HHHHHHHhcCChHHHHHHHHHHHhCCCCCChh-------------hHHHHH
Q 005881          140 ----R-----NSISW-V------------SLLSSYCQCGEHVHGLKIFLLSRKSGVAISEF-------------SCASVL  184 (672)
Q Consensus       140 ----~-----~~~~~-~------------~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-------------t~~~ll  184 (672)
                          |     |-.-+ +            ..|..|.+.-++.+.-.+.-.+...  .-+..             ...-+.
T Consensus       768 ~DqlPLiiVCDRf~fVhdlvlYLyrnn~~kyIE~yVQkvNps~~p~VvG~LLD~--dC~E~~ik~Li~~v~gq~~~deLv  845 (1666)
T KOG0985|consen  768 TDQLPLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRTPQVVGALLDV--DCSEDFIKNLILSVRGQFPVDELV  845 (1666)
T ss_pred             cccCceEEEecccccHHHHHHHHHHhhHHHHHHHHHhhcCCcccchhhhhhhcC--CCcHHHHHHHHHHHhccCChHHHH
Confidence                0     11111 1            1233333332222222222111111  11111             112233


Q ss_pred             HHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcC------------CCCCc---------
Q 005881          185 GACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNI------------QLPDL---------  243 (672)
Q Consensus       185 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~------------~~~~~---------  243 (672)
                      .-+-+.+++..-...++..++.|.. |+.++++|...|...++-.+-  .+++-            .++|+         
T Consensus       846 ~EvEkRNRLklLlp~LE~~i~eG~~-d~a~hnAlaKIyIDSNNnPE~--fLkeN~yYDs~vVGkYCEKRDP~lA~vaYer  922 (1666)
T KOG0985|consen  846 EEVEKRNRLKLLLPWLESLIQEGSQ-DPATHNALAKIYIDSNNNPER--FLKENPYYDSKVVGKYCEKRDPHLACVAYER  922 (1666)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhccCc-chHHHhhhhheeecCCCChHH--hcccCCcchhhHHhhhhcccCCceEEEeecc
Confidence            3444555666666667777777755 778888888888765432111  01000            00000         


Q ss_pred             --------------chHHHHHHHHHhcCCh---hHHH--------HHHHHHHHCCC--CCChhhHHHHHHHhhccCCchh
Q 005881          244 --------------TAWSALIGGYAQLGKA---CEAI--------DLFVKMFSSGL--MPSEVTFSYVLGAFADVKETIG  296 (672)
Q Consensus       244 --------------~~~~~li~~~~~~~~~---~~a~--------~~~~~m~~~~~--~p~~~t~~~ll~~~~~~~~~~~  296 (672)
                                    ..|....+.+....+.   .+.+        .++++..+.++  ..|+...+....++...+-..+
T Consensus       923 GqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~e 1002 (1666)
T KOG0985|consen  923 GQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNE 1002 (1666)
T ss_pred             cCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHH
Confidence                          0111111122222221   1111        12222222221  1223333334444444444444


Q ss_pred             HHHHHHHHHHhC--CCCchHHHHHHHHH---------------------------HHccCChHHHHHHHhhCCC------
Q 005881          297 GRQLHSLIIKMG--FSSFTFVANTVLDF---------------------------YSKCELLEESLKTFDEMDE------  341 (672)
Q Consensus       297 a~~~~~~~~~~~--~~~~~~~~~~li~~---------------------------~~~~~~~~~a~~~~~~~~~------  341 (672)
                      -.++++.++-..  +..+...-|.|+-.                           ....+-+++|..+|+...-      
T Consensus      1003 LIELLEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~iai~~~LyEEAF~ifkkf~~n~~A~~ 1082 (1666)
T KOG0985|consen 1003 LIELLEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIAIENQLYEEAFAIFKKFDMNVSAIQ 1082 (1666)
T ss_pred             HHHHHHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHHhhhhHHHHHHHHHHHhcccHHHHH
Confidence            444444433211  11111111111111                           1122223344444433210      


Q ss_pred             -------------------CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHH
Q 005881          342 -------------------HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTH  402 (672)
Q Consensus       342 -------------------~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~  402 (672)
                                         ..+..|+.+..+-.+.|...+|++-|-+.      -|+..|.-+++.+.+.|.++.-..++
T Consensus      1083 VLie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL 1156 (1666)
T KOG0985|consen 1083 VLIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYL 1156 (1666)
T ss_pred             HHHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHH
Confidence                               12346788888888888888887766432      36677888888888888888888888


Q ss_pred             HHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHH
Q 005881          403 CCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNT  482 (672)
Q Consensus       403 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  482 (672)
                      ....+..-+|.+.  +.|+-+|++.+++.+-++++.   .||......+..-|...|.++.|.-+|...         .-
T Consensus      1157 ~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi~---gpN~A~i~~vGdrcf~~~~y~aAkl~y~~v---------SN 1222 (1666)
T KOG0985|consen 1157 LMARKKVREPYID--SELIFAYAKTNRLTELEEFIA---GPNVANIQQVGDRCFEEKMYEAAKLLYSNV---------SN 1222 (1666)
T ss_pred             HHHHHhhcCccch--HHHHHHHHHhchHHHHHHHhc---CCCchhHHHHhHHHhhhhhhHHHHHHHHHh---------hh
Confidence            8777776666554  578888888888877766543   466666666666666667666665555432         22


Q ss_pred             HHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 005881          483 FIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHK  562 (672)
Q Consensus       483 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g  562 (672)
                      |..|...+...|.+..|...-++.       .+..+|..+..++...+.+.-|.-  ..+.+--...-...++..|...|
T Consensus      1223 ~a~La~TLV~LgeyQ~AVD~aRKA-------ns~ktWK~VcfaCvd~~EFrlAQi--CGL~iivhadeLeeli~~Yq~rG 1293 (1666)
T KOG0985|consen 1223 FAKLASTLVYLGEYQGAVDAARKA-------NSTKTWKEVCFACVDKEEFRLAQI--CGLNIIVHADELEELIEYYQDRG 1293 (1666)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhc-------cchhHHHHHHHHHhchhhhhHHHh--cCceEEEehHhHHHHHHHHHhcC
Confidence            555555556666666665543322       234455555555555444433321  11111123334455666677777


Q ss_pred             CHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhc
Q 005881          563 DLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEA  595 (672)
Q Consensus       563 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  595 (672)
                      -+++-+.+++..+.++..+-+.+.-|+-+|.+-
T Consensus      1294 yFeElIsl~Ea~LGLERAHMgmfTELaiLYsky 1326 (1666)
T KOG0985|consen 1294 YFEELISLLEAGLGLERAHMGMFTELAILYSKY 1326 (1666)
T ss_pred             cHHHHHHHHHhhhchhHHHHHHHHHHHHHHHhc
Confidence            777777777777777776777777777776664

>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=5.2e-08  Score=90.55  Aligned_cols=304  Identities=10%  Similarity=-0.030  Sum_probs=206.3

Q ss_pred             CCChhhHHHHHHHhh--ccCCchhHHHHHHHHH-HhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHH-
Q 005881          275 MPSEVTFSYVLGAFA--DVKETIGGRQLHSLII-KMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNAL-  350 (672)
Q Consensus       275 ~p~~~t~~~ll~~~~--~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l-  350 (672)
                      .|...+...-+.+++  ..++-..+.+.+-.+. ..-++.++.....+.+++...|+.++|...|++...-|+.+...| 
T Consensus       191 ~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD  270 (564)
T KOG1174|consen  191 PDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMD  270 (564)
T ss_pred             CCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHH
Confidence            344445444454443  3333334444333333 345677888899999999999999999999998876554443332 


Q ss_pred             --HHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcC
Q 005881          351 --IAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCG  428 (672)
Q Consensus       351 --i~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  428 (672)
                        .--+.+.|+.+....+...+.... .-....|-.-.......++++.|..+-+..++.... +...+-.-...+...|
T Consensus       271 ~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~  348 (564)
T KOG1174|consen  271 LYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALE  348 (564)
T ss_pred             HHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhcc
Confidence              233456788888777777766432 112222222233344567777888777777765422 2222333345667789


Q ss_pred             CHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH-HHhh-ccCcHHHHHHHH
Q 005881          429 RLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVL-SACV-HIGLVEEGWHYF  503 (672)
Q Consensus       429 ~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll-~~~~-~~g~~~~a~~~~  503 (672)
                      ++++|.-.|+...   .-+..+|.-|+.+|...|++.+|.-+-+..... ++.+..+...+. ..|. ...--++|..++
T Consensus       349 R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~  427 (564)
T KOG1174|consen  349 RHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFA  427 (564)
T ss_pred             chHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHH
Confidence            9999998888765   356779999999999999999998887776653 344445554442 2332 233457888888


Q ss_pred             HHhHHhhCCCCc-hHHHHHHHHHhhccCChHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC
Q 005881          504 NSMIRDHGISPR-MDHIASVVHLFACRGQTRRAYEFIKS-SPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPED  581 (672)
Q Consensus       504 ~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  581 (672)
                      ++-.   .+.|+ ......+...+.+.|..+++..++++ +...||....+.|.......+.+++|...|..++.++|++
T Consensus       428 ek~L---~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~  504 (564)
T KOG1174|consen  428 EKSL---KINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKS  504 (564)
T ss_pred             Hhhh---ccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccc
Confidence            8665   56775 46777888899999999999999976 5567888888888899999999999999999999999976


Q ss_pred             Cch
Q 005881          582 TSA  584 (672)
Q Consensus       582 ~~~  584 (672)
                      ..+
T Consensus       505 ~~s  507 (564)
T KOG1174|consen  505 KRT  507 (564)
T ss_pred             hHH
Confidence            443

>PF13041 PPR_2: PPR repeat family

Probab=99.28  E-value=1.2e-11  Score=82.16  Aligned_cols=50  Identities=28%  Similarity=0.557  Sum_probs=48.1

Q ss_pred             CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhc
Q 005881          443 KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVH  492 (672)
Q Consensus       443 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  492 (672)
                      ||+++||++|.+|++.|++++|.++|++|.+.|++||..||+.++.+|++
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            78999999999999999999999999999999999999999999999875

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

Probab=99.26  E-value=5.4e-10  Score=95.60  Aligned_cols=162  Identities=12%  Similarity=0.114  Sum_probs=142.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHH
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVH  524 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~  524 (672)
                      +...|..+|.+.|++..|.+-+++.++.  .|+. .++..+...|.+.|..+.|.+.|+...   .+.| +-++.|....
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAl---sl~p~~GdVLNNYG~  111 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDLADESYRKAL---SLAPNNGDVLNNYGA  111 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhhHHHHHHHHH---hcCCCccchhhhhhH
Confidence            3556788999999999999999999994  6766 589999999999999999999999887   5677 5689999999


Q ss_pred             HhhccCChHHHHHHHHhCCCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHH
Q 005881          525 LFACRGQTRRAYEFIKSSPIEP----NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDE  600 (672)
Q Consensus       525 ~~~~~g~~~~A~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  600 (672)
                      .+|..|++++|...|++.-..|    -..+|..+.....+.|+.+.|+..++++++++|+++.....+++...+.|++-+
T Consensus       112 FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~  191 (250)
T COG3063         112 FLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAP  191 (250)
T ss_pred             HHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchH
Confidence            9999999999999998753344    244677777777889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhCCC
Q 005881          601 TAKVRKIMKEKSL  613 (672)
Q Consensus       601 a~~~~~~~~~~~~  613 (672)
                      |...++....++.
T Consensus       192 Ar~~~~~~~~~~~  204 (250)
T COG3063         192 ARLYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHHHhccc
Confidence            9999999987766

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

Probab=99.26  E-value=1.6e-08  Score=90.88  Aligned_cols=277  Identities=9%  Similarity=0.043  Sum_probs=172.4

Q ss_pred             cCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcccH-------HHHHHHHHhcCChhHH
Q 005881          291 VKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSW-------NALIAGHLASCHYGEA  363 (672)
Q Consensus       291 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~~li~~~~~~~~~~~A  363 (672)
                      +.+.++|...|-+|.+.. +.+..+.-+|-+.|-+.|..|.|+++.+.+.+....|+       -.|..-|...|-+|.|
T Consensus        48 s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            345667777777766632 23334445666777777777777777776655222222       2344456666677777


Q ss_pred             HHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCC
Q 005881          364 IELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSK  443 (672)
Q Consensus       364 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  443 (672)
                      ..+|..+.+.|.. -....                                   ..|+..|-+..++++|.++-+++.+.
T Consensus       127 E~~f~~L~de~ef-a~~Al-----------------------------------qqLl~IYQ~treW~KAId~A~~L~k~  170 (389)
T COG2956         127 EDIFNQLVDEGEF-AEGAL-----------------------------------QQLLNIYQATREWEKAIDVAERLVKL  170 (389)
T ss_pred             HHHHHHHhcchhh-hHHHH-----------------------------------HHHHHHHHHhhHHHHHHHHHHHHHHc
Confidence            7777766654311 11122                                   34555666666666666666555432


Q ss_pred             Cch--------hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC
Q 005881          444 NLV--------SWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDN-TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP  514 (672)
Q Consensus       444 ~~~--------~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p  514 (672)
                      +..        .|.-+...+....++++|..++.+..+.  .|+.+ .-..+.......|+++.|.+.++...+. +..-
T Consensus       171 ~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa--~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQ-n~~y  247 (389)
T COG2956         171 GGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQA--DKKCVRASIILGRVELAKGDYQKAVEALERVLEQ-NPEY  247 (389)
T ss_pred             CCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhh--CccceehhhhhhHHHHhccchHHHHHHHHHHHHh-ChHH
Confidence            222        2334555566678899999999999885  45554 3345667788899999999999988743 3333


Q ss_pred             chHHHHHHHHHhhccCChHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHH
Q 005881          515 RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYA  593 (672)
Q Consensus       515 ~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  593 (672)
                      -.++...|..+|...|+.++...++.+ +...++...-..+...-....-.+.|.....+-+.-.| +...+..+++...
T Consensus       248 l~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~P-t~~gf~rl~~~~l  326 (389)
T COG2956         248 LSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADAELMLADLIELQEGIDAAQAYLTRQLRRKP-TMRGFHRLMDYHL  326 (389)
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCC-cHHHHHHHHHhhh
Confidence            457888899999999999999999876 44556666665666655555556677777777777778 4444455555444


Q ss_pred             hcCChHHHHHHHHHH
Q 005881          594 EANMWDETAKVRKIM  608 (672)
Q Consensus       594 ~~g~~~~a~~~~~~~  608 (672)
                      .-+.-..+.+-+..+
T Consensus       327 ~daeeg~~k~sL~~l  341 (389)
T COG2956         327 ADAEEGRAKESLDLL  341 (389)
T ss_pred             ccccccchhhhHHHH
Confidence            333322233334433

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

Probab=99.25  E-value=1.5e-07  Score=91.81  Aligned_cols=434  Identities=12%  Similarity=0.073  Sum_probs=242.5

Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcC-CCcHHHHHHHHHHhh--cCCC
Q 005881          151 SYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCAL-EFDKFVAMGLINLYA--KCEK  227 (672)
Q Consensus       151 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~--~~g~  227 (672)
                      .+...|++++|.....++...+ +-+...+..-+-+....+.++.|..+.+.   .+. ..+.+.+  +=.+||  +.+.
T Consensus        21 ~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk---~~~~~~~~~~~--fEKAYc~Yrlnk   94 (652)
T KOG2376|consen   21 RHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKK---NGALLVINSFF--FEKAYCEYRLNK   94 (652)
T ss_pred             HhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHh---cchhhhcchhh--HHHHHHHHHccc
Confidence            3444555666666655555543 22233344444444555555555533221   111 1111111  234443  6788


Q ss_pred             hhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-ChhhHHHHHHHhhccCCchhHHHHHHHHHH
Q 005881          228 LDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMP-SEVTFSYVLGAFADVKETIGGRQLHSLIIK  306 (672)
Q Consensus       228 ~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  306 (672)
                      .|+|...++...+.+..+...-...+.+.|++++|+++|+.+.+++..- |...-..++.+-...       .. ..+..
T Consensus        95 ~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l-------~~-~~~q~  166 (652)
T KOG2376|consen   95 LDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAAL-------QV-QLLQS  166 (652)
T ss_pred             HHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhh-------hH-HHHHh
Confidence            8888888886655555566666677888999999999999987765322 111122222111110       00 01222


Q ss_pred             hCCCCchHHHHH---HHHHHHccCChHHHHHHHhhCC--------CCCcc----------cHHHHHHHHHhcCChhHHHH
Q 005881          307 MGFSSFTFVANT---VLDFYSKCELLEESLKTFDEMD--------EHDVV----------SWNALIAGHLASCHYGEAIE  365 (672)
Q Consensus       307 ~~~~~~~~~~~~---li~~~~~~~~~~~a~~~~~~~~--------~~~~~----------~~~~li~~~~~~~~~~~A~~  365 (672)
                      ....| ..+|..   ....+...|++.+|+++++...        +.|..          .---|.-.+...|+.++|.+
T Consensus       167 v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~  245 (652)
T KOG2376|consen  167 VPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASS  245 (652)
T ss_pred             ccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHH
Confidence            22222 222222   2345567889999998888762        11111          11223446678899999999


Q ss_pred             HHHHHHhCCCCCChHHHHHHHH---HHcCcCchHHH--HHHHHH-----------HHhcCCCCcccHHHHHHHHHHhcCC
Q 005881          366 LLKDMLFEGHCPNLYTYSNILN---ISSDIPAIEWG--KQTHCC-----------IVKPGFDSNVVIGSALVDMYAKCGR  429 (672)
Q Consensus       366 ~~~~m~~~g~~p~~~t~~~ll~---~~~~~~~~~~a--~~~~~~-----------~~~~~~~~~~~~~~~l~~~~~~~g~  429 (672)
                      ++...++.. .+|........+   +.....++...  ...++.           .....-.-.+.--+.++.+|.  +.
T Consensus       246 iy~~~i~~~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~t--nk  322 (652)
T KOG2376|consen  246 IYVDIIKRN-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFT--NK  322 (652)
T ss_pred             HHHHHHHhc-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHh--hh
Confidence            999998874 344433322222   22222222221  111111           110000111112234444443  55


Q ss_pred             HHHHHHHHhhCCCCC-chhHHHHHHHHH--hcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHhhccCcHHHHHHHHH
Q 005881          430 LNDARKVFDHLSSKN-LVSWNTMLVGYA--QHGLGREALEIYSMMQENKIKPND--NTFIGVLSACVHIGLVEEGWHYFN  504 (672)
Q Consensus       430 ~~~A~~~~~~~~~~~-~~~~~~li~~~~--~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~  504 (672)
                      .+.+.++........ ...+..++....  +...+.+|.+++...-+.  .|..  ......+......|+++.|.+++.
T Consensus       323 ~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQl~is~gn~~~A~~il~  400 (652)
T KOG2376|consen  323 MDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRAQLKISQGNPEVALEILS  400 (652)
T ss_pred             HHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            677777777776433 233444443332  223577888888887764  4554  344445566788999999999988


Q ss_pred             --------HhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHh--------CCCCCC-HHHHHHHHHHHHhcCCHHHH
Q 005881          505 --------SMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS--------SPIEPN-KVVWRCLLSGCKTHKDLVLG  567 (672)
Q Consensus       505 --------~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~--------~~~~p~-~~~~~~l~~~~~~~g~~~~a  567 (672)
                              .+.   .+.-.+.+...++..+.+.++.+-|.+++.+        +...+. ...|.-++..-.++|+.++|
T Consensus       401 ~~~~~~~ss~~---~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea  477 (652)
T KOG2376|consen  401 LFLESWKSSIL---EAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEA  477 (652)
T ss_pred             HHhhhhhhhhh---hhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHH
Confidence                    332   2233456778888888888876655555432        332332 22444455556678999999


Q ss_pred             HHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHH
Q 005881          568 RYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIM  608 (672)
Q Consensus       568 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  608 (672)
                      ...++++++.+|++......++.+|++.. .+.|..+-+.+
T Consensus       478 ~s~leel~k~n~~d~~~l~~lV~a~~~~d-~eka~~l~k~L  517 (652)
T KOG2376|consen  478 SSLLEELVKFNPNDTDLLVQLVTAYARLD-PEKAESLSKKL  517 (652)
T ss_pred             HHHHHHHHHhCCchHHHHHHHHHHHHhcC-HHHHHHHhhcC
Confidence            99999999999999999999999998864 66676665543

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

Probab=99.25  E-value=1.3e-07  Score=91.78  Aligned_cols=281  Identities=11%  Similarity=0.002  Sum_probs=206.7

Q ss_pred             CCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCC---cccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHH
Q 005881          309 FSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHD---VVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNI  385 (672)
Q Consensus       309 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~l  385 (672)
                      ...++.+.....+-+...+++.+..++++.+.+.|   ...+..-|.++...|+..+-..+=.+|++. .+-...+|-++
T Consensus       240 l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aV  318 (611)
T KOG1173|consen  240 LAENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAV  318 (611)
T ss_pred             hhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhH
Confidence            34455555666777778888888888888887643   345555677888888888887777788765 23356778787


Q ss_pred             HHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChH
Q 005881          386 LNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLGR  462 (672)
Q Consensus       386 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~  462 (672)
                      ---|...|+..+|++.+......... -...|-.+...|+-.|.-|.|...+....+   .....+--+..-|.+.++.+
T Consensus       319 g~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~k  397 (611)
T KOG1173|consen  319 GCYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLK  397 (611)
T ss_pred             HHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHH
Confidence            77777788999999988877643321 234566778888888988888887766542   11122333556688899999


Q ss_pred             HHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhC-CCC----chHHHHHHHHHhhccCChHHHH
Q 005881          463 EALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHG-ISP----RMDHIASVVHLFACRGQTRRAY  536 (672)
Q Consensus       463 ~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~p----~~~~~~~l~~~~~~~g~~~~A~  536 (672)
                      .|.+.|.+...  +.|+. ...+-+.-.....+.+.+|..+|+....... +.+    -..+++.|+.+|.+.+.+++|+
T Consensus       398 LAe~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI  475 (611)
T KOG1173|consen  398 LAEKFFKQALA--IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAI  475 (611)
T ss_pred             HHHHHHHHHHh--cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHH
Confidence            99999999887  56655 4566666666778899999999988762211 111    2356889999999999999999


Q ss_pred             HHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHH
Q 005881          537 EFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYA  593 (672)
Q Consensus       537 ~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  593 (672)
                      ..+++ +...| +..++.++.-.+...|+++.|...|.+++.+.|++..+-..|..+..
T Consensus       476 ~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  476 DYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLAIE  534 (611)
T ss_pred             HHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            99986 33445 77788888888999999999999999999999988776666665543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.22  E-value=5e-09  Score=104.53  Aligned_cols=230  Identities=14%  Similarity=0.129  Sum_probs=166.3

Q ss_pred             HHHHHHHHHHcCcCchHHHHHHHHHHHhc-----CC-CCcc-cHHHHHHHHHHhcCCHHHHHHHHhhCCC--------CC
Q 005881          380 YTYSNILNISSDIPAIEWGKQTHCCIVKP-----GF-DSNV-VIGSALVDMYAKCGRLNDARKVFDHLSS--------KN  444 (672)
Q Consensus       380 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~  444 (672)
                      .|...+...|...|+++.|..+++...+.     |. .|.. ...+.+...|...+++++|..+|+++..        .+
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            34445666677777777777776665543     21 1121 2233466778888999999888887751        12


Q ss_pred             ---chhHHHHHHHHHhcCChHHHHHHHHHHHH-----CCCCCCH-H-HHHHHHHHhhccCcHHHHHHHHHHhHHhhC--C
Q 005881          445 ---LVSWNTMLVGYAQHGLGREALEIYSMMQE-----NKIKPND-N-TFIGVLSACVHIGLVEEGWHYFNSMIRDHG--I  512 (672)
Q Consensus       445 ---~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~-~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~--~  512 (672)
                         ..+++.|...|...|++++|..++++..+     .|..+.. . -++.+...|...+.+++|..+++...+.+.  +
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence               23778888889999999988888877653     1222222 2 467777889999999999999988765443  2


Q ss_pred             CCc----hHHHHHHHHHhhccCChHHHHHHHHhC-------C--CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhc--
Q 005881          513 SPR----MDHIASVVHLFACRGQTRRAYEFIKSS-------P--IEPN-KVVWRCLLSGCKTHKDLVLGRYAAEKILS--  576 (672)
Q Consensus       513 ~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~--~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--  576 (672)
                      .++    ..+++.|...|...|++++|.+++++.       .  ..+. ...++.+...|.+.++++.|.+.|++...  
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            222    367999999999999999999998753       1  2232 44677888889999999999999988754  


Q ss_pred             --CCCCC---CchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          577 --TDPED---TSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       577 --~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                        ..|++   ..+|..|+.+|.+.|++++|.++.+...
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence              34544   4568899999999999999999998775

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

Probab=99.22  E-value=4.4e-08  Score=93.11  Aligned_cols=185  Identities=14%  Similarity=0.129  Sum_probs=103.9

Q ss_pred             HHHHHHHccCChHHHHHHHhhCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC-ChHHHHHHHHHHcCcC
Q 005881          318 TVLDFYSKCELLEESLKTFDEMDE---HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCP-NLYTYSNILNISSDIP  393 (672)
Q Consensus       318 ~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~~  393 (672)
                      -+..+|....+.++..+.|+...+   .++.+|..-...+.-.+++++|..-|++.+..  .| +...|..+--+..+.+
T Consensus       365 ~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L--~pe~~~~~iQl~~a~Yr~~  442 (606)
T KOG0547|consen  365 KRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAISL--DPENAYAYIQLCCALYRQH  442 (606)
T ss_pred             HHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhc--ChhhhHHHHHHHHHHHHHH
Confidence            333445555555555555554433   23344444444444455555555555555533  33 2233333333444555


Q ss_pred             chHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC--CCC-------chhH-HHHHHHHHhcCChHH
Q 005881          394 AIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS--SKN-------LVSW-NTMLVGYAQHGLGRE  463 (672)
Q Consensus       394 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~-------~~~~-~~li~~~~~~g~~~~  463 (672)
                      .++.+...|+..++. ++..+.+|+.....+...++++.|.+.|+...  +|.       +.++ +--+..+.-.+++..
T Consensus       443 k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~qwk~d~~~  521 (606)
T KOG0547|consen  443 KIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQWKEDINQ  521 (606)
T ss_pred             HHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhchhhhHHH
Confidence            555666666555543 34456666777777777777777777776654  222       1111 001111223477888


Q ss_pred             HHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhH
Q 005881          464 ALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMI  507 (672)
Q Consensus       464 A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~  507 (672)
                      |.+++++..+  +.|.. ..|..|...-...|+.++|+++|+...
T Consensus       522 a~~Ll~KA~e--~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  522 AENLLRKAIE--LDPKCEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             HHHHHHHHHc--cCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            8888888877  45554 467788888888888888888888765

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.19  E-value=2.7e-09  Score=102.33  Aligned_cols=212  Identities=15%  Similarity=0.069  Sum_probs=146.2

Q ss_pred             CchHHHHHHHHHHHhc-CCCCc--ccHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHH
Q 005881          393 PAIEWGKQTHCCIVKP-GFDSN--VVIGSALVDMYAKCGRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALE  466 (672)
Q Consensus       393 ~~~~~a~~~~~~~~~~-~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~  466 (672)
                      +..+.+..-+..++.. ...|+  ...+..+...|.+.|+.++|...|++..+   .+...|+.+...+...|++++|.+
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            3445555555555543 22222  34566777788899999999999988763   455689999999999999999999


Q ss_pred             HHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-C-
Q 005881          467 IYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-P-  543 (672)
Q Consensus       467 ~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-  543 (672)
                      .|++..+  +.|+. .++..+..++...|++++|.+.|+...+   ..|+..........+...++.++|.+.+++. . 
T Consensus       120 ~~~~Al~--l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~---~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        120 AFDSVLE--LDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQ---DDPNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            9999998  46664 5778888888899999999999998873   4554332222233445677899999999653 2 


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHh-------cCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCC
Q 005881          544 IEPNKVVWRCLLSGCKTHKDLVLGRYAAEKIL-------STDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       544 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-------~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  613 (672)
                      ..|+...| .+  .....|+...+ ..++.+.       ++.|+.+.+|..++.+|.+.|++++|...|++..+.++
T Consensus       195 ~~~~~~~~-~~--~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        195 LDKEQWGW-NI--VEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             CCccccHH-HH--HHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            22332222 22  22234444333 2333332       45566778899999999999999999999998876443

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

Probab=99.17  E-value=1.9e-09  Score=96.69  Aligned_cols=229  Identities=15%  Similarity=0.087  Sum_probs=140.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCC
Q 005881          350 LIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGR  429 (672)
Q Consensus       350 li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  429 (672)
                      +..+|.+.|.+.+|.+.|+.-...  .|-..||..+-.+|.+...+..|..++.+-.+. ++-++.........+...++
T Consensus       229 ~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam~~  305 (478)
T KOG1129|consen  229 MGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAMEQ  305 (478)
T ss_pred             HHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHHHh
Confidence            344444444444444444444433  233333333333333333333333333332221 11122222334444555667


Q ss_pred             HHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHh
Q 005881          430 LNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSM  506 (672)
Q Consensus       430 ~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  506 (672)
                      .++|.++++...+   .++.....+..+|...++++-|+.+|+++++.|+ -+...|..+.-+|.-.++++-++.-|++.
T Consensus       306 ~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf~RA  384 (478)
T KOG1129|consen  306 QEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQRA  384 (478)
T ss_pred             HHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHHHHH
Confidence            7777777776653   3344445555667777777777777777777774 45566777777777777777777776665


Q ss_pred             HHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHH
Q 005881          507 IRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHI  586 (672)
Q Consensus       507 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  586 (672)
                      ... .-.|+                              --..+|-.+.......||+..|.+.|+-++..+|++..++.
T Consensus       385 lst-at~~~------------------------------~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealn  433 (478)
T KOG1129|consen  385 LST-ATQPG------------------------------QAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALN  433 (478)
T ss_pred             Hhh-ccCcc------------------------------hhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHH
Confidence            421 11111                              12345666666677889999999999999999999999999


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhCCC
Q 005881          587 MLSNVYAEANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       587 ~l~~~~~~~g~~~~a~~~~~~~~~~~~  613 (672)
                      +|+-+-.+.|+.++|..+++......+
T Consensus       434 NLavL~~r~G~i~~Arsll~~A~s~~P  460 (478)
T KOG1129|consen  434 NLAVLAARSGDILGARSLLNAAKSVMP  460 (478)
T ss_pred             hHHHHHhhcCchHHHHHHHHHhhhhCc
Confidence            999999999999999999998776443

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

Probab=99.16  E-value=7.4e-07  Score=87.10  Aligned_cols=429  Identities=13%  Similarity=0.057  Sum_probs=217.9

Q ss_pred             HHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHH--HHHHHH--h
Q 005881           48 ISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNC--LINMYG--K  123 (672)
Q Consensus        48 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~--li~~~~--~  123 (672)
                      +.-+...|++++|.+...++...+ +-+...+..-+-++...+.++.|..+.+   ..+.   ..+++.  +=.+||  +
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ik---k~~~---~~~~~~~~fEKAYc~Yr   91 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIK---KNGA---LLVINSFFFEKAYCEYR   91 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHH---hcch---hhhcchhhHHHHHHHHH
Confidence            345566777888888888877654 4455667777777777788887774433   2221   111111  234444  5


Q ss_pred             cCChHHHHHHhhccCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHhccCChHHHHHHHHH
Q 005881          124 CGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAIS-EFSCASVLGACAVLGNLKVGMQIHSL  202 (672)
Q Consensus       124 ~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~  202 (672)
                      .+..++|...++.....+..+...-...+.+.|++++|+++|+.+.+.+..-- ...-..++.+-.         ..-..
T Consensus        92 lnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a---------~l~~~  162 (652)
T KOG2376|consen   92 LNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAA---------ALQVQ  162 (652)
T ss_pred             cccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHH---------hhhHH
Confidence            67888888888855555555666667778888888888888888876643321 111111111111         11111


Q ss_pred             HHHh-cCCCcHHHHHHH---HHHhhcCCChhHHHHHHhcCC--------CCCcc----------hHHHHHHHHHhcCChh
Q 005881          203 VFKC-ALEFDKFVAMGL---INLYAKCEKLDLASRVFSNIQ--------LPDLT----------AWSALIGGYAQLGKAC  260 (672)
Q Consensus       203 ~~~~-~~~~~~~~~~~l---i~~~~~~g~~~~a~~~~~~~~--------~~~~~----------~~~~li~~~~~~~~~~  260 (672)
                      ..+. ...| ..+|..+   ...++..|++.+|+++++...        ..|..          .---+.-.+...|+.+
T Consensus       163 ~~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~  241 (652)
T KOG2376|consen  163 LLQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTA  241 (652)
T ss_pred             HHHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchH
Confidence            1111 1122 2233322   334556788888888887661        11110          1112334566789999


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHH---HHhhccCCchh--HHHHHHHHH-----------HhCCCCchHHHHHHHHHHH
Q 005881          261 EAIDLFVKMFSSGLMPSEVTFSYVL---GAFADVKETIG--GRQLHSLII-----------KMGFSSFTFVANTVLDFYS  324 (672)
Q Consensus       261 ~a~~~~~~m~~~~~~p~~~t~~~ll---~~~~~~~~~~~--a~~~~~~~~-----------~~~~~~~~~~~~~li~~~~  324 (672)
                      +|..++....... .+|........   -+.....++-.  ....++...           ...-......-+.++.+| 
T Consensus       242 ea~~iy~~~i~~~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~-  319 (652)
T KOG2376|consen  242 EASSIYVDIIKRN-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALF-  319 (652)
T ss_pred             HHHHHHHHHHHhc-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH-
Confidence            9999999888764 34443222222   22222222211  111111110           000011111123334443 


Q ss_pred             ccCChHHHHHHHhhCCCCC-cccHHHHHHHHH--hcCChhHHHHHHHHHHhCCCCCC--hHHHHHHHHHHcCcCchHHHH
Q 005881          325 KCELLEESLKTFDEMDEHD-VVSWNALIAGHL--ASCHYGEAIELLKDMLFEGHCPN--LYTYSNILNISSDIPAIEWGK  399 (672)
Q Consensus       325 ~~~~~~~a~~~~~~~~~~~-~~~~~~li~~~~--~~~~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~~~~~~~~~~~a~  399 (672)
                       .+.-+.+.++-...+... ...+.+++....  +...+.+|.+++...-+.  .|.  .......+......|+++.|.
T Consensus       320 -tnk~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQl~is~gn~~~A~  396 (652)
T KOG2376|consen  320 -TNKMDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRAQLKISQGNPEVAL  396 (652)
T ss_pred             -hhhHHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHHHHHHhcCCHHHHH
Confidence             345566666666665522 333444443332  223466777777666654  333  233444455566777777777


Q ss_pred             HHHH--------HHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC------CCCch----hHHHHHHHHHhcCCh
Q 005881          400 QTHC--------CIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS------SKNLV----SWNTMLVGYAQHGLG  461 (672)
Q Consensus       400 ~~~~--------~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~------~~~~~----~~~~li~~~~~~g~~  461 (672)
                      +++.        .+.+.+.  .+.+..+++..|.+.++-+.|..++.+..      .+...    +|.-....-.++|+-
T Consensus       397 ~il~~~~~~~~ss~~~~~~--~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~  474 (652)
T KOG2376|consen  397 EILSLFLESWKSSILEAKH--LPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNE  474 (652)
T ss_pred             HHHHHHhhhhhhhhhhhcc--ChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCch
Confidence            7777        3333333  33444566666776666666665555433      01111    222222223344555


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHH
Q 005881          462 REALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHY  502 (672)
Q Consensus       462 ~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~  502 (672)
                      ++|..+++++.+.. ++|..+...++.+|++. +++.|..+
T Consensus       475 ~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~-d~eka~~l  513 (652)
T KOG2376|consen  475 EEASSLLEELVKFN-PNDTDLLVQLVTAYARL-DPEKAESL  513 (652)
T ss_pred             HHHHHHHHHHHHhC-CchHHHHHHHHHHHHhc-CHHHHHHH
Confidence            55555555555532 34444555555555543 44444444

>PRK12370 invasion protein regulator; Provisional

Probab=99.12  E-value=1.9e-08  Score=105.72  Aligned_cols=243  Identities=12%  Similarity=-0.007  Sum_probs=169.3

Q ss_pred             ChhHHHHHHHHHHhCCCCCChH-HHHHHHHHHc---------CcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcC
Q 005881          359 HYGEAIELLKDMLFEGHCPNLY-TYSNILNISS---------DIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCG  428 (672)
Q Consensus       359 ~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  428 (672)
                      ..++|++.|++..+.  .|+.. .+..+-.++.         ..++.++|...++.+.+... .+...+..+...+...|
T Consensus       276 ~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP-~~~~a~~~lg~~~~~~g  352 (553)
T PRK12370        276 SLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDH-NNPQALGLLGLINTIHS  352 (553)
T ss_pred             HHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcc
Confidence            356788888887754  55443 2322222221         33457788888888877653 25566777888888999


Q ss_pred             CHHHHHHHHhhCCC--C-CchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHhhccCcHHHHHHHHH
Q 005881          429 RLNDARKVFDHLSS--K-NLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDN-TFIGVLSACVHIGLVEEGWHYFN  504 (672)
Q Consensus       429 ~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~  504 (672)
                      ++++|...|++..+  | +...|..+...+...|++++|+..+++..+.  .|+.. .+..++..+...|++++|...++
T Consensus       353 ~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        353 EYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKL--DPTRAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            99999999998763  3 3457888899999999999999999999984  56643 33344445666899999999998


Q ss_pred             HhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC
Q 005881          505 SMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEPNKV-VWRCLLSGCKTHKDLVLGRYAAEKILSTDPED  581 (672)
Q Consensus       505 ~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  581 (672)
                      ++...  ..| ++..+..+..+|...|+.++|.+.++++ +..|+.. .++.+...+...|  +.|...++++++..-..
T Consensus       431 ~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~  506 (553)
T PRK12370        431 ELRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRI  506 (553)
T ss_pred             HHHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHh
Confidence            87632  235 4566778889999999999999999875 3445433 4455555667777  47777777776543322


Q ss_pred             CchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          582 TSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       582 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      +.....+..+|.-.|+-+.+... +++.+.
T Consensus       507 ~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~  535 (553)
T PRK12370        507 DNNPGLLPLVLVAHGEAIAEKMW-NKFKNE  535 (553)
T ss_pred             hcCchHHHHHHHHHhhhHHHHHH-HHhhcc
Confidence            22233477788888888877777 666553

>PRK12370 invasion protein regulator; Provisional

Probab=99.10  E-value=8.7e-09  Score=108.27  Aligned_cols=211  Identities=10%  Similarity=0.006  Sum_probs=160.1

Q ss_pred             CchHHHHHHHHHHHhcCCCCcccHHHHHHHHHH---------hcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCC
Q 005881          393 PAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYA---------KCGRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGL  460 (672)
Q Consensus       393 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~  460 (672)
                      ++.++|...++...+.... +...+..+..+|.         ..+++++|...+++..+   .+...|..+...+...|+
T Consensus       275 ~~~~~A~~~~~~Al~ldP~-~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        275 YSLQQALKLLTQCVNMSPN-SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccC
Confidence            3457888888888875432 2344555554443         23458899999998873   355678888888999999


Q ss_pred             hHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCch-HHHHHHHHHhhccCChHHHHHH
Q 005881          461 GREALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRM-DHIASVVHLFACRGQTRRAYEF  538 (672)
Q Consensus       461 ~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~  538 (672)
                      +++|...|++..+.  .|+. ..+..+..++...|++++|...++++.   .+.|+. ..+..++..+...|++++|.+.
T Consensus       354 ~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al---~l~P~~~~~~~~~~~~~~~~g~~eeA~~~  428 (553)
T PRK12370        354 YIVGSLLFKQANLL--SPISADIKYYYGWNLFMAGQLEEALQTINECL---KLDPTRAAAGITKLWITYYHTGIDDAIRL  428 (553)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH---hcCCCChhhHHHHHHHHHhccCHHHHHHH
Confidence            99999999999995  5665 567788889999999999999999988   445643 3333445556678999999999


Q ss_pred             HHhCC-C-CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          539 IKSSP-I-EPN-KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       539 ~~~~~-~-~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      +++.- . .|+ +..+..+...+...|+.++|...++++....|.+......++..|...|  ++|...++.+.+.
T Consensus       429 ~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~  502 (553)
T PRK12370        429 GDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLES  502 (553)
T ss_pred             HHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHH
Confidence            87642 2 354 4456667777889999999999999998899988888888888888888  4888888877653

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.09  E-value=1.2e-08  Score=95.39  Aligned_cols=164  Identities=12%  Similarity=0.116  Sum_probs=138.5

Q ss_pred             chhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHH
Q 005881          445 LVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVH  524 (672)
Q Consensus       445 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  524 (672)
                      ...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|...++...+..  +.+...+..+..
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~~~  107 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN--PNNGDVLNNYGT  107 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCHHHHHHHHH
Confidence            3467778899999999999999999998853 3345677888889999999999999999887431  235677888999


Q ss_pred             HhhccCChHHHHHHHHhCC---CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHH
Q 005881          525 LFACRGQTRRAYEFIKSSP---IEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDE  600 (672)
Q Consensus       525 ~~~~~g~~~~A~~~~~~~~---~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  600 (672)
                      .+...|++++|.+.+++.-   ..| ....+..+...+...|++++|...++++++..|+++..+..++.++...|++++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHH
Confidence            9999999999999998742   112 345677777889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhC
Q 005881          601 TAKVRKIMKEK  611 (672)
Q Consensus       601 a~~~~~~~~~~  611 (672)
                      |.+.+++..+.
T Consensus       188 A~~~~~~~~~~  198 (234)
T TIGR02521       188 ARAYLERYQQT  198 (234)
T ss_pred             HHHHHHHHHHh
Confidence            99999988764

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.

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.07  E-value=2.5e-05  Score=78.44  Aligned_cols=529  Identities=13%  Similarity=0.077  Sum_probs=254.8

Q ss_pred             cCCChhHHHHHhccCCCCCcch--HHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHH
Q 005881           22 KFSRINDAQKLFDEMPERNVIS--WSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIH   99 (672)
Q Consensus        22 ~~g~~~~a~~~~~~~~~~~~~~--~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~   99 (672)
                      ....+.+|+.+++.+..+++.+  |..+...|+..|+++.|.++|.+.-         .++-.+..|.+.|+|..|.++-
T Consensus       744 ~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kla  814 (1636)
T KOG3616|consen  744 GAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKLA  814 (1636)
T ss_pred             hhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHHH
Confidence            3445555555555555433332  4444455566666666666655421         2444555566666666655554


Q ss_pred             HHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhh
Q 005881          100 GRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFS  179 (672)
Q Consensus       100 ~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t  179 (672)
                      ++.  .|.+.....|-+-..-+-+.|++.+|.+++-.+..|+     ..|..|-+.|..+..+++..+-...   .-..|
T Consensus       815 ~e~--~~~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~-----~aiqmydk~~~~ddmirlv~k~h~d---~l~dt  884 (1636)
T KOG3616|consen  815 EEC--HGPEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPD-----KAIQMYDKHGLDDDMIRLVEKHHGD---HLHDT  884 (1636)
T ss_pred             HHh--cCchhHHHHHHHhHHhHHhhcchhhhhheeEEccCch-----HHHHHHHhhCcchHHHHHHHHhChh---hhhHH
Confidence            322  2333344445444455555566666666665555553     2355566666666666655443221   11335


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCc-----chHH-------
Q 005881          180 CASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDL-----TAWS-------  247 (672)
Q Consensus       180 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-----~~~~-------  247 (672)
                      ...+-.-+-..|++..|..-|-+.         .-|.+-+++|...+-+++|.++-+.-.-.|.     ..|.       
T Consensus       885 ~~~f~~e~e~~g~lkaae~~flea---------~d~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flwaksiggda  955 (1636)
T KOG3616|consen  885 HKHFAKELEAEGDLKAAEEHFLEA---------GDFKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWAKSIGGDA  955 (1636)
T ss_pred             HHHHHHHHHhccChhHHHHHHHhh---------hhHHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHHHhhCcHH
Confidence            555666667777777776655433         2345566777777777777776654332111     1111       


Q ss_pred             ------------HHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCC------
Q 005881          248 ------------ALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGF------  309 (672)
Q Consensus       248 ------------~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~------  309 (672)
                                  .-|+..+..+.++-|+++-+-..+.. .|...  ..+...+...|.++.|.+-+-+.++.+-      
T Consensus       956 avkllnk~gll~~~id~a~d~~afd~afdlari~~k~k-~~~vh--lk~a~~ledegk~edaskhyveaiklntynitwc 1032 (1636)
T KOG3616|consen  956 AVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAAKDK-MGEVH--LKLAMFLEDEGKFEDASKHYVEAIKLNTYNITWC 1032 (1636)
T ss_pred             HHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhhhcc-Cccch--hHHhhhhhhccchhhhhHhhHHHhhcccccchhh
Confidence                        11222233333333433333222211 11111  1112223456677777666555554321      


Q ss_pred             --CCchHHH---------HHHHHHHHccCChHHHHHHHhhCCCCCc--ccHHHHHHHHHhcCChhHHHHHHHHHHhCCCC
Q 005881          310 --SSFTFVA---------NTVLDFYSKCELLEESLKTFDEMDEHDV--VSWNALIAGHLASCHYGEAIELLKDMLFEGHC  376 (672)
Q Consensus       310 --~~~~~~~---------~~li~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~  376 (672)
                        .|+.+-.         ...+.++.+.+++..|.++-+.-. +|.  ..+.--..+-...|++.+|..++-+..    +
T Consensus      1033 qavpsrfd~e~ir~gnkpe~av~mfi~dndwa~aervae~h~-~~~l~dv~tgqar~aiee~d~~kae~fllran----k 1107 (1636)
T KOG3616|consen 1033 QAVPSRFDAEFIRAGNKPEEAVEMFIHDNDWAAAERVAEAHC-EDLLADVLTGQARGAIEEGDFLKAEGFLLRAN----K 1107 (1636)
T ss_pred             hcccchhhHHHHHcCCChHHHHHHhhhcccHHHHHHHHHhhC-hhhhHHHHhhhhhccccccchhhhhhheeecC----C
Confidence              0111000         112334444555555554433221 111  112222222233444444444333222    2


Q ss_pred             CChHHHHHHHHHHcCcCchHHHHHHHH----------------HHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhC
Q 005881          377 PNLYTYSNILNISSDIPAIEWGKQTHC----------------CIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHL  440 (672)
Q Consensus       377 p~~~t~~~ll~~~~~~~~~~~a~~~~~----------------~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  440 (672)
                      |+.     .++.+...+-+..|.++.+                ...+.|-. .+..+-.-..-+-+.|++.+|...+-++
T Consensus      1108 p~i-----~l~yf~e~~lw~dalri~kdylp~q~a~iqeeyek~~~k~gar-gvd~fvaqak~weq~gd~rkav~~~lki 1181 (1636)
T KOG3616|consen 1108 PDI-----ALNYFIEAELWPDALRIAKDYLPHQAAAIQEEYEKEALKKGAR-GVDGFVAQAKEWEQAGDWRKAVDALLKI 1181 (1636)
T ss_pred             Cch-----HHHHHHHhccChHHHHHHHhhChhHHHHHHHHHHHHHHhcccc-ccHHHHHHHHHHHhcccHHHHHHHHhhh
Confidence            322     1222222232322222211                11222211 2223333444455667777776666555


Q ss_pred             CCC---------------------------CchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhcc
Q 005881          441 SSK---------------------------NLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHI  493 (672)
Q Consensus       441 ~~~---------------------------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  493 (672)
                      ...                           |.....+...++...|..+.|.+++-.+-.         -...+.++++.
T Consensus      1182 nrdst~nd~l~e~~~~kaadl~ikfl~~d~nme~i~aa~~al~~~~~~e~aael~l~f~~---------~keaida~~~~ 1252 (1636)
T KOG3616|consen 1182 NRDSTDNDALAEHCTEKAADLSIKFLMGDENMEVIGAAGGALDEAGCHEAAAELLLLFDL---------SKEAIDAFCEA 1252 (1636)
T ss_pred             ccCCCCcHHHHHHHHHHHHhhhhhhcCCccchhhHHhcchhhhcccccHHHHHHHHHhhh---------HHHHHHHHHhH
Confidence            321                           111222223333444555555554422211         12345677777


Q ss_pred             CcHHHHHHHHHHh---------------HHhhCCC---CchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHH
Q 005881          494 GLVEEGWHYFNSM---------------IRDHGIS---PRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLL  555 (672)
Q Consensus       494 g~~~~a~~~~~~~---------------~~~~~~~---p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~  555 (672)
                      ..+.+|.++-+++               .+..|--   .+.+ ..+-++++...+++++|++--++...+|-..-|-++.
T Consensus      1253 eewakakqvake~~p~~~~~idk~yke~lknegkl~eli~vd-viaaidl~ien~qwdk~idtak~qnykpil~kyva~y 1331 (1636)
T KOG3616|consen 1253 EEWAKAKQVAKELDPEMEDEIDKHYKEFLKNEGKLDELIDVD-VIAAIDLMIENDQWDKAIDTAKKQNYKPILDKYVALY 1331 (1636)
T ss_pred             HHHHHHHHHHHHhCchhhHHHHHHHHHHHhccCccccccchh-HHHHHHHHHhcccHHHHHHHHHhcccHHHHHHHHHHH
Confidence            7777776654433               2111111   1122 2345788899999999999988877788777776666


Q ss_pred             HH-HHhcCCHHHHHHHHHHHh-cCCCCCCchHHHHH-HHHHhcC-ChHHHH
Q 005881          556 SG-CKTHKDLVLGRYAAEKIL-STDPEDTSAHIMLS-NVYAEAN-MWDETA  602 (672)
Q Consensus       556 ~~-~~~~g~~~~a~~~~~~~~-~~~p~~~~~~~~l~-~~~~~~g-~~~~a~  602 (672)
                      .+ +.+.|+..+++.++++-- ..+|.|...|-.+. +++++-| +..+|.
T Consensus      1332 aa~li~~~d~aq~lal~~q~ga~anpanfniyk~i~ed~lakpgt~~~eay 1382 (1636)
T KOG3616|consen 1332 AAHLIHEGDLAQALALLEQHGAPANPANFNIYKLIFEDMLAKPGTNCAEAY 1382 (1636)
T ss_pred             HHHHHhcCcHHHHHHHHHHhCCCCCcccccHHHHHHHHHhcCCCcchHHHH
Confidence            66 567799999999988763 46777777766443 3444443 444443

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.06  E-value=7.9e-08  Score=96.11  Aligned_cols=125  Identities=10%  Similarity=0.093  Sum_probs=79.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHC---CCCCCH----HHHHHHHHHhhccCcHHHHHHHHHHhHHhh-----CCCCc-hH
Q 005881          451 MLVGYAQHGLGREALEIYSMMQEN---KIKPND----NTFIGVLSACVHIGLVEEGWHYFNSMIRDH-----GISPR-MD  517 (672)
Q Consensus       451 li~~~~~~g~~~~A~~~~~~m~~~---g~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-----~~~p~-~~  517 (672)
                      ++..+...+++++|..++.+..+.   -+.++.    .++..|...+.+.|++++|.++|++++...     +..+. ..
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            344444445555555544443321   122332    357777777777777777777777766432     11222 35


Q ss_pred             HHHHHHHHhhccCChHHHHHHHHhC--------CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 005881          518 HIASVVHLFACRGQTRRAYEFIKSS--------PIEPNK-VVWRCLLSGCKTHKDLVLGRYAAEKIL  575 (672)
Q Consensus       518 ~~~~l~~~~~~~g~~~~A~~~~~~~--------~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~  575 (672)
                      .++.|...|.+.+++++|.++|.+.        +..|+. .+|..|...|...|+++.|.++.++++
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            6677777777777777777776542        233443 478889999999999999999998886

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

Probab=99.06  E-value=5.1e-06  Score=77.73  Aligned_cols=258  Identities=12%  Similarity=0.002  Sum_probs=175.3

Q ss_pred             CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHH----HHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHH
Q 005881          342 HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYT----YSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIG  417 (672)
Q Consensus       342 ~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t----~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  417 (672)
                      .|+.....+...+...|+.++|+..|++.+..  .|+..+    |..+   +...|+.+....+...+....-. +...|
T Consensus       230 ~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~L---L~~eg~~e~~~~L~~~Lf~~~~~-ta~~w  303 (564)
T KOG1174|consen  230 CNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVL---LGQEGGCEQDSALMDYLFAKVKY-TASHW  303 (564)
T ss_pred             ccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHH---HHhccCHhhHHHHHHHHHhhhhc-chhhh
Confidence            46677788888999999999999999987753  444332    2222   34567777776666666543211 11111


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCCCCCch---hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhcc
Q 005881          418 SALVDMYAKCGRLNDARKVFDHLSSKNLV---SWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NTFIGVLSACVHI  493 (672)
Q Consensus       418 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~  493 (672)
                      -.-........+++.|..+-++..+.|..   .|-.-...+...|++++|.-.|+..+.  +.|.. .+|..|+.+|...
T Consensus       304 fV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~--Lap~rL~~Y~GL~hsYLA~  381 (564)
T KOG1174|consen  304 FVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQM--LAPYRLEIYRGLFHSYLAQ  381 (564)
T ss_pred             hhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHh--cchhhHHHHHHHHHHHHhh
Confidence            11122233456788888888777644433   343334567788899999988988877  45544 6899999999999


Q ss_pred             CcHHHHHHHHHHhHHhhCCCCchHHHHHHH-HHhh-ccCChHHHHHHHHh-CCCCCCHH-HHHHHHHHHHhcCCHHHHHH
Q 005881          494 GLVEEGWHYFNSMIRDHGISPRMDHIASVV-HLFA-CRGQTRRAYEFIKS-SPIEPNKV-VWRCLLSGCKTHKDLVLGRY  569 (672)
Q Consensus       494 g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~-~~~~-~~g~~~~A~~~~~~-~~~~p~~~-~~~~l~~~~~~~g~~~~a~~  569 (672)
                      |+..+|.-.-+...+.  +..+..+...+. ..+. ...--|+|.+++++ +.++|+.. ....+...|...|..++++.
T Consensus       382 ~~~kEA~~~An~~~~~--~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~  459 (564)
T KOG1174|consen  382 KRFKEANALANWTIRL--FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIK  459 (564)
T ss_pred             chHHHHHHHHHHHHHH--hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHH
Confidence            9999888776665532  222444444442 2222 23345778888865 56778654 56667777888999999999


Q ss_pred             HHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          570 AAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       570 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ++++.+...| |...+..|++++...+.+++|.+.|.....
T Consensus       460 LLe~~L~~~~-D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr  499 (564)
T KOG1174|consen  460 LLEKHLIIFP-DVNLHNHLGDIMRAQNEPQKAMEYYYKALR  499 (564)
T ss_pred             HHHHHHhhcc-ccHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            9999999988 667888999999999999999998887653

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

Probab=99.05  E-value=7.5e-06  Score=81.24  Aligned_cols=442  Identities=13%  Similarity=0.013  Sum_probs=225.5

Q ss_pred             cCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHH
Q 005881          155 CGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRV  234 (672)
Q Consensus       155 ~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  234 (672)
                      .+++...+++.+...+. ..-...|....--.+...|+.++|....+..++..+ .+.++|..+.-.+....++++|.+.
T Consensus        20 ~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~-~S~vCwHv~gl~~R~dK~Y~eaiKc   97 (700)
T KOG1156|consen   20 TKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDL-KSHVCWHVLGLLQRSDKKYDEAIKC   97 (700)
T ss_pred             HHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccCc-ccchhHHHHHHHHhhhhhHHHHHHH
Confidence            34455555555554442 111122222222223445555555555555444322 2445566555555566666666666


Q ss_pred             HhcCC---CCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-hhhHHHHHHHhhccCCchhHHHHHHHHHHhCC-
Q 005881          235 FSNIQ---LPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPS-EVTFSYVLGAFADVKETIGGRQLHSLIIKMGF-  309 (672)
Q Consensus       235 ~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-  309 (672)
                      +....   ..|...|..+--.-++.++++.....-....+.  .|+ ...|..+..+.--.|+...|..+++...+... 
T Consensus        98 y~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql--~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~  175 (700)
T KOG1156|consen   98 YRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQL--RPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNT  175 (700)
T ss_pred             HHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            65543   234445555444445555555555554444443  222 23344444455555666666666666665442 


Q ss_pred             CCchHHHHHHH------HHHHccCChHHHHHHHhhCCCC--Ccc-cHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChH
Q 005881          310 SSFTFVANTVL------DFYSKCELLEESLKTFDEMDEH--DVV-SWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLY  380 (672)
Q Consensus       310 ~~~~~~~~~li------~~~~~~~~~~~a~~~~~~~~~~--~~~-~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~  380 (672)
                      .|+...+....      ....+.|.++.|.+.+......  |-. .-.+-..-+.+.++.++|..++..++..  .||..
T Consensus       176 ~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~  253 (700)
T KOG1156|consen  176 SPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDNL  253 (700)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhH
Confidence            33333332221      2234566777777766655431  211 2223345567778888888888888766  67777


Q ss_pred             HHHHHHHHHc-CcCchHHHH-HHHHHHHhcC---CCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCC-chhHHHHHHH
Q 005881          381 TYSNILNISS-DIPAIEWGK-QTHCCIVKPG---FDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKN-LVSWNTMLVG  454 (672)
Q Consensus       381 t~~~ll~~~~-~~~~~~~a~-~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~li~~  454 (672)
                      -|.-.+..+. ...+.-++. .++....+.-   ..|-....+ ++   ....-.+....++....+.. +.++..+..-
T Consensus       254 ~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlpls-vl---~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SL  329 (700)
T KOG1156|consen  254 DYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLS-VL---NGEELKEIVDKYLRPLLSKGVPSVFKDLRSL  329 (700)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHH-Hh---CcchhHHHHHHHHHHHhhcCCCchhhhhHHH
Confidence            6666555444 233322332 4444433221   111100000 00   01111222222333322222 2233333333


Q ss_pred             HHhcCChHHHHHHHHHHHH----CC----------CCCCHH--HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc-hH
Q 005881          455 YAQHGLGREALEIYSMMQE----NK----------IKPNDN--TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR-MD  517 (672)
Q Consensus       455 ~~~~g~~~~A~~~~~~m~~----~g----------~~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~  517 (672)
                      |-.....+-..++.-.+..    .|          -+|...  |+..+...+-+.|+++.|..+++..+   +..|+ ++
T Consensus       330 yk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AI---dHTPTliE  406 (700)
T KOG1156|consen  330 YKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAI---DHTPTLIE  406 (700)
T ss_pred             HhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHh---ccCchHHH
Confidence            3222211111111111111    11          134443  45566777888999999999998877   56776 47


Q ss_pred             HHHHHHHHhhccCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC-------chHH--
Q 005881          518 HIASVVHLFACRGQTRRAYEFIKSSP--IEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDT-------SAHI--  586 (672)
Q Consensus       518 ~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~-------~~~~--  586 (672)
                      .|..=...+...|.+++|..++++..  ..||...-.--+.-..+.+..++|..+.-+--+-+-+-.       -.|.  
T Consensus       407 ly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~  486 (700)
T KOG1156|consen  407 LYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQL  486 (700)
T ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhH
Confidence            78788888999999999999997642  234444333344445677888888888776654432100       1122  


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHh
Q 005881          587 MLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       587 ~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      -=+.+|.++|+|.+|.+=|..+.
T Consensus       487 E~g~ay~r~~k~g~ALKkfh~i~  509 (700)
T KOG1156|consen  487 EDGEAYLRQNKLGLALKKFHEIE  509 (700)
T ss_pred             hhhHHHHHHHHHHHHHHHHhhHH
Confidence            23556888888888888766554

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.04  E-value=7.1e-08  Score=92.56  Aligned_cols=232  Identities=9%  Similarity=-0.047  Sum_probs=146.4

Q ss_pred             ChhHHHHHHHHHHhCC-CCCC--hHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHH
Q 005881          359 HYGEAIELLKDMLFEG-HCPN--LYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARK  435 (672)
Q Consensus       359 ~~~~A~~~~~~m~~~g-~~p~--~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  435 (672)
                      ..+.++.-+.+++... ..|+  ...|...-..+...|+.+.|...+...++... .+...++.+...|...|++++|.+
T Consensus        41 ~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         41 QQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRP-DMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             HHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHCCCHHHHHH
Confidence            3445555555555321 1121  12333444455566666666666666655432 245677888889999999999999


Q ss_pred             HHhhCCC--C-CchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCC
Q 005881          436 VFDHLSS--K-NLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGI  512 (672)
Q Consensus       436 ~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  512 (672)
                      .|+...+  | +..+|..+...+...|++++|++.|++..+.  .|+..........+...++.++|...|.....  ..
T Consensus       120 ~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~--~~  195 (296)
T PRK11189        120 AFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYE--KL  195 (296)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh--hC
Confidence            9998863  3 3567888888999999999999999999984  56654222222234456789999999976542  22


Q ss_pred             CCchHHHHHHHHHhhccCChHHHHHHHHh-CC----CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC-CCCchH
Q 005881          513 SPRMDHIASVVHLFACRGQTRRAYEFIKS-SP----IEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDP-EDTSAH  585 (672)
Q Consensus       513 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~----~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p-~~~~~~  585 (672)
                      .|+... ..++..+......+++.+.+.+ ..    ..| ....|..+...+...|++++|...|+++++.+| +...+.
T Consensus       196 ~~~~~~-~~~~~~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~e~~  274 (296)
T PRK11189        196 DKEQWG-WNIVEFYLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFVEHR  274 (296)
T ss_pred             CccccH-HHHHHHHccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHHHHH
Confidence            333222 2333333222222334433332 21    112 234788888999999999999999999999997 555555


Q ss_pred             HHHHHHHHhcC
Q 005881          586 IMLSNVYAEAN  596 (672)
Q Consensus       586 ~~l~~~~~~~g  596 (672)
                      ..++.+....+
T Consensus       275 ~~~~e~~~~~~  285 (296)
T PRK11189        275 YALLELALLGQ  285 (296)
T ss_pred             HHHHHHHHHHh
Confidence            55655544433

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.04  E-value=2.8e-05  Score=78.97  Aligned_cols=100  Identities=15%  Similarity=0.164  Sum_probs=57.8

Q ss_pred             hCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHH
Q 005881          307 MGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDE---HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYS  383 (672)
Q Consensus       307 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~  383 (672)
                      ..+..+..+|..|.-+...+|++..+.+.|++...   .....|+.+-..|...|....|..+++.-....-.|+..+.-
T Consensus       317 ~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~  396 (799)
T KOG4162|consen  317 KKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVL  396 (799)
T ss_pred             hhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHH
Confidence            34456667777777777777777777777777654   334467777777777777777777776655443234333322


Q ss_pred             HH-HHHHc-CcCchHHHHHHHHHHH
Q 005881          384 NI-LNISS-DIPAIEWGKQTHCCIV  406 (672)
Q Consensus       384 ~l-l~~~~-~~~~~~~a~~~~~~~~  406 (672)
                      .+ -..|. +.+..+++..+-..++
T Consensus       397 Lmasklc~e~l~~~eegldYA~kai  421 (799)
T KOG4162|consen  397 LMASKLCIERLKLVEEGLDYAQKAI  421 (799)
T ss_pred             HHHHHHHHhchhhhhhHHHHHHHHH
Confidence            22 22232 3445555554444444

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.00  E-value=7.5e-06  Score=74.97  Aligned_cols=444  Identities=14%  Similarity=0.067  Sum_probs=232.2

Q ss_pred             HHHHHhcCChHHHHHHhhccCCC---CcccHHH-HHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCh
Q 005881          118 INMYGKCGLLSSAQFVFDASLER---NSISWVS-LLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNL  193 (672)
Q Consensus       118 i~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~-li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~  193 (672)
                      ++-+....++..|+.+++--...   ...+.+. +...+.+.|++++|+..|..+.+. -.|+......+..+..-.|.+
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~-~~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNK-DDAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhcc-CCCCcccchhHHHHHHHHHHH
Confidence            34455567788888777643221   1112222 334556778888888888877664 344555554444444556666


Q ss_pred             HHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 005881          194 KVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSG  273 (672)
Q Consensus       194 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  273 (672)
                      .+|+++-...     +.++-.-..|.+...+.++-.+-..+-+.+.... .---++.+.....-.+.+|++++...... 
T Consensus       108 ~eA~~~~~ka-----~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~~-EdqLSLAsvhYmR~HYQeAIdvYkrvL~d-  180 (557)
T KOG3785|consen  108 IEAKSIAEKA-----PKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDTL-EDQLSLASVHYMRMHYQEAIDVYKRVLQD-  180 (557)
T ss_pred             HHHHHHHhhC-----CCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhhH-HHHHhHHHHHHHHHHHHHHHHHHHHHHhc-
Confidence            6666655432     2233334444455556666555555544444221 11122333333344566777777776654 


Q ss_pred             CCCChhhHHHHHHH-hhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHH
Q 005881          274 LMPSEVTFSYVLGA-FADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIA  352 (672)
Q Consensus       274 ~~p~~~t~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~  352 (672)
                       .|.-...+.-+.. |.+..-++-+.+++....+. ++.++...|.......                            
T Consensus       181 -n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~f----------------------------  230 (557)
T KOG3785|consen  181 -NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLF----------------------------  230 (557)
T ss_pred             -ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHh----------------------------
Confidence             2444444433332 33444444444444443332 1222222222221111                            


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCChHHHHH-HHH-HHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCH
Q 005881          353 GHLASCHYGEAIELLKDMLFEGHCPNLYTYSN-ILN-ISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRL  430 (672)
Q Consensus       353 ~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~-ll~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  430 (672)
                         +.=.-..|..-.+++...+-..  ..+.. +++ -+.-..+-+.|.+++--+.+.  .|...  -.|+-.|.+.+++
T Consensus       231 ---Rl~ngr~ae~E~k~ladN~~~~--~~f~~~l~rHNLVvFrngEgALqVLP~L~~~--IPEAR--lNL~iYyL~q~dV  301 (557)
T KOG3785|consen  231 ---RLINGRTAEDEKKELADNIDQE--YPFIEYLCRHNLVVFRNGEGALQVLPSLMKH--IPEAR--LNLIIYYLNQNDV  301 (557)
T ss_pred             ---hhhccchhHHHHHHHHhccccc--chhHHHHHHcCeEEEeCCccHHHhchHHHhh--ChHhh--hhheeeecccccH
Confidence               1111111111112222111000  00000 000 001112233444443333321  12111  2345568899999


Q ss_pred             HHHHHHHhhCCCCCchhHHHHHHHHHhcC-------ChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHhhccCcHHHHHHH
Q 005881          431 NDARKVFDHLSSKNLVSWNTMLVGYAQHG-------LGREALEIYSMMQENKIKPNDN-TFIGVLSACVHIGLVEEGWHY  502 (672)
Q Consensus       431 ~~A~~~~~~~~~~~~~~~~~li~~~~~~g-------~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~  502 (672)
                      .+|..+..++....+.-|-.-...++..|       ...-|.+.|+-.-.++..-|.. --.++.+++.-..++++.+-+
T Consensus       302 qeA~~L~Kdl~PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~Y  381 (557)
T KOG3785|consen  302 QEAISLCKDLDPTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTY  381 (557)
T ss_pred             HHHHHHHhhcCCCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHH
Confidence            99999999887655554433333333433       2344555555544555444433 233445555556678999999


Q ss_pred             HHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCC-CC-CCHHHHHHHHHH-HHhcCCHHHHHHHHHHHhcCC-
Q 005881          503 FNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSP-IE-PNKVVWRCLLSG-CKTHKDLVLGRYAAEKILSTD-  578 (672)
Q Consensus       503 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-p~~~~~~~l~~~-~~~~g~~~~a~~~~~~~~~~~-  578 (672)
                      ++.+. .+ +.-|....-.+..+++..|.+.+|.++|-++. .+ .|..+|.+++.- |.+.+.++.|...+   ++.+ 
T Consensus       382 lnSi~-sY-F~NdD~Fn~N~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~---lk~~t  456 (557)
T KOG3785|consen  382 LNSIE-SY-FTNDDDFNLNLAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMM---LKTNT  456 (557)
T ss_pred             HHHHH-HH-hcCcchhhhHHHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHH---HhcCC
Confidence            88875 33 23344444468899999999999999997753 11 367778777665 55678888886654   3333 


Q ss_pred             CC-CCchHHHHHHHHHhcCChHHHHHHHHHHhhCCC
Q 005881          579 PE-DTSAHIMLSNVYAEANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       579 p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  613 (672)
                      |. ..+....+++.+.+++.+=-|.+.|+.+...++
T Consensus       457 ~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP  492 (557)
T KOG3785|consen  457 PSERFSLLQLIANDCYKANEFYYAAKAFDELEILDP  492 (557)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCC
Confidence            32 234455778889999999999999999876544

>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=99.00  E-value=9.3e-06  Score=82.61  Aligned_cols=253  Identities=13%  Similarity=0.131  Sum_probs=143.5

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCh-HHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHh
Q 005881          348 NALIAGHLASCHYGEAIELLKDMLFEGHCPNL-YTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAK  426 (672)
Q Consensus       348 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  426 (672)
                      .-+...|...|++++|++++++.+..  .|+. ..|..-.+.+-..|++.+|....+....... -|..+-+-.+..+.+
T Consensus       198 ~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~-~DRyiNsK~aKy~LR  274 (517)
T PF12569_consen  198 YFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDL-ADRYINSKCAKYLLR  274 (517)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCh-hhHHHHHHHHHHHHH
Confidence            44456677788888888888887766  5653 3455555677788888888888887776553 256666677777888


Q ss_pred             cCCHHHHHHHHhhCCCCCch----------hH--HHHHHHHHhcCChHHHHHHHHHHHHC--CCC---CCHH--------
Q 005881          427 CGRLNDARKVFDHLSSKNLV----------SW--NTMLVGYAQHGLGREALEIYSMMQEN--KIK---PNDN--------  481 (672)
Q Consensus       427 ~g~~~~A~~~~~~~~~~~~~----------~~--~~li~~~~~~g~~~~A~~~~~~m~~~--g~~---p~~~--------  481 (672)
                      +|++++|.+++....+++..          .|  .-...+|.+.|++..|++.|....+.  .+.   -|-.        
T Consensus       275 a~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k~f~~~~~DQfDFH~Yc~RK~t  354 (517)
T PF12569_consen  275 AGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLKHFDDFEEDQFDFHSYCLRKMT  354 (517)
T ss_pred             CCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcccccHHHHHHhhcc
Confidence            89999998888887754421          33  22456788888888888776655432  122   2222        


Q ss_pred             --HHHHHHHHhhccCc-------HHHHHHHHHHhHHhhCCCCch-----------HHHHHHHHHh---hccCChHHHHHH
Q 005881          482 --TFIGVLSACVHIGL-------VEEGWHYFNSMIRDHGISPRM-----------DHIASVVHLF---ACRGQTRRAYEF  538 (672)
Q Consensus       482 --~~~~ll~~~~~~g~-------~~~a~~~~~~~~~~~~~~p~~-----------~~~~~l~~~~---~~~g~~~~A~~~  538 (672)
                        +|..++...-+...       ...|.+++-.+-.........           .-...+..-.   .+....+++...
T Consensus       355 ~r~Y~~~L~~ed~l~~~~~y~raa~~ai~iYl~l~d~~~~~~~~~~~~~~~~~~~~e~Kk~~kK~kK~~~k~~~~~~~~~  434 (517)
T PF12569_consen  355 LRAYVDMLRWEDKLRSHPFYRRAAKGAIRIYLELHDKPEAKQGEEQEADNENMSAAERKKAKKKAKKAAKKAKKEEAEKA  434 (517)
T ss_pred             HHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHhcCcccccccccccccccCChHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence              22223322111111       123334433332111000000           0000011000   011111111111


Q ss_pred             H-H----------h----C--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHH
Q 005881          539 I-K----------S----S--PIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDET  601 (672)
Q Consensus       539 ~-~----------~----~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  601 (672)
                      - +          .    -  +..||+..- .|+   ....-+++|.+.++.+.+..|++..+|..-..+|.+.|++--|
T Consensus       435 ~~~~~~~~~~~~~~~~~~~~~~~D~Dp~Ge-kL~---~t~dPLe~A~kfl~pL~~~a~~~~et~~laFeVy~Rk~K~LLa  510 (517)
T PF12569_consen  435 AKKEPKKQQNKSKKKEKVEPKKKDDDPLGE-KLL---KTEDPLEEAMKFLKPLLELAPDNIETHLLAFEVYLRKGKYLLA  510 (517)
T ss_pred             HhhhhhhhhccccccccccCCcCCCCccHH-HHh---cCCcHHHHHHHHHHHHHHhCccchhhHHHHhHHHHhcCcHHHH
Confidence            0 0          0    0  112222211 111   2334678999999999999999999999999999999999888


Q ss_pred             HHHHHH
Q 005881          602 AKVRKI  607 (672)
Q Consensus       602 ~~~~~~  607 (672)
                      .+.+.+
T Consensus       511 LqaL~k  516 (517)
T PF12569_consen  511 LQALKK  516 (517)
T ss_pred             HHHHHh
Confidence            877653

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.00  E-value=3.8e-05  Score=77.16  Aligned_cols=28  Identities=11%  Similarity=0.171  Sum_probs=16.2

Q ss_pred             CchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          582 TSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       582 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      +..+..++..+...|++++|.+-+-...
T Consensus       995 ~~vhlk~a~~ledegk~edaskhyveai 1022 (1636)
T KOG3616|consen  995 GEVHLKLAMFLEDEGKFEDASKHYVEAI 1022 (1636)
T ss_pred             ccchhHHhhhhhhccchhhhhHhhHHHh
Confidence            3455556666666666666665554443

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.97  E-value=5.5e-08  Score=94.71  Aligned_cols=216  Identities=15%  Similarity=0.105  Sum_probs=157.0

Q ss_pred             cCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHH
Q 005881          392 IPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIY  468 (672)
Q Consensus       392 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~  468 (672)
                      .|++.+|.-.|+..++.. +-+...|-.|...-...++-..|+..+++..+   .|....-.|.-.|...|.-..|++.+
T Consensus       298 nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~~L  376 (579)
T KOG1125|consen  298 NGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALKML  376 (579)
T ss_pred             cCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            333444444444444332 12344555666666666777777777777664   34456666777888888888888888


Q ss_pred             HHHHHCCCC-----C---CHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHH
Q 005881          469 SMMQENKIK-----P---NDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIK  540 (672)
Q Consensus       469 ~~m~~~g~~-----p---~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  540 (672)
                      +.-+....+     +   +..+-..  ..+.+...+....++|-.+....+..+|+++...|.-+|--.|.+++|.+.|+
T Consensus       377 ~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~  454 (579)
T KOG1125|consen  377 DKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFE  454 (579)
T ss_pred             HHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHH
Confidence            877653210     0   0000000  12233334556677777777666767899999999999999999999999998


Q ss_pred             h-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          541 S-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       541 ~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      . +..+| |...|+-|...+....+.++|+.+|++++++.|+...+.+.|+-.|...|.++||.+.|-....
T Consensus       455 ~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  455 AALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            6 57788 5668999999999999999999999999999999999999999999999999999999877654

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.91  E-value=2.1e-05  Score=80.03  Aligned_cols=203  Identities=17%  Similarity=0.102  Sum_probs=117.6

Q ss_pred             cchhhHHHHHHhcCCChhHHHHHhccCCC-----------CCc-chHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcc
Q 005881           10 VITYNHLLLMYVKFSRINDAQKLFDEMPE-----------RNV-ISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYY   77 (672)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----------~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~   77 (672)
                      -.+|..+.+++.+..+++-|.-.+-.|.+           .|. ..-..+.-.-..-|..++|..+|++-++        
T Consensus       757 ~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~e~eakvAvLAieLgMlEeA~~lYr~ckR--------  828 (1416)
T KOG3617|consen  757 DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGEEDEAKVAVLAIELGMLEEALILYRQCKR--------  828 (1416)
T ss_pred             hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCcchhhHHHHHHHHHhhHHHHHHHHHHHHH--------
Confidence            34677777777777777777777666653           111 1111122223445777777777777665        


Q ss_pred             cHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCCC-----------------
Q 005881           78 TYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLER-----------------  140 (672)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----------------  140 (672)
                       |..+=+.|-..|.|++|.++-+.--+-.+   ..+|......+-..++.+.|++.|++...+                 
T Consensus       829 -~DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~  904 (1416)
T KOG3617|consen  829 -YDLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQ  904 (1416)
T ss_pred             -HHHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHH
Confidence             34444556667777777776553322222   234444444455567777777777653321                 


Q ss_pred             ------CcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHH
Q 005881          141 ------NSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFV  214 (672)
Q Consensus       141 ------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  214 (672)
                            |...|.--...+-..|+.+.|+.+|...+.         |-++++..|-.|+.++|.++-++-      -|...
T Consensus       905 Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~es------gd~AA  969 (1416)
T KOG3617|consen  905 YVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEES------GDKAA  969 (1416)
T ss_pred             HHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHhc------ccHHH
Confidence                  233333333444456677777777766543         455556666677777776665542      24445


Q ss_pred             HHHHHHHhhcCCChhHHHHHHhcCC
Q 005881          215 AMGLINLYAKCEKLDLASRVFSNIQ  239 (672)
Q Consensus       215 ~~~li~~~~~~g~~~~a~~~~~~~~  239 (672)
                      .-.|.+.|-..|++.+|..+|.+..
T Consensus       970 cYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  970 CYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            5567777777788777777776543

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.91  E-value=6e-05  Score=76.89  Aligned_cols=228  Identities=14%  Similarity=0.070  Sum_probs=133.2

Q ss_pred             HhcCCChhHHHHHhccCCCCCcchHHHHHHHHHcCCCchhHHHHHHHhHhC-C--------CCCCcccHHHHHHHHhcCC
Q 005881           20 YVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMVCC-V--------LEPNYYTYVGAVSACASRG   90 (672)
Q Consensus        20 ~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~--------~~p~~~~~~~ll~~~~~~~   90 (672)
                      |.--|+.+.|.+-.+.++  +...|..+.+.|.+..+.+-|.-.+-.|... |        -.|+ .+=..+.-.....|
T Consensus       738 yvtiG~MD~AfksI~~Ik--S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLg  814 (1416)
T KOG3617|consen  738 YVTIGSMDAAFKSIQFIK--SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELG  814 (1416)
T ss_pred             EEEeccHHHHHHHHHHHh--hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHh
Confidence            445577777776665555  4556888988888888877765555544321 1        1122 22222333345778


Q ss_pred             ChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCCC-CcccHHHHHHHHHhcCChHHHHHHHHHHH
Q 005881           91 DARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLER-NSISWVSLLSSYCQCGEHVHGLKIFLLSR  169 (672)
Q Consensus        91 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~  169 (672)
                      .+++|+.++.+-.+.         ..|=..|-..|.+++|.++-+.-..- --.||......+-..++.+.|++.|++..
T Consensus       815 MlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~AleyyEK~~  885 (1416)
T KOG3617|consen  815 MLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYYEKAG  885 (1416)
T ss_pred             hHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHHHhcC
Confidence            889999988877664         34456677889999998887642221 12355555566666777888887776532


Q ss_pred             hCC-------------------CCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhH
Q 005881          170 KSG-------------------VAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDL  230 (672)
Q Consensus       170 ~~g-------------------~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  230 (672)
                      ...                   -..|...|..--.-+-..|+.+.|..+|....         -|-+++...|-.|+.++
T Consensus       886 ~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~---------D~fs~VrI~C~qGk~~k  956 (1416)
T KOG3617|consen  886 VHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAK---------DYFSMVRIKCIQGKTDK  956 (1416)
T ss_pred             ChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhh---------hhhhheeeEeeccCchH
Confidence            210                   01122222222222334444444444444332         24455556666677777


Q ss_pred             HHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHH
Q 005881          231 ASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMF  270 (672)
Q Consensus       231 a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  270 (672)
                      |-++-++-  .|......+...|-..|++.+|...|.+.+
T Consensus       957 Aa~iA~es--gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  957 AARIAEES--GDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             HHHHHHhc--ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            77766554  345555566677777777777877777654

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

Probab=98.90  E-value=3.6e-07  Score=78.68  Aligned_cols=190  Identities=15%  Similarity=0.118  Sum_probs=128.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCCCCc---hhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccC
Q 005881          419 ALVDMYAKCGRLNDARKVFDHLSSKNL---VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NTFIGVLSACVHIG  494 (672)
Q Consensus       419 ~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g  494 (672)
                      .|.-.|...|++..|..-+++..+.|+   .+|..+...|.+.|+.+.|.+.|++...  +.|+. ...+....-+|..|
T Consensus        40 qLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls--l~p~~GdVLNNYG~FLC~qg  117 (250)
T COG3063          40 QLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALS--LAPNNGDVLNNYGAFLCAQG  117 (250)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHh--cCCCccchhhhhhHHHHhCC
Confidence            455567777777777777777764332   3677777777777888888888877777  35554 45666666667777


Q ss_pred             cHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 005881          495 LVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAE  572 (672)
Q Consensus       495 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~  572 (672)
                      .+++|...|+.........--..+|..++-+..++|+.+.|.+++++ +...| .+.....+.......|++..|...++
T Consensus       118 ~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~  197 (250)
T COG3063         118 RPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPARLYLE  197 (250)
T ss_pred             ChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHHHHHH
Confidence            88888877777764322222346777777777778888888777765 33444 34455666666777778888877777


Q ss_pred             HHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          573 KILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       573 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +...-.+-........+.+-...|+-+.|.+.=.++..
T Consensus       198 ~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         198 RYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            77666555666666677777777777777666555543

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

Probab=98.90  E-value=1.9e-06  Score=87.57  Aligned_cols=283  Identities=11%  Similarity=0.059  Sum_probs=173.9

Q ss_pred             HHHHccCChHHHHHHHhhCCC--CCcc-cHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHc----C--
Q 005881          321 DFYSKCELLEESLKTFDEMDE--HDVV-SWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISS----D--  391 (672)
Q Consensus       321 ~~~~~~~~~~~a~~~~~~~~~--~~~~-~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~----~--  391 (672)
                      ..+...|++++|.+.++.-..  .|.. ........+.+.|+.++|..++..++..  .|+...|-..+..|.    .  
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~r--NPdn~~Yy~~L~~~~g~~~~~~   89 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDR--NPDNYDYYRGLEEALGLQLQLS   89 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHhhhcccc
Confidence            345667788888887776544  3433 3344556777788888888888888876  677766666655554    1  


Q ss_pred             cCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHH-HHHHHHhhCCCCCc-hhHHHHHHHHHhcCChHHHHHHHH
Q 005881          392 IPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLN-DARKVFDHLSSKNL-VSWNTMLVGYAQHGLGREALEIYS  469 (672)
Q Consensus       392 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~-~A~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~  469 (672)
                      ..+.+....+++.+...-..  ......+.-.+.....+. .+..++..+...++ .+++.|-..|.......-..+++.
T Consensus        90 ~~~~~~~~~~y~~l~~~yp~--s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~  167 (517)
T PF12569_consen   90 DEDVEKLLELYDELAEKYPR--SDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVE  167 (517)
T ss_pred             cccHHHHHHHHHHHHHhCcc--ccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHH
Confidence            22456666677766554321  111122221122212222 23333444444444 355555555554444444555555


Q ss_pred             HHHHC----C----------CCCCHH--HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHhhccCCh
Q 005881          470 MMQEN----K----------IKPNDN--TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR-MDHIASVVHLFACRGQT  532 (672)
Q Consensus       470 ~m~~~----g----------~~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~  532 (672)
                      .....    +          -+|...  ++..+...|...|++++|++++++.+   ...|+ ++.|..-+..|-+.|++
T Consensus       168 ~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI---~htPt~~ely~~KarilKh~G~~  244 (517)
T PF12569_consen  168 EYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAI---EHTPTLVELYMTKARILKHAGDL  244 (517)
T ss_pred             HHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH---hcCCCcHHHHHHHHHHHHHCCCH
Confidence            54432    1          123332  44556667788999999999999887   44675 68899999999999999


Q ss_pred             HHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC--CCC-C----chH--HHHHHHHHhcCChHHH
Q 005881          533 RRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTD--PED-T----SAH--IMLSNVYAEANMWDET  601 (672)
Q Consensus       533 ~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--p~~-~----~~~--~~l~~~~~~~g~~~~a  601 (672)
                      ++|.+.++.. .+.+ |...-+-.+..+.+.|++++|...+..-..-+  |.. .    -.|  .--+.+|.+.|++..|
T Consensus       245 ~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~A  324 (517)
T PF12569_consen  245 KEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLA  324 (517)
T ss_pred             HHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence            9999998753 2344 44444445556788899999999888775544  211 0    112  3667789999999999


Q ss_pred             HHHHHHHhh
Q 005881          602 AKVRKIMKE  610 (672)
Q Consensus       602 ~~~~~~~~~  610 (672)
                      .+-+..+.+
T Consensus       325 Lk~~~~v~k  333 (517)
T PF12569_consen  325 LKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHH
Confidence            988776653

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

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

Probab=98.90  E-value=8.6e-08  Score=86.32  Aligned_cols=220  Identities=12%  Similarity=0.011  Sum_probs=174.9

Q ss_pred             HHHHHHHHHccCChHHHHHHHhhCCC--CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHH-HHHHcCc
Q 005881          316 ANTVLDFYSKCELLEESLKTFDEMDE--HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNI-LNISSDI  392 (672)
Q Consensus       316 ~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~l-l~~~~~~  392 (672)
                      -+.+..+|.+.|.+.+|.+.|+.-.+  |.+.+|-.|-.+|.+..++..|+.++.+-.+.  .|-.+||..- .+.+...
T Consensus       226 k~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  226 KQQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHHH
Confidence            36688899999999999999988764  77888888999999999999999999988765  7877777543 3566778


Q ss_pred             CchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHHH
Q 005881          393 PAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIYS  469 (672)
Q Consensus       393 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~  469 (672)
                      ++.+.+.++++...+... .++.....+...|.-.++++-|.++++++.+   .++..|+.+.-+|...++++-++.-|+
T Consensus       304 ~~~~~a~~lYk~vlk~~~-~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLHP-INVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HhHHHHHHHHHHHHhcCC-ccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            889999999999887642 2444445566677788999999999999874   566789999999999999999999999


Q ss_pred             HHHHCCCCCCHH--HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHh
Q 005881          470 MMQENKIKPNDN--TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKS  541 (672)
Q Consensus       470 ~m~~~g~~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~  541 (672)
                      +.+..--.|+..  .|..+.......|++..|.+.|+-...   ..| ..+.++.|.-.-.+.|++++|..++..
T Consensus       383 RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~---~d~~h~ealnNLavL~~r~G~i~~Arsll~~  454 (478)
T KOG1129|consen  383 RALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALT---SDAQHGEALNNLAVLAARSGDILGARSLLNA  454 (478)
T ss_pred             HHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhc---cCcchHHHHHhHHHHHhhcCchHHHHHHHHH
Confidence            998865556664  577777778888999999999987662   233 346777777777777777777777765

>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=98.86  E-value=1.4e-07  Score=89.06  Aligned_cols=81  Identities=11%  Similarity=0.047  Sum_probs=53.1

Q ss_pred             CChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCCh-HHHHHHHH
Q 005881          530 GQTRRAYEFIKSSP--IEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMW-DETAKVRK  606 (672)
Q Consensus       530 g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~-~~a~~~~~  606 (672)
                      +.+++|.-+|+++.  ..+++.+.+.++.+....|++++|+..++++++.+|+++.+..+++-+....|+. +.+.+.+.
T Consensus       181 e~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~  260 (290)
T PF04733_consen  181 EKYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLS  260 (290)
T ss_dssp             TCCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHH
Confidence            35566666665542  2345666666667777778888888888888888888877777777777777777 55666777


Q ss_pred             HHhh
Q 005881          607 IMKE  610 (672)
Q Consensus       607 ~~~~  610 (672)
                      +++.
T Consensus       261 qL~~  264 (290)
T PF04733_consen  261 QLKQ  264 (290)
T ss_dssp             HCHH
T ss_pred             HHHH
Confidence            7654

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=98.85  E-value=0.00016  Score=75.59  Aligned_cols=589  Identities=13%  Similarity=0.002  Sum_probs=289.1

Q ss_pred             hhhHHHHHHhcCCChhHHHHHhccCCC---CCcchHHHHHHHHHcCCCchhHHHHHHHhHhCC-CCCCcccHHHHHHHHh
Q 005881           12 TYNHLLLMYVKFSRINDAQKLFDEMPE---RNVISWSALISGFSQIGMPEVALNYFRLMVCCV-LEPNYYTYVGAVSACA   87 (672)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~   87 (672)
                      .|..|...|+...+...|.+.|++.-+   .+..++......|++..+++.|..+.-..-+.. ...-...|....-.+.
T Consensus       494 af~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyL  573 (1238)
T KOG1127|consen  494 AFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYL  573 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcccccc
Confidence            577888888887788889999988776   456678888899999999999988833322211 0001122333334456


Q ss_pred             cCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCCCCcccHHHH---HHHHHhcCChHHHHHH
Q 005881           88 SRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSL---LSSYCQCGEHVHGLKI  164 (672)
Q Consensus        88 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l---i~~~~~~g~~~~a~~~  164 (672)
                      ..++...+..-|+...+..+ -|...|..|.++|.++|++..|.++|.+...-++.++-..   ....+..|.+.+|+..
T Consensus       574 ea~n~h~aV~~fQsALR~dP-kD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~GkYkeald~  652 (1238)
T KOG1127|consen  574 EAHNLHGAVCEFQSALRTDP-KDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGKYKEALDA  652 (1238)
T ss_pred             CccchhhHHHHHHHHhcCCc-hhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHHHHHH
Confidence            67788888888887777653 3777899999999999999999999987665444433322   2234567888888888


Q ss_pred             HHHHHhC------CCCCChhhHHHHHHHHhccCChHHHHHHHH-------HHHHhcCCCcHHHHH---------------
Q 005881          165 FLLSRKS------GVAISEFSCASVLGACAVLGNLKVGMQIHS-------LVFKCALEFDKFVAM---------------  216 (672)
Q Consensus       165 ~~~m~~~------g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~-------~~~~~~~~~~~~~~~---------------  216 (672)
                      +......      +..--..++......+...|-...+...++       -.+.+....+...|-               
T Consensus       653 l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~q~e~~  732 (1238)
T KOG1127|consen  653 LGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFSQEEPS  732 (1238)
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHHHhccc
Confidence            7766542      111112233333333322232222222222       222221111111111               


Q ss_pred             --------HHHHHhhcCCCh---h---HHHHHHhcCC--CCCcchHHHHHHHHHh----c----CChhHHHHHHHHHHHC
Q 005881          217 --------GLINLYAKCEKL---D---LASRVFSNIQ--LPDLTAWSALIGGYAQ----L----GKACEAIDLFVKMFSS  272 (672)
Q Consensus       217 --------~li~~~~~~g~~---~---~a~~~~~~~~--~~~~~~~~~li~~~~~----~----~~~~~a~~~~~~m~~~  272 (672)
                              .|..-.-+.+..   |   -+.+.+-.-.  ..+..+|..+...|.+    .    .+...|+..+.+..+.
T Consensus       733 ~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L  812 (1238)
T KOG1127|consen  733 IVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSL  812 (1238)
T ss_pred             chHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHH
Confidence                    111111111111   0   0000000000  0123445444443333    1    1223455666555442


Q ss_pred             CCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCC---CcccHHH
Q 005881          273 GLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEH---DVVSWNA  349 (672)
Q Consensus       273 ~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~  349 (672)
                        ..+...+...+......|++.-+..-|-.-.... +....+|..+--.+.+..+++.|...|.....-   |...|--
T Consensus       813 --~ann~~~WnaLGVlsg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLdP~nl~~WlG  889 (1238)
T KOG1127|consen  813 --CANNEGLWNALGVLSGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLDPLNLVQWLG  889 (1238)
T ss_pred             --hhccHHHHHHHHHhhccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhhcCchhhHHHHH
Confidence              3444555555555555555555544433322221 334556666666777888888888888887752   4455554


Q ss_pred             HHHHHHhcCChhHHHHHHHHHH----hCCCCCChHHHHHHHHHHcCcCchHHHHH----H------HHHHHhcCCCCccc
Q 005881          350 LIAGHLASCHYGEAIELLKDML----FEGHCPNLYTYSNILNISSDIPAIEWGKQ----T------HCCIVKPGFDSNVV  415 (672)
Q Consensus       350 li~~~~~~~~~~~A~~~~~~m~----~~g~~p~~~t~~~ll~~~~~~~~~~~a~~----~------~~~~~~~~~~~~~~  415 (672)
                      .....-..|+.-++..+|..--    ..|-.|+..-+.....-....|+.+.-..    +      ...... +.+.+..
T Consensus       890 ~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~-~~p~~~f  968 (1238)
T KOG1127|consen  890 EALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFL-GHPQLCF  968 (1238)
T ss_pred             HHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHh-cCcchhH
Confidence            4444556677777777776521    12333443333333333334443332211    1      111111 2333445


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCC-----CCCchhHHHH----HHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 005881          416 IGSALVDMYAKCGRLNDARKVFDHLS-----SKNLVSWNTM----LVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGV  486 (672)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~l----i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  486 (672)
                      .|.......-+.+...+|.+...+..     +-+...||..    .+.++..|.++.|..-+.....   ..+......-
T Consensus       969 Ay~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~~~---evdEdi~gt~ 1045 (1238)
T KOG1127|consen  969 AYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWKEWM---EVDEDIRGTD 1045 (1238)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcccch---hHHHHHhhhh
Confidence            55555555555566666666555543     2344445432    2334445555544433221111   1111111111


Q ss_pred             HHHhhccCcHHHHHHHHHHhHHhhCCCCch-HHHHHHHHHhhccCChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCC
Q 005881          487 LSACVHIGLVEEGWHYFNSMIRDHGISPRM-DHIASVVHLFACRGQTRRAYEFIKSS--PIEPNKVVWRCLLSGCKTHKD  563 (672)
Q Consensus       487 l~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~  563 (672)
                      +.. .-.++++++.+.|+++..-..-..+. .....+.-....++..+.|...+-+.  ..+|+..+...+...+.-..+
T Consensus      1046 l~l-Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~~ls~~~~~sll~L~A~~ild~d 1124 (1238)
T KOG1127|consen 1046 LTL-FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVKSLSKVQASSLLPLPAVYILDAD 1124 (1238)
T ss_pred             HHH-HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHHHhCccchhhHHHHHHHHHHhhh
Confidence            111 23467777777777766332223332 22334444555666666666554221  123444444443333322222


Q ss_pred             HHHHHHHHHHHh---cCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          564 LVLGRYAAEKIL---STDPEDTSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       564 ~~~a~~~~~~~~---~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      -.....+.+++.   +..--+-..-...--+|.+.|+-.-..+++++..
T Consensus      1125 a~~ssaileel~kl~k~e~~~~~~~ll~e~i~~~~~r~~~vk~~~qr~~ 1173 (1238)
T KOG1127|consen 1125 AHGSSAILEELEKLLKLEWFCWPPGLLKELIYALQGRSVAVKKQIQRAV 1173 (1238)
T ss_pred             hhhhHHHHHHHHHhhhhHHhccChhHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            222222222222   2111122222334445666666666666666554

>PF12854 PPR_1: PPR repeat

Probab=98.84  E-value=3e-09  Score=63.12  Aligned_cols=34  Identities=47%  Similarity=0.796  Sum_probs=31.9

Q ss_pred             cCCCCCcchhhHHHHHHhcCCChhHHHHHhccCC
Q 005881            4 SGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMP   37 (672)
Q Consensus         4 ~g~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~   37 (672)
                      .|+.||+.+||+||++|++.|++++|.++|++|+
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            4899999999999999999999999999999985

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.83  E-value=2e-06  Score=83.36  Aligned_cols=166  Identities=14%  Similarity=0.092  Sum_probs=110.8

Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHhhccCcHHH
Q 005881          420 LVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDN-TFIGVLSACVHIGLVEE  498 (672)
Q Consensus       420 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~  498 (672)
                      +..+|.+.++.+.|...|++...+...     -....+....+++++..+...-  +.|+.. -...-...+.+.|++..
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~--~~pe~A~e~r~kGne~Fk~gdy~~  376 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAY--INPEKAEEEREKGNEAFKKGDYPE  376 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHh--hChhHHHHHHHHHHHHHhccCHHH
Confidence            444666677788888887775421111     1112233445555555555444  344442 22233566778889999


Q ss_pred             HHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHh-CCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHh
Q 005881          499 GWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEPNKV-VWRCLLSGCKTHKDLVLGRYAAEKIL  575 (672)
Q Consensus       499 a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~  575 (672)
                      |+..|.+++..   .| |...|+...-+|.+.|.+..|++--+. +...|+.. .|.--..++....+++.|...|++++
T Consensus       377 Av~~YteAIkr---~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eal  453 (539)
T KOG0548|consen  377 AVKHYTEAIKR---DPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEAL  453 (539)
T ss_pred             HHHHHHHHHhc---CCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999888733   45 678888889999999998888876654 33455443 45545555666788999999999999


Q ss_pred             cCCCCCCchHHHHHHHHHhc
Q 005881          576 STDPEDTSAHIMLSNVYAEA  595 (672)
Q Consensus       576 ~~~p~~~~~~~~l~~~~~~~  595 (672)
                      +++|++..+...+.+++...
T Consensus       454 e~dp~~~e~~~~~~rc~~a~  473 (539)
T KOG0548|consen  454 ELDPSNAEAIDGYRRCVEAQ  473 (539)
T ss_pred             hcCchhHHHHHHHHHHHHHh
Confidence            99999888888887777753

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.82  E-value=2.9e-06  Score=75.71  Aligned_cols=415  Identities=11%  Similarity=0.065  Sum_probs=200.8

Q ss_pred             CCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCC--CCcchHHH-
Q 005881          172 GVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQL--PDLTAWSA-  248 (672)
Q Consensus       172 g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~-  248 (672)
                      |+....--+..++..+.+..++..+.+++..-.++.. .+....+.|..+|....++..|-..++++..  |...-|.. 
T Consensus         5 g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~p-~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY   83 (459)
T KOG4340|consen    5 GAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERSP-RSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLY   83 (459)
T ss_pred             cccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHH
Confidence            3333333455566666666666666666655544332 1344455555666666666666666666553  33333332 


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHh--hccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHcc
Q 005881          249 LIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAF--ADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKC  326 (672)
Q Consensus       249 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  326 (672)
                      -...+.+.+.+..|+.+...|...   |+...-..-+.+.  ...+++..+..+.++....|   +..+.+.......+.
T Consensus        84 ~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllyke  157 (459)
T KOG4340|consen   84 QAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKE  157 (459)
T ss_pred             HHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeecc
Confidence            134555666666666666666442   2221111111111  23344444444444332111   122222222233445


Q ss_pred             CChHHHHHHHhhCCC----CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHH----HHHHHHHHcCcCchHHH
Q 005881          327 ELLEESLKTFDEMDE----HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYT----YSNILNISSDIPAIEWG  398 (672)
Q Consensus       327 ~~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t----~~~ll~~~~~~~~~~~a  398 (672)
                      |+++.|.+-|+...+    .....||.-+.. .+.|+++.|++...+++++|++--+..    ..-.+.+ ...|+   -
T Consensus       158 gqyEaAvqkFqaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDv-rsvgN---t  232 (459)
T KOG4340|consen  158 GQYEAAVQKFQAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDV-RSVGN---T  232 (459)
T ss_pred             ccHHHHHHHHHHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCch-hcccc---h
Confidence            555555555554443    223334433322 233445555555555555544311100    0000000 00000   0


Q ss_pred             HHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC-----CCchhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 005881          399 KQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSS-----KNLVSWNTMLVGYAQHGLGREALEIYSMMQE  473 (672)
Q Consensus       399 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  473 (672)
                      ..++...       -+..+|.-...+.+.|+++.|.+.+..|+.     .|++|...+.-.- ..+++.+..+-+.-+..
T Consensus       233 ~~lh~Sa-------l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~  304 (459)
T KOG4340|consen  233 LVLHQSA-------LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQ  304 (459)
T ss_pred             HHHHHHH-------HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHh
Confidence            0000000       001122222335578999999999999983     5777765543322 23455555555555555


Q ss_pred             CCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHH
Q 005881          474 NKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRC  553 (672)
Q Consensus       474 ~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~  553 (672)
                      .+ +-...||..++-.||+..-++.|..++.+=....-.-.+...|+.|-......-..|+|.+-++.+...--......
T Consensus       305 ~n-PfP~ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~LLdaLIt~qT~pEea~KKL~~La~~l~~kLRkl  383 (459)
T KOG4340|consen  305 QN-PFPPETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYDLLDALITCQTAPEEAFKKLDGLAGMLTEKLRKL  383 (459)
T ss_pred             cC-CCChHHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            43 23457999999999999999999888753221000011334444433333456677888777655421000001111


Q ss_pred             HHHH-HHhc-CC---HHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          554 LLSG-CKTH-KD---LVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       554 l~~~-~~~~-g~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      .+.. -.++ ++   ...+..-|++.+++-   .......++.|....++.-+.+.|+.-.+
T Consensus       384 Ai~vQe~r~~~dd~a~R~ai~~Yd~~LE~Y---LPVlMa~AkiyW~~~Dy~~vEk~Fr~Sve  442 (459)
T KOG4340|consen  384 AIQVQEARHNRDDEAIRKAVNEYDETLEKY---LPVLMAQAKIYWNLEDYPMVEKIFRKSVE  442 (459)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHHHHH---HHHHHHHHHhhccccccHHHHHHHHHHHh
Confidence            1111 1122 22   233444455555542   24556778889999999999999997655

>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=98.82  E-value=3.7e-07  Score=86.19  Aligned_cols=154  Identities=11%  Similarity=0.081  Sum_probs=107.3

Q ss_pred             HHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhc----cCcHH
Q 005881          422 DMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVH----IGLVE  497 (672)
Q Consensus       422 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~g~~~  497 (672)
                      .++...|++++|.+++...  .+.......+..|.+.++++.|.+.++.|.+  +..|. +...+..++..    .+.+.
T Consensus       110 ~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~--~~eD~-~l~qLa~awv~l~~g~e~~~  184 (290)
T PF04733_consen  110 TILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQ--IDEDS-ILTQLAEAWVNLATGGEKYQ  184 (290)
T ss_dssp             HHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC--CSCCH-HHHHHHHHHHHHHHTTTCCC
T ss_pred             HHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCcH-HHHHHHHHHHHHHhCchhHH
Confidence            4466678888888887765  4455666677888889999999999999887  34443 34444444432    23588


Q ss_pred             HHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCH-HHHHHHHHHH
Q 005881          498 EGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDL-VLGRYAAEKI  574 (672)
Q Consensus       498 ~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~-~~a~~~~~~~  574 (672)
                      +|..+|+++.++  ..+++.+.+.+..+....|++++|.+++++ +...| ++.++..++..+...|+. +.+.+...++
T Consensus       185 ~A~y~f~El~~~--~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL  262 (290)
T PF04733_consen  185 DAFYIFEELSDK--FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQL  262 (290)
T ss_dssp             HHHHHHHHHHCC--S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHC
T ss_pred             HHHHHHHHHHhc--cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHH
Confidence            899999988643  356778888888889999999999988865 55555 455666666666777777 7788888888


Q ss_pred             hcCCCCCC
Q 005881          575 LSTDPEDT  582 (672)
Q Consensus       575 ~~~~p~~~  582 (672)
                      ....|+++
T Consensus       263 ~~~~p~h~  270 (290)
T PF04733_consen  263 KQSNPNHP  270 (290)
T ss_dssp             HHHTTTSH
T ss_pred             HHhCCCCh
Confidence            88888654

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=98.82  E-value=2e-05  Score=72.00  Aligned_cols=52  Identities=15%  Similarity=0.250  Sum_probs=29.8

Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          559 KTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       559 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ...|++.+|++...++++.+|+|..++...+.+|.-..++++|+.-++...+
T Consensus       318 ~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e  369 (504)
T KOG0624|consen  318 REDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALE  369 (504)
T ss_pred             cccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh
Confidence            3345556666666666666665555555555665555555555555555443

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

Probab=98.82  E-value=9.9e-06  Score=81.06  Aligned_cols=257  Identities=8%  Similarity=-0.013  Sum_probs=155.3

Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCChH-HHHH---HHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhc
Q 005881          352 AGHLASCHYGEAIELLKDMLFEGHCPNLY-TYSN---ILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKC  427 (672)
Q Consensus       352 ~~~~~~~~~~~A~~~~~~m~~~g~~p~~~-t~~~---ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  427 (672)
                      ..+...|++++|.+.+++..+.  .|+.. .+..   ........+....+.+.+.. .....+........+...+...
T Consensus        51 ~~~~~~g~~~~A~~~~~~~l~~--~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~~~~~~a~~~~~~  127 (355)
T cd05804          51 LSAWIAGDLPKALALLEQLLDD--YPRDLLALKLHLGAFGLGDFSGMRDHVARVLPL-WAPENPDYWYLLGMLAFGLEEA  127 (355)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHhHHHHHhcccccCchhHHHHHhc-cCcCCCCcHHHHHHHHHHHHHc
Confidence            3456678888888888887765  34333 3321   11112223444455544443 1111122233344556678889


Q ss_pred             CCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CCCH--HHHHHHHHHhhccCcHHHHHH
Q 005881          428 GRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKI-KPND--NTFIGVLSACVHIGLVEEGWH  501 (672)
Q Consensus       428 g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~--~~~~~ll~~~~~~g~~~~a~~  501 (672)
                      |++++|.+.+++..+   .+...+..+...+...|++++|...+++...... .|+.  ..|..+...+...|++++|..
T Consensus       128 G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~  207 (355)
T cd05804         128 GQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALA  207 (355)
T ss_pred             CCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHH
Confidence            999999999988763   4456778888889999999999999998887421 1232  235567778889999999999


Q ss_pred             HHHHhHHhhCCCCchHHH-H--HHHHHhhccCChHHHHHH--H-Hh---C-CCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 005881          502 YFNSMIRDHGISPRMDHI-A--SVVHLFACRGQTRRAYEF--I-KS---S-PIEPNKVVWRCLLSGCKTHKDLVLGRYAA  571 (672)
Q Consensus       502 ~~~~~~~~~~~~p~~~~~-~--~l~~~~~~~g~~~~A~~~--~-~~---~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  571 (672)
                      .++.........+..... +  .+...+...|....+.++  + ..   . +.............++...|+.+.|...+
T Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L  287 (355)
T cd05804         208 IYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLL  287 (355)
T ss_pred             HHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHH
Confidence            998875221111222111 1  233333444433333222  1 11   1 11111122234555677889999999999


Q ss_pred             HHHhcCCC---------CCCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          572 EKILSTDP---------EDTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       572 ~~~~~~~p---------~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      +.+....-         .........+.++...|++++|.+.+......
T Consensus       288 ~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         288 AALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             HHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            88754221         12445567788899999999999999987653

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.

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.76  E-value=8.5e-07  Score=82.67  Aligned_cols=179  Identities=14%  Similarity=0.066  Sum_probs=109.9

Q ss_pred             ccHHHHHHHHHHhcCCHHHHHHHHhhCCC--CC-c---hhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH----HH
Q 005881          414 VVIGSALVDMYAKCGRLNDARKVFDHLSS--KN-L---VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDN----TF  483 (672)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----~~  483 (672)
                      ...+-.+...+.+.|+++.|...|+++..  |+ .   ..+..+..++...|++++|...++++.+.  .|+..    ++
T Consensus        33 ~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~  110 (235)
T TIGR03302        33 AEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL--HPNHPDADYAY  110 (235)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCchHHHH
Confidence            33445555666667777777777776652  22 1   24555666777777777777777777663  33221    33


Q ss_pred             HHHHHHhhcc--------CcHHHHHHHHHHhHHhhCCCCch-HHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHH
Q 005881          484 IGVLSACVHI--------GLVEEGWHYFNSMIRDHGISPRM-DHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCL  554 (672)
Q Consensus       484 ~~ll~~~~~~--------g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l  554 (672)
                      ..+..++...        |++++|.+.|+.+...   .|+. ..+..+....    .....   .        ......+
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~~----~~~~~---~--------~~~~~~~  172 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRMD----YLRNR---L--------AGKELYV  172 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHHH----HHHHH---H--------HHHHHHH
Confidence            3344444433        5666677777666532   3332 1111111110    00000   0        0011245


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCC---CchHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          555 LSGCKTHKDLVLGRYAAEKILSTDPED---TSAHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       555 ~~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                      ...+...|+++.|...++++++..|++   +.++..++.+|.+.|++++|...++.+..+.
T Consensus       173 a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       173 ARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            566888999999999999999997765   4688999999999999999999999887543

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).

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.76  E-value=2.7e-05  Score=71.14  Aligned_cols=333  Identities=12%  Similarity=0.070  Sum_probs=197.8

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHH---HhhccCCchhHHHHHHHHHHhCCCCchHHHH-HHHHHH
Q 005881          248 ALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLG---AFADVKETIGGRQLHSLIIKMGFSSFTFVAN-TVLDFY  323 (672)
Q Consensus       248 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~---~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~li~~~  323 (672)
                      -+-..+...|++..|+..|....+-    |+..|-.+.+   .|...|....|..=+...++.  +||-.... .-...+
T Consensus        43 ElGk~lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vl  116 (504)
T KOG0624|consen   43 ELGKELLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVL  116 (504)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhh
Confidence            4455666677777777777766542    3333433332   344445544444444444432  33322111 112344


Q ss_pred             HccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHH
Q 005881          324 SKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHC  403 (672)
Q Consensus       324 ~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~  403 (672)
                      .+.|.++.|..-|+.+...++.. +....++.+.-..++-+                .....+..+...|+...+.....
T Consensus       117 lK~Gele~A~~DF~~vl~~~~s~-~~~~eaqskl~~~~e~~----------------~l~~ql~s~~~~GD~~~ai~~i~  179 (504)
T KOG0624|consen  117 LKQGELEQAEADFDQVLQHEPSN-GLVLEAQSKLALIQEHW----------------VLVQQLKSASGSGDCQNAIEMIT  179 (504)
T ss_pred             hhcccHHHHHHHHHHHHhcCCCc-chhHHHHHHHHhHHHHH----------------HHHHHHHHHhcCCchhhHHHHHH
Confidence            55566666665555554322110 00011111111111111                12223344555677777777777


Q ss_pred             HHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH
Q 005881          404 CIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND  480 (672)
Q Consensus       404 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  480 (672)
                      .+++.. +.+...+..-..+|...|++..|+.=+....   ..+..+..-+-..+...|+.+.++...++-++  +.||.
T Consensus       180 ~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpdH  256 (504)
T KOG0624|consen  180 HLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDPDH  256 (504)
T ss_pred             HHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcch
Confidence            776643 3356666677788888898888876665544   55666666677778888888888888888887  67887


Q ss_pred             HH----HHHH---------HHHhhccCcHHHHHHHHHHhHHhhCCCCc-----hHHHHHHHHHhhccCChHHHHHHHHh-
Q 005881          481 NT----FIGV---------LSACVHIGLVEEGWHYFNSMIRDHGISPR-----MDHIASVVHLFACRGQTRRAYEFIKS-  541 (672)
Q Consensus       481 ~~----~~~l---------l~~~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~-  541 (672)
                      ..    |..|         +......+.+.++.+..+...   ...|.     ...+..+-.++...|++-+|++.-++ 
T Consensus       257 K~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vl---k~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~ev  333 (504)
T KOG0624|consen  257 KLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVL---KNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEV  333 (504)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH---hcCCcccceeeeeeheeeecccccCCHHHHHHHHHHH
Confidence            42    2211         112345567777777777666   23444     24455667788889999999888765 


Q ss_pred             CCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCCccCCce
Q 005881          542 SPIEPN-KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGC  619 (672)
Q Consensus       542 ~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  619 (672)
                      +.+.|+ ..++..-..+|.....++.|+.-|+++.+.+|+|..+-..          .+.|.++.++..+|+.-+..|+
T Consensus       334 L~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~~reG----------le~Akrlkkqs~kRDYYKILGV  402 (504)
T KOG0624|consen  334 LDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTRAREG----------LERAKRLKKQSGKRDYYKILGV  402 (504)
T ss_pred             HhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHHHHHH----------HHHHHHHHHHhccchHHHHhhh
Confidence            456775 6678778888999999999999999999999988654333          3556666666655555444443

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.76  E-value=5.1e-07  Score=80.38  Aligned_cols=118  Identities=13%  Similarity=0.128  Sum_probs=94.3

Q ss_pred             cCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHH-HHhcCC--HHH
Q 005881          493 IGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSG-CKTHKD--LVL  566 (672)
Q Consensus       493 ~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~-~~~~g~--~~~  566 (672)
                      .++.+++...++...+   ..| +.+.|..++..|...|++++|.+.+++. ...| +...+..+..+ +...|+  .++
T Consensus        52 ~~~~~~~i~~l~~~L~---~~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~  128 (198)
T PRK10370         52 QQTPEAQLQALQDKIR---ANPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQ  128 (198)
T ss_pred             chhHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHH
Confidence            5666777777776653   344 6788888888999999999998888763 4556 55567777765 466676  599


Q ss_pred             HHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCC
Q 005881          567 GRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       567 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  613 (672)
                      |.++++++++.+|+++.++..++..+.+.|++++|...++++.+...
T Consensus       129 A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~  175 (198)
T PRK10370        129 TREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDLNS  175 (198)
T ss_pred             HHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            99999999999999999999999999999999999999999876433

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.75  E-value=4e-05  Score=79.92  Aligned_cols=550  Identities=12%  Similarity=0.003  Sum_probs=261.4

Q ss_pred             hHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCC-CCChhHHHHHHHHH
Q 005881           43 SWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGL-ELNSHVSNCLINMY  121 (672)
Q Consensus        43 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-~~~~~~~~~li~~~  121 (672)
                      .|..|...|+..-+...|.+.|+...+.+ .-+......+...+++..+++.|..+.-..-+... ..-..-|...--.|
T Consensus       494 af~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yy  572 (1238)
T KOG1127|consen  494 AFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYY  572 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccc
Confidence            45556666665556666666666665543 23444556666666677777766666222111110 00011112222234


Q ss_pred             HhcCChHHHHHHhhccCC---CCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHH--HhccCChHHH
Q 005881          122 GKCGLLSSAQFVFDASLE---RNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGA--CAVLGNLKVG  196 (672)
Q Consensus       122 ~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~--~~~~~~~~~a  196 (672)
                      .+.++...|..-|+...+   .|...|..+..+|.+.|++..|+++|.+...  +.|+.. |...-.+  -+..|...++
T Consensus       573 Lea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~--LrP~s~-y~~fk~A~~ecd~GkYkea  649 (1238)
T KOG1127|consen  573 LEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASL--LRPLSK-YGRFKEAVMECDNGKYKEA  649 (1238)
T ss_pred             cCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHh--cCcHhH-HHHHHHHHHHHHhhhHHHH
Confidence            555666666666665443   3667788899999999999999999988776  455533 3322222  2567888888


Q ss_pred             HHHHHHHHHhcC------CCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCcchHHH-HHHHHHhcCC----hhHHHHH
Q 005881          197 MQIHSLVFKCAL------EFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSA-LIGGYAQLGK----ACEAIDL  265 (672)
Q Consensus       197 ~~~~~~~~~~~~------~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-li~~~~~~~~----~~~a~~~  265 (672)
                      ...+..++...-      .--..++..+...+.-.|-..+|..+|+.-.    ..+.. ++...+....    ...|..+
T Consensus       650 ld~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksi----e~f~~~l~h~~~~~~~~Wi~asdac~~  725 (1238)
T KOG1127|consen  650 LDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSI----ESFIVSLIHSLQSDRLQWIVASDACYI  725 (1238)
T ss_pred             HHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHH----HHHHHHHHHhhhhhHHHHHHHhHHHHH
Confidence            887777654310      1111122222222222232333333332211    11111 1111100000    1123333


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHh-----CCCCchHHH-HHHHHHHH---ccC----ChHHH
Q 005881          266 FVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKM-----GFSSFTFVA-NTVLDFYS---KCE----LLEES  332 (672)
Q Consensus       266 ~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~-~~li~~~~---~~~----~~~~a  332 (672)
                      |-... .. .|+......+..-.-..+....-. ++-...+.     .+..+...| |.-++.|.   .++    +...|
T Consensus       726 f~q~e-~~-~vn~h~l~il~~q~e~~~~l~~~d-~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~A  802 (1238)
T KOG1127|consen  726 FSQEE-PS-IVNMHYLIILSKQLEKTGALKKND-LLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTA  802 (1238)
T ss_pred             HHHhc-cc-chHHHHHHHHHHHHHhcccCcchh-HHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHH
Confidence            33332 11 233222222222122222221100 11111110     011112222 22222221   122    22345


Q ss_pred             HHHHhhCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcC
Q 005881          333 LKTFDEMDE---HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPG  409 (672)
Q Consensus       333 ~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~  409 (672)
                      ...+....+   .+...||.|.-. ..-|.+.-|...|-+-+... +....+|..+--.|....+++.|...+...+...
T Consensus       803 i~c~KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLd  880 (1238)
T KOG1127|consen  803 IRCCKKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLD  880 (1238)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhhcC
Confidence            555554432   455667766544 44466666666555544331 2245566666666777888888888877776543


Q ss_pred             CCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC--------CCCchhHHHHHHHHHhcCChHHHHHHH----------HHH
Q 005881          410 FDSNVVIGSALVDMYAKCGRLNDARKVFDHLS--------SKNLVSWNTMLVGYAQHGLGREALEIY----------SMM  471 (672)
Q Consensus       410 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~~~~~~~li~~~~~~g~~~~A~~~~----------~~m  471 (672)
                      +. +...|-.........|+.-++..+|..-.        -++..-|-....-...+|+.++-+..-          ++.
T Consensus       881 P~-nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~y  959 (1238)
T KOG1127|consen  881 PL-NLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYY  959 (1238)
T ss_pred             ch-hhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHH
Confidence            21 22222222222234566666666665421        133334433334445555554433322          222


Q ss_pred             HHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHH----HHHHHhhccCChHHHHHHHHhCCCCCC
Q 005881          472 QENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIA----SVVHLFACRGQTRRAYEFIKSSPIEPN  547 (672)
Q Consensus       472 ~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~----~l~~~~~~~g~~~~A~~~~~~~~~~p~  547 (672)
                      .. |.+-+...|.......-+.+.+..|.+...++..-....-+...|+    .....+...|.++.|..-+...+..-+
T Consensus       960 f~-~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~~~evd 1038 (1238)
T KOG1127|consen  960 FL-GHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWKEWMEVD 1038 (1238)
T ss_pred             Hh-cCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcccchhHH
Confidence            22 2233345676666666677777777766665542222223333444    344556667777777666654443333


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCch---HHHHHHHHHhcCChHHHHHHHHHH
Q 005881          548 KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSA---HIMLSNVYAEANMWDETAKVRKIM  608 (672)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~---~~~l~~~~~~~g~~~~a~~~~~~~  608 (672)
                      .....+-+.. .-.|+++.+...|++++.+.-++...   ...++......+.-+.|...+-..
T Consensus      1039 Edi~gt~l~l-Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~ 1101 (1238)
T KOG1127|consen 1039 EDIRGTDLTL-FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEV 1101 (1238)
T ss_pred             HHHhhhhHHH-HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHH
Confidence            3333333332 34578888888888887765544332   223334444555566666554433

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

Probab=98.75  E-value=0.00035  Score=69.79  Aligned_cols=47  Identities=11%  Similarity=0.016  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          564 LVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       564 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      .++|...+..+....+++..+|..-..+|.+.|++.-+.+..+....
T Consensus       641 l~ea~kf~~~l~~~~~~~~~~~iL~~ely~rk~k~~l~~~~~~~~~~  687 (700)
T KOG1156|consen  641 LEEARKFLPNLQHKGKEKGETYILSFELYYRKGKFLLALACLNNAEG  687 (700)
T ss_pred             HHHHHHHHHHHHHhcccchhhhhhhHHHHHHHHHHHHHHHHHHhhhh
Confidence            56677777777777788888888889999999999888888877654

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.74  E-value=1.9e-07  Score=78.46  Aligned_cols=121  Identities=12%  Similarity=0.035  Sum_probs=73.7

Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-C
Q 005881          466 EIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-P  543 (672)
Q Consensus       466 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~  543 (672)
                      .+|++.++  +.|+.  +..+..++...|++++|...|+.+.   ...| +...+..++.++.+.|++++|...|++. .
T Consensus        14 ~~~~~al~--~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al---~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~   86 (144)
T PRK15359         14 DILKQLLS--VDPET--VYASGYASWQEGDYSRAVIDFSWLV---MAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALM   86 (144)
T ss_pred             HHHHHHHH--cCHHH--HHHHHHHHHHcCCHHHHHHHHHHHH---HcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            34444444  34443  3344555666677777777776665   3344 4566666666666666666666666542 3


Q ss_pred             CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHH
Q 005881          544 IEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYA  593 (672)
Q Consensus       544 ~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  593 (672)
                      ..| +...|..+..++...|++++|...+++++++.|+++..+...+.+..
T Consensus        87 l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~  137 (144)
T PRK15359         87 LDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQI  137 (144)
T ss_pred             cCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Confidence            344 45566666666667777777777777777777777776666655543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.73  E-value=0.0011  Score=75.66  Aligned_cols=160  Identities=13%  Similarity=0.100  Sum_probs=78.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHC--CCCCC--HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHH-----HH
Q 005881          451 MLVGYAQHGLGREALEIYSMMQEN--KIKPN--DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHI-----AS  521 (672)
Q Consensus       451 li~~~~~~g~~~~A~~~~~~m~~~--g~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~-----~~  521 (672)
                      +...+...|++++|...+.+....  ...+.  ..++..+.......|+.++|...++..............+     ..
T Consensus       579 la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~  658 (903)
T PRK04841        579 RAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKV  658 (903)
T ss_pred             HHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHH
Confidence            344445556666666666655432  11111  1233334445556666666666666554211111000000     01


Q ss_pred             HHHHhhccCChHHHHHHHHhCCC-C-CCHH----HHHHHHHHHHhcCCHHHHHHHHHHHhcCCC------CCCchHHHHH
Q 005881          522 VVHLFACRGQTRRAYEFIKSSPI-E-PNKV----VWRCLLSGCKTHKDLVLGRYAAEKILSTDP------EDTSAHIMLS  589 (672)
Q Consensus       522 l~~~~~~~g~~~~A~~~~~~~~~-~-p~~~----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p------~~~~~~~~l~  589 (672)
                      ....+...|+.+.|.+++..... . ....    .+..+..++...|+.++|...++++++...      ....++..++
T Consensus       659 ~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la  738 (903)
T PRK04841        659 RLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLN  738 (903)
T ss_pred             HHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence            12333446666676666654321 0 0110    123344445666777777777776655321      1123455666


Q ss_pred             HHHHhcCChHHHHHHHHHHhh
Q 005881          590 NVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       590 ~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      .+|.+.|+.++|...+.+..+
T Consensus       739 ~a~~~~G~~~~A~~~L~~Al~  759 (903)
T PRK04841        739 QLYWQQGRKSEAQRVLLEALK  759 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            677777777777777766654

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

Probab=98.69  E-value=3.1e-06  Score=85.08  Aligned_cols=94  Identities=10%  Similarity=0.040  Sum_probs=51.2

Q ss_pred             HHHHHHHHHhhccCChHHHHHHHHh-CCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHh
Q 005881          517 DHIASVVHLFACRGQTRRAYEFIKS-SPIEPN-KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAE  594 (672)
Q Consensus       517 ~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  594 (672)
                      .+|-.+.-+..+.++++.|.+.|.. ....|| ...|+.+-.+|.+.|+-.+|...++++++-+-++...|.+..-+..+
T Consensus       520 ~~wf~~G~~ALqlek~q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvd  599 (777)
T KOG1128|consen  520 GTWFGLGCAALQLEKEQAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVD  599 (777)
T ss_pred             hHHHhccHHHHHHhhhHHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhh
Confidence            3444444444444444444444432 223443 33566666666666666666666666666655556666666666666


Q ss_pred             cCChHHHHHHHHHHhh
Q 005881          595 ANMWDETAKVRKIMKE  610 (672)
Q Consensus       595 ~g~~~~a~~~~~~~~~  610 (672)
                      .|.|++|.+.+.++..
T Consensus       600 vge~eda~~A~~rll~  615 (777)
T KOG1128|consen  600 VGEFEDAIKAYHRLLD  615 (777)
T ss_pred             cccHHHHHHHHHHHHH
Confidence            6666666666665544

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.68  E-value=4.4e-07  Score=76.30  Aligned_cols=107  Identities=9%  Similarity=-0.043  Sum_probs=90.6

Q ss_pred             HHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC
Q 005881          501 HYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTD  578 (672)
Q Consensus       501 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  578 (672)
                      .++++..   .+.|+  .+..+...+...|++++|.+.|+. +...| +...|..+...+...|++++|...|+++++++
T Consensus        14 ~~~~~al---~~~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         14 DILKQLL---SVDPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHH---HcCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            3444444   33454  466788899999999999999987 34566 67788899999999999999999999999999


Q ss_pred             CCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          579 PEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       579 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                      |+++.++..++.++...|++++|.+.++...+..
T Consensus        89 p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~  122 (144)
T PRK15359         89 ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMS  122 (144)
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999999999999999987643

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.67  E-value=3.2e-05  Score=75.27  Aligned_cols=218  Identities=10%  Similarity=0.066  Sum_probs=149.5

Q ss_pred             HHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCch---hH-------HHH
Q 005881          382 YSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLV---SW-------NTM  451 (672)
Q Consensus       382 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~-------~~l  451 (672)
                      ...+.++..+..+++.+.+-+...++..  .++.-++....+|...|...++........+..-.   -|       ..+
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~  304 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARL  304 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHh
Confidence            3445556666667777777777766655  34555566667777777777766665554322111   12       223


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCch-HHHHHHHHHhhccC
Q 005881          452 LVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRM-DHIASVVHLFACRG  530 (672)
Q Consensus       452 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g  530 (672)
                      ..+|.+.++++.|+..|.+.+..-..||..+         +....+++....+...   -+.|.. .-...-+..+.+.|
T Consensus       305 g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls---------~lk~~Ek~~k~~e~~a---~~~pe~A~e~r~kGne~Fk~g  372 (539)
T KOG0548|consen  305 GNAYTKREDYEGAIKYYQKALTEHRTPDLLS---------KLKEAEKALKEAERKA---YINPEKAEEEREKGNEAFKKG  372 (539)
T ss_pred             hhhhhhHHhHHHHHHHHHHHhhhhcCHHHHH---------HHHHHHHHHHHHHHHH---hhChhHHHHHHHHHHHHHhcc
Confidence            4466667888999999988776544544322         2233444444443332   345543 11222366778899


Q ss_pred             ChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHH
Q 005881          531 QTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIM  608 (672)
Q Consensus       531 ~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  608 (672)
                      ++..|+..+.+ +..+| |...|.....++.+.|.+..|+.-.+..++++|+....|..-+.++....+|++|.+.|...
T Consensus       373 dy~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~ea  452 (539)
T KOG0548|consen  373 DYPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEA  452 (539)
T ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999976 34456 56678888888889999999999999999999999999999999999999999999999988


Q ss_pred             hhCCC
Q 005881          609 KEKSL  613 (672)
Q Consensus       609 ~~~~~  613 (672)
                      .+.+.
T Consensus       453 le~dp  457 (539)
T KOG0548|consen  453 LELDP  457 (539)
T ss_pred             HhcCc
Confidence            76543

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.64  E-value=2.5e-05  Score=69.95  Aligned_cols=351  Identities=11%  Similarity=0.015  Sum_probs=223.1

Q ss_pred             CcccCCCCCcchhhHHHHHHhcCCChhHHHHHhccCCCC---CcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcc
Q 005881            1 MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPER---NVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYY   77 (672)
Q Consensus         1 m~~~g~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~   77 (672)
                      |...|+..-.--+.+.+..+.+..++++|++++....++   +....+.|..+|-...++..|.+.|+++...  -|...
T Consensus         1 M~~~g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~   78 (459)
T KOG4340|consen    1 MAGSGAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELE   78 (459)
T ss_pred             CCcccccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHH
Confidence            445566555556788888889999999999998877663   5556777788899999999999999999774  35544


Q ss_pred             cHHH-HHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHH--HHhcCChHHHHHHhhccCC-CCcccHHHHHHHHH
Q 005881           78 TYVG-AVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINM--YGKCGLLSSAQFVFDASLE-RNSISWVSLLSSYC  153 (672)
Q Consensus        78 ~~~~-ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~--~~~~g~~~~a~~~~~~~~~-~~~~~~~~li~~~~  153 (672)
                      -|.. -.+.+-+.+.+..|..+...|...   ++...-..-+.+  .-..+++..+..++++.+. .+..+.+-..-...
T Consensus        79 qYrlY~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gClly  155 (459)
T KOG4340|consen   79 QYRLYQAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLY  155 (459)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheee
Confidence            4432 235556778889999988877543   222222222222  2346888999999999884 56667666666678


Q ss_pred             hcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHH
Q 005881          154 QCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASR  233 (672)
Q Consensus       154 ~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  233 (672)
                      +.|+++.|++-|+...+-|---....|+..+..+ +.++...|.....+++.+|+...+..--         |...+...
T Consensus       156 kegqyEaAvqkFqaAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgI---------Gm~tegiD  225 (459)
T KOG4340|consen  156 KEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGI---------GMTTEGID  225 (459)
T ss_pred             ccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCc---------cceeccCc
Confidence            9999999999999988764334456777776554 5688899999999999988653221100         00000000


Q ss_pred             HHhcCCCC-------CcchHHHHHHHHHhcCChhHHHHHHHHHHHC-CCCCChhhHHHHHHHhhccCCchhHHHHHHHHH
Q 005881          234 VFSNIQLP-------DLTAWSALIGGYAQLGKACEAIDLFVKMFSS-GLMPSEVTFSYVLGAFADVKETIGGRQLHSLII  305 (672)
Q Consensus       234 ~~~~~~~~-------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~  305 (672)
                       .+.+..+       -+..+|.-...+.+.++++.|.+.+.+|.-+ .-..|++|...+.-.- ..+++....+-+..+.
T Consensus       226 -vrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL  303 (459)
T KOG4340|consen  226 -VRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLL  303 (459)
T ss_pred             -hhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHH
Confidence             0000000       0122344444566788888888888888543 2356777766543222 2334555555556666


Q ss_pred             HhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCC-----CcccHHHHHHHHH-hcCChhHHHHHHHHH
Q 005881          306 KMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEH-----DVVSWNALIAGHL-ASCHYGEAIELLKDM  370 (672)
Q Consensus       306 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~li~~~~-~~~~~~~A~~~~~~m  370 (672)
                      ..+. ....++..++-.||+..-++-|..++.+-...     +...|+. +.++. ..-.+++|++-+..+
T Consensus       304 ~~nP-fP~ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~L-LdaLIt~qT~pEea~KKL~~L  372 (459)
T KOG4340|consen  304 QQNP-FPPETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYDL-LDALITCQTAPEEAFKKLDGL  372 (459)
T ss_pred             hcCC-CChHHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHHH-HHHHHhCCCCHHHHHHHHHHH
Confidence            5543 45567777888889988888888887765442     2223332 22222 234456665555444

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

Probab=98.60  E-value=5.8e-06  Score=88.85  Aligned_cols=197  Identities=13%  Similarity=0.090  Sum_probs=161.2

Q ss_pred             CcccHHHHHHHHHHhcCCHHHHHHHHhhCCC--------CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HH
Q 005881          412 SNVVIGSALVDMYAKCGRLNDARKVFDHLSS--------KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NT  482 (672)
Q Consensus       412 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~  482 (672)
                      .+...|-..|......++.+.|++++++..+        .-...|.+++......|.-+...++|+++.+.   -|. ..
T Consensus      1456 NSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy---cd~~~V 1532 (1710)
T KOG1070|consen 1456 NSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY---CDAYTV 1532 (1710)
T ss_pred             CcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh---cchHHH
Confidence            3456677778888888999999999988763        12347888888888888888899999999883   344 45


Q ss_pred             HHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHh-CCCCCC---HHHHHHHHHHH
Q 005881          483 FIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS-SPIEPN---KVVWRCLLSGC  558 (672)
Q Consensus       483 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~---~~~~~~l~~~~  558 (672)
                      |..|..-|.+.+..++|.++++.|.++++  -....|..+++.+.++.+-+.|..++++ +..-|.   .....-.+..-
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHH
Confidence            88888899999999999999999998776  5678899999999999999999999875 444443   33344455556


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCC
Q 005881          559 KTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       559 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  613 (672)
                      .+.||.++++.+|+-.+.-.|.-...|..+++.-.+.|+.+.++.+|++....++
T Consensus      1611 Fk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l 1665 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKL 1665 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCC
Confidence            7899999999999999999999999999999999999999999999999877554

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.60  E-value=4.7e-06  Score=88.12  Aligned_cols=135  Identities=12%  Similarity=0.060  Sum_probs=86.7

Q ss_pred             CchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHH
Q 005881          444 NLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDN-TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIAS  521 (672)
Q Consensus       444 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~  521 (672)
                      ++..+-.|.....+.|++++|..+|+...+  +.||.. ....+...+.+.+++++|...+++..   ...| +......
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l---~~~p~~~~~~~~  159 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYF---SGGSSSAREILL  159 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHh---hcCCCCHHHHHH
Confidence            355666666666777777777777777776  466654 45566666777777777777776665   3345 3456666


Q ss_pred             HHHHhhccCChHHHHHHHHhCC-CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 005881          522 VVHLFACRGQTRRAYEFIKSSP-IEPN-KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTS  583 (672)
Q Consensus       522 l~~~~~~~g~~~~A~~~~~~~~-~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  583 (672)
                      +..++...|++++|.++|++.- ..|+ ...|.++..++...|+.++|...|+++++.......
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~  223 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGAR  223 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchH
Confidence            6677777777777777776542 2333 456666666666777777777777777766543333

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.60  E-value=0.00084  Score=65.72  Aligned_cols=174  Identities=9%  Similarity=0.038  Sum_probs=119.0

Q ss_pred             hhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCC-cccHHHHHHHHHHhcCCHHHHHHHHh
Q 005881          360 YGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDS-NVVIGSALVDMYAKCGRLNDARKVFD  438 (672)
Q Consensus       360 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~  438 (672)
                      .+.....++++...-..--..+|...++...+..-+..|+.+|..+.+.+..+ .+.+.++++..||. ++.+-|.++|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHH
Confidence            44555566665543222223457777777778888888888888888877766 77888888887765 67888888887


Q ss_pred             hCCC--CCc-hhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHhhccCcHHHHHHHHHHhHHhhC--
Q 005881          439 HLSS--KNL-VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND--NTFIGVLSACVHIGLVEEGWHYFNSMIRDHG--  511 (672)
Q Consensus       439 ~~~~--~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~--  511 (672)
                      --.+  +|. .--...+.-+...|+-..|..+|++....++.|+.  ..|..++.--+..|++..+.++-+++...+.  
T Consensus       426 LGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~  505 (656)
T KOG1914|consen  426 LGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPAD  505 (656)
T ss_pred             HHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchh
Confidence            6552  333 33355667777788888888888888888777776  4788888888888888888887777664443  


Q ss_pred             CCCchHHHHHHHHHhhccCChHH
Q 005881          512 ISPRMDHIASVVHLFACRGQTRR  534 (672)
Q Consensus       512 ~~p~~~~~~~l~~~~~~~g~~~~  534 (672)
                      ..+....-..+++.|.-.+....
T Consensus       506 qe~~~~~~~~~v~RY~~~d~~~c  528 (656)
T KOG1914|consen  506 QEYEGNETALFVDRYGILDLYPC  528 (656)
T ss_pred             hcCCCChHHHHHHHHhhcccccc
Confidence            33333444445566655554433

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.59  E-value=1.3e-06  Score=71.84  Aligned_cols=119  Identities=11%  Similarity=0.014  Sum_probs=96.5

Q ss_pred             chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHH
Q 005881          515 RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVY  592 (672)
Q Consensus       515 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  592 (672)
                      +.+..-.+...+...|++++|..+|+.+ .+.| +..-|..|...|...|++++|+..|.+++.++|+++..+..++.+|
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~  113 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECY  113 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            3456666777888999999999999864 3566 5667888888899999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHhhCCCccCCceeEEEeCCEEEEEEeccccCCChHHHHHHHHHHHHHHH
Q 005881          593 AEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLF  656 (672)
Q Consensus       593 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  656 (672)
                      ...|+.+.|.+.|+....          |           .  ..+|+...+.+..+.....+.
T Consensus       114 L~lG~~~~A~~aF~~Ai~----------~-----------~--~~~~~~~~l~~~A~~~L~~l~  154 (157)
T PRK15363        114 LACDNVCYAIKALKAVVR----------I-----------C--GEVSEHQILRQRAEKMLQQLS  154 (157)
T ss_pred             HHcCCHHHHHHHHHHHHH----------H-----------h--ccChhHHHHHHHHHHHHHHhh
Confidence            999999999999998764          2           1  235666666666555554443

>PLN02789 farnesyltranstransferase

Probab=98.58  E-value=1.8e-05  Score=75.81  Aligned_cols=182  Identities=14%  Similarity=0.114  Sum_probs=122.4

Q ss_pred             HHhcC-CHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCCh--HHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHH
Q 005881          424 YAKCG-RLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLG--REALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVE  497 (672)
Q Consensus       424 ~~~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~--~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~  497 (672)
                      +...| .++++...++.+.+   .+..+|+.....+.+.|+.  ++++.+++++.+.. +-|...|.....++...|+++
T Consensus        81 L~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~  159 (320)
T PLN02789         81 LEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWE  159 (320)
T ss_pred             HHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHH
Confidence            33344 46777777776652   3444566555555555553  56788888888742 334457777777777888888


Q ss_pred             HHHHHHHHhHHhhCCCC-chHHHHHHHHHhhcc---CCh----HHHHHHH-HhCCCCC-CHHHHHHHHHHHHhc----CC
Q 005881          498 EGWHYFNSMIRDHGISP-RMDHIASVVHLFACR---GQT----RRAYEFI-KSSPIEP-NKVVWRCLLSGCKTH----KD  563 (672)
Q Consensus       498 ~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~---g~~----~~A~~~~-~~~~~~p-~~~~~~~l~~~~~~~----g~  563 (672)
                      ++++.++++++.   .| +...|+....++.+.   |..    ++++++. +.+...| |...|+.+...+...    +.
T Consensus       160 eeL~~~~~~I~~---d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~  236 (320)
T PLN02789        160 DELEYCHQLLEE---DVRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVS  236 (320)
T ss_pred             HHHHHHHHHHHH---CCCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCccccc
Confidence            888888888743   33 455666665555443   222    4566666 4455667 566888888887763    44


Q ss_pred             HHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcC------------------ChHHHHHHHHHHh
Q 005881          564 LVLGRYAAEKILSTDPEDTSAHIMLSNVYAEAN------------------MWDETAKVRKIMK  609 (672)
Q Consensus       564 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g------------------~~~~a~~~~~~~~  609 (672)
                      ..+|...+.+++..+|+++.+...|+++|+...                  ..++|.++++.+.
T Consensus       237 ~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        237 DPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             chhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhccccccccHHHHHHHHHHHH
Confidence            567889999999999999999999999998743                  2366778877773

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

Probab=98.53  E-value=4.4e-06  Score=84.06  Aligned_cols=189  Identities=16%  Similarity=0.178  Sum_probs=159.6

Q ss_pred             CCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005881          409 GFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLS  488 (672)
Q Consensus       409 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  488 (672)
                      +++|-...-..+...+...|-...|..+|+++     ..|...|.+|+..|+..+|..+..+-.+  -+||+..|..+..
T Consensus       393 ~lpp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGD  465 (777)
T KOG1128|consen  393 HLPPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGD  465 (777)
T ss_pred             CCCCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhh
Confidence            44555566677888999999999999999985     5788899999999999999999988888  3899999999999


Q ss_pred             HhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHH
Q 005881          489 ACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVL  566 (672)
Q Consensus       489 ~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~  566 (672)
                      ......-+++|+++++....+        .-..+.....+.++++++.+.++. +.+.| ...+|-.+..+..+.++.+.
T Consensus       466 v~~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~  537 (777)
T KOG1128|consen  466 VLHDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQA  537 (777)
T ss_pred             hccChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHH
Confidence            888888899999998765422        122233444568999999999975 55666 66789888888899999999


Q ss_pred             HHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          567 GRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       567 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                      |.+.|...+.++|++...|.++..+|.+.|+-.+|...+.+..+-+
T Consensus       538 av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn  583 (777)
T KOG1128|consen  538 AVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN  583 (777)
T ss_pred             HHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC
Confidence            9999999999999999999999999999999999999999887755

>PF12854 PPR_1: PPR repeat

Probab=98.53  E-value=1.2e-07  Score=56.15  Aligned_cols=32  Identities=34%  Similarity=0.398  Sum_probs=21.7

Q ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHhhcc
Q 005881          106 GLELNSHVSNCLINMYGKCGLLSSAQFVFDAS  137 (672)
Q Consensus       106 g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  137 (672)
                      |+.||..+|+.||++|++.|++++|.++|++|
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            56666666666666666666666666666665

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.53  E-value=9.5e-06  Score=72.29  Aligned_cols=154  Identities=12%  Similarity=0.111  Sum_probs=116.1

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHH
Q 005881          421 VDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGW  500 (672)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~  500 (672)
                      +-.|...|+++......+.+..+.        ..+...++.++++..+++..+.. +.|...|..+...+...|++++|.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~   93 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNAL   93 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            456778888877765554433221        01223567788888888888753 455567888999999999999999


Q ss_pred             HHHHHhHHhhCCCC-chHHHHHHHHHh-hccCC--hHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005881          501 HYFNSMIRDHGISP-RMDHIASVVHLF-ACRGQ--TRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKI  574 (672)
Q Consensus       501 ~~~~~~~~~~~~~p-~~~~~~~l~~~~-~~~g~--~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~  574 (672)
                      ..|++..   .+.| +...+..+..++ .+.|+  .++|.+++++ +...| +...+..+...+...|++++|+..++++
T Consensus        94 ~a~~~Al---~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~a  170 (198)
T PRK10370         94 LAYRQAL---QLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKV  170 (198)
T ss_pred             HHHHHHH---HhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999887   4566 678888888864 67777  5999999986 34566 5667888888899999999999999999


Q ss_pred             hcCCCCCCchHH
Q 005881          575 LSTDPEDTSAHI  586 (672)
Q Consensus       575 ~~~~p~~~~~~~  586 (672)
                      +++.|.+..-+.
T Consensus       171 L~l~~~~~~r~~  182 (198)
T PRK10370        171 LDLNSPRVNRTQ  182 (198)
T ss_pred             HhhCCCCccHHH
Confidence            999987665443

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

Probab=98.46  E-value=0.00028  Score=70.59  Aligned_cols=263  Identities=12%  Similarity=0.006  Sum_probs=162.8

Q ss_pred             cHHHHHHHHHhcCChhHHHHHHHHHHhCCC-CCChHHHHHH-HHHHcCcCchHHHHHHHHHHHhcCCCCcccHHH---HH
Q 005881          346 SWNALIAGHLASCHYGEAIELLKDMLFEGH-CPNLYTYSNI-LNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGS---AL  420 (672)
Q Consensus       346 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~-~p~~~t~~~l-l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~l  420 (672)
                      .|..+...+...|+.+.+.+.+.+..+... .++......+ ...+...|+++.+..+++...+.... +...+.   ..
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~~~~~   86 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPR-DLLALKLHLGA   86 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHhHHH
Confidence            445555566666777776666666544321 2232222221 22456788999999999998876432 333333   12


Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCc---hhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcH
Q 005881          421 VDMYAKCGRLNDARKVFDHLSSKNL---VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLV  496 (672)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~  496 (672)
                      .......+..+.+.+.+......++   .....+...+...|++++|.+.+++..+.  .|+ ...+..+...+...|++
T Consensus        87 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~p~~~~~~~~la~i~~~~g~~  164 (355)
T cd05804          87 FGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALEL--NPDDAWAVHAVAHVLEMQGRF  164 (355)
T ss_pred             HHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCH
Confidence            2222235666777777765433222   23445566788999999999999999995  455 45678888899999999


Q ss_pred             HHHHHHHHHhHHhhCCCCch--HHHHHHHHHhhccCChHHHHHHHHhC-CCCC--CHHHH--H--HHHHHHHhcCCHHHH
Q 005881          497 EEGWHYFNSMIRDHGISPRM--DHIASVVHLFACRGQTRRAYEFIKSS-PIEP--NKVVW--R--CLLSGCKTHKDLVLG  567 (672)
Q Consensus       497 ~~a~~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p--~~~~~--~--~l~~~~~~~g~~~~a  567 (672)
                      ++|...+++........|+.  ..|..+...+...|++++|.+++++. ...|  .....  +  .++.-....|....+
T Consensus       165 ~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~  244 (355)
T cd05804         165 KEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVG  244 (355)
T ss_pred             HHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChH
Confidence            99999999887432222332  34667889999999999999999874 2233  21111  1  222333444543333


Q ss_pred             HHH---HHHHhcCCCCC--CchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          568 RYA---AEKILSTDPED--TSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       568 ~~~---~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      ...   ........|..  ...-...+.++...|++++|.+.++.+...
T Consensus       245 ~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~  293 (355)
T cd05804         245 DRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGR  293 (355)
T ss_pred             HHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHH
Confidence            332   22221111221  122236777788999999999999988653

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.

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.42  E-value=3e-05  Score=68.73  Aligned_cols=156  Identities=10%  Similarity=0.003  Sum_probs=98.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhc
Q 005881          449 NTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFAC  528 (672)
Q Consensus       449 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  528 (672)
                      ..+-..+...|+-+....+..+.... .+-|......++......|++..|...|++...  .-++|.+.|+.+.-+|.+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq  146 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQ  146 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHH
Confidence            34455566666666666665554432 122223344466666677777777777776652  234466777777777777


Q ss_pred             cCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHH
Q 005881          529 RGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRK  606 (672)
Q Consensus       529 ~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  606 (672)
                      .|++++|..-|.+ ..+.| ++...+.+...+.-.||.+.|..++..+....+.++..-.+|+.+....|++++|..+..
T Consensus       147 ~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         147 LGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            7777777665543 34444 444566666667777777777777777777777777777777777777777777776655


Q ss_pred             H
Q 005881          607 I  607 (672)
Q Consensus       607 ~  607 (672)
                      +
T Consensus       227 ~  227 (257)
T COG5010         227 Q  227 (257)
T ss_pred             c
Confidence            3

>PLN02789 farnesyltranstransferase

Probab=98.40  E-value=2.1e-05  Score=75.39  Aligned_cols=188  Identities=11%  Similarity=0.094  Sum_probs=136.7

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCC---CchhHHHHHHHHHhcC-ChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCc
Q 005881          421 VDMYAKCGRLNDARKVFDHLSSK---NLVSWNTMLVGYAQHG-LGREALEIYSMMQENKIKPND-NTFIGVLSACVHIGL  495 (672)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~  495 (672)
                      -..+...++.++|....+.+.+.   +..+|+.-...+...| ++++++..++++.+.  .|+. .+|......+.+.|.
T Consensus        44 ra~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~--npknyqaW~~R~~~l~~l~~  121 (320)
T PLN02789         44 RAVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAED--NPKNYQIWHHRRWLAEKLGP  121 (320)
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHH--CCcchHHhHHHHHHHHHcCc
Confidence            33445567888888888887743   3346666666666777 679999999999985  4444 456555444555565


Q ss_pred             --HHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc---CC----
Q 005881          496 --VEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTH---KD----  563 (672)
Q Consensus       496 --~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~---g~----  563 (672)
                        .+++..+++.+.   ...| +...|....-++.+.|++++|++.++++ ...| |..+|+.....+.+.   |.    
T Consensus       122 ~~~~~el~~~~kal---~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~  198 (320)
T PLN02789        122 DAANKELEFTRKIL---SLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAM  198 (320)
T ss_pred             hhhHHHHHHHHHHH---HhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhcccccccccc
Confidence              367788888877   4456 6788998999999999999999999874 3445 666887776665444   22    


Q ss_pred             HHHHHHHHHHHhcCCCCCCchHHHHHHHHHhc----CChHHHHHHHHHHhhCCC
Q 005881          564 LVLGRYAAEKILSTDPEDTSAHIMLSNVYAEA----NMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       564 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~~  613 (672)
                      .+.......++++.+|+|.++|..+..++...    ++..+|.+......+.++
T Consensus       199 ~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~  252 (320)
T PLN02789        199 RDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDS  252 (320)
T ss_pred             HHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccC
Confidence            35678888899999999999999999999883    455778888877655333

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.38  E-value=5.3e-06  Score=69.55  Aligned_cols=100  Identities=15%  Similarity=0.204  Sum_probs=74.9

Q ss_pred             CCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHH
Q 005881          512 ISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIML  588 (672)
Q Consensus       512 ~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  588 (672)
                      ..| +......++..+...|++++|.+.++.. ...| +...|..+...+...|++++|...++++++.+|.++..+..+
T Consensus        12 ~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l   91 (135)
T TIGR02552        12 LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHA   91 (135)
T ss_pred             CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHH
Confidence            344 3355566667777777777777777653 2344 556677777777788888888888888888888888888888


Q ss_pred             HHHHHhcCChHHHHHHHHHHhhC
Q 005881          589 SNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       589 ~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      +.+|...|++++|.+.++...+.
T Consensus        92 a~~~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        92 AECLLALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh
Confidence            88888888888888888877653

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.36  E-value=0.0022  Score=73.11  Aligned_cols=320  Identities=10%  Similarity=-0.049  Sum_probs=169.2

Q ss_pred             ccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCC----CCC---c---c--hHHHHHHHHHhc
Q 005881          189 VLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQ----LPD---L---T--AWSALIGGYAQL  256 (672)
Q Consensus       189 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~----~~~---~---~--~~~~li~~~~~~  256 (672)
                      ..|+...+..++..+-......++.........+...|+.+++...+....    ..+   .   .  ....+...+...
T Consensus       386 ~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  465 (903)
T PRK04841        386 NQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAIND  465 (903)
T ss_pred             hcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhC
Confidence            445555555555443211111222223334444456677777766665432    110   1   0  111122334567


Q ss_pred             CChhHHHHHHHHHHHCCCCCCh----hhHHHHHHHhhccCCchhHHHHHHHHHHhCC---C--CchHHHHHHHHHHHccC
Q 005881          257 GKACEAIDLFVKMFSSGLMPSE----VTFSYVLGAFADVKETIGGRQLHSLIIKMGF---S--SFTFVANTVLDFYSKCE  327 (672)
Q Consensus       257 ~~~~~a~~~~~~m~~~~~~p~~----~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~--~~~~~~~~li~~~~~~~  327 (672)
                      |++++|...+++....-...+.    ...+.+-..+...|+++.|...+.......-   .  ........+...+...|
T Consensus       466 g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G  545 (903)
T PRK04841        466 GDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQG  545 (903)
T ss_pred             CCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCC
Confidence            8888888888776653111111    1223333445667888888777776654311   1  11223445556677788


Q ss_pred             ChHHHHHHHhhCCC-------CC----cccHHHHHHHHHhcCChhHHHHHHHHHHhCC--CCCC--hHHHHHHHHHHcCc
Q 005881          328 LLEESLKTFDEMDE-------HD----VVSWNALIAGHLASCHYGEAIELLKDMLFEG--HCPN--LYTYSNILNISSDI  392 (672)
Q Consensus       328 ~~~~a~~~~~~~~~-------~~----~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g--~~p~--~~t~~~ll~~~~~~  392 (672)
                      +++.|...+++...       ++    ...+..+...+...|++++|...+.+.....  ..+.  ...+..+.......
T Consensus       546 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~  625 (903)
T PRK04841        546 FLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLAR  625 (903)
T ss_pred             CHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHc
Confidence            88888777665432       11    1123334445666788888888877765421  1121  22233334455667


Q ss_pred             CchHHHHHHHHHHHhcCCCC-cccHH-----HHHHHHHHhcCCHHHHHHHHhhCCCCCch-------hHHHHHHHHHhcC
Q 005881          393 PAIEWGKQTHCCIVKPGFDS-NVVIG-----SALVDMYAKCGRLNDARKVFDHLSSKNLV-------SWNTMLVGYAQHG  459 (672)
Q Consensus       393 ~~~~~a~~~~~~~~~~~~~~-~~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-------~~~~li~~~~~~g  459 (672)
                      |+.+.|...+.......... ....+     ...+..+...|+.+.|.+.+.....+...       .+..+..++...|
T Consensus       626 G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g  705 (903)
T PRK04841        626 GDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLG  705 (903)
T ss_pred             CCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcC
Confidence            78888877777664321100 00000     11123344567888888887665532211       1334556677778


Q ss_pred             ChHHHHHHHHHHHHC----CCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHH
Q 005881          460 LGREALEIYSMMQEN----KIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIR  508 (672)
Q Consensus       460 ~~~~A~~~~~~m~~~----g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~  508 (672)
                      ++++|..++++....    |..++. .+...+..++...|+.++|...+.+..+
T Consensus       706 ~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~  759 (903)
T PRK04841        706 QFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALK  759 (903)
T ss_pred             CHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            888888887776542    222222 2455566667778888888887777764

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

Probab=98.36  E-value=9.8e-05  Score=79.89  Aligned_cols=220  Identities=16%  Similarity=0.087  Sum_probs=165.6

Q ss_pred             hhHHHHHHHhhccCCchhHHHHHHHHHHh-CCC---CchHHHHHHHHHHHccCChHHHHHHHhhCCC--CCcccHHHHHH
Q 005881          279 VTFSYVLGAFADVKETIGGRQLHSLIIKM-GFS---SFTFVANTVLDFYSKCELLEESLKTFDEMDE--HDVVSWNALIA  352 (672)
Q Consensus       279 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~li~  352 (672)
                      ..|-.-|......++.++|+++.++++.. ++.   --..+|.++++.-..-|.-+...++|++..+  ..-..|..|..
T Consensus      1459 i~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L~~ 1538 (1710)
T KOG1070|consen 1459 ILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKLLG 1538 (1710)
T ss_pred             hHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence            34555666667777888888887777653 222   1234667777777777888888889988876  23346888899


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCC-CcccHHHHHHHHHHhcCCHH
Q 005881          353 GHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFD-SNVVIGSALVDMYAKCGRLN  431 (672)
Q Consensus       353 ~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~  431 (672)
                      .|.+.+.+++|.++|+.|.+. ..-....|...+..+.+...-+.|..++.++.+.-.+ -......-.+++-.++|+.+
T Consensus      1539 iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDae 1617 (1710)
T KOG1070|consen 1539 IYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDAE 1617 (1710)
T ss_pred             HHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCch
Confidence            999999999999999999876 3356677888888899999989999999888875332 13444556677777899999


Q ss_pred             HHHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH--HHHHHHHHhhccCcHHHH
Q 005881          432 DARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDN--TFIGVLSACVHIGLVEEG  499 (672)
Q Consensus       432 ~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~g~~~~a  499 (672)
                      +++.+|+....   +-...|+..|..-.++|+.+.+..+|++....++.|-..  .|...+..-.+.|+-+.+
T Consensus      1618 RGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~v 1690 (1710)
T KOG1070|consen 1618 RGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNV 1690 (1710)
T ss_pred             hhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhH
Confidence            99999999874   345689999999999999999999999999998888663  566666554555554433

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.35  E-value=3.8e-05  Score=68.10  Aligned_cols=133  Identities=11%  Similarity=0.049  Sum_probs=110.2

Q ss_pred             CCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC--CCCCCHHHHHHH
Q 005881          477 KPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS--PIEPNKVVWRCL  554 (672)
Q Consensus       477 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l  554 (672)
                      .|+......+-.++...|+-+....+......  ....+......++....+.|++.+|...+.+.  .-.||...|+.+
T Consensus        63 ~p~d~~i~~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~l  140 (257)
T COG5010          63 NPEDLSIAKLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLL  140 (257)
T ss_pred             CcchHHHHHHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHH
Confidence            56544336666777788888888887766542  22335667777999999999999999999874  334588899999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          555 LSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       555 ~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      ..+|-+.|+.+.|...|.+++++.|+++....+++..|.-.|+.+.|..++......
T Consensus       141 gaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~  197 (257)
T COG5010         141 GAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLS  197 (257)
T ss_pred             HHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            999999999999999999999999999999999999999999999999999887643

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.33  E-value=3.7e-05  Score=75.59  Aligned_cols=251  Identities=12%  Similarity=0.050  Sum_probs=154.3

Q ss_pred             HHccCChHHHHHHHhhCCCC---CcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChH-HHHHHHHHHcCcCchHHH
Q 005881          323 YSKCELLEESLKTFDEMDEH---DVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLY-TYSNILNISSDIPAIEWG  398 (672)
Q Consensus       323 ~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~a  398 (672)
                      +.+.|++.+|.-.|+.....   +...|--|......+++-..|+..+++..+.  .|+.. ..-.|--.|...|.-..|
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~L--dP~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCLEL--DPTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhc--CCccHHHHHHHHHHHhhhhhHHHH
Confidence            45677788887777776543   3456777777777777777777777777654  55433 233333344445544455


Q ss_pred             HHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHH-HCCCC
Q 005881          399 KQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQ-ENKIK  477 (672)
Q Consensus       399 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~g~~  477 (672)
                      ...++..++..++-     ..+.. -...+++..              +     ..+..........++|-++. +.+..
T Consensus       373 l~~L~~Wi~~~p~y-----~~l~~-a~~~~~~~~--------------~-----~s~~~~~~l~~i~~~fLeaa~~~~~~  427 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKY-----VHLVS-AGENEDFEN--------------T-----KSFLDSSHLAHIQELFLEAARQLPTK  427 (579)
T ss_pred             HHHHHHHHHhCccc-----hhccc-cCccccccC--------------C-----cCCCCHHHHHHHHHHHHHHHHhCCCC
Confidence            55554444433210     00000 000000000              0     01111112233444554443 44544


Q ss_pred             CCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHh-CCCCCCHH-HHHHH
Q 005881          478 PNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEPNKV-VWRCL  554 (672)
Q Consensus       478 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~~~-~~~~l  554 (672)
                      +|......|.-.|--.|.+++|+..|+.+.   .++| |...|+.|+..++...+.++|+..+.+ +.++|+.+ ++..|
T Consensus       428 ~DpdvQ~~LGVLy~ls~efdraiDcf~~AL---~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNl  504 (579)
T KOG1125|consen  428 IDPDVQSGLGVLYNLSGEFDRAVDCFEAAL---QVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNL  504 (579)
T ss_pred             CChhHHhhhHHHHhcchHHHHHHHHHHHHH---hcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhh
Confidence            666666667667778889999999999887   5577 567899999999999999999988875 56888755 67778


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCC----------CchHHHHHHHHHhcCChHHHHH
Q 005881          555 LSGCKTHKDLVLGRYAAEKILSTDPED----------TSAHIMLSNVYAEANMWDETAK  603 (672)
Q Consensus       555 ~~~~~~~g~~~~a~~~~~~~~~~~p~~----------~~~~~~l~~~~~~~g~~~~a~~  603 (672)
                      .-.|...|.+++|...|-.++.+.+.+          ..+|..|-.++.-.++.|-+.+
T Consensus       505 gIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~  563 (579)
T KOG1125|consen  505 GISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQE  563 (579)
T ss_pred             hhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHH
Confidence            888999999999999999888776541          1356666666666666654433

>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=98.32  E-value=1.1e-05  Score=78.88  Aligned_cols=122  Identities=10%  Similarity=0.097  Sum_probs=92.1

Q ss_pred             HHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHh
Q 005881          483 FIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKT  560 (672)
Q Consensus       483 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~  560 (672)
                      ...|+..+...++++.|..+|+++.+.   .|+  ....++..+...++-.+|.+++++ +...| +...+......|..
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~---~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence            344555566667777777777776632   243  444466666667777777777654 23334 55556666677889


Q ss_pred             cCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          561 HKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       561 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      .++++.|+.+++++.++.|++...|..|+.+|.+.|++++|.-.++.++
T Consensus       247 k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             cCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            9999999999999999999999999999999999999999999998876

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.31  E-value=3.5e-05  Score=71.78  Aligned_cols=181  Identities=15%  Similarity=0.031  Sum_probs=124.0

Q ss_pred             ChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCC--cccHHHHHHHHHHhcCCHHHHHHHHhhCCC--CC-ch---hHH
Q 005881          378 NLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDS--NVVIGSALVDMYAKCGRLNDARKVFDHLSS--KN-LV---SWN  449 (672)
Q Consensus       378 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~~---~~~  449 (672)
                      ....+......+...|+++.|...++.+.+.....  ....+..+...|.+.|++++|...++.+.+  |+ ..   ++.
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            45566677778889999999999999998765321  124567788899999999999999999863  32 22   455


Q ss_pred             HHHHHHHhc--------CChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHH
Q 005881          450 TMLVGYAQH--------GLGREALEIYSMMQENKIKPNDN-TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIA  520 (672)
Q Consensus       450 ~li~~~~~~--------g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~  520 (672)
                      .+..++...        |++++|.+.|+++...  .|+.. ....+... ..   .      ....         .....
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~-~~---~------~~~~---------~~~~~  170 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRM-DY---L------RNRL---------AGKEL  170 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHH-HH---H------HHHH---------HHHHH
Confidence            566666654        7889999999999885  56543 22211111 00   0      0000         01122


Q ss_pred             HHHHHhhccCChHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 005881          521 SVVHLFACRGQTRRAYEFIKSS----PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDP  579 (672)
Q Consensus       521 ~l~~~~~~~g~~~~A~~~~~~~----~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  579 (672)
                      .+...|.+.|++++|...+++.    +..| ....|..+..++...|+.++|...++.+....|
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            4667788889999998888653    3233 345778888888999999999998887776655

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).

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.31  E-value=0.00017  Score=63.49  Aligned_cols=167  Identities=17%  Similarity=0.165  Sum_probs=118.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCCC--CCch-hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhcc
Q 005881          417 GSALVDMYAKCGRLNDARKVFDHLSS--KNLV-SWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHI  493 (672)
Q Consensus       417 ~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  493 (672)
                      +..++-+..-+|+.+.|...++.+..  |+.. .-..-..-+-..|++++|+++++..++.. +.|.+++..=+...-..
T Consensus        55 ~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~  133 (289)
T KOG3060|consen   55 YEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQ  133 (289)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHc
Confidence            34445555567788888887777652  2221 11111223445788999999999998875 55667777767777777


Q ss_pred             CcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc---CCHHHHH
Q 005881          494 GLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTH---KDLVLGR  568 (672)
Q Consensus       494 g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~---g~~~~a~  568 (672)
                      |+.-+|++-+....+.  +..|.+.|.-+.+.|...|++++|.=.++++ -+.| ++..+..+...+...   .+...+.
T Consensus       134 GK~l~aIk~ln~YL~~--F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~ar  211 (289)
T KOG3060|consen  134 GKNLEAIKELNEYLDK--FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLELAR  211 (289)
T ss_pred             CCcHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            8888888888887753  4668899999999999999999998888874 3566 555556666664333   3788899


Q ss_pred             HHHHHHhcCCCCCCchHH
Q 005881          569 YAAEKILSTDPEDTSAHI  586 (672)
Q Consensus       569 ~~~~~~~~~~p~~~~~~~  586 (672)
                      ..|.+++++.|.+...+.
T Consensus       212 kyy~~alkl~~~~~ral~  229 (289)
T KOG3060|consen  212 KYYERALKLNPKNLRALF  229 (289)
T ss_pred             HHHHHHHHhChHhHHHHH
Confidence            999999999996655544

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.30  E-value=9.8e-05  Score=78.39  Aligned_cols=141  Identities=12%  Similarity=0.106  Sum_probs=106.1

Q ss_pred             CCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC--CCCc-hhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHH
Q 005881          410 FDSNVVIGSALVDMYAKCGRLNDARKVFDHLS--SKNL-VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDN-TFIG  485 (672)
Q Consensus       410 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~  485 (672)
                      ...+...+-.|.....+.|+.++|..+++.+.  .|+. ..+..++..+.+.+++++|+..+++....  .|+.. ....
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHHH
Confidence            44556777778888888899999999998887  3443 46677788888999999999999998884  67665 4566


Q ss_pred             HHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC--CCCCCHHHHHHHH
Q 005881          486 VLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS--PIEPNKVVWRCLL  555 (672)
Q Consensus       486 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~  555 (672)
                      +..++.+.|++++|..+|+++..   -.| +...+..+..++...|+.++|...|++.  ...|....|+.++
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~---~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~  229 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSR---QHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHh---cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH
Confidence            66777888999999999998874   234 4688888899999999999998888763  1234444444443

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.26  E-value=0.00012  Score=70.92  Aligned_cols=139  Identities=12%  Similarity=0.115  Sum_probs=77.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHH-HHHHHhhccCcHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHhhc
Q 005881          451 MLVGYAQHGLGREALEIYSMMQENKIKPNDNTFI-GVLSACVHIGLVEEGWHYFNSMIRDHGISPR-MDHIASVVHLFAC  528 (672)
Q Consensus       451 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~-~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~  528 (672)
                      ....+...|++++|+..++.++..  .||...|. .....+.+.++.++|.+.++++.   ...|+ .-....+..+|.+
T Consensus       312 ~A~~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal---~l~P~~~~l~~~~a~all~  386 (484)
T COG4783         312 RALQTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKAL---ALDPNSPLLQLNLAQALLK  386 (484)
T ss_pred             HHHHHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH---hcCCCccHHHHHHHHHHHh
Confidence            334445556666666666666553  34444333 33344556666666666666655   33454 3445555666666


Q ss_pred             cCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHH
Q 005881          529 RGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRK  606 (672)
Q Consensus       529 ~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  606 (672)
                      .|++.+|..+++.. .-.| |+..|..|..+|...|+..++...                 .+..|...|+|++|.....
T Consensus       387 ~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A-----------------~AE~~~~~G~~~~A~~~l~  449 (484)
T COG4783         387 GGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLA-----------------RAEGYALAGRLEQAIIFLM  449 (484)
T ss_pred             cCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHH-----------------HHHHHHhCCCHHHHHHHHH
Confidence            66666666666542 1222 555666666666666665555433                 3344555667777777776


Q ss_pred             HHhhC
Q 005881          607 IMKEK  611 (672)
Q Consensus       607 ~~~~~  611 (672)
                      ..+++
T Consensus       450 ~A~~~  454 (484)
T COG4783         450 RASQQ  454 (484)
T ss_pred             HHHHh
Confidence            66654

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.20  E-value=0.0079  Score=59.25  Aligned_cols=178  Identities=9%  Similarity=0.028  Sum_probs=114.8

Q ss_pred             hhHHHHHHHHHHhCCCCchHHHHHHHHHHHcc---CChHHHHHHHhhCCC----CCcccHHHHHHHHHhcCChhHHHHHH
Q 005881          295 IGGRQLHSLIIKMGFSSFTFVANTVLDFYSKC---ELLEESLKTFDEMDE----HDVVSWNALIAGHLASCHYGEAIELL  367 (672)
Q Consensus       295 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---~~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~A~~~~  367 (672)
                      +++..+++..+..-...+..+|..+.+.--..   ...+.....+++...    .-..+|..++..-.+..-...|..+|
T Consensus       310 ~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF  389 (656)
T KOG1914|consen  310 DEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIF  389 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHH
Confidence            44555555555443333444444443322111   124444444444432    33456777777777777788888888


Q ss_pred             HHHHhCCCCC-ChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCC---
Q 005881          368 KDMLFEGHCP-NLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSK---  443 (672)
Q Consensus       368 ~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---  443 (672)
                      .+..+.+..+ .....++++.-++ .++.+.|..+|+.-.+.- ..++.-....++.+...++-..|+.+|++....   
T Consensus       390 ~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkkf-~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~  467 (656)
T KOG1914|consen  390 KKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKKF-GDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLS  467 (656)
T ss_pred             HHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHhc-CCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCC
Confidence            8888887777 5566666666554 467778888887655542 233444467778888888888899999887643   


Q ss_pred             ---CchhHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 005881          444 ---NLVSWNTMLVGYAQHGLGREALEIYSMMQEN  474 (672)
Q Consensus       444 ---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  474 (672)
                         ....|..++.--..-|+...++++-+++...
T Consensus       468 ~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  468 ADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             hhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence               2347888888888889999888888877653

>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=98.20  E-value=4.8e-05  Score=74.38  Aligned_cols=127  Identities=11%  Similarity=0.110  Sum_probs=105.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCc
Q 005881          416 IGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGL  495 (672)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  495 (672)
                      ...+|+..+...++++.|..+|+++.+.++.....++..+...++-.+|++++++.++.. +-|...+..-...|.+.++
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~  249 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKK  249 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCC
Confidence            345566777778999999999999998777777778888988999999999999999752 3344556666667889999


Q ss_pred             HHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhCCCCC
Q 005881          496 VEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSSPIEP  546 (672)
Q Consensus       496 ~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p  546 (672)
                      ++.|+.+.+++.   ...| +..+|..|+.+|...|++++|+..++.+|..|
T Consensus       250 ~~lAL~iAk~av---~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~~  298 (395)
T PF09295_consen  250 YELALEIAKKAV---ELSPSEFETWYQLAECYIQLGDFENALLALNSCPMLT  298 (395)
T ss_pred             HHHHHHHHHHHH---HhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCCC
Confidence            999999999888   5577 56899999999999999999999999887554

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.19  E-value=0.00057  Score=60.73  Aligned_cols=141  Identities=14%  Similarity=0.070  Sum_probs=73.3

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhc----cCcH
Q 005881          421 VDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVH----IGLV  496 (672)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~g~~  496 (672)
                      ...|+..|++++|.+.......-+....+  +..+.+..+.+-|.+.+++|.+   --+..|.+.|..++.+    .+.+
T Consensus       115 a~i~~~~~~~deAl~~~~~~~~lE~~Al~--VqI~lk~~r~d~A~~~lk~mq~---ided~tLtQLA~awv~la~ggek~  189 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHLGENLEAAALN--VQILLKMHRFDLAEKELKKMQQ---IDEDATLTQLAQAWVKLATGGEKI  189 (299)
T ss_pred             hHHhhcCCChHHHHHHHhccchHHHHHHH--HHHHHHHHHHHHHHHHHHHHHc---cchHHHHHHHHHHHHHHhccchhh
Confidence            34466667777777776663322222222  2334455566666666666665   2344455555554432    2345


Q ss_pred             HHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 005881          497 EEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILS  576 (672)
Q Consensus       497 ~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  576 (672)
                      .+|.-+|++|.++  ..                                |.+.+.+..+..+...|++++|+.+++.++.
T Consensus       190 qdAfyifeE~s~k--~~--------------------------------~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~  235 (299)
T KOG3081|consen  190 QDAFYIFEELSEK--TP--------------------------------PTPLLLNGQAVCHLQLGRYEEAESLLEEALD  235 (299)
T ss_pred             hhHHHHHHHHhcc--cC--------------------------------CChHHHccHHHHHHHhcCHHHHHHHHHHHHh
Confidence            5555555555421  23                                4444444445555555555555555555555


Q ss_pred             CCCCCCchHHHHHHHHHhcCChHH
Q 005881          577 TDPEDTSAHIMLSNVYAEANMWDE  600 (672)
Q Consensus       577 ~~p~~~~~~~~l~~~~~~~g~~~~  600 (672)
                      .+|+++.+..+++-+-...|+-.+
T Consensus       236 kd~~dpetL~Nliv~a~~~Gkd~~  259 (299)
T KOG3081|consen  236 KDAKDPETLANLIVLALHLGKDAE  259 (299)
T ss_pred             ccCCCHHHHHHHHHHHHHhCCChH
Confidence            555555555555555445554433

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.18  E-value=3.4e-06  Score=51.09  Aligned_cols=35  Identities=37%  Similarity=0.615  Sum_probs=32.1

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH
Q 005881          446 VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND  480 (672)
Q Consensus       446 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  480 (672)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||.
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.

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.17  E-value=0.00037  Score=67.52  Aligned_cols=119  Identities=18%  Similarity=0.172  Sum_probs=90.0

Q ss_pred             HhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHh-CCCCCC-HHHHHHHHHHHHhcCCHH
Q 005881          489 ACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEPN-KVVWRCLLSGCKTHKDLV  565 (672)
Q Consensus       489 ~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~-~~~~~~l~~~~~~~g~~~  565 (672)
                      .....|++++|+..++.+..   -.| |+..+....+.+...++.++|.+.+++ +...|+ ...+-.+..++.+.|++.
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~---~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIA---AQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHHHhcccchHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChH
Confidence            34556788888888888773   245 556666777888888888888888876 345675 556677777788888888


Q ss_pred             HHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          566 LGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       566 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +|+..++....-+|+++..|..|+.+|...|+..+|...+-+...
T Consensus       392 eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~  436 (484)
T COG4783         392 EAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYA  436 (484)
T ss_pred             HHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHH
Confidence            888888888888888888888888888888888888877766543

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.13  E-value=4.1e-06  Score=50.71  Aligned_cols=35  Identities=31%  Similarity=0.570  Sum_probs=29.3

Q ss_pred             chHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCc
Q 005881           42 ISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNY   76 (672)
Q Consensus        42 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~   76 (672)
                      .+||++|.+|++.|++++|.++|++|.+.|++||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            36888888888888888888888888888888873

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.

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.12  E-value=6.4e-05  Score=62.95  Aligned_cols=113  Identities=7%  Similarity=0.026  Sum_probs=85.5

Q ss_pred             HHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-C
Q 005881          467 IYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-P  543 (672)
Q Consensus       467 ~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~  543 (672)
                      .|++...  ..|+. .....+...+...|++++|.+.|+.+..   ..| +...+..+...+...|++++|.+.+++. .
T Consensus         5 ~~~~~l~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~---~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~   79 (135)
T TIGR02552         5 TLKDLLG--LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAA---YDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAA   79 (135)
T ss_pred             hHHHHHc--CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4555555  35544 3456677777888899999998888763   234 6678888888888899999999888763 3


Q ss_pred             CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCch
Q 005881          544 IEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSA  584 (672)
Q Consensus       544 ~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  584 (672)
                      ..| +...+..+...+...|+.+.|...++++++++|++...
T Consensus        80 ~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~  121 (135)
T TIGR02552        80 LDPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPEY  121 (135)
T ss_pred             cCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchH
Confidence            445 56677777788889999999999999999999977653

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.12  E-value=0.00042  Score=74.46  Aligned_cols=215  Identities=15%  Similarity=0.129  Sum_probs=141.5

Q ss_pred             CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHH-HHcCcCchHHHHHHHHHHHhcCCCCcccHHHHH
Q 005881          342 HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILN-ISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSAL  420 (672)
Q Consensus       342 ~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  420 (672)
                      .+...|..|+..+...+++++|.++.+...+.  .|+...+-.+.. .+.+.++...+..+                 .+
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~   89 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL-----------------NL   89 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh-----------------hh
Confidence            45567888999999999999999999977655  666554433322 34444444433332                 22


Q ss_pred             HHHHHhcCCHHHHHHHHhhCC--CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHH
Q 005881          421 VDMYAKCGRLNDARKVFDHLS--SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEE  498 (672)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~  498 (672)
                      ++......++.-...+...+.  ..+-..+..+..+|-+.|+.++|..+|+++++.. +-|....+.+...++.. ++++
T Consensus        90 l~~~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~K  167 (906)
T PRK14720         90 IDSFSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEK  167 (906)
T ss_pred             hhhcccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHH
Confidence            233333333322222222332  1223366778888999999999999999999854 33445788888888888 9999


Q ss_pred             HHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC----------------------CCCCCHHHHHHHHH
Q 005881          499 GWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS----------------------PIEPNKVVWRCLLS  556 (672)
Q Consensus       499 a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~----------------------~~~p~~~~~~~l~~  556 (672)
                      |.+++.+.+..                |...+++.++.+++.++                      +..--..++--+..
T Consensus       168 A~~m~~KAV~~----------------~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~  231 (906)
T PRK14720        168 AITYLKKAIYR----------------FIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYE  231 (906)
T ss_pred             HHHHHHHHHHH----------------HHhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHH
Confidence            99988877643                23333444444443332                      22223334445556


Q ss_pred             HHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHH
Q 005881          557 GCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYA  593 (672)
Q Consensus       557 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  593 (672)
                      -|...++++++..+++.+++.+|.|..+..-++.+|.
T Consensus       232 ~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        232 PYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence            6788899999999999999999999999999988877

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.10  E-value=0.021  Score=60.02  Aligned_cols=66  Identities=17%  Similarity=0.276  Sum_probs=55.7

Q ss_pred             HHHHHHHHHhcCCH---HHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCCccC
Q 005881          551 WRCLLSGCKTHKDL---VLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKD  616 (672)
Q Consensus       551 ~~~l~~~~~~~g~~---~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  616 (672)
                      -+.++..|++.+|.   -+|+-+++..+..+|.|+..-..++.+|.-.|-+..|.++++.+.-+.|..+
T Consensus       439 v~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~D  507 (932)
T KOG2053|consen  439 VNHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTD  507 (932)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhc
Confidence            46677888888764   5677888899999999999999999999999999999999998876666444

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=98.09  E-value=8.2e-06  Score=58.77  Aligned_cols=64  Identities=19%  Similarity=0.131  Sum_probs=59.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcC-ChHHHHHHHHHHhh
Q 005881          547 NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEAN-MWDETAKVRKIMKE  610 (672)
Q Consensus       547 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~  610 (672)
                      ++..|..+...+...|++++|+..|+++++++|+++.++..++.+|...| ++++|.+.+++..+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            46678888899999999999999999999999999999999999999999 79999999998765

...

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.08  E-value=5.4e-06  Score=49.70  Aligned_cols=33  Identities=27%  Similarity=0.448  Sum_probs=25.8

Q ss_pred             chHHHHHHHHHcCCCchhHHHHHHHhHhCCCCC
Q 005881           42 ISWSALISGFSQIGMPEVALNYFRLMVCCVLEP   74 (672)
Q Consensus        42 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p   74 (672)
                      .+||.+|.+|++.|+++.|.++|++|.+.|++|
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            577788888888888888888888887777776

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=98.08  E-value=0.0075  Score=56.86  Aligned_cols=243  Identities=15%  Similarity=0.101  Sum_probs=155.6

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHH
Q 005881          356 ASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARK  435 (672)
Q Consensus       356 ~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  435 (672)
                      -.|+++.|.+-|+.|... ...-...+..+.-...+.|+.+.|+++-+..-+.-.. -.....+.+...|..|+++.|++
T Consensus       132 ~eG~~~~Ar~kfeAMl~d-PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~-l~WA~~AtLe~r~~~gdWd~Alk  209 (531)
T COG3898         132 LEGDYEDARKKFEAMLDD-PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQ-LPWAARATLEARCAAGDWDGALK  209 (531)
T ss_pred             hcCchHHHHHHHHHHhcC-hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccC-CchHHHHHHHHHHhcCChHHHHH
Confidence            357777777777777642 0011112233333344667777777666655543321 23455677788888888888888


Q ss_pred             HHhhCC-----CCCch--hHHHHHHHHH---hcCChHHHHHHHHHHHHCCCCCCHHH-HHHHHHHhhccCcHHHHHHHHH
Q 005881          436 VFDHLS-----SKNLV--SWNTMLVGYA---QHGLGREALEIYSMMQENKIKPNDNT-FIGVLSACVHIGLVEEGWHYFN  504 (672)
Q Consensus       436 ~~~~~~-----~~~~~--~~~~li~~~~---~~g~~~~A~~~~~~m~~~g~~p~~~~-~~~ll~~~~~~g~~~~a~~~~~  504 (672)
                      +++.-.     ++++.  .--.|+.+-+   -..+...|...-.+..+  +.||-+. -.....++.+.|+..++-.+++
T Consensus       210 Lvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE  287 (531)
T COG3898         210 LVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILE  287 (531)
T ss_pred             HHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHH
Confidence            887654     34432  1122222211   12356666666666555  6788753 4455677899999999999999


Q ss_pred             HhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHh---C-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 005881          505 SMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS---S-PIEPN-KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDP  579 (672)
Q Consensus       505 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~---~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  579 (672)
                      .+.   ...|.++.+...  .+.+.|+  .+++-+++   + .++|| ..+...+..+....|++..|....+.+....|
T Consensus       288 ~aW---K~ePHP~ia~lY--~~ar~gd--ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~p  360 (531)
T COG3898         288 TAW---KAEPHPDIALLY--VRARSGD--TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAP  360 (531)
T ss_pred             HHH---hcCCChHHHHHH--HHhcCCC--cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCc
Confidence            888   446666554322  2234444  34444332   1 34664 44666777888899999999999999999999


Q ss_pred             CCCchHHHHHHHHHhc-CChHHHHHHHHHHhh
Q 005881          580 EDTSAHIMLSNVYAEA-NMWDETAKVRKIMKE  610 (672)
Q Consensus       580 ~~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~  610 (672)
                       ..++|..|+++-... |+-.++...+-+...
T Consensus       361 -res~~lLlAdIeeAetGDqg~vR~wlAqav~  391 (531)
T COG3898         361 -RESAYLLLADIEEAETGDQGKVRQWLAQAVK  391 (531)
T ss_pred             -hhhHHHHHHHHHhhccCchHHHHHHHHHHhc
Confidence             678899999997665 999999888876653

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.08  E-value=0.022  Score=59.74  Aligned_cols=217  Identities=13%  Similarity=0.087  Sum_probs=99.4

Q ss_pred             HcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHH--hcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHH
Q 005881           52 SQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSAC--ASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSS  129 (672)
Q Consensus        52 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  129 (672)
                      ...+++.+|+....++.+.  .||.. |..++.++  .+.|..++|..+++.....+.. |..+...+-..|.+.++.++
T Consensus        20 ld~~qfkkal~~~~kllkk--~Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKK--HPNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHH--CCCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhH
Confidence            3445566666666665543  24433 44444443  3566666666666655554433 55566666666666666666


Q ss_pred             HHHHhhccCCC--CcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhcc-CC---------hHHHH
Q 005881          130 AQFVFDASLER--NSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVL-GN---------LKVGM  197 (672)
Q Consensus       130 a~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~-~~---------~~~a~  197 (672)
                      |..+++.....  +......+..+|++.+.+.+-.+.--+|-+. ..-+...|-++++..... ..         +.-|.
T Consensus        96 ~~~~Ye~~~~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~  174 (932)
T KOG2053|consen   96 AVHLYERANQKYPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAE  174 (932)
T ss_pred             HHHHHHHHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHH
Confidence            66666665443  2222333444555555444332222222221 122233333333322111 00         11233


Q ss_pred             HHHHHHHHhc-CCCcHHHHHHHHHHhhcCCChhHHHHHHhc-----CCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHH
Q 005881          198 QIHSLVFKCA-LEFDKFVAMGLINLYAKCEKLDLASRVFSN-----IQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFS  271 (672)
Q Consensus       198 ~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~-----~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  271 (672)
                      ...+.+++.+ ..-+..-...-...+...|+.++|..++..     ...-+...-+.-+..+...+++.+..++-.++..
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            3333333332 111111111122333445666666666522     1122223333445556666666666666666666


Q ss_pred             CC
Q 005881          272 SG  273 (672)
Q Consensus       272 ~~  273 (672)
                      .|
T Consensus       255 k~  256 (932)
T KOG2053|consen  255 KG  256 (932)
T ss_pred             hC
Confidence            54

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.06  E-value=8.2e-06  Score=48.91  Aligned_cols=33  Identities=30%  Similarity=0.546  Sum_probs=29.3

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC
Q 005881          446 VSWNTMLVGYAQHGLGREALEIYSMMQENKIKP  478 (672)
Q Consensus       446 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  478 (672)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            578999999999999999999999999988887

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.05  E-value=0.00022  Score=60.32  Aligned_cols=85  Identities=12%  Similarity=0.081  Sum_probs=41.0

Q ss_pred             HHHHhhccCChHHHHHHHHhCC-CCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcC
Q 005881          522 VVHLFACRGQTRRAYEFIKSSP-IEPNK----VVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEAN  596 (672)
Q Consensus       522 l~~~~~~~g~~~~A~~~~~~~~-~~p~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  596 (672)
                      +...+...|++++|.+.|+... ..|++    .....+...+...|++++|+..++.. .-.+-.+..+..++++|.+.|
T Consensus        54 lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~-~~~~~~~~~~~~~Gdi~~~~g  132 (145)
T PF09976_consen   54 LAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQI-PDEAFKALAAELLGDIYLAQG  132 (145)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhc-cCcchHHHHHHHHHHHHHHCC
Confidence            3344444555555555544321 11221    12233344455556666666655442 222223445556666666666


Q ss_pred             ChHHHHHHHHH
Q 005881          597 MWDETAKVRKI  607 (672)
Q Consensus       597 ~~~~a~~~~~~  607 (672)
                      ++++|...|+.
T Consensus       133 ~~~~A~~~y~~  143 (145)
T PF09976_consen  133 DYDEARAAYQK  143 (145)
T ss_pred             CHHHHHHHHHH
Confidence            66666666654

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.01  E-value=0.00039  Score=58.80  Aligned_cols=124  Identities=16%  Similarity=0.127  Sum_probs=84.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc--hHHHHH
Q 005881          448 WNTMLVGYAQHGLGREALEIYSMMQENKIKPND----NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR--MDHIAS  521 (672)
Q Consensus       448 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~  521 (672)
                      |..++..+ ..++...+...++.+....  |+.    .....+...+...|++++|...|+.+... ...|.  ......
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~   90 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDY--PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHH
Confidence            44445544 4777888888888888753  333    23344556677888888888888888743 22222  124445


Q ss_pred             HHHHhhccCChHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 005881          522 VVHLFACRGQTRRAYEFIKSSPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKIL  575 (672)
Q Consensus       522 l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  575 (672)
                      |..++...|++++|+..++..+..+ .+..+......+...|+.++|+..|++++
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al  145 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKAL  145 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence            7778888899999988887754332 44455666677888999999999988764

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.00  E-value=0.0015  Score=58.23  Aligned_cols=141  Identities=13%  Similarity=0.123  Sum_probs=96.5

Q ss_pred             HHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCC-CchhHHHHHHHHHh----cC
Q 005881          385 ILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSK-NLVSWNTMLVGYAQ----HG  459 (672)
Q Consensus       385 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~----~g  459 (672)
                      -...|...++++.|.+......      +....-.=+..+.+..+++.|...++.|.+- +-.+.+.|..++.+    .+
T Consensus       114 aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la~gge  187 (299)
T KOG3081|consen  114 AAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLATGGE  187 (299)
T ss_pred             hhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhccch
Confidence            3345666777777766654411      1122222344566788899999999999864 44577777777654    34


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHH
Q 005881          460 LGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRR  534 (672)
Q Consensus       460 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  534 (672)
                      ...+|.-+|++|-++ .+|+..+.+....++...|++++|..+++....+.  ..++++...++-+-...|...+
T Consensus       188 k~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd--~~dpetL~Nliv~a~~~Gkd~~  259 (299)
T KOG3081|consen  188 KIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD--AKDPETLANLIVLALHLGKDAE  259 (299)
T ss_pred             hhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCCChH
Confidence            688999999999886 68999999999999999999999999999887542  2245555555555444554433

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.99  E-value=2e-05  Score=55.92  Aligned_cols=59  Identities=20%  Similarity=0.208  Sum_probs=52.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          554 LLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       554 l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                      +...+...|++++|+..++++++..|+++.++..++.++...|++++|...++++.+..
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            45567889999999999999999999999999999999999999999999999887643

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.98  E-value=6.6e-05  Score=67.95  Aligned_cols=92  Identities=18%  Similarity=0.266  Sum_probs=49.1

Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHhhccCCh
Q 005881          455 YAQHGLGREALEIYSMMQENKIKP-NDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR-MDHIASVVHLFACRGQT  532 (672)
Q Consensus       455 ~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~  532 (672)
                      +.+.+++.+|+..|.+.++  +.| |.+-|..-..+|++.|.++.|++-.+..+   .+.|. ...|..|..+|...|++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al---~iDp~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESAL---SIDPHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHH---hcChHHHHHHHHHHHHHHccCcH
Confidence            4555666666666666666  333 33445555666666666666666555444   33442 34555555555555555


Q ss_pred             HHHHHHHHh-CCCCCCHHHH
Q 005881          533 RRAYEFIKS-SPIEPNKVVW  551 (672)
Q Consensus       533 ~~A~~~~~~-~~~~p~~~~~  551 (672)
                      ++|.+.|++ +.+.|+..+|
T Consensus       166 ~~A~~aykKaLeldP~Ne~~  185 (304)
T KOG0553|consen  166 EEAIEAYKKALELDPDNESY  185 (304)
T ss_pred             HHHHHHHHhhhccCCCcHHH
Confidence            555555443 3444544444

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.93  E-value=0.00056  Score=73.55  Aligned_cols=209  Identities=11%  Similarity=0.061  Sum_probs=147.9

Q ss_pred             CCCC-ChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHH
Q 005881          374 GHCP-NLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTML  452 (672)
Q Consensus       374 g~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li  452 (672)
                      .+.| +...+..++..+...++++++.++.+...+... .....|-.+...+.+.++.+++..+             .++
T Consensus        25 ~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P-~~i~~yy~~G~l~~q~~~~~~~~lv-------------~~l   90 (906)
T PRK14720         25 NYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHK-KSISALYISGILSLSRRPLNDSNLL-------------NLI   90 (906)
T ss_pred             cCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC-cceehHHHHHHHHHhhcchhhhhhh-------------hhh
Confidence            4445 445677788888888888888888886655432 2333333333356666665555443             234


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCC
Q 005881          453 VGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQ  531 (672)
Q Consensus       453 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~  531 (672)
                      .......++..+..+...|.+  ..-+...+..+..+|-+.|+.++|..+++++.+   ..| ++...+.++..|... +
T Consensus        91 ~~~~~~~~~~~ve~~~~~i~~--~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~---~D~~n~~aLNn~AY~~ae~-d  164 (906)
T PRK14720         91 DSFSQNLKWAIVEHICDKILL--YGENKLALRTLAEAYAKLNENKKLKGVWERLVK---ADRDNPEIVKKLATSYEEE-D  164 (906)
T ss_pred             hhcccccchhHHHHHHHHHHh--hhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCcccHHHHHHHHHHHHHh-h
Confidence            444445555444555555655  334445788899999999999999999999983   346 789999999999999 9


Q ss_pred             hHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCch--------------------HHHHHHH
Q 005881          532 TRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSA--------------------HIMLSNV  591 (672)
Q Consensus       532 ~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~--------------------~~~l~~~  591 (672)
                      +++|.+++.+.            +..+...+++..+..+++++++.+|++...                    +..+-..
T Consensus       165 L~KA~~m~~KA------------V~~~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~  232 (906)
T PRK14720        165 KEKAITYLKKA------------IYRFIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEP  232 (906)
T ss_pred             HHHHHHHHHHH------------HHHHHhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHH
Confidence            99999998763            223555668888888888888888876544                    2233466


Q ss_pred             HHhcCChHHHHHHHHHHhhCCCc
Q 005881          592 YAEANMWDETAKVRKIMKEKSLK  614 (672)
Q Consensus       592 ~~~~g~~~~a~~~~~~~~~~~~~  614 (672)
                      |.+.++|+++.++++.+.+...+
T Consensus       233 y~~~~~~~~~i~iLK~iL~~~~~  255 (906)
T PRK14720        233 YKALEDWDEVIYILKKILEHDNK  255 (906)
T ss_pred             HhhhhhhhHHHHHHHHHHhcCCc
Confidence            78888999999999999876554

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.93  E-value=0.0012  Score=58.20  Aligned_cols=162  Identities=12%  Similarity=0.167  Sum_probs=124.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH-HHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHH
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGV-LSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVH  524 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l-l~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~  524 (672)
                      .|..++-+....|+.+.|...++++... + |.+.-...+ ..-+-..|++++|.++++.+.++   .| |..++..=+.
T Consensus        54 l~EqV~IAAld~~~~~lAq~C~~~L~~~-f-p~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~d---dpt~~v~~KRKlA  128 (289)
T KOG3060|consen   54 LYEQVFIAALDTGRDDLAQKCINQLRDR-F-PGSKRVGKLKAMLLEATGNYKEAIEYYESLLED---DPTDTVIRKRKLA  128 (289)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHh-C-CCChhHHHHHHHHHHHhhchhhHHHHHHHHhcc---CcchhHHHHHHHH
Confidence            4555666777889999999999999886 3 555322222 11234568999999999999854   35 5566777777


Q ss_pred             HhhccCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcC---ChH
Q 005881          525 LFACRGQTRRAYEFIKSS-P-IEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEAN---MWD  599 (672)
Q Consensus       525 ~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g---~~~  599 (672)
                      ++...|+.-+|++-+... . +-.|...|.-+...|...|+++.|.-.+++++=+.|.++-.+..+++++...|   +.+
T Consensus       129 ilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~  208 (289)
T KOG3060|consen  129 ILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLE  208 (289)
T ss_pred             HHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHH
Confidence            777788877887766442 1 33588999999999999999999999999999999999999999999987776   456


Q ss_pred             HHHHHHHHHhhCCC
Q 005881          600 ETAKVRKIMKEKSL  613 (672)
Q Consensus       600 ~a~~~~~~~~~~~~  613 (672)
                      -|.+.+.+..+-..
T Consensus       209 ~arkyy~~alkl~~  222 (289)
T KOG3060|consen  209 LARKYYERALKLNP  222 (289)
T ss_pred             HHHHHHHHHHHhCh
Confidence            67777877766444

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.92  E-value=1.4e-05  Score=60.17  Aligned_cols=59  Identities=15%  Similarity=0.142  Sum_probs=38.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHH
Q 005881          548 KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKI  607 (672)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  607 (672)
                      ...|..+...+.+.|++++|..++++ .+.+|.+......++.+|.+.|++++|++++++
T Consensus        25 ~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~l~~   83 (84)
T PF12895_consen   25 SAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKALEK   83 (84)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHHHhc
Confidence            33444456666666777777777766 666666666666667777777777777777664

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.90  E-value=0.00015  Score=59.05  Aligned_cols=93  Identities=11%  Similarity=0.018  Sum_probs=52.3

Q ss_pred             HHHHHHHhhccCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC---CchHHHHHH
Q 005881          519 IASVVHLFACRGQTRRAYEFIKSS-PIEPN----KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPED---TSAHIMLSN  590 (672)
Q Consensus       519 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~  590 (672)
                      +..++..+.+.|++++|.+.++++ ...|+    ...+..+...+...|+++.|...+++++...|++   +.++..++.
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            334444455555555555555432 11222    2234445555666666666766666666666653   345666666


Q ss_pred             HHHhcCChHHHHHHHHHHhhC
Q 005881          591 VYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       591 ~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      ++.+.|++++|.+.++.+.+.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHH
Confidence            666777777777766666543

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.90  E-value=0.00021  Score=70.49  Aligned_cols=102  Identities=13%  Similarity=0.103  Sum_probs=62.3

Q ss_pred             HHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCC
Q 005881          487 LSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKD  563 (672)
Q Consensus       487 l~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~  563 (672)
                      ...+...|++++|+..|+++++   ..| +...|..+..+|.+.|++++|+..+++. .+.| +...|..+..+|...|+
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~---~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAID---LDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCC
Confidence            3445566777777777776662   344 4456666666666667777776666542 3344 34455556666666677


Q ss_pred             HHHHHHHHHHHhcCCCCCCchHHHHHHH
Q 005881          564 LVLGRYAAEKILSTDPEDTSAHIMLSNV  591 (672)
Q Consensus       564 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~  591 (672)
                      +++|+..++++++++|+++.....+..+
T Consensus        86 ~~eA~~~~~~al~l~P~~~~~~~~l~~~  113 (356)
T PLN03088         86 YQTAKAALEKGASLAPGDSRFTKLIKEC  113 (356)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            7777777777777766666555554443

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.89  E-value=9.6e-05  Score=66.95  Aligned_cols=98  Identities=16%  Similarity=0.113  Sum_probs=78.1

Q ss_pred             HHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHh-CCCCCCHH-HHHHHHHHHHhcCCH
Q 005881          488 SACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEPNKV-VWRCLLSGCKTHKDL  564 (672)
Q Consensus       488 ~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~~~-~~~~l~~~~~~~g~~  564 (672)
                      .-+.+.+++.+|+..|...+   .+.| |...|..-..+|.+.|.++.|++--+. +.+.|... +|..|..+|...|++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI---~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAI---ELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHH---hcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcH
Confidence            35677889999999999887   6677 556677778889999999999876654 56777544 888888899999999


Q ss_pred             HHHHHHHHHHhcCCCCCCchHHHH
Q 005881          565 VLGRYAAEKILSTDPEDTSAHIML  588 (672)
Q Consensus       565 ~~a~~~~~~~~~~~p~~~~~~~~l  588 (672)
                      ++|++.|+++++++|++......|
T Consensus       166 ~~A~~aykKaLeldP~Ne~~K~nL  189 (304)
T KOG0553|consen  166 EEAIEAYKKALELDPDNESYKSNL  189 (304)
T ss_pred             HHHHHHHHhhhccCCCcHHHHHHH
Confidence            999999999999999887544444

>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=97.88  E-value=0.00012  Score=56.74  Aligned_cols=92  Identities=18%  Similarity=0.232  Sum_probs=71.4

Q ss_pred             HHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcC
Q 005881          519 IASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEAN  596 (672)
Q Consensus       519 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  596 (672)
                      +..++..+...|++++|.+.+++. ...| +...+..+...+...|+++.|...++++++..|.+...+..++.++...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            445666677778888888777653 3344 33566667777788899999999999999998888888889999999999


Q ss_pred             ChHHHHHHHHHHhh
Q 005881          597 MWDETAKVRKIMKE  610 (672)
Q Consensus       597 ~~~~a~~~~~~~~~  610 (672)
                      ++++|.+.++...+
T Consensus        83 ~~~~a~~~~~~~~~   96 (100)
T cd00189          83 KYEEALEAYEKALE   96 (100)
T ss_pred             hHHHHHHHHHHHHc
Confidence            99999998887754

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.83  E-value=0.00026  Score=57.68  Aligned_cols=103  Identities=10%  Similarity=0.062  Sum_probs=58.2

Q ss_pred             HHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCCC----HHHHHHHHHH
Q 005881          484 IGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEPN----KVVWRCLLSG  557 (672)
Q Consensus       484 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~  557 (672)
                      ..+...+...|++++|...|+.+.....-.| ....+..++.++.+.|++++|.+.++.. ...|+    ..++..+...
T Consensus         6 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~   85 (119)
T TIGR02795         6 YDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMS   85 (119)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHH
Confidence            3344444555555555555555543221111 1234444555556666666666555542 11222    3456666677


Q ss_pred             HHhcCCHHHHHHHHHHHhcCCCCCCchHH
Q 005881          558 CKTHKDLVLGRYAAEKILSTDPEDTSAHI  586 (672)
Q Consensus       558 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  586 (672)
                      +...|+.+.|...++++++..|+++....
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  114 (119)
T TIGR02795        86 LQELGDKEKAKATLQQVIKRYPGSSAAKL  114 (119)
T ss_pred             HHHhCChHHHHHHHHHHHHHCcCChhHHH
Confidence            77888888888888888888887655443

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.

>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=97.82  E-value=5.7e-05  Score=54.13  Aligned_cols=52  Identities=19%  Similarity=0.328  Sum_probs=47.1

Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          559 KTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       559 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ...|++++|...++++++.+|+++.++..++.+|.+.|++++|.++++++..
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4679999999999999999999999999999999999999999999997765

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.81  E-value=0.00073  Score=61.82  Aligned_cols=102  Identities=14%  Similarity=0.123  Sum_probs=84.9

Q ss_pred             CC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHh---cCCHHHHHHHHHHHhcCCCCCCchHH
Q 005881          513 SP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKT---HKDLVLGRYAAEKILSTDPEDTSAHI  586 (672)
Q Consensus       513 ~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~p~~~~~~~  586 (672)
                      .| |.+.|..|...|.+.|++..|..-|.+. .+.| ++..+..+..++..   ..+..++..+++++++++|.|..+..
T Consensus       152 nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~  231 (287)
T COG4235         152 NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALS  231 (287)
T ss_pred             CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHH
Confidence            45 7899999999999999999999988753 3444 55666666666332   34678999999999999999999999


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhCCCc
Q 005881          587 MLSNVYAEANMWDETAKVRKIMKEKSLK  614 (672)
Q Consensus       587 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~  614 (672)
                      .|+..+...|++.+|...|+.|.+....
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~lp~  259 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLLPA  259 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCCC
Confidence            9999999999999999999999876553

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.79  E-value=0.0008  Score=63.63  Aligned_cols=161  Identities=13%  Similarity=0.031  Sum_probs=114.9

Q ss_pred             hhHHHH-HHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHH---
Q 005881          446 VSWNTM-LVGYAQHGLGREALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIA---  520 (672)
Q Consensus       446 ~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~---  520 (672)
                      .+|..+ ..++...|++++|.+.--..++.  .++. .....-..++...++.+.|...|++.+   .+.|+.....   
T Consensus       169 ~~a~~lka~cl~~~~~~~~a~~ea~~ilkl--d~~n~~al~vrg~~~yy~~~~~ka~~hf~qal---~ldpdh~~sk~~~  243 (486)
T KOG0550|consen  169 FKAKLLKAECLAFLGDYDEAQSEAIDILKL--DATNAEALYVRGLCLYYNDNADKAINHFQQAL---RLDPDHQKSKSAS  243 (486)
T ss_pred             hHHHHhhhhhhhhcccchhHHHHHHHHHhc--ccchhHHHHhcccccccccchHHHHHHHhhhh---ccChhhhhHHhHh
Confidence            445444 34566788888888887777663  2322 222222334456678888998888766   4455432211   


Q ss_pred             ----------HHHHHhhccCChHHHHHHHHh-CCCCC-----CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCch
Q 005881          521 ----------SVVHLFACRGQTRRAYEFIKS-SPIEP-----NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSA  584 (672)
Q Consensus       521 ----------~l~~~~~~~g~~~~A~~~~~~-~~~~p-----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  584 (672)
                                .=..-..+.|++.+|.+.+.+ +.+.|     +...|........+.|+.++|+.-.+.+++++|.-..+
T Consensus       244 ~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syika  323 (486)
T KOG0550|consen  244 MMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKA  323 (486)
T ss_pred             hhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHH
Confidence                      123345688999999999875 55555     45556666666788999999999999999999999999


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          585 HIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       585 ~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      +...++++...++|++|.+-+++..+.
T Consensus       324 ll~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  324 LLRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            999999999999999999999876543

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.78  E-value=0.0003  Score=69.31  Aligned_cols=103  Identities=14%  Similarity=0.132  Sum_probs=82.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhc
Q 005881          451 MLVGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFAC  528 (672)
Q Consensus       451 li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~  528 (672)
                      ....+...|++++|++.|+++++.  .|+ ...|..+..++...|++++|+..+++++   .+.| +...|..++.+|..
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al---~l~P~~~~a~~~lg~~~~~   82 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAI---ELDPSLAKAYLRKGTACMK   82 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH---HhCcCCHHHHHHHHHHHHH
Confidence            345667889999999999999985  454 4678888889999999999999999988   4456 56788899999999


Q ss_pred             cCChHHHHHHHHh-CCCCCCHHHHHHHHHHH
Q 005881          529 RGQTRRAYEFIKS-SPIEPNKVVWRCLLSGC  558 (672)
Q Consensus       529 ~g~~~~A~~~~~~-~~~~p~~~~~~~l~~~~  558 (672)
                      .|++++|...|++ +.+.|+.......+..|
T Consensus        83 lg~~~eA~~~~~~al~l~P~~~~~~~~l~~~  113 (356)
T PLN03088         83 LEEYQTAKAALEKGASLAPGDSRFTKLIKEC  113 (356)
T ss_pred             hCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            9999999999986 45667655554444433

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.77  E-value=3.5e-05  Score=44.92  Aligned_cols=31  Identities=39%  Similarity=0.722  Sum_probs=25.8

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 005881          446 VSWNTMLVGYAQHGLGREALEIYSMMQENKI  476 (672)
Q Consensus       446 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  476 (672)
                      ++|++++.+|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4788888888888888888888888888764

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.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.74  E-value=0.0014  Score=67.54  Aligned_cols=63  Identities=11%  Similarity=-0.005  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          548 KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      +..+..+.......|++++|...++++++++| +...|..++.+|...|+.++|.+.+++....
T Consensus       420 ~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        420 PRIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            34444444444455666666666666666666 3556666666666666666666666655443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.74  E-value=0.00037  Score=60.99  Aligned_cols=81  Identities=11%  Similarity=-0.002  Sum_probs=59.5

Q ss_pred             HHHHHHHHHhhccCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHH
Q 005881          517 DHIASVVHLFACRGQTRRAYEFIKSS-PIEPN----KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNV  591 (672)
Q Consensus       517 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  591 (672)
                      ..+..++..+...|++++|...+++. ...|+    ...+..+...+...|+++.|...++++++..|++...+..++.+
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~  115 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            34555666666666666666666542 11221    34677777788889999999999999999999888888888999


Q ss_pred             HHhcCC
Q 005881          592 YAEANM  597 (672)
Q Consensus       592 ~~~~g~  597 (672)
                      |...|+
T Consensus       116 ~~~~g~  121 (172)
T PRK02603        116 YHKRGE  121 (172)
T ss_pred             HHHcCC
Confidence            888776

>PRK15331 chaperone protein SicA; Provisional

Probab=97.73  E-value=0.001  Score=55.35  Aligned_cols=100  Identities=14%  Similarity=0.075  Sum_probs=80.6

Q ss_pred             CCCCc-hHHHHHHHHHhhccCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHH
Q 005881          511 GISPR-MDHIASVVHLFACRGQTRRAYEFIKSSP-IEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIM  587 (672)
Q Consensus       511 ~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  587 (672)
                      |+.++ .+..-....-+-..|++++|..+|.-+. ..| +..-|..|...|...++++.|...|..+..++++||.....
T Consensus        31 gis~~~le~iY~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~  110 (165)
T PRK15331         31 GIPQDMMDGLYAHAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFF  110 (165)
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccch
Confidence            44443 2333344555667899999999987642 233 56677888888889999999999999999999999999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhh
Q 005881          588 LSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       588 l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      .+.+|...|+.+.|...|....+
T Consensus       111 agqC~l~l~~~~~A~~~f~~a~~  133 (165)
T PRK15331        111 TGQCQLLMRKAAKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHh
Confidence            99999999999999999998765

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.73  E-value=0.052  Score=52.61  Aligned_cols=189  Identities=12%  Similarity=0.087  Sum_probs=113.8

Q ss_pred             cHHHHHHHHHHhcCCHHHHHHHHhhCC--CCCch-------hHHHHHHHHH----hcCChHHHHHHHHHHHHCCCCCCHH
Q 005881          415 VIGSALVDMYAKCGRLNDARKVFDHLS--SKNLV-------SWNTMLVGYA----QHGLGREALEIYSMMQENKIKPNDN  481 (672)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~-------~~~~li~~~~----~~g~~~~A~~~~~~m~~~g~~p~~~  481 (672)
                      ..+..++....+.++-..|...+.-+.  .|+..       +-..+-+..+    ..-+..+-+.+|+......  .|..
T Consensus       299 ~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ldp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~D--iDrq  376 (549)
T PF07079_consen  299 DRFGNLLSFKVKQVQTEEAKQYLALLKILDPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYD--IDRQ  376 (549)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhc--ccHH
Confidence            345556666667777777777666554  23222       1111122222    1123344566677766643  3432


Q ss_pred             -HHHHHH---HHhhccCc-HHHHHHHHHHhHHhhCCCC-chHHHHHHHH----Hhhc---cCChHH---HHHHHHhCCCC
Q 005881          482 -TFIGVL---SACVHIGL-VEEGWHYFNSMIRDHGISP-RMDHIASVVH----LFAC---RGQTRR---AYEFIKSSPIE  545 (672)
Q Consensus       482 -~~~~ll---~~~~~~g~-~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~----~~~~---~g~~~~---A~~~~~~~~~~  545 (672)
                       ....|+   .-+.+.|. -++|+++++.+.   .+.| |.+.-+.+..    .|..   ...+.+   -..++++.++.
T Consensus       377 QLvh~L~~~Ak~lW~~g~~dekalnLLk~il---~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~  453 (549)
T PF07079_consen  377 QLVHYLVFGAKHLWEIGQCDEKALNLLKLIL---QFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLT  453 (549)
T ss_pred             HHHHHHHHHHHHHHhcCCccHHHHHHHHHHH---HhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCC
Confidence             112222   23455565 788999998776   3455 4433332222    1211   112222   23334566665


Q ss_pred             C----CHHHHHHHHHH--HHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          546 P----NKVVWRCLLSG--CKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       546 p----~~~~~~~l~~~--~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      |    +...-+.|.++  ...+|++.++.-...=+.++.| .+.+|..++-++....++++|...+..++
T Consensus       454 ~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~LP  522 (549)
T PF07079_consen  454 PITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKLP  522 (549)
T ss_pred             cccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhCC
Confidence            5    44455677777  5789999999998888899999 99999999999999999999999999764

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.71  E-value=4.5e-05  Score=44.44  Aligned_cols=30  Identities=33%  Similarity=0.491  Sum_probs=20.6

Q ss_pred             chHHHHHHHHHcCCCchhHHHHHHHhHhCC
Q 005881           42 ISWSALISGFSQIGMPEVALNYFRLMVCCV   71 (672)
Q Consensus        42 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~   71 (672)
                      ++||.+|++|++.|++++|.++|++|.+.|
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            356777777777777777777777776655

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.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.71  E-value=0.00013  Score=53.17  Aligned_cols=59  Identities=15%  Similarity=0.090  Sum_probs=53.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCC
Q 005881          555 LSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       555 ~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  613 (672)
                      ...+.+.++++.|..+++++++++|+++..+..++.+|.+.|++++|.+.++...+.+.
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p   60 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSP   60 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCC
Confidence            35678899999999999999999999999999999999999999999999999876433

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.70  E-value=2.9e-05  Score=45.96  Aligned_cols=33  Identities=21%  Similarity=0.377  Sum_probs=31.1

Q ss_pred             HHHHhcCCCCCCchHHHHHHHHHhcCChHHHHH
Q 005881          571 AEKILSTDPEDTSAHIMLSNVYAEANMWDETAK  603 (672)
Q Consensus       571 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  603 (672)
                      |+++++++|+++.+|..|+.+|...|++++|++
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            789999999999999999999999999999863

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.70  E-value=0.00039  Score=60.59  Aligned_cols=93  Identities=8%  Similarity=-0.132  Sum_probs=71.2

Q ss_pred             hHHHHHHHHHhhccCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHH
Q 005881          516 MDHIASVVHLFACRGQTRRAYEFIKSS-PIEPN----KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSN  590 (672)
Q Consensus       516 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  590 (672)
                      ...+..++..+...|++++|...+++. .+.|+    ..+|..+...+...|++++|+..+++++++.|.....+..++.
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            345566666777778888887777653 22222    3477888888999999999999999999999998888888888


Q ss_pred             HHH-------hcCChHHHHHHHHHH
Q 005881          591 VYA-------EANMWDETAKVRKIM  608 (672)
Q Consensus       591 ~~~-------~~g~~~~a~~~~~~~  608 (672)
                      +|.       ..|++++|...+++.
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHHH
Confidence            888       888888776666544

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.65  E-value=0.0016  Score=56.94  Aligned_cols=128  Identities=13%  Similarity=0.136  Sum_probs=84.7

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHH
Q 005881          446 VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN--DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASV  522 (672)
Q Consensus       446 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l  522 (672)
                      ..+..+...+...|++++|...|++....+..+.  ...+..+...+.+.|++++|...+++..+   ..| +...+..+
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~l  112 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE---LNPKQPSALNNI  112 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCcccHHHHHHH
Confidence            4567777777888888888888888876433332  24677777778888888888888887763   344 34556666


Q ss_pred             HHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCC
Q 005881          523 VHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANM  597 (672)
Q Consensus       523 ~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  597 (672)
                      +.++...|+...+..-++..                  ...++.|.+.++++++++|++   +..++..+...|+
T Consensus       113 g~~~~~~g~~~~a~~~~~~A------------------~~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~~  166 (172)
T PRK02603        113 AVIYHKRGEKAEEAGDQDEA------------------EALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHcCChHhHhhCHHHH------------------HHHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcCc
Confidence            77777766665554332211                  123678889999999999866   5455555554443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.62  E-value=0.0002  Score=53.87  Aligned_cols=48  Identities=19%  Similarity=0.272  Sum_probs=21.2

Q ss_pred             cCChHHHHHHHHHHHHCCC-CCCHHHHHHHHHHhhccCcHHHHHHHHHH
Q 005881          458 HGLGREALEIYSMMQENKI-KPNDNTFIGVLSACVHIGLVEEGWHYFNS  505 (672)
Q Consensus       458 ~g~~~~A~~~~~~m~~~g~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  505 (672)
                      .|+++.|+.+++++.+... .|+...+..+..++.+.|++++|..+++.
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            3455555555555554321 01222333344555555555555555544

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.62  E-value=0.0079  Score=50.51  Aligned_cols=132  Identities=13%  Similarity=0.085  Sum_probs=102.2

Q ss_pred             CCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCC-CchHHHHHHHHHhhccCChHHHHHHHHhCC-CCC---CHHH
Q 005881          476 IKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGIS-PRMDHIASVVHLFACRGQTRRAYEFIKSSP-IEP---NKVV  550 (672)
Q Consensus       476 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p---~~~~  550 (672)
                      +.|+...-..|..++.+.|+..+|...|++.. . |+- -|....-.+..+....+++.+|...++++. ..|   ++..
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qal-s-G~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~  162 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQAL-S-GIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDG  162 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHh-c-cccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCc
Confidence            46666666778888899999999999998875 2 443 477888888888888999999988887642 112   2223


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          551 WRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       551 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ...+...+...|...+|+..|+.++.--| ++..-..++..+.++|+.++|..-+..+.+
T Consensus       163 ~Ll~aR~laa~g~~a~Aesafe~a~~~yp-g~~ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         163 HLLFARTLAAQGKYADAESAFEVAISYYP-GPQARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             hHHHHHHHHhcCCchhHHHHHHHHHHhCC-CHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            34466778899999999999999999988 677788889999999998888776655543

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.57  E-value=0.084  Score=50.80  Aligned_cols=108  Identities=14%  Similarity=0.126  Sum_probs=76.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcH
Q 005881          417 GSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLV  496 (672)
Q Consensus       417 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  496 (672)
                      .+..+.-+...|+...|.++-.+..-|+-.-|...+.+++..++|++-.++...      +-.+..|..++.+|.+.|..
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~  253 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNK  253 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCH
Confidence            344455566778888888888888778888888888888888888776654321      12336677788888888888


Q ss_pred             HHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHh
Q 005881          497 EEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS  541 (672)
Q Consensus       497 ~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  541 (672)
                      .+|..+..++.           +..-+..|.++|++.+|.+.--+
T Consensus       254 ~eA~~yI~k~~-----------~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  254 KEASKYIPKIP-----------DEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HHHHHHHHhCC-----------hHHHHHHHHHCCCHHHHHHHHHH
Confidence            88887776532           13456777888888888666443

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

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.55  E-value=0.09  Score=50.58  Aligned_cols=106  Identities=16%  Similarity=0.125  Sum_probs=73.5

Q ss_pred             HHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCch
Q 005881          316 ANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAI  395 (672)
Q Consensus       316 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~  395 (672)
                      .+..+.-+...|+...|.++-.+..-|+...|...+.+++..+++++-.++-..      +-++..|-.++.+|.+.|..
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~  253 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNK  253 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCH
Confidence            344556666778888888888888778888888888888888888876654321      22346677777777777777


Q ss_pred             HHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHH
Q 005881          396 EWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVF  437 (672)
Q Consensus       396 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  437 (672)
                      .+|..+...+          .+..-+.+|.++|++.+|.+.-
T Consensus       254 ~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A  285 (319)
T PF04840_consen  254 KEASKYIPKI----------PDEERVEMYLKCGDYKEAAQEA  285 (319)
T ss_pred             HHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHH
Confidence            7777666551          1245667777777777776553

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

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.51  E-value=0.0047  Score=58.67  Aligned_cols=134  Identities=11%  Similarity=0.132  Sum_probs=96.4

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH-hhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHH
Q 005881          446 VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSA-CVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVH  524 (672)
Q Consensus       446 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~-~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  524 (672)
                      .+|-.++....+.+..+.|..+|.+.++.+ ..+...|...... +...++.+.|..+|+...+.+  ..+...|...++
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f--~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKF--PSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHH--TT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHH
Confidence            367778888888888899999999988543 2233344433333 333567777999999988654  446778888889


Q ss_pred             HhhccCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 005881          525 LFACRGQTRRAYEFIKSS-PIEPN----KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDT  582 (672)
Q Consensus       525 ~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  582 (672)
                      .+.+.|+.+.|..+|++. ..-|.    ...|...+..-.+.|+.+....+.+++.+..|++.
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~  141 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDN  141 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhh
Confidence            999999999999999863 32333    34899999999999999999999999999888643

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.

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.51  E-value=0.00023  Score=50.32  Aligned_cols=61  Identities=16%  Similarity=0.175  Sum_probs=44.6

Q ss_pred             HHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 005881          522 VVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDT  582 (672)
Q Consensus       522 l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  582 (672)
                      ++..+...|++++|.+.|++. ...| +...|..+...+...|++++|...++++++..|+++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            455666777777777777653 3446 455777788888889999999999999999998764

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.45  E-value=0.0014  Score=50.12  Aligned_cols=79  Identities=11%  Similarity=0.038  Sum_probs=67.8

Q ss_pred             HHHHHHHHcCCCchhHHHHHHHhHhCCC-CCCcccHHHHHHHHhcCC--------ChhhHHHHHHHHHHhCCCCChhHHH
Q 005881           45 SALISGFSQIGMPEVALNYFRLMVCCVL-EPNYYTYVGAVSACASRG--------DARSGKEIHGRMYRSGLELNSHVSN  115 (672)
Q Consensus        45 ~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~g~~~~~~~~~  115 (672)
                      ...|..+...+++.....+|+.+++.|+ -|+..+|+.++.+.++..        .+...+.++++|+..++.|+..+|+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            3456666777999999999999999999 899999999999987653        3456788999999999999999999


Q ss_pred             HHHHHHHh
Q 005881          116 CLINMYGK  123 (672)
Q Consensus       116 ~li~~~~~  123 (672)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            99988765

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.43  E-value=0.0052  Score=63.42  Aligned_cols=143  Identities=10%  Similarity=0.009  Sum_probs=103.2

Q ss_pred             CCCCchhHHHHHHHHHhc--C---ChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHhhcc--------CcHHHHHHHHHHh
Q 005881          441 SSKNLVSWNTMLVGYAQH--G---LGREALEIYSMMQENKIKPNDN-TFIGVLSACVHI--------GLVEEGWHYFNSM  506 (672)
Q Consensus       441 ~~~~~~~~~~li~~~~~~--g---~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~--------g~~~~a~~~~~~~  506 (672)
                      ...|...|...+.+....  +   +...|..+|++.++  ..|+.. .+..+..++...        +++..+.+..+..
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~--ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK--SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            356778899988875543  2   36799999999999  578874 455554444221        1233444444433


Q ss_pred             HHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchH
Q 005881          507 IRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS-SPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAH  585 (672)
Q Consensus       507 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  585 (672)
                      ........++..+..+.-.....|++++|...+++ +...|+...|..+...+...|+.++|...+++++.++|.++..|
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt~~  490 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENTLY  490 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCchHH
Confidence            21111233557788887777788999999999986 45778888899999999999999999999999999999877533

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.41  E-value=0.019  Score=54.83  Aligned_cols=95  Identities=13%  Similarity=0.138  Sum_probs=45.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-----CHH-HHHHHHHHhhccCcHHHHHHHHHHhHHhh-CCCCc--hHH
Q 005881          448 WNTMLVGYAQHGLGREALEIYSMMQENKIKP-----NDN-TFIGVLSACVHIGLVEEGWHYFNSMIRDH-GISPR--MDH  518 (672)
Q Consensus       448 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-----~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~p~--~~~  518 (672)
                      +..+...+.+.|++++|.++|++....-+..     +.. .|...+-++...|++..|.+.+++..... ++..+  ...
T Consensus       158 ~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~  237 (282)
T PF14938_consen  158 LLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKF  237 (282)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHH
Confidence            4445566666777777777777665532211     111 22233334555667777777666654221 12112  234


Q ss_pred             HHHHHHHhhc--cCChHHHHHHHHhC
Q 005881          519 IASVVHLFAC--RGQTRRAYEFIKSS  542 (672)
Q Consensus       519 ~~~l~~~~~~--~g~~~~A~~~~~~~  542 (672)
                      ...|+.++-.  ...+++|+.-|+.+
T Consensus       238 ~~~l~~A~~~~D~e~f~~av~~~d~~  263 (282)
T PF14938_consen  238 LEDLLEAYEEGDVEAFTEAVAEYDSI  263 (282)
T ss_dssp             HHHHHHHHHTT-CCCHHHHCHHHTTS
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHccc
Confidence            4445555532  33455555555554

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.34  E-value=0.0091  Score=51.98  Aligned_cols=79  Identities=13%  Similarity=0.127  Sum_probs=51.6

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHH
Q 005881          446 VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN--DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASV  522 (672)
Q Consensus       446 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l  522 (672)
                      ..|..+...+...|++++|+..|++.......|.  ..++..+...+...|++++|+..++....   +.| ....+..+
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~---~~~~~~~~~~~l  112 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE---RNPFLPQALNNM  112 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCcCcHHHHHHH
Confidence            3566667777778888888888888876422221  23677777778888888888888877663   234 23445555


Q ss_pred             HHHhh
Q 005881          523 VHLFA  527 (672)
Q Consensus       523 ~~~~~  527 (672)
                      ...+.
T Consensus       113 a~i~~  117 (168)
T CHL00033        113 AVICH  117 (168)
T ss_pred             HHHHH
Confidence            55554

>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=97.34  E-value=0.0022  Score=49.36  Aligned_cols=97  Identities=23%  Similarity=0.210  Sum_probs=48.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhh
Q 005881          448 WNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFA  527 (672)
Q Consensus       448 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  527 (672)
                      |..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++....   ..|             
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~---~~~-------------   65 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALE---LDP-------------   65 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---CCC-------------
Confidence            3344455555555555555555555531 12223344444444555555555555544431   111             


Q ss_pred             ccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 005881          528 CRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDP  579 (672)
Q Consensus       528 ~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  579 (672)
                                        .+...+..+...+...|+.+.|...++++++..|
T Consensus        66 ------------------~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~   99 (100)
T cd00189          66 ------------------DNAKAYYNLGLAYYKLGKYEEALEAYEKALELDP   99 (100)
T ss_pred             ------------------cchhHHHHHHHHHHHHHhHHHHHHHHHHHHccCC
Confidence                              1223455555555666666666666666666555

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.34  E-value=0.017  Score=55.11  Aligned_cols=143  Identities=17%  Similarity=0.148  Sum_probs=78.8

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhcc-CcHHHHHHHHHHhHHhhCCCCc----hHHHHHHHHH
Q 005881          451 MLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHI-GLVEEGWHYFNSMIRDHGISPR----MDHIASVVHL  525 (672)
Q Consensus       451 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~-g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~  525 (672)
                      .+..|...|++..|-+.+.++               ...|... |++++|++.|+....-+.....    ...+..++..
T Consensus       100 A~~~y~~~G~~~~aA~~~~~l---------------A~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l  164 (282)
T PF14938_consen  100 AIEIYREAGRFSQAAKCLKEL---------------AEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADL  164 (282)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHH---------------HHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCcHHHHHHHHHHH---------------HHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHH
Confidence            445556666666655554443               3345555 6777777777766543322221    2456677788


Q ss_pred             hhccCChHHHHHHHHhCC---C-----CCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCch-----HHHHHHH
Q 005881          526 FACRGQTRRAYEFIKSSP---I-----EPNKV-VWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSA-----HIMLSNV  591 (672)
Q Consensus       526 ~~~~g~~~~A~~~~~~~~---~-----~p~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-----~~~l~~~  591 (672)
                      +.+.|++++|.++|++..   .     +.+.. .+...+-.+...||...|...+++....+|.-..+     ...|+.+
T Consensus       165 ~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A  244 (282)
T PF14938_consen  165 YARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEA  244 (282)
T ss_dssp             HHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHH
Confidence            888888888888887531   1     11221 12222334566799999999999999998854332     2244444


Q ss_pred             HHh--cCChHHHHHHHHHH
Q 005881          592 YAE--ANMWDETAKVRKIM  608 (672)
Q Consensus       592 ~~~--~g~~~~a~~~~~~~  608 (672)
                      +..  ...+++|..-|+.+
T Consensus       245 ~~~~D~e~f~~av~~~d~~  263 (282)
T PF14938_consen  245 YEEGDVEAFTEAVAEYDSI  263 (282)
T ss_dssp             HHTT-CCCHHHHCHHHTTS
T ss_pred             HHhCCHHHHHHHHHHHccc
Confidence            443  23455555555544

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.33  E-value=0.0062  Score=50.50  Aligned_cols=95  Identities=12%  Similarity=0.049  Sum_probs=64.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCc
Q 005881          419 ALVDMYAKCGRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGL  495 (672)
Q Consensus       419 ~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  495 (672)
                      .+...+...|++++|.++|+-+..   .+..-|-.|..++...|++++|+..|.+..... +-|..++-.+..++...|+
T Consensus        40 ~~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         40 RYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLACDN  118 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcCC
Confidence            344445567888888888877662   344566777777777888888888888877743 2333567777777778888


Q ss_pred             HHHHHHHHHHhHHhhCCCC
Q 005881          496 VEEGWHYFNSMIRDHGISP  514 (672)
Q Consensus       496 ~~~a~~~~~~~~~~~~~~p  514 (672)
                      .+.|.+.|+..+...+-.|
T Consensus       119 ~~~A~~aF~~Ai~~~~~~~  137 (157)
T PRK15363        119 VCYAIKALKAVVRICGEVS  137 (157)
T ss_pred             HHHHHHHHHHHHHHhccCh
Confidence            8888888877764443333

>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=97.32  E-value=0.00036  Score=50.08  Aligned_cols=64  Identities=19%  Similarity=0.218  Sum_probs=46.3

Q ss_pred             hHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcC-CHHHHHHHHHHHhcCCC
Q 005881          516 MDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHK-DLVLGRYAAEKILSTDP  579 (672)
Q Consensus       516 ~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~p  579 (672)
                      +..|..++..+...|++++|+..|++ +...| +...|..+..++...| ++++|+..++++++++|
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            45566666777777777777777754 33445 4557777777788888 68899999999888887

...

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.30  E-value=0.0027  Score=60.10  Aligned_cols=128  Identities=10%  Similarity=0.038  Sum_probs=89.7

Q ss_pred             HHHHHHHHhhccCcHHHHHHHHHHh---HHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHh-------CCCC-CCHH
Q 005881          482 TFIGVLSACVHIGLVEEGWHYFNSM---IRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKS-------SPIE-PNKV  549 (672)
Q Consensus       482 ~~~~ll~~~~~~g~~~~a~~~~~~~---~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~-------~~~~-p~~~  549 (672)
                      .|..|...|.-.|+++.|+...+.=   .+.+|-+. ....+..+..++.-.|+++.|.+.++.       ++.+ -...
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            5666777777788899888776532   23444333 346778888888889999999888874       2322 1344


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcC----C--CCCCchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          550 VWRCLLSGCKTHKDLVLGRYAAEKILST----D--PEDTSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       550 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~--p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      +..+|...|.-..+++.|+.++.+-+.+    +  .....++..|+++|...|..++|....++-.
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            5567777777777888888888765432    2  2356778899999999999999888776554

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.29  E-value=0.056  Score=54.61  Aligned_cols=56  Identities=16%  Similarity=0.325  Sum_probs=30.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCC--CCchh-----------HHHHHHHHHhcCChHHHHHHHHHHHHC
Q 005881          419 ALVDMYAKCGRLNDARKVFDHLSS--KNLVS-----------WNTMLVGYAQHGLGREALEIYSMMQEN  474 (672)
Q Consensus       419 ~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~-----------~~~li~~~~~~g~~~~A~~~~~~m~~~  474 (672)
                      +++++....+++++|.++-++.++  +|+..           |.---.+|.+.|+-.+|.++++++...
T Consensus       778 siVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  778 SLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             HHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence            445555555666666655555543  22210           111123456667777777777776554

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.28  E-value=0.0038  Score=61.67  Aligned_cols=120  Identities=12%  Similarity=0.048  Sum_probs=75.4

Q ss_pred             CCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHh--CCCCchHHHHHHHHHHHccCChHHHHHHHhhCCC----CCccc
Q 005881          273 GLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKM--GFSSFTFVANTVLDFYSKCELLEESLKTFDEMDE----HDVVS  346 (672)
Q Consensus       273 ~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~  346 (672)
                      +.+.+...+..+++.+....+++.+..++......  ....-..+..++|+.|.+.|..+.+..+++.=..    ||..+
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            44556667777777777777777777766666554  2222233445666777777766666666665443    66666


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCc
Q 005881          347 WNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDI  392 (672)
Q Consensus       347 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~  392 (672)
                      +|.|+..+.+.|++..|.++...|...+...+..|+...+.+|.+-
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            7777777777777777777766666666666666665555555443

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 [].

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.28  E-value=0.0034  Score=48.06  Aligned_cols=80  Identities=11%  Similarity=-0.002  Sum_probs=65.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCChhhHHHHHHHHhccC--------ChHHHHHHHHHHHHhcCCCcHHHH
Q 005881          145 WVSLLSSYCQCGEHVHGLKIFLLSRKSGV-AISEFSCASVLGACAVLG--------NLKVGMQIHSLVFKCALEFDKFVA  215 (672)
Q Consensus       145 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~~~t~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~  215 (672)
                      -...|..+...+++.....+|+.++..|+ .|+..+|+.++.+.++..        .+-....+++.++..+++|+..+|
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etY  107 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHH
Confidence            34456677777999999999999999999 899999999999987643        234567788899988999988888


Q ss_pred             HHHHHHhhc
Q 005881          216 MGLINLYAK  224 (672)
Q Consensus       216 ~~li~~~~~  224 (672)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            888876543

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 [, , ].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.24  E-value=0.0019  Score=63.77  Aligned_cols=94  Identities=14%  Similarity=0.028  Sum_probs=43.8

Q ss_pred             HHHHHHHHHcCCCchhHHHHHHHhHhC--CCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHH
Q 005881           44 WSALISGFSQIGMPEVALNYFRLMVCC--VLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMY  121 (672)
Q Consensus        44 ~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~  121 (672)
                      ...++..+....+.+.+..++.+.+..  ....-..|..++++.|...|..+.+..++..=...|+-||.++++.||+.+
T Consensus        69 ld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~f  148 (429)
T PF10037_consen   69 LDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHF  148 (429)
T ss_pred             HHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHH
Confidence            333444444444444444444444332  111122233455555555555555555555555555555555555555555


Q ss_pred             HhcCChHHHHHHhhcc
Q 005881          122 GKCGLLSSAQFVFDAS  137 (672)
Q Consensus       122 ~~~g~~~~a~~~~~~~  137 (672)
                      .+.|++..|.+++..|
T Consensus       149 l~~~~~~~A~~V~~~~  164 (429)
T PF10037_consen  149 LKKGNYKSAAKVATEM  164 (429)
T ss_pred             hhcccHHHHHHHHHHH
Confidence            5555555555554443

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.24  E-value=0.0092  Score=47.69  Aligned_cols=92  Identities=13%  Similarity=0.176  Sum_probs=67.3

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHh
Q 005881          450 TMLVGYAQHGLGREALEIYSMMQENKIKPND--NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLF  526 (672)
Q Consensus       450 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~  526 (672)
                      .+..++-..|+.++|+.+|++....|+....  ..+..+.+.+...|++++|..+++.....+.-.+ +......+..++
T Consensus         6 ~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    6 ELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHH
Confidence            3556777889999999999999998876654  3677788889999999999999998875432111 223333445577


Q ss_pred             hccCChHHHHHHHHh
Q 005881          527 ACRGQTRRAYEFIKS  541 (672)
Q Consensus       527 ~~~g~~~~A~~~~~~  541 (672)
                      ...|+.++|++.+-.
T Consensus        86 ~~~gr~~eAl~~~l~  100 (120)
T PF12688_consen   86 YNLGRPKEALEWLLE  100 (120)
T ss_pred             HHCCCHHHHHHHHHH
Confidence            788888888877643

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.23  E-value=0.00049  Score=43.85  Aligned_cols=42  Identities=19%  Similarity=0.278  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHH
Q 005881          549 VVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSN  590 (672)
Q Consensus       549 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  590 (672)
                      .+|..+...+...|++++|++.++++++.+|+|+.++..++.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            357788889999999999999999999999999998888765

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.22  E-value=0.039  Score=51.02  Aligned_cols=169  Identities=12%  Similarity=0.108  Sum_probs=104.3

Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCC--CCch-h---HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHhh
Q 005881          420 LVDMYAKCGRLNDARKVFDHLSS--KNLV-S---WNTMLVGYAQHGLGREALEIYSMMQENKIKPND--NTFIGVLSACV  491 (672)
Q Consensus       420 l~~~~~~~g~~~~A~~~~~~~~~--~~~~-~---~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~  491 (672)
                      ....+.+.|++++|.+.|+.+..  |+.. .   .-.++.++.+.+++++|...+++..+.  .|+.  ..+...+.+.+
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~--~P~~~~~~~a~Y~~g~~  115 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVLYMRGLT  115 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CcCCCchHHHHHHHHHh
Confidence            34445567888888888888763  3221 1   233556777888888888888888874  3443  33444444332


Q ss_pred             c--c---------------CcH---HHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHH
Q 005881          492 H--I---------------GLV---EEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVW  551 (672)
Q Consensus       492 ~--~---------------g~~---~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~  551 (672)
                      .  .               .+.   .+|...|+.++                .-|-...-..+|...+..+.   +...-
T Consensus       116 ~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li----------------~~yP~S~ya~~A~~rl~~l~---~~la~  176 (243)
T PRK10866        116 NMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLV----------------RGYPNSQYTTDATKRLVFLK---DRLAK  176 (243)
T ss_pred             hhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHH----------------HHCcCChhHHHHHHHHHHHH---HHHHH
Confidence            1  1               111   23334444444                33333334455544443321   11111


Q ss_pred             --HHHHHHHHhcCCHHHHHHHHHHHhcCCCCC---CchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          552 --RCLLSGCKTHKDLVLGRYAAEKILSTDPED---TSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       552 --~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                        ..+...|.+.|++..|..-++.+++.-|+.   ..+...++.+|...|..++|.++...+.
T Consensus       177 ~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        177 YELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence              134455889999999999999999988864   4566788899999999999999887664

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.19  E-value=0.013  Score=49.30  Aligned_cols=108  Identities=9%  Similarity=0.174  Sum_probs=92.6

Q ss_pred             hHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC--C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC--
Q 005881          506 MIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS--P-IEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPE--  580 (672)
Q Consensus       506 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~--  580 (672)
                      ..+.....|+...-..|..++.+.|+..||...|++.  + +.-|......+..+....++...|...++++.+-+|.  
T Consensus        79 a~~~~~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r  158 (251)
T COG4700          79 ATEELAIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFR  158 (251)
T ss_pred             HHHHHhhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccC
Confidence            3344466888888889999999999999999999874  2 4458888888999999999999999999999999884  


Q ss_pred             CCchHHHHHHHHHhcCChHHHHHHHHHHhhCCC
Q 005881          581 DTSAHIMLSNVYAEANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       581 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  613 (672)
                      .+.....+++.|...|++.+|...|+....-..
T Consensus       159 ~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~yp  191 (251)
T COG4700         159 SPDGHLLFARTLAAQGKYADAESAFEVAISYYP  191 (251)
T ss_pred             CCCchHHHHHHHHhcCCchhHHHHHHHHHHhCC
Confidence            678888999999999999999999998876433

>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=97.15  E-value=0.00044  Score=49.47  Aligned_cols=57  Identities=14%  Similarity=0.251  Sum_probs=30.6

Q ss_pred             ccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhCC-CCCCHHHH
Q 005881          492 HIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSSP-IEPNKVVW  551 (672)
Q Consensus       492 ~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~~~~~  551 (672)
                      ..|++++|++.|+.+...   .| +...+..++.+|.+.|++++|.++++++. ..|+...|
T Consensus         3 ~~~~~~~A~~~~~~~l~~---~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~   61 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQR---NPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEY   61 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHH---TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHH
T ss_pred             hccCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHH
Confidence            456666777776666532   33 44555555666666666666666655542 33443333

...

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.15  E-value=0.0039  Score=59.43  Aligned_cols=63  Identities=13%  Similarity=0.034  Sum_probs=57.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          548 KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ..++..+...+.+.+++..|++..+++++++|+|..+++.-+.+|...|+++.|+..|+++.+
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k  319 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALK  319 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHH
Confidence            345667777888999999999999999999999999999999999999999999999999875

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.13  E-value=0.092  Score=48.60  Aligned_cols=52  Identities=10%  Similarity=-0.034  Sum_probs=32.6

Q ss_pred             HHHccCChHHHHHHHhhCCC--CCcc-c---HHHHHHHHHhcCChhHHHHHHHHHHhC
Q 005881          322 FYSKCELLEESLKTFDEMDE--HDVV-S---WNALIAGHLASCHYGEAIELLKDMLFE  373 (672)
Q Consensus       322 ~~~~~~~~~~a~~~~~~~~~--~~~~-~---~~~li~~~~~~~~~~~A~~~~~~m~~~  373 (672)
                      .+...|++++|...|+.+..  |+.. .   .-.+..++.+.+++++|...+++.++.
T Consensus        41 ~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~   98 (243)
T PRK10866         41 QKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            34556777777777777654  2221 1   123445667777788888888777765

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.13  E-value=0.065  Score=54.16  Aligned_cols=264  Identities=13%  Similarity=0.075  Sum_probs=137.9

Q ss_pred             cchHHHHHHHHHcCCCchhHHHHH---------HHhHhCCCCCCcccHHHHHHHHhcCCChhh--HHHHHHHHHHhCCCC
Q 005881           41 VISWSALISGFSQIGMPEVALNYF---------RLMVCCVLEPNYYTYVGAVSACASRGDARS--GKEIHGRMYRSGLEL  109 (672)
Q Consensus        41 ~~~~~~li~~~~~~g~~~~a~~~~---------~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~--a~~~~~~~~~~g~~~  109 (672)
                      .+.+.+-+-.|..+|.+++|..+-         +.+...  ..+.-.++..=++|.+.++..-  ...-++++.+.|-.|
T Consensus       556 evp~~~~m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~--ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P  633 (1081)
T KOG1538|consen  556 EVPQSAPMYQYIERGLFKEAYQIACLGVTDTDWRELAME--ALEALDFETARKAYIRVRDLRYLELISELEERKKRGETP  633 (1081)
T ss_pred             cccccccchhhhhccchhhhhcccccceecchHHHHHHH--HHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCc
Confidence            344445555666677766664431         111111  1233445566666766665443  333356667777767


Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHhhccCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhc
Q 005881          110 NSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAV  189 (672)
Q Consensus       110 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~  189 (672)
                      +...   +...++-.|++.+|.++|.+                  +|.-.+|+++|..|+--          -..+-+..
T Consensus       634 ~~iL---lA~~~Ay~gKF~EAAklFk~------------------~G~enRAlEmyTDlRMF----------D~aQE~~~  682 (1081)
T KOG1538|consen  634 NDLL---LADVFAYQGKFHEAAKLFKR------------------SGHENRALEMYTDLRMF----------DYAQEFLG  682 (1081)
T ss_pred             hHHH---HHHHHHhhhhHHHHHHHHHH------------------cCchhhHHHHHHHHHHH----------HHHHHHhh
Confidence            7654   33455667889999888864                  66777788887776531          11222333


Q ss_pred             cCChHHHHHHHHHHHHh--c-CCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHH
Q 005881          190 LGNLKVGMQIHSLVFKC--A-LEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLF  266 (672)
Q Consensus       190 ~~~~~~a~~~~~~~~~~--~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  266 (672)
                      .|+.++-+.+.+.-...  . -+|.     +-..++...|+.++|..+.                  ..+|-.+-+.++-
T Consensus       683 ~g~~~eKKmL~RKRA~WAr~~kePk-----aAAEmLiSaGe~~KAi~i~------------------~d~gW~d~lidI~  739 (1081)
T KOG1538|consen  683 SGDPKEKKMLIRKRADWARNIKEPK-----AAAEMLISAGEHVKAIEIC------------------GDHGWVDMLIDIA  739 (1081)
T ss_pred             cCChHHHHHHHHHHHHHhhhcCCcH-----HHHHHhhcccchhhhhhhh------------------hcccHHHHHHHHH
Confidence            34444333333222111  1 1121     1223444556666665442                  2233333333333


Q ss_pred             HHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCC--CCc
Q 005881          267 VKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDE--HDV  344 (672)
Q Consensus       267 ~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~  344 (672)
                      +++-.    .+..+...+-.-+-+...+..|.++|..|-+.         .+++++....+++++|..+-++.++  +|+
T Consensus       740 rkld~----~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~~~dV  806 (1081)
T KOG1538|consen  740 RKLDK----AEREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEFKDDV  806 (1081)
T ss_pred             hhcch----hhhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccccccc
Confidence            32211    22233333333444555566666666665433         3677777788888888888888776  333


Q ss_pred             cc-----------HHHHHHHHHhcCChhHHHHHHHHHHhC
Q 005881          345 VS-----------WNALIAGHLASCHYGEAIELLKDMLFE  373 (672)
Q Consensus       345 ~~-----------~~~li~~~~~~~~~~~A~~~~~~m~~~  373 (672)
                      ..           |..--.+|.+.|+..+|.++++++...
T Consensus       807 y~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  807 YMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             cchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence            21           122224566667777777777766543

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.12  E-value=0.0023  Score=62.54  Aligned_cols=65  Identities=11%  Similarity=-0.116  Sum_probs=51.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCch---HHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          547 NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSA---HIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       547 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~---~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      +...|..+..++...|++++|+..|+++++++|++..+   |.+++.+|...|+.++|.+.+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            45577777778888888888888888888888877744   788888888888888888888877653

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.11  E-value=0.0096  Score=47.57  Aligned_cols=85  Identities=11%  Similarity=0.023  Sum_probs=48.6

Q ss_pred             HHhhccCChHHHHHHHHh---CCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC---CCchHHHHHHHHHhc
Q 005881          524 HLFACRGQTRRAYEFIKS---SPIEPN--KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPE---DTSAHIMLSNVYAEA  595 (672)
Q Consensus       524 ~~~~~~g~~~~A~~~~~~---~~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~~  595 (672)
                      .++-..|+.++|+.++++   .+....  ...+-.+.+.++..|++++|..++++.+...|+   +......++.++...
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~   88 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNL   88 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHC
Confidence            344445555555555543   121111  223444555666777777777777777766665   455555666667777


Q ss_pred             CChHHHHHHHHHH
Q 005881          596 NMWDETAKVRKIM  608 (672)
Q Consensus       596 g~~~~a~~~~~~~  608 (672)
                      |++++|.+.+-..
T Consensus        89 gr~~eAl~~~l~~  101 (120)
T PF12688_consen   89 GRPKEALEWLLEA  101 (120)
T ss_pred             CCHHHHHHHHHHH
Confidence            7777777765443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.10  E-value=0.08  Score=51.37  Aligned_cols=160  Identities=15%  Similarity=0.105  Sum_probs=96.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCCC-------CchhHHHHHHHHHh---cCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005881          419 ALVDMYAKCGRLNDARKVFDHLSSK-------NLVSWNTMLVGYAQ---HGLGREALEIYSMMQENKIKPNDNTFIGVLS  488 (672)
Q Consensus       419 ~l~~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  488 (672)
                      .++-.|....+++...++++.+...       ....-....-++.+   .|+.++|++++..+....-.++..||..+.+
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            3444566677777777777777632       11122234445556   6788888888888665555677777766655


Q ss_pred             Hhhc---------cCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCCh-H---HHHHHH---H----hCC-CC--
Q 005881          489 ACVH---------IGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQT-R---RAYEFI---K----SSP-IE--  545 (672)
Q Consensus       489 ~~~~---------~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~-~---~A~~~~---~----~~~-~~--  545 (672)
                      .|-.         ....++|+..|.+.-   .+.|+..+=..++.++...|.. +   +..++-   .    +-+ ..  
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgF---e~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGF---EIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHH---cCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            4421         224677777776443   5566654433344444444432 1   222222   1    111 22  


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC
Q 005881          546 PNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPED  581 (672)
Q Consensus       546 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  581 (672)
                      .+.-.+.+++.++.-.||.+.|.+++++++++.|..
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~  338 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPA  338 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcc
Confidence            344455788899999999999999999999998744

>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=97.06  E-value=0.0033  Score=54.70  Aligned_cols=99  Identities=14%  Similarity=0.245  Sum_probs=80.0

Q ss_pred             HHHHHhccC--CCCCcchHHHHHHHHHcC-----CCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCC----------
Q 005881           28 DAQKLFDEM--PERNVISWSALISGFSQI-----GMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRG----------   90 (672)
Q Consensus        28 ~a~~~~~~~--~~~~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~----------   90 (672)
                      .-...|+..  ..++-.+|..++..|.+.     |..+=....+..|.+.|+.-|..+|+.||..+=+..          
T Consensus        32 ~~~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~  111 (228)
T PF06239_consen   32 PHEELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAE  111 (228)
T ss_pred             chHHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHH
Confidence            345567666  457888999999988765     556667778899999999999999999999875421          


Q ss_pred             ------ChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCC
Q 005881           91 ------DARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGL  126 (672)
Q Consensus        91 ------~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  126 (672)
                            +-+-|.+++++|...|+-||..++..|++.+++.+.
T Consensus       112 F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  112 FMHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             hccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence                  345789999999999999999999999999876543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.02  E-value=0.0056  Score=57.01  Aligned_cols=58  Identities=9%  Similarity=0.006  Sum_probs=31.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhcCCCCC---CchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          553 CLLSGCKTHKDLVLGRYAAEKILSTDPED---TSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       553 ~l~~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      -+...+...|+++.|...|+++++..|++   +.++..++.+|...|++++|.++++.+.+
T Consensus       185 ~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        185 WLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34445555556666666666665555543   33344445555556666666666655543

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.01  E-value=0.037  Score=49.42  Aligned_cols=135  Identities=11%  Similarity=0.034  Sum_probs=74.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhc
Q 005881          449 NTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFAC  528 (672)
Q Consensus       449 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  528 (672)
                      +.++..+.-.|.+.-.+.++++.++..-+-+......|.+.-.+.|+.+.|..+|+...+..+. .+.            
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~k-L~~------------  247 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQK-LDG------------  247 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhh-hhc------------
Confidence            4455555556667777777777777544445556666677777777777777777755432211 111            


Q ss_pred             cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHH
Q 005881          529 RGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIM  608 (672)
Q Consensus       529 ~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  608 (672)
                                     +.-+..+.......+..++++..|...+.++++.+|.++.+...-+-++.-.|+..+|.+..+.|
T Consensus       248 ---------------~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~  312 (366)
T KOG2796|consen  248 ---------------LQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAM  312 (366)
T ss_pred             ---------------cchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHH
Confidence                           11111122222233444555666666666666666665555555555555556666666666666


Q ss_pred             hhC
Q 005881          609 KEK  611 (672)
Q Consensus       609 ~~~  611 (672)
                      .++
T Consensus       313 ~~~  315 (366)
T KOG2796|consen  313 VQQ  315 (366)
T ss_pred             hcc
Confidence            543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.00  E-value=0.016  Score=54.07  Aligned_cols=93  Identities=11%  Similarity=0.063  Sum_probs=53.7

Q ss_pred             hccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCH
Q 005881          491 VHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS----PIEP-NKVVWRCLLSGCKTHKDL  564 (672)
Q Consensus       491 ~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p-~~~~~~~l~~~~~~~g~~  564 (672)
                      .+.|++++|...|+.+.+.+.-.+ ....+..++.+|...|++++|...|+.+    +..| ....+..+...+...|+.
T Consensus       154 ~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~  233 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDT  233 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCH
Confidence            344555555555555553321111 1234445555566666666666555543    2112 233444455667788999


Q ss_pred             HHHHHHHHHHhcCCCCCCc
Q 005881          565 VLGRYAAEKILSTDPEDTS  583 (672)
Q Consensus       565 ~~a~~~~~~~~~~~p~~~~  583 (672)
                      +.|...|+++++..|++..
T Consensus       234 ~~A~~~~~~vi~~yP~s~~  252 (263)
T PRK10803        234 AKAKAVYQQVIKKYPGTDG  252 (263)
T ss_pred             HHHHHHHHHHHHHCcCCHH
Confidence            9999999999999886654

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=96.99  E-value=0.01  Score=56.38  Aligned_cols=129  Identities=14%  Similarity=0.153  Sum_probs=99.0

Q ss_pred             HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHH-hhccCChHHHHHHHHhC-C-CCCCHHHHHHHHHH
Q 005881          481 NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHL-FACRGQTRRAYEFIKSS-P-IEPNKVVWRCLLSG  557 (672)
Q Consensus       481 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~  557 (672)
                      ..|..++..+.+.+..+.|..+|.+..+.  ...+.++|...+.+ +...++.+.|.++|+.. . +..+...|...+.-
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~--~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKD--KRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            46788888999999999999999998732  22355677777777 34467777799999863 1 33477789999999


Q ss_pred             HHhcCCHHHHHHHHHHHhcCCCCCC---chHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          558 CKTHKDLVLGRYAAEKILSTDPEDT---SAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       558 ~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      +...|+.+.|..+|++++..-|.+.   ..|...++.=.+.|+++.+.++.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999998876544   57888888899999999999999888754

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.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.92  E-value=0.003  Score=45.86  Aligned_cols=64  Identities=14%  Similarity=0.241  Sum_probs=47.4

Q ss_pred             HHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHH
Q 005881          524 HLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIM  587 (672)
Q Consensus       524 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  587 (672)
                      ..|.+.+++++|.+.++.+ ...| ++..|......+...|++++|...++++++..|+++.....
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~~   68 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARAL   68 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHHH
Confidence            4567777788887777653 3455 45566677777888899999999999999999977655443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.86  E-value=0.27  Score=46.84  Aligned_cols=150  Identities=15%  Similarity=0.163  Sum_probs=82.8

Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCch-HHHHHHHHHhhccCChH
Q 005881          457 QHGLGREALEIYSMMQENKIKPND--NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRM-DHIASVVHLFACRGQTR  533 (672)
Q Consensus       457 ~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~  533 (672)
                      -.|+++.|.+-|+-|..   .|..  .-...|.-...+.|+.+.|.++-+...   +..|.. -.+...+...+..|+++
T Consensus       132 ~eG~~~~Ar~kfeAMl~---dPEtRllGLRgLyleAqr~GareaAr~yAe~Aa---~~Ap~l~WA~~AtLe~r~~~gdWd  205 (531)
T COG3898         132 LEGDYEDARKKFEAMLD---DPETRLLGLRGLYLEAQRLGAREAARHYAERAA---EKAPQLPWAARATLEARCAAGDWD  205 (531)
T ss_pred             hcCchHHHHHHHHHHhc---ChHHHHHhHHHHHHHHHhcccHHHHHHHHHHHH---hhccCCchHHHHHHHHHHhcCChH
Confidence            34666666666666655   2222  123334444455566666666655443   334432 34555566666666666


Q ss_pred             HHHHHHHhC----CCCCCHHH--HHHHHHH---HHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHH
Q 005881          534 RAYEFIKSS----PIEPNKVV--WRCLLSG---CKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKV  604 (672)
Q Consensus       534 ~A~~~~~~~----~~~p~~~~--~~~l~~~---~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  604 (672)
                      .|+++++..    .+.++..-  --.|+.+   ..-..|...|.....++.++.|+-...-..-+..|.+.|+..++.++
T Consensus       206 ~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL~pdlvPaav~AAralf~d~~~rKg~~i  285 (531)
T COG3898         206 GALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANKLAPDLVPAAVVAARALFRDGNLRKGSKI  285 (531)
T ss_pred             HHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCccchHHHHHHHHHHhccchhhhhhH
Confidence            666666532    13333221  1122222   22234566666667777777776666666667777777777777777


Q ss_pred             HHHHhhCC
Q 005881          605 RKIMKEKS  612 (672)
Q Consensus       605 ~~~~~~~~  612 (672)
                      ++.+-+..
T Consensus       286 lE~aWK~e  293 (531)
T COG3898         286 LETAWKAE  293 (531)
T ss_pred             HHHHHhcC
Confidence            77665443

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.79  E-value=0.81  Score=47.18  Aligned_cols=174  Identities=10%  Similarity=0.065  Sum_probs=79.9

Q ss_pred             CCCcccHHHHHHHHhcCCChhhHHHHHHHHHHh-CCC--------CChhHHHHHHHHHHhcCChHHHHHHhhccCCCCcc
Q 005881           73 EPNYYTYVGAVSACASRGDARSGKEIHGRMYRS-GLE--------LNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSI  143 (672)
Q Consensus        73 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-g~~--------~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  143 (672)
                      .|.+..|..+.......-.++.|+..|-+.... |++        .+.....+=|.+|  .|++++|++++-.+..+|. 
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feeaek~yld~drrDL-  765 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEAEKLYLDADRRDL-  765 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHhhhhhhccchhhh-
Confidence            466666766665555555555555544333221 111        1111112222322  3778888888777666652 


Q ss_pred             cHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC----hhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHH
Q 005881          144 SWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAIS----EFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLI  219 (672)
Q Consensus       144 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~----~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  219 (672)
                          .|..+.+.|++-...++++.   -|-..|    ...++.+-..++....|+.|.+.+..--.         ...++
T Consensus       766 ----Aielr~klgDwfrV~qL~r~---g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~---------~e~~~  829 (1189)
T KOG2041|consen  766 ----AIELRKKLGDWFRVYQLIRN---GGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD---------TENQI  829 (1189)
T ss_pred             ----hHHHHHhhhhHHHHHHHHHc---cCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc---------hHhHH
Confidence                34555566666655555432   111111    12344444444555555555555443211         11233


Q ss_pred             HHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHH
Q 005881          220 NLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLF  266 (672)
Q Consensus       220 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  266 (672)
                      .++.+..++++-+.+-..+++ +....-.+.+.+...|.-++|.+.+
T Consensus       830 ecly~le~f~~LE~la~~Lpe-~s~llp~~a~mf~svGMC~qAV~a~  875 (1189)
T KOG2041|consen  830 ECLYRLELFGELEVLARTLPE-DSELLPVMADMFTSVGMCDQAVEAY  875 (1189)
T ss_pred             HHHHHHHhhhhHHHHHHhcCc-ccchHHHHHHHHHhhchHHHHHHHH
Confidence            344444444444444444432 2223344445555555555555444

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.77  E-value=0.61  Score=45.59  Aligned_cols=353  Identities=14%  Similarity=0.078  Sum_probs=170.2

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHhcC----CCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcC
Q 005881          182 SVLGACAVLGNLKVGMQIHSLVFKCAL----EFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLG  257 (672)
Q Consensus       182 ~ll~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~  257 (672)
                      ..+.++...|.+.+++.+++.+...-+    ..+..+|+.++-++.+.=-++    +-+.+...=...|--|+-.|.+.=
T Consensus       133 i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrSYfLE----l~e~~s~dl~pdyYemilfY~kki  208 (549)
T PF07079_consen  133 IEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRSYFLE----LKESMSSDLYPDYYEMILFYLKKI  208 (549)
T ss_pred             HHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHHHHHH----HHHhcccccChHHHHHHHHHHHHH
Confidence            344555667777777776666655433    356666776665554431111    111111111122444444443321


Q ss_pred             ChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhcc--CCchhHHHHHHHHHHhCCCCchH-HHHHHHHHHHccCChHHHHH
Q 005881          258 KACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADV--KETIGGRQLHSLIIKMGFSSFTF-VANTVLDFYSKCELLEESLK  334 (672)
Q Consensus       258 ~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~  334 (672)
                      ..      ++.-.-..+.|-...+..++....-.  ....--.+++......-+.|+-. +...|+.-+.+  +.+++..
T Consensus       209 ~~------~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~  280 (549)
T PF07079_consen  209 HA------FDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGH  280 (549)
T ss_pred             HH------HhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHH
Confidence            11      11100011233333344443332211  12222233333333344444432 22334444433  3333333


Q ss_pred             HHhhCC--------CCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHH-------HHHHHHc-CcCchHHH
Q 005881          335 TFDEMD--------EHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYS-------NILNISS-DIPAIEWG  398 (672)
Q Consensus       335 ~~~~~~--------~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~-------~ll~~~~-~~~~~~~a  398 (672)
                      +-+.+.        +.=+.++..++....+.++..+|-+.+.-+...  .|+...-.       .+.+..+ .......-
T Consensus       281 ~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l--dp~~svs~Kllls~~~lq~Iv~~DD~~~Tkl  358 (549)
T PF07079_consen  281 FCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKIL--DPRISVSEKLLLSPKVLQDIVCEDDESYTKL  358 (549)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc--CCcchhhhhhhcCHHHHHHHHhcchHHHHHH
Confidence            333322        133456778888888888888888877766543  34332111       1111111 22222222


Q ss_pred             ---HHHHHHHHhcCCCCcccHHHHHH---HHHHhcCC-HHHHHHHHhhCC---CCCchhHHHHH----HHHHhc---CCh
Q 005881          399 ---KQTHCCIVKPGFDSNVVIGSALV---DMYAKCGR-LNDARKVFDHLS---SKNLVSWNTML----VGYAQH---GLG  461 (672)
Q Consensus       399 ---~~~~~~~~~~~~~~~~~~~~~l~---~~~~~~g~-~~~A~~~~~~~~---~~~~~~~~~li----~~~~~~---g~~  461 (672)
                         ..+|..+....+..- ....-|+   .-+-+.|. -++|.++++.+.   .-|..+-|.+.    ..|.+.   ...
T Consensus       359 r~yL~lwe~~qs~DiDrq-QLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~  437 (549)
T PF07079_consen  359 RDYLNLWEEIQSYDIDRQ-QLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFTNYDIECENIVFLFVKQAYKQALSMHAI  437 (549)
T ss_pred             HHHHHHHHHHHhhcccHH-HHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhhH
Confidence               223333333322211 1111122   12333444 778888887776   33444333322    222221   223


Q ss_pred             HHHHHHHHHHHHCCCCCCHHH----HHHHHHH--hhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHH
Q 005881          462 REALEIYSMMQENKIKPNDNT----FIGVLSA--CVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRA  535 (672)
Q Consensus       462 ~~A~~~~~~m~~~g~~p~~~~----~~~ll~~--~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  535 (672)
                      ..-+++-+-..+.|++|-.+.    -+.|..|  +...|++.++.-+-..+.   .+.|++.+|..++-++....++++|
T Consensus       438 ~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~---~iaPS~~~~RLlGl~l~e~k~Y~eA  514 (549)
T PF07079_consen  438 PRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLT---KIAPSPQAYRLLGLCLMENKRYQEA  514 (549)
T ss_pred             HHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHH---HhCCcHHHHHHHHHHHHHHhhHHHH
Confidence            333444444456677775432    3333333  456788888877765555   6789999999999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHH
Q 005881          536 YEFIKSSPIEPNKVVWRCL  554 (672)
Q Consensus       536 ~~~~~~~~~~p~~~~~~~l  554 (672)
                      .+++..+|  |+...|++-
T Consensus       515 ~~~l~~LP--~n~~~~dsk  531 (549)
T PF07079_consen  515 WEYLQKLP--PNERMRDSK  531 (549)
T ss_pred             HHHHHhCC--CchhhHHHH
Confidence            99999986  577766653

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.77  E-value=0.9  Score=47.41  Aligned_cols=117  Identities=10%  Similarity=0.012  Sum_probs=91.2

Q ss_pred             CCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHH
Q 005881          475 KIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCL  554 (672)
Q Consensus       475 g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l  554 (672)
                      |......+.+--+.-+...|+..+|.++-....     -||...|..-+.+++..+++++-+++-++..   .+.-|.-.
T Consensus       679 ~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfAkskk---sPIGy~PF  750 (829)
T KOG2280|consen  679 GGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFAKSKK---SPIGYLPF  750 (829)
T ss_pred             ccccccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC---CCCCchhH
Confidence            334445566666777888899999998876554     6889999999999999999999888887653   35667778


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHH
Q 005881          555 LSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKI  607 (672)
Q Consensus       555 ~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  607 (672)
                      ..+|.+.|+.++|.+++-+.-.+        .-.+.+|.+.|++.+|.+.--+
T Consensus       751 Ve~c~~~~n~~EA~KYiprv~~l--------~ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  751 VEACLKQGNKDEAKKYIPRVGGL--------QEKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HHHHHhcccHHHHhhhhhccCCh--------HHHHHHHHHhccHHHHHHHHHH
Confidence            89999999999999987654222        2678899999999999887544

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.70  E-value=0.058  Score=48.22  Aligned_cols=137  Identities=15%  Similarity=0.093  Sum_probs=98.8

Q ss_pred             cHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHH----
Q 005881          346 SWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALV----  421 (672)
Q Consensus       346 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~----  421 (672)
                      ..+.++..+.-.|.+.-.+..+++.++...+.++...+.+.+.-.+.|+.+.|...++...+..-..+....+.++    
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            3455666777778888888889998887656677778888888889999999999999887654444444444333    


Q ss_pred             -HHHHhcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHH
Q 005881          422 -DMYAKCGRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFI  484 (672)
Q Consensus       422 -~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  484 (672)
                       ..|.-+.++..|.+.|.++..   .|++.-|.-.-+....|+..+|++..+.|.+.  .|...+-.
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~e  323 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHE  323 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhh
Confidence             345556788888888888774   44555666666666778899999999999884  56555443

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.67  E-value=0.98  Score=46.62  Aligned_cols=264  Identities=13%  Similarity=0.139  Sum_probs=116.3

Q ss_pred             HHhhcCCChhHHHHHHhcCCCC-----CcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCc
Q 005881          220 NLYAKCEKLDLASRVFSNIQLP-----DLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKET  294 (672)
Q Consensus       220 ~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~  294 (672)
                      .++.+.|++-...++++.-...     -...|+.+...+.....|++|.+.|..-...         ...+.++.+..++
T Consensus       768 elr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~---------e~~~ecly~le~f  838 (1189)
T KOG2041|consen  768 ELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT---------ENQIECLYRLELF  838 (1189)
T ss_pred             HHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch---------HhHHHHHHHHHhh
Confidence            3344444544444444432211     1234566666666666666666655442211         1123333333333


Q ss_pred             hhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 005881          295 IGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEG  374 (672)
Q Consensus       295 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g  374 (672)
                      ++-+.+-.     .++.+....-.+.+++.+.|.-++|...|-+...|-     +-+..|...+++.+|.++-++..   
T Consensus       839 ~~LE~la~-----~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~pk-----aAv~tCv~LnQW~~avelaq~~~---  905 (1189)
T KOG2041|consen  839 GELEVLAR-----TLPEDSELLPVMADMFTSVGMCDQAVEAYLRRSLPK-----AAVHTCVELNQWGEAVELAQRFQ---  905 (1189)
T ss_pred             hhHHHHHH-----hcCcccchHHHHHHHHHhhchHHHHHHHHHhccCcH-----HHHHHHHHHHHHHHHHHHHHhcc---
Confidence            33222221     223344444555666666666666666655544332     23445566666666666655443   


Q ss_pred             CCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCc---hhHHHH
Q 005881          375 HCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNL---VSWNTM  451 (672)
Q Consensus       375 ~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~l  451 (672)
                       -|...|+.+-           .+-+++.   +.+      + ---|..+.+.|+.-+|.+++.+|.+...   ..|..+
T Consensus       906 -l~qv~tliak-----------~aaqll~---~~~------~-~eaIe~~Rka~~~~daarll~qmae~e~~K~~p~lr~  963 (1189)
T KOG2041|consen  906 -LPQVQTLIAK-----------QAAQLLA---DAN------H-MEAIEKDRKAGRHLDAARLLSQMAEREQEKYVPYLRL  963 (1189)
T ss_pred             -chhHHHHHHH-----------HHHHHHh---hcc------h-HHHHHHhhhcccchhHHHHHHHHhHHHhhccCCHHHH
Confidence             2222222110           0111111   100      0 1134556677777777777766652111   111111


Q ss_pred             ----HHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhh
Q 005881          452 ----LVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFA  527 (672)
Q Consensus       452 ----i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  527 (672)
                          +-+-.-..+..++++-.++...+|...|...       +...|-..++-++.+...+    -....++..|..--.
T Consensus       964 KklYVL~AlLvE~h~~~ik~~~~~~~~g~~~dat~-------lles~~l~~~~ri~~n~Wr----gAEAyHFmilAQrql 1032 (1189)
T KOG2041|consen  964 KKLYVLGALLVENHRQTIKELRKIDKHGFLEDATD-------LLESGLLAEQSRILENTWR----GAEAYHFMILAQRQL 1032 (1189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhhcCcchhhhh-------hhhhhhhhhHHHHHHhhhh----hHHHHHHHHHHHHHH
Confidence                1111112234445555555555554333221       2223333444444433321    113345555566666


Q ss_pred             ccCChHHHHHH
Q 005881          528 CRGQTRRAYEF  538 (672)
Q Consensus       528 ~~g~~~~A~~~  538 (672)
                      ..|....|++-
T Consensus      1033 ~eg~v~~Al~T 1043 (1189)
T KOG2041|consen 1033 FEGRVKDALQT 1043 (1189)
T ss_pred             HhchHHHHHHH
Confidence            77888888765

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.67  E-value=0.1  Score=48.18  Aligned_cols=104  Identities=12%  Similarity=0.161  Sum_probs=76.8

Q ss_pred             CCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccC---ChHHHHHHHHh-CCCCCCH-HH
Q 005881          477 KPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRG---QTRRAYEFIKS-SPIEPNK-VV  550 (672)
Q Consensus       477 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g---~~~~A~~~~~~-~~~~p~~-~~  550 (672)
                      +-|...|..|...|...|+.+.|...|.+..+   +.| +++.+..+..++..+.   ...++.++|++ +..+|+. .+
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~r---L~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~ira  229 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALR---LAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRA  229 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHH
Confidence            44556888888889999999999888887763   344 5667777777665432   45677888876 3556744 45


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 005881          551 WRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTS  583 (672)
Q Consensus       551 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  583 (672)
                      ..-|...+...|++.+|...++.++++.|.+..
T Consensus       230 l~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~  262 (287)
T COG4235         230 LSLLAFAAFEQGDYAEAAAAWQMLLDLLPADDP  262 (287)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcCCCCCc
Confidence            555666689999999999999999998886644

>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=96.61  E-value=0.0032  Score=46.46  Aligned_cols=61  Identities=11%  Similarity=0.048  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcC----CCC---CCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          550 VWRCLLSGCKTHKDLVLGRYAAEKILST----DPE---DTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       550 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +++.+...+...|++++|+..+++++++    .++   -..++..++.+|...|++++|.+.+++..+
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5666667777778888888888777643    222   245677888899999999999998887643

...

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.59  E-value=0.024  Score=49.46  Aligned_cols=96  Identities=15%  Similarity=0.147  Sum_probs=67.2

Q ss_pred             HHHHhcC--CCCCcchHHHHHHHHHhc-----CChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccC------------
Q 005881          232 SRVFSNI--QLPDLTAWSALIGGYAQL-----GKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVK------------  292 (672)
Q Consensus       232 ~~~~~~~--~~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~------------  292 (672)
                      ...|+..  ...+-.+|..+++.|.+.     |..+=....+..|.+-|+.-|..+|+.||..+-+..            
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            3444444  345666777777776643     556666677788888888888888888888776532            


Q ss_pred             ----CchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccC
Q 005881          293 ----ETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCE  327 (672)
Q Consensus       293 ----~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  327 (672)
                          +-+-+.+++++|...|+-||..++..|++.+.+.+
T Consensus       114 hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhcccc
Confidence                34556778888888888888888888887775544

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK11906 transcriptional regulator; Provisional

Probab=96.49  E-value=0.049  Score=53.63  Aligned_cols=143  Identities=10%  Similarity=0.116  Sum_probs=71.5

Q ss_pred             ChHHHHHHHHHHHH-CCCCCCHH-HHHHHHHHhhcc---------CcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhh
Q 005881          460 LGREALEIYSMMQE-NKIKPNDN-TFIGVLSACVHI---------GLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFA  527 (672)
Q Consensus       460 ~~~~A~~~~~~m~~-~g~~p~~~-~~~~ll~~~~~~---------g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~  527 (672)
                      ..+.|+.+|.+... +.+.|+.. .|..+..++...         ....+|.++-++.+   .+.| |+.....++.++.
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv---eld~~Da~a~~~~g~~~~  349 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS---DITTVDGKILAIMGLITG  349 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH---hcCCCCHHHHHHHHHHHH
Confidence            34567778888772 22566653 455444433211         12233444444433   3334 4455555555555


Q ss_pred             ccCChHHHHHHHHh-CCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHH--HHHHHHHhcCChHHHHH
Q 005881          528 CRGQTRRAYEFIKS-SPIEPNKV-VWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHI--MLSNVYAEANMWDETAK  603 (672)
Q Consensus       528 ~~g~~~~A~~~~~~-~~~~p~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~--~l~~~~~~~g~~~~a~~  603 (672)
                      -.|+++.|...|++ ..+.||.. .|......+.-.|+.++|.+..+++++++|....+-.  ..+++|+..+ .++|.+
T Consensus       350 ~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~~-~~~~~~  428 (458)
T PRK11906        350 LSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPNP-LKNNIK  428 (458)
T ss_pred             hhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCCc-hhhhHH
Confidence            55666666666654 23445432 4444444455566666666666666666664333222  3333444433 444555


Q ss_pred             HHH
Q 005881          604 VRK  606 (672)
Q Consensus       604 ~~~  606 (672)
                      ++-
T Consensus       429 ~~~  431 (458)
T PRK11906        429 LYY  431 (458)
T ss_pred             HHh
Confidence            443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.47  E-value=0.027  Score=53.62  Aligned_cols=152  Identities=13%  Similarity=0.073  Sum_probs=87.3

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHH----HHCCCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHH---hhC-CCCchH
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMM----QENKIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIR---DHG-ISPRMD  517 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m----~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~---~~~-~~p~~~  517 (672)
                      .|..|...|.-.|+++.|+..-+.=    ++-|-+.. ...+..+..++.-.|+++.|.+.|+....   ..| -.....
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            4555555566667777776654332    22221211 23566777777777888888777765431   111 122334


Q ss_pred             HHHHHHHHhhccCChHHHHHHHHh-------CC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC--CCC----Cc
Q 005881          518 HIASVVHLFACRGQTRRAYEFIKS-------SP-IEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTD--PED----TS  583 (672)
Q Consensus       518 ~~~~l~~~~~~~g~~~~A~~~~~~-------~~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--p~~----~~  583 (672)
                      ..-+|...|.-...++.|++++.+       +. .--...++.+|..++...|..++|....++.+++.  -++    ..
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~s~ev~D~sgelT  356 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRSSLEVNDTSGELT  356 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhCCcchhhh
Confidence            555677777777778888777653       11 11244556677888888888888888777765422  122    22


Q ss_pred             hHHHHHHHHHhcCCh
Q 005881          584 AHIMLSNVYAEANMW  598 (672)
Q Consensus       584 ~~~~l~~~~~~~g~~  598 (672)
                      +...+.+.-...|..
T Consensus       357 ar~Nlsdl~~~lG~~  371 (639)
T KOG1130|consen  357 ARDNLSDLILELGQE  371 (639)
T ss_pred             hhhhhHHHHHHhCCC
Confidence            344555555555543

>PF14432 DYW_deaminase: DYW family of nucleic acid deaminases

Probab=96.41  E-value=0.0028  Score=50.34  Aligned_cols=42  Identities=36%  Similarity=0.615  Sum_probs=35.5

Q ss_pred             ceeEEEeCCEEEEEEeccccCCChHHHHHHHHHHHHHHHhCCccCCCCCCCCCC
Q 005881          618 GCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYVPDPIYSSHFE  671 (672)
Q Consensus       618 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~g~~~~~~~~~~~~  671 (672)
                      |+||++.    +.|++|+..||+.        .+..++...||.|++..++|++
T Consensus         2 ~~~w~~~----h~F~sgd~shp~~--------~~~~~~~~~~~~~~~~~~~~~~   43 (116)
T PF14432_consen    2 GCSWIEV----HSFVSGDRSHPQS--------ELINKMKEEGYVPDTKEVGHDV   43 (116)
T ss_pred             CCCccce----EEEEeCCCcCccH--------HHHHHHHHcCCcchhhhhCCCc
Confidence            6899755    9999999999988        4556788899999999998865

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.33  E-value=1.7  Score=45.46  Aligned_cols=335  Identities=13%  Similarity=0.067  Sum_probs=172.8

Q ss_pred             CCCCChhhHH-----HHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCC---ChhHHHHHHhcCCC--C
Q 005881          172 GVAISEFSCA-----SVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCE---KLDLASRVFSNIQL--P  241 (672)
Q Consensus       172 g~~p~~~t~~-----~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~~~~--~  241 (672)
                      |+..+..-|.     .+|.-+...+.+..|.++-..+--.-..- ..++.....-+.+..   +.+.+..+-+++..  .
T Consensus       427 gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~~  505 (829)
T KOG2280|consen  427 GIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKLT  505 (829)
T ss_pred             CccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHHHHHHHhccCccchHHHHHHHHHhcccCC
Confidence            5555544443     45666666777777777766653221111 456666666665553   23334444444444  4


Q ss_pred             CcchHHHHHHHHHhcCChhHHHHHHHHHHHCCC----CCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHH
Q 005881          242 DLTAWSALIGGYAQLGKACEAIDLFVKMFSSGL----MPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVAN  317 (672)
Q Consensus       242 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~----~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  317 (672)
                      ...+|..+.....+.|+.+-|..+++.=...+-    -.+..-+...+.-+...|+.+....++-.+...-.        
T Consensus       506 ~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~--------  577 (829)
T KOG2280|consen  506 PGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLN--------  577 (829)
T ss_pred             CceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHH--------
Confidence            556788888777888998888887764322221    11223345556666667777766666555443210        


Q ss_pred             HHHHHHHccCChHHHHHHHhhCCC-CCcccHHHHHHHHHhcCChhHHHHHHH--HH----HhCCCCCChHHHHHHHHHHc
Q 005881          318 TVLDFYSKCELLEESLKTFDEMDE-HDVVSWNALIAGHLASCHYGEAIELLK--DM----LFEGHCPNLYTYSNILNISS  390 (672)
Q Consensus       318 ~li~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~A~~~~~--~m----~~~g~~p~~~t~~~ll~~~~  390 (672)
                       .-+.+....+...|..++....+ .|..+   + ..+.+.++-.+++..|.  ..    ...|..|+..   ..-++|+
T Consensus       578 -~s~l~~~l~~~p~a~~lY~~~~r~~~~~~---l-~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk---~~a~~~a  649 (829)
T KOG2280|consen  578 -RSSLFMTLRNQPLALSLYRQFMRHQDRAT---L-YDFYNQDDNHQALASFHLQASYAAETIEGRIPALK---TAANAFA  649 (829)
T ss_pred             -HHHHHHHHHhchhhhHHHHHHHHhhchhh---h-hhhhhcccchhhhhhhhhhhhhhhhhhcccchhHH---HHHHHHh
Confidence             00011111222233333333221 11100   1 11111222222222111  10    0113333332   2333444


Q ss_pred             CcCchHHHHH----------HHHHHH-hcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcC
Q 005881          391 DIPAIEWGKQ----------THCCIV-KPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHG  459 (672)
Q Consensus       391 ~~~~~~~a~~----------~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g  459 (672)
                      +.....-..+          +.+.+. +.|..-..-+.+--+.-+...|+-.+|.++-.+..-||-..|-.-+.+++..+
T Consensus       650 ~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~  729 (829)
T KOG2280|consen  650 KSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIK  729 (829)
T ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhh
Confidence            4333211111          111111 11222222333444555667788888888888888888888877888888888


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHH
Q 005881          460 LGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFI  539 (672)
Q Consensus       460 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  539 (672)
                      ++++-.++-+.+.      .+.-|.-...+|.+.|+.++|..++-+..   +..       -.+.+|.+.|++.+|.+.-
T Consensus       730 kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~EA~KYiprv~---~l~-------ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  730 KWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDEAKKYIPRVG---GLQ-------EKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             hHHHHHHHHhccC------CCCCchhHHHHHHhcccHHHHhhhhhccC---ChH-------HHHHHHHHhccHHHHHHHH
Confidence            8877665544432      14456667888888888888888876443   211       4567788888888877663

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.32  E-value=0.31  Score=43.83  Aligned_cols=160  Identities=13%  Similarity=0.125  Sum_probs=91.4

Q ss_pred             HHHhcCCHHHHHHHHhhCCC--CCc----hhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHhhc--
Q 005881          423 MYAKCGRLNDARKVFDHLSS--KNL----VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND--NTFIGVLSACVH--  492 (672)
Q Consensus       423 ~~~~~g~~~~A~~~~~~~~~--~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~--  492 (672)
                      .+...|++++|.+.|+.+..  |+.    ...-.++.++.+.|+++.|...++++++.  -|+.  ..+...+.+.+.  
T Consensus        14 ~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~--yP~~~~~~~A~Y~~g~~~~~   91 (203)
T PF13525_consen   14 EALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL--YPNSPKADYALYMLGLSYYK   91 (203)
T ss_dssp             HHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH---TT-TTHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCcchhhHHHHHHHHHHH
Confidence            34566778888888777762  221    24455677777888888888888887774  3443  222222222211  


Q ss_pred             -----------cCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHH--HHHHHHHH
Q 005881          493 -----------IGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVW--RCLLSGCK  559 (672)
Q Consensus       493 -----------~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~--~~l~~~~~  559 (672)
                                 .+...+|...|+.++                .-|-......+|...+..+.   +...-  ..+...|.
T Consensus        92 ~~~~~~~~~~D~~~~~~A~~~~~~li----------------~~yP~S~y~~~A~~~l~~l~---~~la~~e~~ia~~Y~  152 (203)
T PF13525_consen   92 QIPGILRSDRDQTSTRKAIEEFEELI----------------KRYPNSEYAEEAKKRLAELR---NRLAEHELYIARFYY  152 (203)
T ss_dssp             HHHHHH-TT---HHHHHHHHHHHHHH----------------HH-TTSTTHHHHHHHHHHHH---HHHHHHHHHHHHHHH
T ss_pred             hCccchhcccChHHHHHHHHHHHHHH----------------HHCcCchHHHHHHHHHHHHH---HHHHHHHHHHHHHHH
Confidence                       112233444444443                33444445555555444331   11111  12455688


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCC---chHHHHHHHHHhcCChHHHHH
Q 005881          560 THKDLVLGRYAAEKILSTDPEDT---SAHIMLSNVYAEANMWDETAK  603 (672)
Q Consensus       560 ~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~  603 (672)
                      +.|.+..|..-++.+++.-|+.+   .+...++..|.+.|..+.|..
T Consensus       153 ~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~~  199 (203)
T PF13525_consen  153 KRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAADT  199 (203)
T ss_dssp             CTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             HcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHHH
Confidence            99999999999999999999754   446688888999999885443

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.27  E-value=0.43  Score=42.93  Aligned_cols=140  Identities=12%  Similarity=0.120  Sum_probs=78.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCch-HHHHHH
Q 005881          448 WNTMLVGYAQHGLGREALEIYSMMQENKIKPND----NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRM-DHIASV  522 (672)
Q Consensus       448 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l  522 (672)
                      +-.....+...|++.+|.+.|+++...-  |+.    .....++.++.+.|++++|...++..++.+.-.|.. ..+-.+
T Consensus         8 lY~~a~~~~~~g~y~~Ai~~f~~l~~~~--P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~   85 (203)
T PF13525_consen    8 LYQKALEALQQGDYEEAIKLFEKLIDRY--PNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYML   85 (203)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHHH---TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHH
Confidence            3344556677788888888888887742  221    245566777788888888888888877665444432 121111


Q ss_pred             HHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc-----------------hH
Q 005881          523 VHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTS-----------------AH  585 (672)
Q Consensus       523 ~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~-----------------~~  585 (672)
                      +.++...  ....   +                ......+....|...++.+++.-|+++.                 .-
T Consensus        86 g~~~~~~--~~~~---~----------------~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e  144 (203)
T PF13525_consen   86 GLSYYKQ--IPGI---L----------------RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHE  144 (203)
T ss_dssp             HHHHHHH--HHHH---H-----------------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHh--Cccc---h----------------hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHH
Confidence            1111110  0000   0                0112233445666677777777776542                 23


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          586 IMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       586 ~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ..++..|.+.|.+..|..-++.+.+
T Consensus       145 ~~ia~~Y~~~~~y~aA~~r~~~v~~  169 (203)
T PF13525_consen  145 LYIARFYYKRGKYKAAIIRFQYVIE  169 (203)
T ss_dssp             HHHHHHHHCTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHH
Confidence            3678889999999999999998875

>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=96.24  E-value=0.019  Score=48.58  Aligned_cols=61  Identities=18%  Similarity=0.128  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          550 VWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       550 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +...++..+...|+++.|...+++++..+|-+...|..++.+|...|+..+|.+.++.+..
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~  124 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRR  124 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            4556677788999999999999999999999999999999999999999999999998753

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.15  E-value=0.048  Score=42.97  Aligned_cols=89  Identities=13%  Similarity=0.041  Sum_probs=61.1

Q ss_pred             HHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC----chHHHHHHHHHhcCC
Q 005881          524 HLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDT----SAHIMLSNVYAEANM  597 (672)
Q Consensus       524 ~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~----~~~~~l~~~~~~~g~  597 (672)
                      -++...|+++.|++.|.+ +.+-| +...|+.-..+++-+|+.++|+.-+++++++.-+..    .+|+..+.+|...|+
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            345667777777777754 33344 566777777778888888888888888877653222    346677777888888


Q ss_pred             hHHHHHHHHHHhhCC
Q 005881          598 WDETAKVRKIMKEKS  612 (672)
Q Consensus       598 ~~~a~~~~~~~~~~~  612 (672)
                      -+.|..-|+...+-|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            888888887766543

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.13  E-value=0.28  Score=46.25  Aligned_cols=121  Identities=12%  Similarity=0.110  Sum_probs=55.2

Q ss_pred             HHHHhhccCcHHHHHHHHHHhHHhhCCCC----chHHHHHHHHHhhccCChHHHHHHHH-------hCCCCCCHHHH---
Q 005881          486 VLSACVHIGLVEEGWHYFNSMIRDHGISP----RMDHIASVVHLFACRGQTRRAYEFIK-------SSPIEPNKVVW---  551 (672)
Q Consensus       486 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~-------~~~~~p~~~~~---  551 (672)
                      +..++...+.++++++.|+...+-..-..    ...++..|...|.+..++++|.-+..       ..+++.=...|   
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            34444444555555555555442111111    12455556666666666555544332       22222111111   


Q ss_pred             --HHHHHHHHhcCCHHHHHHHHHHHhcC--CCCC----CchHHHHHHHHHhcCChHHHHHHHH
Q 005881          552 --RCLLSGCKTHKDLVLGRYAAEKILST--DPED----TSAHIMLSNVYAEANMWDETAKVRK  606 (672)
Q Consensus       552 --~~l~~~~~~~g~~~~a~~~~~~~~~~--~p~~----~~~~~~l~~~~~~~g~~~~a~~~~~  606 (672)
                        ..+.-+++..|.+..|.+..+++.++  ...|    +.....++++|...|+.|.|..-++
T Consensus       208 ~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe  270 (518)
T KOG1941|consen  208 SLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYE  270 (518)
T ss_pred             HHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHH
Confidence              22233455566666666665555332  2222    2233356666666666665555444

>PRK11906 transcriptional regulator; Provisional

Probab=96.06  E-value=0.27  Score=48.65  Aligned_cols=65  Identities=6%  Similarity=-0.144  Sum_probs=37.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          547 NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       547 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      |+.+...+..+....++.+.|...+++++.++|+.+.++...+.+..-.|+.++|.+.+++..+.
T Consensus       337 Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL  401 (458)
T PRK11906        337 DGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQL  401 (458)
T ss_pred             CHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Confidence            44444444444455555666666666666666666666666666666666666666666654433

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.06  E-value=0.067  Score=51.35  Aligned_cols=95  Identities=16%  Similarity=0.117  Sum_probs=74.6

Q ss_pred             HHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHh
Q 005881          517 DHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAE  594 (672)
Q Consensus       517 ~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  594 (672)
                      ..+..+.-++.+.+++.+|++.-.+ +..+| |.-..---..+|...|+++.|+..|+++++++|+|-.+...|..+-.+
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k  337 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQK  337 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            3466677888888888888887654 33344 555666667789999999999999999999999999998899888877


Q ss_pred             cCChHHH-HHHHHHHhhC
Q 005881          595 ANMWDET-AKVRKIMKEK  611 (672)
Q Consensus       595 ~g~~~~a-~~~~~~~~~~  611 (672)
                      ..++.+. .++|..|-..
T Consensus       338 ~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  338 IREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHHhhc
Confidence            7766655 7788888643

>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=96.06  E-value=0.0089  Score=44.01  Aligned_cols=29  Identities=14%  Similarity=-0.149  Sum_probs=19.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhcC
Q 005881          549 VVWRCLLSGCKTHKDLVLGRYAAEKILST  577 (672)
Q Consensus       549 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  577 (672)
                      .++..+...+...|++++|++.+++++++
T Consensus        47 ~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen   47 NTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            34566666677777777777777777653

...

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.04  E-value=0.19  Score=41.12  Aligned_cols=86  Identities=12%  Similarity=0.052  Sum_probs=52.2

Q ss_pred             HhhccCChHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCch---HHHHHHHHHhcC
Q 005881          525 LFACRGQTRRAYEFIKSS----PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSA---HIMLSNVYAEAN  596 (672)
Q Consensus       525 ~~~~~g~~~~A~~~~~~~----~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~---~~~l~~~~~~~g  596 (672)
                      ...+.|++++|.+.|+.+    |..| ...+-..++.++.+.++++.|...+++.++++|.++.+   +...+-++....
T Consensus        19 ~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~~~   98 (142)
T PF13512_consen   19 EALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYEQD   98 (142)
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHHHh
Confidence            344556666666665543    2222 33445557777888888888888888888888877643   334444444443


Q ss_pred             C---------------hHHHHHHHHHHhh
Q 005881          597 M---------------WDETAKVRKIMKE  610 (672)
Q Consensus       597 ~---------------~~~a~~~~~~~~~  610 (672)
                      .               ..+|...|+.+.+
T Consensus        99 ~~~~~~~~~~drD~~~~~~A~~~f~~lv~  127 (142)
T PF13512_consen   99 EGSLQSFFRSDRDPTPARQAFRDFEQLVR  127 (142)
T ss_pred             hhHHhhhcccccCcHHHHHHHHHHHHHHH
Confidence            3               5566666666554

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.03  E-value=0.59  Score=37.25  Aligned_cols=140  Identities=13%  Similarity=0.042  Sum_probs=78.8

Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHH
Q 005881          456 AQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRA  535 (672)
Q Consensus       456 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  535 (672)
                      .-.|..++..++..+....   .+..-++.++--...+-+=+-..+.++.+-+-+    |          ...+|++...
T Consensus        13 ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiF----D----------is~C~NlKrV   75 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIF----D----------ISKCGNLKRV   75 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS---------------GGG-S-THHH
T ss_pred             HHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhc----C----------chhhcchHHH
Confidence            3456667777777766652   222333333332222223333344444332211    1          1235555555


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCCc
Q 005881          536 YEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLK  614 (672)
Q Consensus       536 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  614 (672)
                      ...+-.++  .+.......+.....+|+-++-..++..+.+.+..+|+....++.+|.+.|+..++.+++++.-++|++
T Consensus        76 i~C~~~~n--~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   76 IECYAKRN--KLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHTT-----HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            55554443  233344556777889999999999999988665558899999999999999999999999999888874

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.01  E-value=1.6  Score=42.24  Aligned_cols=159  Identities=12%  Similarity=0.021  Sum_probs=100.1

Q ss_pred             CChHHHHHHHH-HHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHH--HHhcCCHHHHHHHHhhCCCCCchh------
Q 005881          377 PNLYTYSNILN-ISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDM--YAKCGRLNDARKVFDHLSSKNLVS------  447 (672)
Q Consensus       377 p~~~t~~~ll~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~~~~~~~~~~------  447 (672)
                      |...++..+-. ++...++.++|.++--.+.+....   ..+..+++.  +--.++.+.|...|++....|+..      
T Consensus       166 pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~~---n~~al~vrg~~~yy~~~~~ka~~hf~qal~ldpdh~~sk~~  242 (486)
T KOG0550|consen  166 PACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDAT---NAEALYVRGLCLYYNDNADKAINHFQQALRLDPDHQKSKSA  242 (486)
T ss_pred             chhhHHHHhhhhhhhhcccchhHHHHHHHHHhcccc---hhHHHHhcccccccccchHHHHHHHhhhhccChhhhhHHhH
Confidence            33444444432 445677888887776666654321   122222322  223577888888888877544322      


Q ss_pred             ---------HHHHHHHHHhcCChHHHHHHHHHHHHC---CCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc
Q 005881          448 ---------WNTMLVGYAQHGLGREALEIYSMMQEN---KIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR  515 (672)
Q Consensus       448 ---------~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~  515 (672)
                               |..-..-..+.|++.+|.+.|.+.+..   ++.|+...|.....+..+.|+..+|+.-.+...   .+.|.
T Consensus       243 ~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al---~iD~s  319 (486)
T KOG0550|consen  243 SMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEAL---KIDSS  319 (486)
T ss_pred             hhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhh---hcCHH
Confidence                     222233356788999999999988873   234445567777888889999999998887665   44443


Q ss_pred             -hHHHHHHHHHhhccCChHHHHHHHHh
Q 005881          516 -MDHIASVVHLFACRGQTRRAYEFIKS  541 (672)
Q Consensus       516 -~~~~~~l~~~~~~~g~~~~A~~~~~~  541 (672)
                       ...|..-..++.-.+++++|.+-+++
T Consensus       320 yikall~ra~c~l~le~~e~AV~d~~~  346 (486)
T KOG0550|consen  320 YIKALLRRANCHLALEKWEEAVEDYEK  346 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             24444455666677888888888865

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.97  E-value=0.27  Score=45.34  Aligned_cols=119  Identities=9%  Similarity=0.101  Sum_probs=81.8

Q ss_pred             HhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHH---HHHHHHhcCCH
Q 005881          489 ACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRC---LLSGCKTHKDL  564 (672)
Q Consensus       489 ~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~---l~~~~~~~g~~  564 (672)
                      .....|+..+|...|+.....   .| +.+....|+.+|...|+.++|..++..++.+-....|..   -+....+..+.
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~---~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQA---APENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHh---CcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcC
Confidence            455678888888888877632   33 456677788888888888888888888875554444444   12223333333


Q ss_pred             HHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          565 VLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       565 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      .+... +++-+..+|+|...-..++..|...|+.++|.+.+-.+..+
T Consensus       220 ~~~~~-l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~  265 (304)
T COG3118         220 PEIQD-LQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRR  265 (304)
T ss_pred             CCHHH-HHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            32222 34455678999999999999999999999999877666543

>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=95.89  E-value=0.11  Score=42.01  Aligned_cols=49  Identities=10%  Similarity=0.125  Sum_probs=26.2

Q ss_pred             CCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHH
Q 005881          476 IKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVH  524 (672)
Q Consensus       476 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  524 (672)
                      +.|+..+..+++.+|+..|++..|.++.+...+.++++.+...|..|+.
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            3455555555555555555555555555555555554444445444443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.82  E-value=3.2  Score=44.16  Aligned_cols=82  Identities=16%  Similarity=0.105  Sum_probs=51.6

Q ss_pred             HHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHH
Q 005881           50 GFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSS  129 (672)
Q Consensus        50 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  129 (672)
                      .+-+.|++++|...|-+-+.. +.|     ..+++-+.....+..-...++.+.+.|+. +...-+.|+..|.+.++.+.
T Consensus       377 ~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~k  449 (933)
T KOG2114|consen  377 YLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEK  449 (933)
T ss_pred             HHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHH
Confidence            445567777777777665432 222     23455555555666666677777777754 44555677777888777777


Q ss_pred             HHHHhhccC
Q 005881          130 AQFVFDASL  138 (672)
Q Consensus       130 a~~~~~~~~  138 (672)
                      -.++.+...
T Consensus       450 L~efI~~~~  458 (933)
T KOG2114|consen  450 LTEFISKCD  458 (933)
T ss_pred             HHHHHhcCC
Confidence            777666554

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=95.80  E-value=0.092  Score=44.39  Aligned_cols=70  Identities=14%  Similarity=0.180  Sum_probs=43.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhH----HhhCCCCchHH
Q 005881          448 WNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMI----RDHGISPRMDH  518 (672)
Q Consensus       448 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~----~~~~~~p~~~~  518 (672)
                      ...++..+...|++++|.++++++.... +-|...+..++.++...|+..+|.+.|+.+.    +..|+.|+..+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            3445666677788888888888777742 3445677778888888888888887777654    24566666544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.60  E-value=0.074  Score=52.39  Aligned_cols=62  Identities=8%  Similarity=0.059  Sum_probs=37.0

Q ss_pred             hHHHHHHHHHhhccCChHHHHHHHHh-CCCCCCHH----HHHHHHHHHHhcCCHHHHHHHHHHHhcC
Q 005881          516 MDHIASVVHLFACRGQTRRAYEFIKS-SPIEPNKV----VWRCLLSGCKTHKDLVLGRYAAEKILST  577 (672)
Q Consensus       516 ~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~~~----~~~~l~~~~~~~g~~~~a~~~~~~~~~~  577 (672)
                      ...+..+..+|...|++++|+..|++ +.+.|+..    +|..+..+|...|+.++|+..+++++++
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            35555556666666666666666654 44455432    3666666666666666666666666665

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.55  E-value=0.022  Score=33.68  Aligned_cols=32  Identities=16%  Similarity=0.061  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 005881          549 VVWRCLLSGCKTHKDLVLGRYAAEKILSTDPE  580 (672)
Q Consensus       549 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  580 (672)
                      .+|..+...+...|++++|+..++++++++|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            45677777788888888888888888888885

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 ....

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.51  E-value=1.1  Score=41.58  Aligned_cols=175  Identities=11%  Similarity=0.039  Sum_probs=111.4

Q ss_pred             HHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhC
Q 005881          432 DARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHG  511 (672)
Q Consensus       432 ~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  511 (672)
                      ...+++++...+....--.-.......|++.+|..+|+...+.. +-+...-..+..++...|+++.|..++..+-.+. 
T Consensus       121 qlr~~ld~~~~~~~e~~~~~~~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~-  198 (304)
T COG3118         121 QLRQFLDKVLPAEEEEALAEAKELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQA-  198 (304)
T ss_pred             HHHHHHHHhcChHHHHHHHHhhhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccc-
Confidence            44455555544322222223345667889999999999888852 3334566678888899999999999987654211 


Q ss_pred             CCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC--CCCchHHHH
Q 005881          512 ISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDP--EDTSAHIML  588 (672)
Q Consensus       512 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p--~~~~~~~~l  588 (672)
                      -.........-+..+.+.....+..++-.+....| |...-..+...+...|+.+.|...+-.+++.+.  ++...-..+
T Consensus       199 ~~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~l  278 (304)
T COG3118         199 QDKAAHGLQAQIELLEQAAATPEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTL  278 (304)
T ss_pred             hhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHH
Confidence            01111122334566666666666666666655567 555666777778889999999888777776543  466777788


Q ss_pred             HHHHHhcCChHH-HHHHHHHH
Q 005881          589 SNVYAEANMWDE-TAKVRKIM  608 (672)
Q Consensus       589 ~~~~~~~g~~~~-a~~~~~~~  608 (672)
                      ..++...|.-+. +.+.++++
T Consensus       279 le~f~~~g~~Dp~~~~~RRkL  299 (304)
T COG3118         279 LELFEAFGPADPLVLAYRRKL  299 (304)
T ss_pred             HHHHHhcCCCCHHHHHHHHHH
Confidence            888888774443 33444444

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.50  E-value=0.32  Score=48.30  Aligned_cols=193  Identities=11%  Similarity=0.046  Sum_probs=108.3

Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHH
Q 005881          457 QHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAY  536 (672)
Q Consensus       457 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  536 (672)
                      +..+++.-+++-++.++  +.||..+-..++ +--.+....++.+++++..+....     .+..- ......|   ...
T Consensus       180 RERnp~aRIkaA~eALe--i~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkAgE~-----~lg~s-~~~~~~g---~~~  247 (539)
T PF04184_consen  180 RERNPQARIKAAKEALE--INPDCADAYILL-AEEEASTIVEAEELLRQAVKAGEA-----SLGKS-QFLQHHG---HFW  247 (539)
T ss_pred             hcCCHHHHHHHHHHHHH--hhhhhhHHHhhc-ccccccCHHHHHHHHHHHHHHHHH-----hhchh-hhhhccc---chh
Confidence            33455666666666666  567765433333 233345578888888877632110     00000 0000111   111


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC--CCchHHHHHHHHHhcCChHHHHHHHHHHhhCCCc
Q 005881          537 EFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPE--DTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLK  614 (672)
Q Consensus       537 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  614 (672)
                      +.+.+...+|-...-..+...+++.|+.++|.+.++.+++..|.  +...+..|+.++...+.+.++..++.+-.+-...
T Consensus       248 e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lp  327 (539)
T PF04184_consen  248 EAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLP  327 (539)
T ss_pred             hhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCC
Confidence            22222222333333455666778889999999999999987774  5567889999999999999999999887554444


Q ss_pred             cCCceeEEEeCCEEEEEEeccccCCC-------hHHHHHHHHHHHHHHHhCCccCC
Q 005881          615 KDTGCSWTELQNKMHYFSTSRFAQFQ-------GIDLHEVMNQLSVHLFDGGYVPD  663 (672)
Q Consensus       615 ~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~g~~~~  663 (672)
                      +....+|..  .-+..-..+|...|+       .......++.+.+.+....++|+
T Consensus       328 kSAti~YTa--ALLkaRav~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHVp~  381 (539)
T PF04184_consen  328 KSATICYTA--ALLKARAVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHVPK  381 (539)
T ss_pred             chHHHHHHH--HHHHHHhhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCCch
Confidence            444344420  000111122222221       12233456677788888888885

The molecular function of this protein is uncertain.

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.46  E-value=0.034  Score=32.77  Aligned_cols=32  Identities=22%  Similarity=0.204  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC
Q 005881          550 VWRCLLSGCKTHKDLVLGRYAAEKILSTDPED  581 (672)
Q Consensus       550 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  581 (672)
                      .|..+...+...|++++|+..++++++++|+|
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            45566677777888888888888888887754

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.44  E-value=2.9  Score=41.03  Aligned_cols=92  Identities=15%  Similarity=0.174  Sum_probs=68.6

Q ss_pred             HHHHhccCCC-C-CcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhC
Q 005881           29 AQKLFDEMPE-R-NVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSG  106 (672)
Q Consensus        29 a~~~~~~~~~-~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g  106 (672)
                      -+++=+++++ | |+.+|-.||..+-.+|..++..+++++|..- .+--+.+|..-+.+-....++...+.+|.+.++..
T Consensus        28 ~lrLRerIkdNPtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~p-fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~  106 (660)
T COG5107          28 ELRLRERIKDNPTNILSYFQLIQYLETQESMDAEREMYEQLSSP-FPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKS  106 (660)
T ss_pred             HHHHHHHhhcCchhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC-CccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhh
Confidence            3356666665 3 6778999999999999999999999998642 33445677777777777789999999999988875


Q ss_pred             CCCChhHHHHHHHHHHh
Q 005881          107 LELNSHVSNCLINMYGK  123 (672)
Q Consensus       107 ~~~~~~~~~~li~~~~~  123 (672)
                      +  +...|...++.--+
T Consensus       107 l--~ldLW~lYl~YIRr  121 (660)
T COG5107         107 L--NLDLWMLYLEYIRR  121 (660)
T ss_pred             c--cHhHHHHHHHHHHh
Confidence            4  45566666664443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.43  E-value=2  Score=39.07  Aligned_cols=166  Identities=17%  Similarity=0.156  Sum_probs=95.3

Q ss_pred             HhcCCHHHHHHHHhhCCCCCc------hhHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHhhc-----
Q 005881          425 AKCGRLNDARKVFDHLSSKNL------VSWNTMLVGYAQHGLGREALEIYSMMQENK-IKPNDNTFIGVLSACVH-----  492 (672)
Q Consensus       425 ~~~g~~~~A~~~~~~~~~~~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~ll~~~~~-----  492 (672)
                      .+.|++++|.+.|+.+.+..+      .+--.++-++.+.++++.|+...++....- -.|| .-|...|.+++.     
T Consensus        45 L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n-~dY~~YlkgLs~~~~i~  123 (254)
T COG4105          45 LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPN-ADYAYYLKGLSYFFQID  123 (254)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCC-hhHHHHHHHHHHhccCC
Confidence            355788888888877763221      133334556667788888888888877642 1222 233333333332     


Q ss_pred             --cCcHHHHH---HHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHH--HHHHHHHHhcCCHH
Q 005881          493 --IGLVEEGW---HYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVW--RCLLSGCKTHKDLV  565 (672)
Q Consensus       493 --~g~~~~a~---~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~--~~l~~~~~~~g~~~  565 (672)
                        ..+...+.   .-|+.++.++   |+             +.-..+|...+....   |....  ..+..-|.+.|.+.
T Consensus       124 ~~~rDq~~~~~A~~~f~~~i~ry---Pn-------------S~Ya~dA~~~i~~~~---d~LA~~Em~IaryY~kr~~~~  184 (254)
T COG4105         124 DVTRDQSAARAAFAAFKELVQRY---PN-------------SRYAPDAKARIVKLN---DALAGHEMAIARYYLKRGAYV  184 (254)
T ss_pred             ccccCHHHHHHHHHHHHHHHHHC---CC-------------CcchhhHHHHHHHHH---HHHHHHHHHHHHHHHHhcChH
Confidence              12222233   3333333221   22             222222222222110   11111  23455688999999


Q ss_pred             HHHHHHHHHhcCCCCCCc---hHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          566 LGRYAAEKILSTDPEDTS---AHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       566 ~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      .|..-++.+++--|+.+.   ++..+..+|...|..++|.+.-+-+..
T Consensus       185 AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         185 AAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            999999999998776554   455677779999999999999887764

>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=95.39  E-value=0.18  Score=40.78  Aligned_cols=52  Identities=25%  Similarity=0.389  Sum_probs=38.4

Q ss_pred             hhCCCCchHHHHHHHHHhhccCChHHHHHHHHh----CCCCCCHHHHHHHHHHHHh
Q 005881          509 DHGISPRMDHIASVVHLFACRGQTRRAYEFIKS----SPIEPNKVVWRCLLSGCKT  560 (672)
Q Consensus       509 ~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~----~~~~p~~~~~~~l~~~~~~  560 (672)
                      ...+.|+..+..+++.+|+..|++..|+++++.    -+++-+...|..|+.-+..
T Consensus        45 ~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   45 SSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             CCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            345678888888888888888888888888764    2444467788888765443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.35  E-value=0.11  Score=47.40  Aligned_cols=66  Identities=17%  Similarity=0.223  Sum_probs=42.6

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC---CchHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          545 EPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPED---TSAHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       545 ~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                      .||..-|  |...+...|++++|...|..+.+-.|++   |+++.-|+.+..+.|+.++|..+++++.++-
T Consensus       177 ~~nA~yW--LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k~Y  245 (262)
T COG1729         177 TPNAYYW--LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIKRY  245 (262)
T ss_pred             cchhHHH--HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHHC
Confidence            3444444  5566666777777777777776655543   4556677777777777777777777766543

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.32  E-value=2.3  Score=39.08  Aligned_cols=192  Identities=17%  Similarity=0.144  Sum_probs=116.4

Q ss_pred             cHHHHHHHHHHhcCCHHHHHHHHhhCC-----CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH-
Q 005881          415 VIGSALVDMYAKCGRLNDARKVFDHLS-----SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLS-  488 (672)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~-  488 (672)
                      .........+...+.+..+...+....     ......+......+...+++..+.+.+.........+. ........ 
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  138 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLALG  138 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHHH
Confidence            344455555666666666666665543     22333455555666666667777777777766432221 12222222 


Q ss_pred             HhhccCcHHHHHHHHHHhHHhhCCCC----chHHHHHHHHHhhccCChHHHHHHHHhC-CCCCC--HHHHHHHHHHHHhc
Q 005881          489 ACVHIGLVEEGWHYFNSMIRDHGISP----RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEPN--KVVWRCLLSGCKTH  561 (672)
Q Consensus       489 ~~~~~g~~~~a~~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~--~~~~~~l~~~~~~~  561 (672)
                      .+...|+++.|...+.....   ..|    ....+......+...++.++|...+.+. ...|+  ...+..+...+...
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  215 (291)
T COG0457         139 ALYELGDYEEALELYEKALE---LDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKL  215 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHh---cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHc
Confidence            56677777777777776642   222    2233444444466677777777777653 23333  45566666677777


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          562 KDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       562 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ++.+.+...+..+++..|.....+..++..+...|.++++...+.+...
T Consensus       216 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         216 GKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             ccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            7888888888888888876555666666666666678888877776654

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.11  E-value=0.062  Score=42.35  Aligned_cols=55  Identities=16%  Similarity=-0.069  Sum_probs=51.2

Q ss_pred             HHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          557 GCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       557 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      +....|+++.|++.|.+++.+-|.++++|.+.+..|.-+|+.++|.+-+++..+-
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleL  106 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALEL  106 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHh
Confidence            4678899999999999999999999999999999999999999999999987763

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.08  E-value=1.6  Score=36.48  Aligned_cols=41  Identities=7%  Similarity=0.041  Sum_probs=18.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhc
Q 005881          451 MLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVH  492 (672)
Q Consensus       451 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  492 (672)
                      ++..+...+.+.....+++.+...+ ..+...++.++..+++
T Consensus        13 vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~   53 (140)
T smart00299       13 VVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAK   53 (140)
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHH
Confidence            4444444444555555555544443 2333344444444443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.01  E-value=1.3  Score=44.26  Aligned_cols=102  Identities=8%  Similarity=0.104  Sum_probs=71.5

Q ss_pred             HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCC--CCC--HHHHHHHHHH
Q 005881          482 TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPI--EPN--KVVWRCLLSG  557 (672)
Q Consensus       482 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~--~~~~~~l~~~  557 (672)
                      +-..+..++.+.|+.++|++.|++|.+.........+...|+.+|...+.+.++..++.+-..  -|.  ..+|+..+-.
T Consensus       261 ~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLk  340 (539)
T PF04184_consen  261 AKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLK  340 (539)
T ss_pred             hHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHH
Confidence            334566777889999999999999986543222446777899999999999999999887541  233  3356665544


Q ss_pred             HHhcCC---------------HHHHHHHHHHHhcCCCCCCc
Q 005881          558 CKTHKD---------------LVLGRYAAEKILSTDPEDTS  583 (672)
Q Consensus       558 ~~~~g~---------------~~~a~~~~~~~~~~~p~~~~  583 (672)
                      .+..+|               -..|.++..++.+.+|.-+.
T Consensus       341 aRav~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHVp~  381 (539)
T PF04184_consen  341 ARAVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHVPK  381 (539)
T ss_pred             HHhhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCCch
Confidence            544444               13456788899999986553

The molecular function of this protein is uncertain.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.97  E-value=0.14  Score=46.35  Aligned_cols=99  Identities=16%  Similarity=0.279  Sum_probs=77.4

Q ss_pred             HHHHHhccCC--CCCcchHHHHHHHHHcC-----CCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCC----------
Q 005881           28 DAQKLFDEMP--ERNVISWSALISGFSQI-----GMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRG----------   90 (672)
Q Consensus        28 ~a~~~~~~~~--~~~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~----------   90 (672)
                      ..+..|..++  ++|-.+|-..+..+...     +.++=....++.|++.|+.-|..+|+.||+.+-+..          
T Consensus        52 ~~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~  131 (406)
T KOG3941|consen   52 HVEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKV  131 (406)
T ss_pred             chhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHH
Confidence            3445566665  47778888888777553     556667778899999999999999999998875432          


Q ss_pred             ------ChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCC
Q 005881           91 ------DARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGL  126 (672)
Q Consensus        91 ------~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  126 (672)
                            .-.-+..++++|...|+-||..+-..|++++.+.+-
T Consensus       132 F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  132 FLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                  234578899999999999999999999999987764

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.93  E-value=0.46  Score=43.44  Aligned_cols=85  Identities=19%  Similarity=0.207  Sum_probs=50.3

Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHhhcc
Q 005881          455 YAQHGLGREALEIYSMMQENKIKPND----NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR-MDHIASVVHLFACR  529 (672)
Q Consensus       455 ~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~  529 (672)
                      +.+.|++..|...|...++..  |+.    ..+-.|..++...|++++|..+|..+.+.++-.|. ++.+--|+....+.
T Consensus       151 ~~ksgdy~~A~~~F~~fi~~Y--P~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l  228 (262)
T COG1729         151 LYKSGDYAEAEQAFQAFIKKY--PNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRL  228 (262)
T ss_pred             HHHcCCHHHHHHHHHHHHHcC--CCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHh
Confidence            445566777777777777652  322    23555677777777777777777777665544443 25555555555555


Q ss_pred             CChHHHHHHHHh
Q 005881          530 GQTRRAYEFIKS  541 (672)
Q Consensus       530 g~~~~A~~~~~~  541 (672)
                      |+.++|...+++
T Consensus       229 ~~~d~A~atl~q  240 (262)
T COG1729         229 GNTDEACATLQQ  240 (262)
T ss_pred             cCHHHHHHHHHH
Confidence            555555555443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=94.89  E-value=2.8  Score=41.68  Aligned_cols=151  Identities=9%  Similarity=-0.074  Sum_probs=82.5

Q ss_pred             CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC---CHHHHHHHHHHhhccCcHHHHHHHHHHhHHh-hCCCCchHH
Q 005881          443 KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKP---NDNTFIGVLSACVHIGLVEEGWHYFNSMIRD-HGISPRMDH  518 (672)
Q Consensus       443 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~~~p~~~~  518 (672)
                      ....+|..++..+.+.|+++.|...+.++...+..+   +......-...+...|+..+|...++..... .....+...
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~~~~~~~  223 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSKNIDSIS  223 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcccccc
Confidence            344578888888999999999999998888754222   2233334455566678888998888877641 111101111


Q ss_pred             HHHHHHHhhccCChHHHHHH-HHhCCCCCCHHHHHHHHHHHHh------cCCHHHHHHHHHHHhcCCCCCCchHHHHHHH
Q 005881          519 IASVVHLFACRGQTRRAYEF-IKSSPIEPNKVVWRCLLSGCKT------HKDLVLGRYAAEKILSTDPEDTSAHIMLSNV  591 (672)
Q Consensus       519 ~~~l~~~~~~~g~~~~A~~~-~~~~~~~p~~~~~~~l~~~~~~------~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  591 (672)
                      ...+...+..  ..+..... ........-..++..+..-+..      .++.+.+...|+++.++.|+....|..++..
T Consensus       224 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~~  301 (352)
T PF02259_consen  224 NAELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWALF  301 (352)
T ss_pred             HHHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHHHH
Confidence            1111111000  00000000 0000000001122222233333      3889999999999999999888888887777


Q ss_pred             HHhc
Q 005881          592 YAEA  595 (672)
Q Consensus       592 ~~~~  595 (672)
                      +.+.
T Consensus       302 ~~~~  305 (352)
T PF02259_consen  302 NDKL  305 (352)
T ss_pred             HHHH
Confidence            6543

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.83  E-value=0.86  Score=42.67  Aligned_cols=151  Identities=9%  Similarity=0.061  Sum_probs=86.5

Q ss_pred             cCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHH----HHHHhhccCcHHHH
Q 005881          427 CGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIG----VLSACVHIGLVEEG  499 (672)
Q Consensus       427 ~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~----ll~~~~~~g~~~~a  499 (672)
                      .|+..+|...++++.   ..|..+++-.-.+|...|+.+.-...+++.... ..||...|..    +.-++...|-+++|
T Consensus       116 ~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            466666666666665   346667777777777777777777777777654 3455533322    22234566777777


Q ss_pred             HHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhCCCCCC-------HHHHHHHHHHHHhcCCHHHHHHHH
Q 005881          500 WHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSSPIEPN-------KVVWRCLLSGCKTHKDLVLGRYAA  571 (672)
Q Consensus       500 ~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~-------~~~~~~l~~~~~~~g~~~~a~~~~  571 (672)
                      .+.-++..   .+.| |.-...++...+.-.|+..++.+++.+-.-.-+       ..-|.. .-.+...+.++.|+.+|
T Consensus       195 Ek~A~ral---qiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~-Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  195 EKQADRAL---QINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHT-ALFHIEGAEYEKALEIY  270 (491)
T ss_pred             HHHHHhhc---cCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHH-HHhhhcccchhHHHHHH
Confidence            77666554   3333 334444566667777788888877765421111       111111 11233446777777777


Q ss_pred             HHHh--cCCCCCC
Q 005881          572 EKIL--STDPEDT  582 (672)
Q Consensus       572 ~~~~--~~~p~~~  582 (672)
                      ++-+  +++.+|.
T Consensus       271 D~ei~k~l~k~Da  283 (491)
T KOG2610|consen  271 DREIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHHhhccch
Confidence            6544  3444444

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.76  E-value=0.11  Score=44.45  Aligned_cols=88  Identities=11%  Similarity=0.084  Sum_probs=63.7

Q ss_pred             hhccCChHHHHHHHHh-CCCCC------CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCCh
Q 005881          526 FACRGQTRRAYEFIKS-SPIEP------NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMW  598 (672)
Q Consensus       526 ~~~~g~~~~A~~~~~~-~~~~p------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  598 (672)
                      +...|++++|..-+.. +.+-|      ..+.|..-..+..+.+..+.|+....++++++|....+....+.+|.+..++
T Consensus       105 ~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek~  184 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEKY  184 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhhH
Confidence            4455566666555432 11111      2334445556677888999999999999999998888888889999999999


Q ss_pred             HHHHHHHHHHhhCCC
Q 005881          599 DETAKVRKIMKEKSL  613 (672)
Q Consensus       599 ~~a~~~~~~~~~~~~  613 (672)
                      ++|.+-++++.+..+
T Consensus       185 eealeDyKki~E~dP  199 (271)
T KOG4234|consen  185 EEALEDYKKILESDP  199 (271)
T ss_pred             HHHHHHHHHHHHhCc
Confidence            999999998887544

>PRK15331 chaperone protein SicA; Provisional

Probab=94.74  E-value=0.55  Score=39.50  Aligned_cols=11  Identities=27%  Similarity=0.265  Sum_probs=4.1

Q ss_pred             CChHHHHHHHH
Q 005881          459 GLGREALEIYS  469 (672)
Q Consensus       459 g~~~~A~~~~~  469 (672)
                      |++++|..+|.
T Consensus        51 Gk~~eA~~~F~   61 (165)
T PRK15331         51 GRLDEAETFFR   61 (165)
T ss_pred             CCHHHHHHHHH
Confidence            33333333333

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.69  E-value=0.31  Score=49.39  Aligned_cols=54  Identities=13%  Similarity=-0.057  Sum_probs=24.6

Q ss_pred             chHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005881          515 RMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKI  574 (672)
Q Consensus       515 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  574 (672)
                      +...|..|.+...++|+++-|.+.+++.+      -|..|+-.|...|+.+.-.++.+.+
T Consensus       346 ~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~------d~~~L~lLy~~~g~~~~L~kl~~~a  399 (443)
T PF04053_consen  346 DPEKWKQLGDEALRQGNIELAEECYQKAK------DFSGLLLLYSSTGDREKLSKLAKIA  399 (443)
T ss_dssp             THHHHHHHHHHHHHTTBHHHHHHHHHHCT-------HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHhhc------CccccHHHHHHhCCHHHHHHHHHHH
Confidence            34455555555555555555555555443      1333344444445544444444443

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=94.58  E-value=2.1  Score=35.70  Aligned_cols=27  Identities=22%  Similarity=0.422  Sum_probs=14.5

Q ss_pred             CChHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 005881          530 GQTRRAYEFIKSSPIEPNKVVWRCLLSGCK  559 (672)
Q Consensus       530 g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~  559 (672)
                      ++.+.|.+++++..   ++..|..++..+.
T Consensus       110 ~d~~~a~~~~~~~~---~~~lw~~~~~~~l  136 (140)
T smart00299      110 GNYEKAIEYFVKQN---NPELWAEVLKALL  136 (140)
T ss_pred             cCHHHHHHHHHhCC---CHHHHHHHHHHHH
Confidence            55566666665532   4445655555543

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.49  E-value=3.5  Score=37.06  Aligned_cols=89  Identities=11%  Similarity=0.032  Sum_probs=54.6

Q ss_pred             HHHHHHHHHhhccCChHHHHHHHHhCC-------CCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHhc----CCCCCCch
Q 005881          517 DHIASVVHLFACRGQTRRAYEFIKSSP-------IEPNK-VVWRCLLSGCKTHKDLVLGRYAAEKILS----TDPEDTSA  584 (672)
Q Consensus       517 ~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~p~~~~~  584 (672)
                      +.+..+...|.+..++++|-..|.+-+       .-|+. ..+-+.+-.+....|+..|+..++..-.    ..|++..+
T Consensus       151 el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~  230 (308)
T KOG1585|consen  151 ELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRS  230 (308)
T ss_pred             HHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHH
Confidence            345555667777778877766654421       11222 1233344445566788888888887544    34556666


Q ss_pred             HHHHHHHHHhcCChHHHHHHHH
Q 005881          585 HIMLSNVYAEANMWDETAKVRK  606 (672)
Q Consensus       585 ~~~l~~~~~~~g~~~~a~~~~~  606 (672)
                      ...|...| ..|+.+++.++..
T Consensus       231 lenLL~ay-d~gD~E~~~kvl~  251 (308)
T KOG1585|consen  231 LENLLTAY-DEGDIEEIKKVLS  251 (308)
T ss_pred             HHHHHHHh-ccCCHHHHHHHHc
Confidence            77777666 4578888777664

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.44  E-value=1.1  Score=36.89  Aligned_cols=115  Identities=14%  Similarity=0.096  Sum_probs=58.0

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCCH---HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhc
Q 005881          452 LVGYAQHGLGREALEIYSMMQENKIKPND---NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFAC  528 (672)
Q Consensus       452 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~---~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  528 (672)
                      .....+.|++++|.+.|+.+... .+...   ..-..++.++.+.|++++|...+++.++.+.-.|++ .|.....+++.
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~r-yP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~v-dYa~Y~~gL~~   94 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTR-YPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNV-DYAYYMRGLSY   94 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc-CCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCc-cHHHHHHHHHH
Confidence            34445566677777777666654 22222   244556666667777777777766666443333332 22222222222


Q ss_pred             cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 005881          529 RGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTS  583 (672)
Q Consensus       529 ~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  583 (672)
                      -...+..+.-+-  +             .=+..+....|...|+++++.-|++.-
T Consensus        95 ~~~~~~~~~~~~--~-------------~drD~~~~~~A~~~f~~lv~~yP~S~y  134 (142)
T PF13512_consen   95 YEQDEGSLQSFF--R-------------SDRDPTPARQAFRDFEQLVRRYPNSEY  134 (142)
T ss_pred             HHHhhhHHhhhc--c-------------cccCcHHHHHHHHHHHHHHHHCcCChh
Confidence            111111111110  1             111123356788888899999997643

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.35  E-value=2.7  Score=36.93  Aligned_cols=176  Identities=15%  Similarity=0.093  Sum_probs=96.6

Q ss_pred             CCHHHHHHHHhhCC--CCC-chhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHH
Q 005881          428 GRLNDARKVFDHLS--SKN-LVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYF  503 (672)
Q Consensus       428 g~~~~A~~~~~~~~--~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~  503 (672)
                      |-.+-|+-=|....  .|+ +..||-+.--+...|+++.|.+.|+...+.  .|.. .++..-.-++.-.|++.-|.+-|
T Consensus        79 GL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~EL--Dp~y~Ya~lNRgi~~YY~gR~~LAq~d~  156 (297)
T COG4785          79 GLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYYGGRYKLAQDDL  156 (297)
T ss_pred             hHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhcc--CCcchHHHhccceeeeecCchHhhHHHH
Confidence            33444444444333  333 346777777778888888888888888773  4432 33333333455668888887766


Q ss_pred             HHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC--
Q 005881          504 NSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPED--  581 (672)
Q Consensus       504 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~--  581 (672)
                      ...-+...-.|-...|--+   -.+.-++.+|..-+.+.-..-|..-|...+-.+.- |++. .+.+++++.+...++  
T Consensus       157 ~~fYQ~D~~DPfR~LWLYl---~E~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~a~~n~~  231 (297)
T COG4785         157 LAFYQDDPNDPFRSLWLYL---NEQKLDPKQAKTNLKQRAEKSDKEQWGWNIVEFYL-GKIS-EETLMERLKADATDNTS  231 (297)
T ss_pred             HHHHhcCCCChHHHHHHHH---HHhhCCHHHHHHHHHHHHHhccHhhhhHHHHHHHH-hhcc-HHHHHHHHHhhccchHH
Confidence            5443222222212222222   22344666666555432223455556554444321 1111 122333333332222  


Q ss_pred             -----CchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          582 -----TSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       582 -----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                           +++|..|+..|...|+.++|..+|+....
T Consensus       232 ~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaia  265 (297)
T COG4785         232 LAEHLTETYFYLGKYYLSLGDLDEATALFKLAVA  265 (297)
T ss_pred             HHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence                 46788999999999999999999997654

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=94.28  E-value=4.2  Score=37.11  Aligned_cols=140  Identities=11%  Similarity=0.134  Sum_probs=81.8

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC---HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHH
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMMQENKIKPN---DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVV  523 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  523 (672)
                      .|-.-+..-.+.|++++|.+.|+.+..+. +-+   ..+...++.++.+.+++++|+..+++..+.++-.|+.+ |...+
T Consensus        36 ~LY~~g~~~L~~gn~~~A~~~fe~l~~~~-p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~d-Y~~Yl  113 (254)
T COG4105          36 ELYNEGLTELQKGNYEEAIKYFEALDSRH-PFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNAD-YAYYL  113 (254)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChh-HHHHH
Confidence            34444455566777888888887777542 222   23555666677777778888777777776666566543 22222


Q ss_pred             HHhhccCChHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC-----------------chH
Q 005881          524 HLFACRGQTRRAYEFIKSSP-IEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDT-----------------SAH  585 (672)
Q Consensus       524 ~~~~~~g~~~~A~~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~-----------------~~~  585 (672)
                      .++.          .|...+ ..-|.             .-...|...++..+..-|+..                 ..-
T Consensus       114 kgLs----------~~~~i~~~~rDq-------------~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~E  170 (254)
T COG4105         114 KGLS----------YFFQIDDVTRDQ-------------SAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHE  170 (254)
T ss_pred             HHHH----------HhccCCccccCH-------------HHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHH
Confidence            2222          111111 00011             112344445555555566432                 223


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          586 IMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       586 ~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      ..+++.|.+.|.|..|..-++.|.+.
T Consensus       171 m~IaryY~kr~~~~AA~nR~~~v~e~  196 (254)
T COG4105         171 MAIARYYLKRGAYVAAINRFEEVLEN  196 (254)
T ss_pred             HHHHHHHHHhcChHHHHHHHHHHHhc
Confidence            47788899999999999999999874

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.28  E-value=2.7  Score=43.45  Aligned_cols=87  Identities=17%  Similarity=0.118  Sum_probs=41.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCCC-CCch---------hHHHHHHHHHhc----CChHHHHHHHHHHHHCCCCCCHHHH
Q 005881          418 SALVDMYAKCGRLNDARKVFDHLSS-KNLV---------SWNTMLVGYAQH----GLGREALEIYSMMQENKIKPNDNTF  483 (672)
Q Consensus       418 ~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~---------~~~~li~~~~~~----g~~~~A~~~~~~m~~~g~~p~~~~~  483 (672)
                      ..++...+-.|+-+.+.+.+....+ .++.         .|..++..++..    .+.+.|.++++.+.+.  -|+...|
T Consensus       192 ~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lf  269 (468)
T PF10300_consen  192 LKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALF  269 (468)
T ss_pred             HHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHH
Confidence            4455555566666666666665442 2221         233333333322    2445555555555553  4444433


Q ss_pred             HHH-HHHhhccCcHHHHHHHHHHh
Q 005881          484 IGV-LSACVHIGLVEEGWHYFNSM  506 (672)
Q Consensus       484 ~~l-l~~~~~~g~~~~a~~~~~~~  506 (672)
                      ... .+.+...|++++|++.|+..
T Consensus       270 l~~~gR~~~~~g~~~~Ai~~~~~a  293 (468)
T PF10300_consen  270 LFFEGRLERLKGNLEEAIESFERA  293 (468)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHh
Confidence            222 22334445555555555543

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.20  E-value=4.4  Score=37.11  Aligned_cols=194  Identities=14%  Similarity=0.144  Sum_probs=124.1

Q ss_pred             HHHHHHHHcCcCchHHHHHHHHHHHhc-CCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCc-hhHHHHHH-HHH
Q 005881          382 YSNILNISSDIPAIEWGKQTHCCIVKP-GFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSS--KNL-VSWNTMLV-GYA  456 (672)
Q Consensus       382 ~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~-~~~~~li~-~~~  456 (672)
                      +......+...+....+...+...... ........+......+...+....+.+.+.....  ++. ........ .+.
T Consensus        62 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  141 (291)
T COG0457          62 LLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALY  141 (291)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHHHH
Confidence            333333444444444444444443332 1222333444555556666667777777776653  222 22333333 688


Q ss_pred             hcCChHHHHHHHHHHHHCCCCC----CHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc--hHHHHHHHHHhhccC
Q 005881          457 QHGLGREALEIYSMMQENKIKP----NDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR--MDHIASVVHLFACRG  530 (672)
Q Consensus       457 ~~g~~~~A~~~~~~m~~~g~~p----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g  530 (672)
                      ..|+++.|...+.+...  ..|    ....+......+...++.+.+...+.....   ..++  ...+..+...+...+
T Consensus       142 ~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~  216 (291)
T COG0457         142 ELGDYEEALELYEKALE--LDPELNELAEALLALGALLEALGRYEEALELLEKALK---LNPDDDAEALLNLGLLYLKLG  216 (291)
T ss_pred             HcCCHHHHHHHHHHHHh--cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHh---hCcccchHHHHHhhHHHHHcc
Confidence            88999999999999865  344    223444445556778899999999988773   3333  677888888899999


Q ss_pred             ChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 005881          531 QTRRAYEFIKSS-PIEPN-KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPE  580 (672)
Q Consensus       531 ~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  580 (672)
                      .+++|...+... ...|+ ...+..+...+...+..+.+...+++.++..|.
T Consensus       217 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         217 KYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             cHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            999999888753 34454 445555555555778899999999999999986

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=94.09  E-value=3.7  Score=40.26  Aligned_cols=71  Identities=15%  Similarity=0.116  Sum_probs=41.2

Q ss_pred             HHHHHHHccCChHHHHHHHhhCCCC---Ccc----cHHHHHHHHHh---cCChhHHHHHHHHHHhCCCCCChHHHHHHHH
Q 005881          318 TVLDFYSKCELLEESLKTFDEMDEH---DVV----SWNALIAGHLA---SCHYGEAIELLKDMLFEGHCPNLYTYSNILN  387 (672)
Q Consensus       318 ~li~~~~~~~~~~~a~~~~~~~~~~---~~~----~~~~li~~~~~---~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  387 (672)
                      .++-.|-...+++...++.+.+...   +..    .-....-++.+   .|+.++|++++..+......+++.||..+.+
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            3444566666777777777776652   111    11122334455   6778888888887665555666666655544


Q ss_pred             H
Q 005881          388 I  388 (672)
Q Consensus       388 ~  388 (672)
                      .
T Consensus       226 I  226 (374)
T PF13281_consen  226 I  226 (374)
T ss_pred             H
Confidence            3

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=94.07  E-value=8.2  Score=39.72  Aligned_cols=181  Identities=12%  Similarity=0.007  Sum_probs=115.1

Q ss_pred             cccHHHHHHHHHHhcCCHHHHHHHHhhCCCC---CchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005881          413 NVVIGSALVDMYAKCGRLNDARKVFDHLSSK---NLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSA  489 (672)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  489 (672)
                      ...+|...+..-.+.|+.+.+.-.|++..-|   -...|--.+.-....|+.+-|..++.+..+--++-.+.+-..-..-
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f  375 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARF  375 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHH
Confidence            4455666666677778888888888777633   2234544444444558888888777766654333222322222222


Q ss_pred             hhccCcHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHhhccCChHHHH---HHHHhC-CCCCCHHHHHHH----HHH-HH
Q 005881          490 CVHIGLVEEGWHYFNSMIRDHGISPR-MDHIASVVHLFACRGQTRRAY---EFIKSS-PIEPNKVVWRCL----LSG-CK  559 (672)
Q Consensus       490 ~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~---~~~~~~-~~~p~~~~~~~l----~~~-~~  559 (672)
                      +-..|+.+.|..+++.+.++.   |+ ...-..-+....+.|..+.+.   +++... +.+-+......+    ... +.
T Consensus       376 ~e~~~n~~~A~~~lq~i~~e~---pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~  452 (577)
T KOG1258|consen  376 EESNGNFDDAKVILQRIESEY---PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYK  452 (577)
T ss_pred             HHhhccHHHHHHHHHHHHhhC---CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHH
Confidence            445689999999999887543   54 344444566677888888887   555432 212222222221    222 44


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcC
Q 005881          560 THKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEAN  596 (672)
Q Consensus       560 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  596 (672)
                      ..++.+.|..++.++.+..|++...|..+.+.....+
T Consensus       453 i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  453 IREDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            5689999999999999999999999999988876655

>PRK11619 lytic murein transglycosylase; Provisional

Probab=94.04  E-value=10  Score=40.84  Aligned_cols=74  Identities=12%  Similarity=0.077  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHc
Q 005881          315 VANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISS  390 (672)
Q Consensus       315 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~  390 (672)
                      .-...+..+.+.+++.....++.. ...+...-.....+....|+.++|....+.+-..|.. .+.....++..+.
T Consensus       101 Lr~~~l~~La~~~~w~~~~~~~~~-~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g~~-~p~~cd~l~~~~~  174 (644)
T PRK11619        101 LQSRFVNELARREDWRGLLAFSPE-KPKPVEARCNYYYAKWATGQQQEAWQGAKELWLTGKS-LPNACDKLFSVWQ  174 (644)
T ss_pred             HHHHHHHHHHHccCHHHHHHhcCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC-CChHHHHHHHHHH
Confidence            334445555666777766663322 2234444455666777778777777666666554422 2333444444444

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=93.88  E-value=1.9  Score=36.22  Aligned_cols=95  Identities=18%  Similarity=0.191  Sum_probs=59.2

Q ss_pred             HHHhhccCcHHHHHHHHHHhHHhhCCCCch-HHHHHHHHHhhccCChHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCH
Q 005881          487 LSACVHIGLVEEGWHYFNSMIRDHGISPRM-DHIASVVHLFACRGQTRRAYEFIKSSPI-EPNKVVWRCLLSGCKTHKDL  564 (672)
Q Consensus       487 l~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~  564 (672)
                      +..-...++.+++..++..+.   -+.|.. +.-..-+..+.+.|++.+|..+|+++.- .|....-..|+..|.....-
T Consensus        17 ~~~al~~~~~~D~e~lL~ALr---vLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D   93 (160)
T PF09613_consen   17 LSVALRLGDPDDAEALLDALR---VLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGD   93 (160)
T ss_pred             HHHHHccCChHHHHHHHHHHH---HhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCC
Confidence            334456678888888887776   456643 3333445566778888888888887642 34444556677777766554


Q ss_pred             HHHHHHHHHHhcCCCCCCchH
Q 005881          565 VLGRYAAEKILSTDPEDTSAH  585 (672)
Q Consensus       565 ~~a~~~~~~~~~~~p~~~~~~  585 (672)
                      ..=....+++++..+ ++.+.
T Consensus        94 ~~Wr~~A~evle~~~-d~~a~  113 (160)
T PF09613_consen   94 PSWRRYADEVLESGA-DPDAR  113 (160)
T ss_pred             hHHHHHHHHHHhcCC-ChHHH
Confidence            555555666666666 43433

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=93.87  E-value=0.11  Score=48.25  Aligned_cols=110  Identities=12%  Similarity=0.112  Sum_probs=73.7

Q ss_pred             HHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcC
Q 005881          486 VLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHK  562 (672)
Q Consensus       486 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g  562 (672)
                      -.+-|.++|.+++|+..|...+   .+.| ++..+..-..+|.+..++..|..--.. +.+.. -...|..-+.+-...|
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~i---a~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAI---AVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhh---ccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHh
Confidence            4567889999999999998766   5566 777788888889888888777554332 21111 1224444445555678


Q ss_pred             CHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHH
Q 005881          563 DLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETA  602 (672)
Q Consensus       563 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  602 (672)
                      +..+|.+-++.+++++|++...    -..|.......|+.
T Consensus       180 ~~~EAKkD~E~vL~LEP~~~EL----kK~~a~i~Sl~E~~  215 (536)
T KOG4648|consen  180 NNMEAKKDCETVLALEPKNIEL----KKSLARINSLRERK  215 (536)
T ss_pred             hHHHHHHhHHHHHhhCcccHHH----HHHHHHhcchHhhh
Confidence            8999999999999999975443    33344444444443

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.66  E-value=0.14  Score=30.61  Aligned_cols=26  Identities=12%  Similarity=0.156  Sum_probs=21.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          584 AHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       584 ~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      ++..|+++|.+.|+|++|.+++++..
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            46788999999999999999998854

>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=93.48  E-value=2  Score=43.71  Aligned_cols=132  Identities=15%  Similarity=0.094  Sum_probs=78.2

Q ss_pred             HHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCCh
Q 005881          382 YSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLG  461 (672)
Q Consensus       382 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~  461 (672)
                      ...++.-+.+.|-.+.|.++...-            ..-.+...++|+++.|.++.+...  +...|..|......+|++
T Consensus       298 ~~~i~~fL~~~G~~e~AL~~~~D~------------~~rFeLAl~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~  363 (443)
T PF04053_consen  298 GQSIARFLEKKGYPELALQFVTDP------------DHRFELALQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNI  363 (443)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHSS-H------------HHHHHHHHHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBH
T ss_pred             HHHHHHHHHHCCCHHHHHhhcCCh------------HHHhHHHHhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCH
Confidence            445555555555555555543221            223445567888888888876655  556888888888888888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHh
Q 005881          462 REALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS  541 (672)
Q Consensus       462 ~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  541 (672)
                      +-|.+.|.+..+         |..|+-.|...|+.+.-.++.+..... |      -++....++.-.|+.++..+++.+
T Consensus       364 ~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~-~------~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  364 ELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEER-G------DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHT-T-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHc-c------CHHHHHHHHHHcCCHHHHHHHHHH
Confidence            888888877544         455665666677776666665444321 1      233444455556777777777666


Q ss_pred             CC
Q 005881          542 SP  543 (672)
Q Consensus       542 ~~  543 (672)
                      .+
T Consensus       428 ~~  429 (443)
T PF04053_consen  428 TG  429 (443)
T ss_dssp             TT
T ss_pred             cC
Confidence            54

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=93.48  E-value=0.57  Score=42.67  Aligned_cols=97  Identities=11%  Similarity=0.075  Sum_probs=70.5

Q ss_pred             HHHhhccC--CCCcccHHHHHHHHHhc-----CChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccC------------
Q 005881          131 QFVFDASL--ERNSISWVSLLSSYCQC-----GEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLG------------  191 (672)
Q Consensus       131 ~~~~~~~~--~~~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~------------  191 (672)
                      +..|....  ++|..+|-+++..+...     +..+-....++.|.+-|+.-|..+|..+|..+-+..            
T Consensus        54 e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~  133 (406)
T KOG3941|consen   54 EKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFL  133 (406)
T ss_pred             hhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHh
Confidence            45555555  56777777777776543     556666677788888899999999998888664422            


Q ss_pred             ----ChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCC
Q 005881          192 ----NLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEK  227 (672)
Q Consensus       192 ----~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  227 (672)
                          +-+-+..++++|..+|+.||..+-..|++++.+.+.
T Consensus       134 HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  134 HYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                233467788888888888888888888888877665

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.35  E-value=0.99  Score=42.28  Aligned_cols=160  Identities=10%  Similarity=-0.064  Sum_probs=114.9

Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchH----HHHHHHHHhhccCCh
Q 005881          457 QHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMD----HIASVVHLFACRGQT  532 (672)
Q Consensus       457 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~----~~~~l~~~~~~~g~~  532 (672)
                      -.|+..+|...|+++++. .+.|-..+...=.+|.-.|+.+.-...++++...  -.|+..    +-..+..++..+|-+
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~--wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHHHhhHHHhccc
Confidence            358899999999999886 5777778888888999999999999999888743  244443    333455667789999


Q ss_pred             HHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC----CCchHHHHHHHHHhcCChHHHHHHHH
Q 005881          533 RRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPE----DTSAHIMLSNVYAEANMWDETAKVRK  606 (672)
Q Consensus       533 ~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~a~~~~~  606 (672)
                      ++|.+.-++ +.+.| |.-+-.+........|+..++.+...+--..=..    -..-|-..+-.|.+.+.++.|.++|+
T Consensus       192 ~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  192 DDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            999999876 45555 3334455666678889999999988775432221    12345566777888899999999998


Q ss_pred             HHhhCCCccCCce
Q 005881          607 IMKEKSLKKDTGC  619 (672)
Q Consensus       607 ~~~~~~~~~~~~~  619 (672)
                      .=.-....++.++
T Consensus       272 ~ei~k~l~k~Da~  284 (491)
T KOG2610|consen  272 REIWKRLEKDDAV  284 (491)
T ss_pred             HHHHHHhhccchh
Confidence            6443445555543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=93.24  E-value=2.7  Score=43.38  Aligned_cols=128  Identities=14%  Similarity=0.077  Sum_probs=75.5

Q ss_pred             HHHHHHHHHcCcCchHHHHHHHHHHHhcC-CCCcc-----cHHHHHHHHHHh----cCCHHHHHHHHhhCCC--CCchhH
Q 005881          381 TYSNILNISSDIPAIEWGKQTHCCIVKPG-FDSNV-----VIGSALVDMYAK----CGRLNDARKVFDHLSS--KNLVSW  448 (672)
Q Consensus       381 t~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-----~~~~~l~~~~~~----~g~~~~A~~~~~~~~~--~~~~~~  448 (672)
                      .+..++....=.|+-+.+.+.+....+.+ +....     -.|..++..++.    ....+.|.++++.+.+  |+...|
T Consensus       190 ~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~yP~s~lf  269 (468)
T PF10300_consen  190 KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRYPNSALF  269 (468)
T ss_pred             HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhCCCcHHH
Confidence            34556666666778888888777766532 22111     122222322222    3466778888887774  666655


Q ss_pred             HHH-HHHHHhcCChHHHHHHHHHHHHCC--C-CCCHHHHHHHHHHhhccCcHHHHHHHHHHhHH
Q 005881          449 NTM-LVGYAQHGLGREALEIYSMMQENK--I-KPNDNTFIGVLSACVHIGLVEEGWHYFNSMIR  508 (672)
Q Consensus       449 ~~l-i~~~~~~g~~~~A~~~~~~m~~~g--~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  508 (672)
                      ... .+.+...|+.++|++.|++.....  . +.....+.-+...+...+++++|.+.|..+.+
T Consensus       270 l~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~  333 (468)
T PF10300_consen  270 LFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLK  333 (468)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHh
Confidence            443 344556788888888888765321  1 12223455566667777777777777777764

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.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=93.18  E-value=0.18  Score=31.87  Aligned_cols=32  Identities=16%  Similarity=0.169  Sum_probs=27.7

Q ss_pred             CchHHHHHHHHHhcCChHHHHHHHHHHhhCCC
Q 005881          582 TSAHIMLSNVYAEANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       582 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  613 (672)
                      |..+..++.+|...|++++|.+++++..+..+
T Consensus         1 p~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P   32 (44)
T PF13428_consen    1 PAAWLALARAYRRLGQPDEAERLLRRALALDP   32 (44)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            35788999999999999999999999886433

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.16  E-value=14  Score=39.63  Aligned_cols=117  Identities=12%  Similarity=0.031  Sum_probs=59.6

Q ss_pred             HHHHHHHHhcCChHHHHHHhhccCCCCcccH----HHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhcc
Q 005881          115 NCLINMYGKCGLLSSAQFVFDASLERNSISW----VSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVL  190 (672)
Q Consensus       115 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~  190 (672)
                      ..-++.+.+..-++-|..+-+.-.. +....    ......+.+.|++++|..-|-+-... +.|.     .+++-+-..
T Consensus       338 e~kL~iL~kK~ly~~Ai~LAk~~~~-d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLda  410 (933)
T KOG2114|consen  338 ETKLDILFKKNLYKVAINLAKSQHL-DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDA  410 (933)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCH
Confidence            3444555555555555555543221 11111    12233445667777777666554432 2232     233333333


Q ss_pred             CChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCC
Q 005881          191 GNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQ  239 (672)
Q Consensus       191 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  239 (672)
                      .....-...++.+.+.|+. +...-+.|+++|.+.++.++-.++.+...
T Consensus       411 q~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~  458 (933)
T KOG2114|consen  411 QRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD  458 (933)
T ss_pred             HHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC
Confidence            3344444555556666654 33334567777777777777776666554

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.92  E-value=5.8  Score=34.46  Aligned_cols=126  Identities=10%  Similarity=0.030  Sum_probs=76.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHH--HHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHH-----H
Q 005881          448 WNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFI--GVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHI-----A  520 (672)
Q Consensus       448 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~--~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~-----~  520 (672)
                      |..++.... .+.+ +.....+++....-......+.  .+...+...|++++|...++...   + .|..+.+     -
T Consensus        57 Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l---~-~t~De~lk~l~~l  130 (207)
T COG2976          57 YQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQAL---A-QTKDENLKALAAL  130 (207)
T ss_pred             HHHHHHHHh-cCCc-hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHH---c-cchhHHHHHHHHH
Confidence            444444433 3333 5555566666542122222222  23445778889999988887655   2 2222222     2


Q ss_pred             HHHHHhhccCChHHHHHHHHhCCCCCCHHH--HHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 005881          521 SVVHLFACRGQTRRAYEFIKSSPIEPNKVV--WRCLLSGCKTHKDLVLGRYAAEKILSTDPE  580 (672)
Q Consensus       521 ~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~--~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  580 (672)
                      .|.......|.+++|+..++... .++-..  ...-.+.+...|+-++|+..|+++++.+++
T Consensus       131 RLArvq~q~~k~D~AL~~L~t~~-~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~s  191 (207)
T COG2976         131 RLARVQLQQKKADAALKTLDTIK-EESWAAIVAELRGDILLAKGDKQEARAAYEKALESDAS  191 (207)
T ss_pred             HHHHHHHHhhhHHHHHHHHhccc-cccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccCC
Confidence            45667788999999999998764 232222  222345588899999999999999988753

>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=92.91  E-value=0.91  Score=38.03  Aligned_cols=51  Identities=12%  Similarity=0.113  Sum_probs=27.7

Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          560 THKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       560 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ..++.++++.++.-+.-+.|+.+..-..-+.++...|+|.+|.++++.+.+
T Consensus        22 ~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEE   72 (160)
T ss_pred             ccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhc
Confidence            444555555555555555555555555555555555555555555555543

>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=92.86  E-value=0.16  Score=29.84  Aligned_cols=31  Identities=19%  Similarity=0.067  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 005881          550 VWRCLLSGCKTHKDLVLGRYAAEKILSTDPE  580 (672)
Q Consensus       550 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  580 (672)
                      +|..+...+...|+++.|...++++++++|+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~   33 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNPD   33 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            4555666677777777777777777777773

...

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=92.46  E-value=1  Score=37.06  Aligned_cols=55  Identities=9%  Similarity=0.056  Sum_probs=41.8

Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCC
Q 005881          559 KTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       559 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  613 (672)
                      ...++.+++..+++.+.-+.|+.+..-..-+.++...|+|++|.++++.+.+.+.
T Consensus        21 L~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~   75 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAG   75 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCC
Confidence            3467778888888877778887777777777888888888888888887766543

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.01  E-value=0.23  Score=29.70  Aligned_cols=28  Identities=14%  Similarity=-0.058  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcC
Q 005881          550 VWRCLLSGCKTHKDLVLGRYAAEKILST  577 (672)
Q Consensus       550 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~  577 (672)
                      +|..|...|.+.|++++|+.+|++++.+
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l   28 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALAL   28 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4677888888889999999998886544

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.00  E-value=0.53  Score=43.55  Aligned_cols=101  Identities=13%  Similarity=0.150  Sum_probs=69.1

Q ss_pred             cCCCCCcchhhHHHHHHhcCCChhHHHHHhccCCC-------CCcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCc
Q 005881            4 SGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPE-------RNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNY   76 (672)
Q Consensus         4 ~g~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~   76 (672)
                      .|...++.+-..++..-....+++++...+-++..       |+...+ ..++.+.+ -++++++.++..=+..|+-||.
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irlllk-y~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHHHc-cChHHHHHHHhCcchhccccch
Confidence            35566666666666666667778888877776654       222221 23333333 3677888888888888888888


Q ss_pred             ccHHHHHHHHhcCCChhhHHHHHHHHHHhC
Q 005881           77 YTYVGAVSACASRGDARSGKEIHGRMYRSG  106 (672)
Q Consensus        77 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g  106 (672)
                      ++++.++..+.+.+++..|.++.-.|....
T Consensus       136 f~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            888888888888888888888877777654

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=91.97  E-value=21  Score=38.57  Aligned_cols=49  Identities=22%  Similarity=0.171  Sum_probs=33.4

Q ss_pred             CcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhcc
Q 005881          141 NSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVL  190 (672)
Q Consensus       141 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~  190 (672)
                      |...-=++|-.|.+.|++++|.++...... ........+...+..+...
T Consensus       110 ~~~p~Wa~Iyy~LR~G~~~~A~~~~~~~~~-~~~~~~~~f~~~l~~~~~s  158 (613)
T PF04097_consen  110 NGDPIWALIYYCLRCGDYDEALEVANENRN-QFQKIERSFPTYLKAYASS  158 (613)
T ss_dssp             TTEEHHHHHHHHHTTT-HHHHHHHHHHTGG-GS-TTTTHHHHHHHHCTTT
T ss_pred             CCCccHHHHHHHHhcCCHHHHHHHHHHhhh-hhcchhHHHHHHHHHHHhC
Confidence            333444577788899999999998855554 3556667788888888664

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.

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.03  E-value=25  Score=37.66  Aligned_cols=101  Identities=11%  Similarity=0.026  Sum_probs=58.8

Q ss_pred             HHHhcCCChhhHHHHHHHHHHhCCCC---ChhHHHHHHHHHHhcCChHHHHHHhhccCCCCcccHHHHHHHHHhcCChHH
Q 005881           84 SACASRGDARSGKEIHGRMYRSGLEL---NSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVH  160 (672)
Q Consensus        84 ~~~~~~~~~~~a~~~~~~~~~~g~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  160 (672)
                      +.+.+.+.+++|..+-+...  |..|   -..+...+|+.+.-.|++++|-...-.|...+..-|.--+..+...++...
T Consensus       364 ~Wll~~k~yeeAl~~~k~~~--~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~~  441 (846)
T KOG2066|consen  364 DWLLEKKKYEEALDAAKASI--GNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLTD  441 (846)
T ss_pred             HHHHHhhHHHHHHHHHHhcc--CCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccch
Confidence            44445555666655544332  2222   234666777777777888888777777777777777777777776666544


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHhc
Q 005881          161 GLKIFLLSRKSGVAISEFSCASVLGACAV  189 (672)
Q Consensus       161 a~~~~~~m~~~g~~p~~~t~~~ll~~~~~  189 (672)
                      ...+   +.....+.+...|..+|..+..
T Consensus       442 Ia~~---lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  442 IAPY---LPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             hhcc---CCCCCcccCchHHHHHHHHHHH
Confidence            3332   2222222445566666666654

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=90.91  E-value=5.1  Score=38.28  Aligned_cols=90  Identities=16%  Similarity=0.101  Sum_probs=50.9

Q ss_pred             HHHHHHHhhCCC-------CCcccHHHHHHHHHhcCC----hhHHHHHHHHHHhCCCCCCh--HHHHHHHHHHcCcCc--
Q 005881          330 EESLKTFDEMDE-------HDVVSWNALIAGHLASCH----YGEAIELLKDMLFEGHCPNL--YTYSNILNISSDIPA--  394 (672)
Q Consensus       330 ~~a~~~~~~~~~-------~~~~~~~~li~~~~~~~~----~~~A~~~~~~m~~~g~~p~~--~t~~~ll~~~~~~~~--  394 (672)
                      .+|..+++.|.+       ++..++..++..  ..++    .+.+..+|+.+...|...+.  ...+.++..+.....  
T Consensus       120 ~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~  197 (297)
T PF13170_consen  120 QRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEK  197 (297)
T ss_pred             HHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHH
Confidence            445556666654       333445555443  2222    24566777777777776532  344445544443333  


Q ss_pred             hHHHHHHHHHHHhcCCCCcccHHHHHH
Q 005881          395 IEWGKQTHCCIVKPGFDSNVVIGSALV  421 (672)
Q Consensus       395 ~~~a~~~~~~~~~~~~~~~~~~~~~l~  421 (672)
                      ...+..+++.+.+.|+++....|..+.
T Consensus       198 v~r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  198 VARVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHcCCccccccccHHH
Confidence            346777788888888877766665554

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.73  E-value=12  Score=33.74  Aligned_cols=50  Identities=14%  Similarity=-0.075  Sum_probs=33.1

Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCC------CchHHHHHHHHHhcCChHHHHHHHHHH
Q 005881          559 KTHKDLVLGRYAAEKILSTDPED------TSAHIMLSNVYAEANMWDETAKVRKIM  608 (672)
Q Consensus       559 ~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~~~~~~~  608 (672)
                      ...-++++|+++|++++.+--++      ...+...+++|.+..+++||...+.+-
T Consensus       121 lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe  176 (308)
T KOG1585|consen  121 LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKE  176 (308)
T ss_pred             hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHh
Confidence            35567788888888876543322      234556677788888888887766543

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=90.71  E-value=0.39  Score=26.13  Aligned_cols=24  Identities=17%  Similarity=0.214  Sum_probs=19.6

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHH
Q 005881          583 SAHIMLSNVYAEANMWDETAKVRK  606 (672)
Q Consensus       583 ~~~~~l~~~~~~~g~~~~a~~~~~  606 (672)
                      .....++.++...|++++|..+++
T Consensus         2 ~a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    2 RARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHh
Confidence            456788888999999999988775

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=90.61  E-value=6.3  Score=33.39  Aligned_cols=121  Identities=12%  Similarity=0.112  Sum_probs=62.7

Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCch-HHHHHH--HHHhhccC
Q 005881          455 YAQHGLGREALEIYSMMQENKIKPNDN-TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRM-DHIASV--VHLFACRG  530 (672)
Q Consensus       455 ~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l--~~~~~~~g  530 (672)
                      +++.+..++|+.-|..+.+.|...=++ ............|+...|...|+++-.+.. .|.. .....|  ..++...|
T Consensus        68 lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~-~P~~~rd~ARlraa~lLvD~g  146 (221)
T COG4649          68 LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTS-IPQIGRDLARLRAAYLLVDNG  146 (221)
T ss_pred             HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCC-CcchhhHHHHHHHHHHHhccc
Confidence            456677788888888877766432222 222233345666777777777777653321 2211 111112  22345566


Q ss_pred             ChHHHHHHHHhCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 005881          531 QTRRAYEFIKSSPIEPN---KVVWRCLLSGCKTHKDLVLGRYAAEKILS  576 (672)
Q Consensus       531 ~~~~A~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  576 (672)
                      .+++.....+.+....+   ...-..|.-+-.+.|++..|...|+++..
T Consensus       147 sy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         147 SYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             cHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            66666666555432222   12233444445556666666666665544

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=90.45  E-value=1.4  Score=41.17  Aligned_cols=61  Identities=15%  Similarity=0.103  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          550 VWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       550 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ++..++..+...|+.+.+...++++++.+|-+...|..+...|.+.|+...|+..++++.+
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            3444555566666666677777777777776666777777777777777777776666654

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=90.23  E-value=0.46  Score=27.72  Aligned_cols=29  Identities=17%  Similarity=0.178  Sum_probs=24.9

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          583 SAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       583 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      ..+..++.+|...|++++|.+.+++..+.
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            46789999999999999999999988753

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 ....

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.05  E-value=15  Score=33.61  Aligned_cols=236  Identities=15%  Similarity=0.207  Sum_probs=133.5

Q ss_pred             cCChHHHHHHHhhCCC--C-----CcccHHHHHHHHHhcCChhHHHHHHHHHHh---CCC--CCChHHHHHHHHHHcCcC
Q 005881          326 CELLEESLKTFDEMDE--H-----DVVSWNALIAGHLASCHYGEAIELLKDMLF---EGH--CPNLYTYSNILNISSDIP  393 (672)
Q Consensus       326 ~~~~~~a~~~~~~~~~--~-----~~~~~~~li~~~~~~~~~~~A~~~~~~m~~---~g~--~p~~~t~~~ll~~~~~~~  393 (672)
                      ...+++|..-|.++.+  +     .......+|..+.+.+++++.++.+.+|..   +.+  .-+..+.++++...+...
T Consensus        40 e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~  119 (440)
T KOG1464|consen   40 EDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSK  119 (440)
T ss_pred             ccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhh
Confidence            3456667777766543  1     122344567778888888888888877753   111  234556777777766666


Q ss_pred             chHHHHHHHHHHHhc-----CCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC--------CC-------chhHHHHHH
Q 005881          394 AIEWGKQTHCCIVKP-----GFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSS--------KN-------LVSWNTMLV  453 (672)
Q Consensus       394 ~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~-------~~~~~~li~  453 (672)
                      +.+.-..+++.-.+.     +-.....+-..|...|...|.+....+++.++..        .|       ...|..=|.
T Consensus       120 ~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQ  199 (440)
T KOG1464|consen  120 NMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQ  199 (440)
T ss_pred             hhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhh
Confidence            666555555443321     2222333445677777778888888888877651        11       135666677


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHh-----hccCcHHHHHHHHHHhHHhhCC--CCc---hHHHHHHH
Q 005881          454 GYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSAC-----VHIGLVEEGWHYFNSMIRDHGI--SPR---MDHIASVV  523 (672)
Q Consensus       454 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~-----~~~g~~~~a~~~~~~~~~~~~~--~p~---~~~~~~l~  523 (672)
                      .|..+.+-.+-..+|++.+.-.-.........+++-|     .+.|.+++|..-|=+..+.+.-  .|.   ---|-.|.
T Consensus       200 mYT~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLA  279 (440)
T KOG1464|consen  200 MYTEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLA  279 (440)
T ss_pred             hhhhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHH
Confidence            8888888888888888876532222223344555655     4567888775433333323221  221   12355566


Q ss_pred             HHhhccC----ChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 005881          524 HLFACRG----QTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVL  566 (672)
Q Consensus       524 ~~~~~~g----~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  566 (672)
                      .++.+.|    +-.+|..    ....|...+.+.++.+|.. +++.+
T Consensus       280 NMLmkS~iNPFDsQEAKP----yKNdPEIlAMTnlv~aYQ~-NdI~e  321 (440)
T KOG1464|consen  280 NMLMKSGINPFDSQEAKP----YKNDPEILAMTNLVAAYQN-NDIIE  321 (440)
T ss_pred             HHHHHcCCCCCcccccCC----CCCCHHHHHHHHHHHHHhc-ccHHH
Confidence            6666665    1122211    1123555667778887754 34433

>PRK09687 putative lyase; Provisional

Probab=89.98  E-value=18  Score=34.40  Aligned_cols=72  Identities=7%  Similarity=-0.027  Sum_probs=33.3

Q ss_pred             ccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHh
Q 005881          414 VVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSAC  490 (672)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  490 (672)
                      ..+-...+.++++.|+......+.+.+..++  .....+.++...|.. +|+..+.++.+.  .||...-...+.+|
T Consensus       206 ~~VR~~A~~aLg~~~~~~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~  277 (280)
T PRK09687        206 EEIRIEAIIGLALRKDKRVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKL  277 (280)
T ss_pred             hHHHHHHHHHHHccCChhHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHH
Confidence            3333444555555555333333333333333  123455556666653 566666666653  34554444444433

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=89.94  E-value=39  Score=38.20  Aligned_cols=158  Identities=15%  Similarity=0.149  Sum_probs=84.8

Q ss_pred             CChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhc----cCCchhHHHHH
Q 005881          226 EKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFAD----VKETIGGRQLH  301 (672)
Q Consensus       226 g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~----~~~~~~a~~~~  301 (672)
                      ++++.|..-+..+.   ...|+..+..--+.|.+.+|+.++        .|+...+..+..+|+.    ...++.     
T Consensus       894 ~ry~~AL~hLs~~~---~~~~~e~~n~I~kh~Ly~~aL~ly--------~~~~e~~k~i~~~ya~hL~~~~~~~~-----  957 (1265)
T KOG1920|consen  894 KRYEDALSHLSECG---ETYFPECKNYIKKHGLYDEALALY--------KPDSEKQKVIYEAYADHLREELMSDE-----  957 (1265)
T ss_pred             HHHHHHHHHHHHcC---ccccHHHHHHHHhcccchhhhhee--------ccCHHHHHHHHHHHHHHHHHhccccH-----
Confidence            45666666665554   445666677777888899998876        5777777666655542    233332     


Q ss_pred             HHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChH-
Q 005881          302 SLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLY-  380 (672)
Q Consensus       302 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~-  380 (672)
                                       ..-+|.++|+.++|.+.+                  ...|++.+|+.+-.++...   -|.. 
T Consensus       958 -----------------Aal~Ye~~GklekAl~a~------------------~~~~dWr~~l~~a~ql~~~---~de~~  999 (1265)
T KOG1920|consen  958 -----------------AALMYERCGKLEKALKAY------------------KECGDWREALSLAAQLSEG---KDELV  999 (1265)
T ss_pred             -----------------HHHHHHHhccHHHHHHHH------------------HHhccHHHHHHHHHhhcCC---HHHHH
Confidence                             233455666666665443                  3345566665555544311   0111 


Q ss_pred             -HHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCc
Q 005881          381 -TYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNL  445 (672)
Q Consensus       381 -t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  445 (672)
                       +-..+..-+...++.-+|-++..+....        ....+..|++...+++|.++-......|.
T Consensus      1000 ~~a~~L~s~L~e~~kh~eAa~il~e~~sd--------~~~av~ll~ka~~~~eAlrva~~~~~~d~ 1057 (1265)
T KOG1920|consen 1000 ILAEELVSRLVEQRKHYEAAKILLEYLSD--------PEEAVALLCKAKEWEEALRVASKAKRDDI 1057 (1265)
T ss_pred             HHHHHHHHHHHHcccchhHHHHHHHHhcC--------HHHHHHHHhhHhHHHHHHHHHHhcccchH
Confidence             1122333344444444444443333221        13345556777777777777665554433

>PRK09687 putative lyase; Provisional

Probab=89.93  E-value=18  Score=34.37  Aligned_cols=74  Identities=5%  Similarity=-0.058  Sum_probs=38.7

Q ss_pred             CchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHH
Q 005881          311 SFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNIS  389 (672)
Q Consensus       311 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~  389 (672)
                      ++..+....+.++.+.++..-...+.+.+..++  .....+.++...|.. +|+..+.++...  .||...-...+.+|
T Consensus       204 ~~~~VR~~A~~aLg~~~~~~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~  277 (280)
T PRK09687        204 KNEEIRIEAIIGLALRKDKRVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKL  277 (280)
T ss_pred             CChHHHHHHHHHHHccCChhHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHH
Confidence            344444555556666665433333333333333  233456666666664 577777777654  34555554444444

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=89.86  E-value=9.1  Score=30.84  Aligned_cols=54  Identities=17%  Similarity=0.062  Sum_probs=21.3

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHH
Q 005881          180 CASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRV  234 (672)
Q Consensus       180 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  234 (672)
                      +...+..+...|.-++-..+...+.+ +-++++...-.+..+|.+.|+..++.++
T Consensus        89 vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~el  142 (161)
T PF09205_consen   89 VDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANEL  142 (161)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHH
Confidence            33444444555555555555555443 2233444444444444444444444333

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=89.73  E-value=4.5  Score=35.26  Aligned_cols=61  Identities=18%  Similarity=0.242  Sum_probs=38.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH--HHHHHHHHhhccCcHHHHHHHHHHhH
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDN--TFIGVLSACVHIGLVEEGWHYFNSMI  507 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~  507 (672)
                      .+..+..-|++.|+.+.|++.|.++.+....|...  .+..+++.+...+++..+.....+..
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            45556666677777777777777776655444443  35556666666677776666665554

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.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=89.62  E-value=0.73  Score=26.93  Aligned_cols=31  Identities=32%  Similarity=0.430  Sum_probs=20.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMMQENKIKPN  479 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  479 (672)
                      +|..+...|...|++++|+..|++.++  +.|+
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~--~~p~   33 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE--LDPD   33 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH--HSTT
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH--HCcC
Confidence            566667777777777777777777766  3444

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 ....

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=89.47  E-value=3  Score=27.54  Aligned_cols=51  Identities=6%  Similarity=0.048  Sum_probs=38.3

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHhhCCCccCCceeEEEeCCEEEEEEeccccCCChHHHHHHHHHHHHHHHhCCc
Q 005881          584 AHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGY  660 (672)
Q Consensus       584 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~g~  660 (672)
                      ....++-.+.+.|++++|.+..+.+.+                          ..|...++.+....+..++.+.|.
T Consensus         3 ~lY~lAig~ykl~~Y~~A~~~~~~lL~--------------------------~eP~N~Qa~~L~~~i~~~i~kdgl   53 (53)
T PF14853_consen    3 CLYYLAIGHYKLGEYEKARRYCDALLE--------------------------IEPDNRQAQSLKELIEDKIQKDGL   53 (53)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH--------------------------HTTS-HHHHHHHHHHHHHHHHTTT
T ss_pred             hHHHHHHHHHHhhhHHHHHHHHHHHHh--------------------------hCCCcHHHHHHHHHHHHHHhccCC
Confidence            355678889999999999999999875                          366667776666677778888774

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=89.32  E-value=3.8  Score=38.29  Aligned_cols=57  Identities=16%  Similarity=0.328  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHHHHHH
Q 005881          416 IGSALVDMYAKCGRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIYSMMQ  472 (672)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  472 (672)
                      ++..++..+..+|+.+.+.+.++++..   -+...|..+|.+|.+.|+...|+..|+++.
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~  214 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLK  214 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHH
Confidence            344455555555555555555555442   233355555555555555555555555443

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=89.29  E-value=30  Score=35.90  Aligned_cols=129  Identities=11%  Similarity=0.118  Sum_probs=87.0

Q ss_pred             CcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcc-cHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHH
Q 005881           40 NVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYY-TYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLI  118 (672)
Q Consensus        40 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  118 (672)
                      +...|+.+|.---+....+.+..++..++..  -|..+ -|.....-=.+.|..+.+.++|++-+.. ++.+...|...+
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~  120 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQA-IPLSVDLWLSYL  120 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHH
Confidence            4556777776555555556667777777643  34444 2333333345778888889999887764 456777777766


Q ss_pred             HHHHh-cCChHHHHHHhhccCC------CCcccHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005881          119 NMYGK-CGLLSSAQFVFDASLE------RNSISWVSLLSSYCQCGEHVHGLKIFLLSRKS  171 (672)
Q Consensus       119 ~~~~~-~g~~~~a~~~~~~~~~------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  171 (672)
                      ..+.. .|+.+...+.|+....      .+...|...|.--..++++.....+|++..+.
T Consensus       121 ~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRilei  180 (577)
T KOG1258|consen  121 AFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEI  180 (577)
T ss_pred             HHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhh
Confidence            65544 4677777777776543      24556888888888888899999999888774

>PRK12798 chemotaxis protein; Reviewed

Probab=89.24  E-value=24  Score=34.90  Aligned_cols=206  Identities=15%  Similarity=0.152  Sum_probs=138.3

Q ss_pred             cCCHHHHHHHHhhCCC----CCchhHHHHHHHH-HhcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHhhccCcHH
Q 005881          427 CGRLNDARKVFDHLSS----KNLVSWNTMLVGY-AQHGLGREALEIYSMMQENKIKPND----NTFIGVLSACVHIGLVE  497 (672)
Q Consensus       427 ~g~~~~A~~~~~~~~~----~~~~~~~~li~~~-~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~g~~~  497 (672)
                      .|+.+++.+.+..+..    +....|-.|+.+- ....++.+|+++|++..-  .-|-.    .....-+......|+.+
T Consensus       125 ~Gr~~~a~~~La~i~~~~l~~~lg~~laLv~a~l~~~~dP~~Al~~lD~aRL--laPGTLvEEAALRRsi~la~~~g~~~  202 (421)
T PRK12798        125 SGRGREARKLLAGVAPEYLPAELGAYLALVQGNLMVATDPATALKLLDQARL--LAPGTLVEEAALRRSLFIAAQLGDAD  202 (421)
T ss_pred             cCCHHHHHHHhhcCChhhcCchhhhHHHHHHHHHhcccCHHHHHHHHHHHHH--hCCchHHHHHHHHHhhHHHHhcCcHH
Confidence            5999999999998873    3444666666654 455689999999998876  34443    34555555678889999


Q ss_pred             HHHHHHHHhHHhhCCCCchHHH-HHHHHHhhc---cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005881          498 EGWHYFNSMIRDHGISPRMDHI-ASVVHLFAC---RGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEK  573 (672)
Q Consensus       498 ~a~~~~~~~~~~~~~~p~~~~~-~~l~~~~~~---~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  573 (672)
                      ++..+-....+.+...|-...+ ..++..+.+   .-..+.-.+++..|.-.-....|..+...-...|+.+.|.-..++
T Consensus       203 rf~~la~~Y~rRF~~S~YA~~F~~~F~~~~~~~~d~~~~~~l~~~ls~~d~~~q~~lYL~iAR~Ali~Gk~~lA~~As~~  282 (421)
T PRK12798        203 KFEALARNYLRRFRHSPYASQFAQRFVDLVVRLDDEIRDARLVEILSFMDPERQRELYLRIARAALIDGKTELARFASER  282 (421)
T ss_pred             HHHHHHHHHHHHhccCchHHHHHHHHHHHHHhccccccHHHHHHHHHhcCchhHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            9988888887777777754333 333334333   334445555666665333455788888888999999999999999


Q ss_pred             HhcCCCCCCchHHHHHHHHHh-----cCChHHHHHHHHHHhhCCCccCCceeEEEeCCEEEEEEeccccCCChHHHHHHH
Q 005881          574 ILSTDPEDTSAHIMLSNVYAE-----ANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVM  648 (672)
Q Consensus       574 ~~~~~p~~~~~~~~l~~~~~~-----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  648 (672)
                      +..+.. ....-...+.+|..     ..+.+++.+.+..+..                        +..+|....+.+..
T Consensus       283 A~~L~~-~~~~~~~ra~LY~aaa~v~s~~~~~al~~L~~I~~------------------------~~L~~~Dr~Ll~AA  337 (421)
T PRK12798        283 ALKLAD-PDSADAARARLYRGAALVASDDAESALEELSQIDR------------------------DKLSERDRALLEAA  337 (421)
T ss_pred             HHHhcc-CCCcchHHHHHHHHHHccCcccHHHHHHHHhcCCh------------------------hhCChhhHHHHHHH
Confidence            998874 34444455555543     3456666666665432                        24567777777666


Q ss_pred             HHHHHHHHhCC
Q 005881          649 NQLSVHLFDGG  659 (672)
Q Consensus       649 ~~~~~~~~~~g  659 (672)
                      ..+-..+.+..
T Consensus       338 ~~va~~V~~~p  348 (421)
T PRK12798        338 RSVARQVRRAP  348 (421)
T ss_pred             HHHHHHHhcCc
Confidence            66777776654

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=89.15  E-value=45  Score=37.78  Aligned_cols=115  Identities=15%  Similarity=0.119  Sum_probs=62.5

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHH
Q 005881          421 VDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGW  500 (672)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~  500 (672)
                      ++.--+.|.+.+|..++..-.+.-...|.+...-+...+.+++|.-.|+..-+         ..-.+.+|...|+|.+|.
T Consensus       915 ~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l  985 (1265)
T KOG1920|consen  915 KNYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREAL  985 (1265)
T ss_pred             HHHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHH
Confidence            33334445555555444322222222344444444556677777766665432         123566777788888888


Q ss_pred             HHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCC
Q 005881          501 HYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEP  546 (672)
Q Consensus       501 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p  546 (672)
                      .+...+..  +..--..+-..|+.-+...++.-+|-++.++...+|
T Consensus       986 ~~a~ql~~--~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd~ 1029 (1265)
T KOG1920|consen  986 SLAAQLSE--GKDELVILAEELVSRLVEQRKHYEAAKILLEYLSDP 1029 (1265)
T ss_pred             HHHHhhcC--CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcCH
Confidence            87765531  000011233567777788888888888777654344

>PRK10941 hypothetical protein; Provisional

Probab=89.08  E-value=3.2  Score=38.84  Aligned_cols=61  Identities=21%  Similarity=0.171  Sum_probs=54.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          551 WRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       551 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      .+.+-.++.+.++++.|..+.+.++.+.|+++.-+.-.+-+|.+.|.+..|..-++...+.
T Consensus       184 l~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~  244 (269)
T PRK10941        184 LDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQ  244 (269)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHh
Confidence            3556677899999999999999999999999999999999999999999999999887653

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=89.03  E-value=2.8  Score=36.50  Aligned_cols=64  Identities=14%  Similarity=0.104  Sum_probs=51.9

Q ss_pred             chHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCc--ccHHHHHHHHhcCCChhhHHHHHHHHHHh
Q 005881           42 ISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNY--YTYVGAVSACASRGDARSGKEIHGRMYRS  105 (672)
Q Consensus        42 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  105 (672)
                      ..+..+...|++.|+.++|++.|.++++....|..  ..+..+++.+...+++..+..........
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~  102 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESL  102 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            35778888999999999999999999887655554  35778888888899999888888777665

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.

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=88.74  E-value=2.5  Score=37.01  Aligned_cols=70  Identities=11%  Similarity=0.083  Sum_probs=50.0

Q ss_pred             HHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC----CCchHHHHHHHHHhcCChHHHH
Q 005881          533 RRAYEFIKSSPIEP--NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPE----DTSAHIMLSNVYAEANMWDETA  602 (672)
Q Consensus       533 ~~A~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~a~  602 (672)
                      ++|+..|-++.-.|  +.......+..|....|.+++++++-+++++.+.    |+..+..|+.+|.+.|+++.|-
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            45555555443233  3444455566677788999999999999886542    5788999999999999998774

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=88.51  E-value=40  Score=36.48  Aligned_cols=49  Identities=12%  Similarity=0.153  Sum_probs=29.8

Q ss_pred             cCCHHHHHHHHHHHhcCC---CCCC-chH-----HHHHHHHHhcCChHHHHHHHHHHh
Q 005881          561 HKDLVLGRYAAEKILSTD---PEDT-SAH-----IMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       561 ~g~~~~a~~~~~~~~~~~---p~~~-~~~-----~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      .|+..+.......+..+-   |+.. ..|     ..+.+.|...|+.++|.....+..
T Consensus       547 ~~~~~e~~~~s~~a~~~A~k~~d~~~~LW~~v~~~~l~~~~~~~G~~~ka~~~~~~~~  604 (608)
T PF10345_consen  547 EGDVGEQAKKSARAFQLAKKSSDYSDQLWHLVASGMLADSYEVQGDRDKAEEARQQLD  604 (608)
T ss_pred             cCCHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHH
Confidence            567666555554454322   3222 223     256666888899999998887664

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 [].

>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=88.46  E-value=23  Score=33.68  Aligned_cols=20  Identities=15%  Similarity=-0.182  Sum_probs=14.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHh
Q 005881          556 SGCKTHKDLVLGRYAAEKIL  575 (672)
Q Consensus       556 ~~~~~~g~~~~a~~~~~~~~  575 (672)
                      ..+.+.++++.|...|+-++
T Consensus       254 ~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  254 KKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHhhcCHHHHHHHHHHHH
Confidence            33667788888888887654

It is also involved in sporulation [].

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=88.27  E-value=0.65  Score=26.79  Aligned_cols=26  Identities=15%  Similarity=0.184  Sum_probs=17.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          585 HIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       585 ~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +..++.+|.+.|++++|.+.++++.+
T Consensus         3 ~~~~a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    3 LYRLARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            45566666667777777777766654

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.90  E-value=5.9  Score=37.07  Aligned_cols=101  Identities=15%  Similarity=0.101  Sum_probs=74.2

Q ss_pred             cCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC-CCCch-----hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH
Q 005881          408 PGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS-SKNLV-----SWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDN  481 (672)
Q Consensus       408 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~-----~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  481 (672)
                      .|.+.+..+...++..-....+++++...+-++. +|+..     +-...+.- +..=++++++.++..=++-|+-||..
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irl-llky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRL-LLKYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHH-HHccChHHHHHHHhCcchhccccchh
Confidence            4555566666777777676788999988887776 33221     11122332 23346789999999999999999999


Q ss_pred             HHHHHHHHhhccCcHHHHHHHHHHhHHh
Q 005881          482 TFIGVLSACVHIGLVEEGWHYFNSMIRD  509 (672)
Q Consensus       482 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~  509 (672)
                      +++.++..+.+.+++.+|.++...|+..
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            9999999999999999999888777644

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=87.82  E-value=0.46  Score=27.95  Aligned_cols=22  Identities=14%  Similarity=0.308  Sum_probs=13.0

Q ss_pred             chHHHHHHHHHhhccCChHHHH
Q 005881          515 RMDHIASVVHLFACRGQTRRAY  536 (672)
Q Consensus       515 ~~~~~~~l~~~~~~~g~~~~A~  536 (672)
                      +...|..+..+|...|++++|+
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            4456666666666666666554

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=87.82  E-value=2.3  Score=40.06  Aligned_cols=52  Identities=21%  Similarity=0.201  Sum_probs=32.9

Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHhhccCcHHHHHHHHHHhH
Q 005881          454 GYAQHGLGREALEIYSMMQENKIKP-NDNTFIGVLSACVHIGLVEEGWHYFNSMI  507 (672)
Q Consensus       454 ~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  507 (672)
                      -|.++|.+++|+..|.+...  +.| |.+++..-..+|.+...+..|..-....+
T Consensus       106 ~yFKQgKy~EAIDCYs~~ia--~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Ai  158 (536)
T KOG4648|consen  106 TYFKQGKYEEAIDCYSTAIA--VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAI  158 (536)
T ss_pred             hhhhccchhHHHHHhhhhhc--cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHH
Confidence            45566777777777766665  345 66777777777777666666655544433

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.65  E-value=21  Score=32.16  Aligned_cols=52  Identities=4%  Similarity=-0.126  Sum_probs=27.5

Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCch------HH-HHHHHHHhcCChHHHHHHHHHHhh
Q 005881          559 KTHKDLVLGRYAAEKILSTDPEDTSA------HI-MLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       559 ~~~g~~~~a~~~~~~~~~~~p~~~~~------~~-~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ...+++.+|+.+|+++....-+|+-.      |. .-+-++.-.++.-.+...+++-.+
T Consensus       165 a~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~~~D~v~a~~ALeky~~  223 (288)
T KOG1586|consen  165 AQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQE  223 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHHh
Confidence            45577888888888876655444322      11 222223333555555555555544

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=87.30  E-value=13  Score=32.99  Aligned_cols=126  Identities=13%  Similarity=0.078  Sum_probs=78.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc----hHHHHHH
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR----MDHIASV  522 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l  522 (672)
                      |.+..++.+.+.+...+++...++-++.. +.|..+-..++..++-.|++++|..-++-..   .+.|+    ...|..+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a---~l~p~~t~~a~lyr~l   78 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAA---TLSPQDTVGASLYRHL   78 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHh---hcCcccchHHHHHHHH
Confidence            34556777888899999999988877753 4445567778888999999999988776554   34443    3555555


Q ss_pred             HHHhhccCChHHHH-HHHHh--CCCCC--CHHHHHH-HHHH--HHhcCCHHHHHHHHHHHhcCCCCCCc
Q 005881          523 VHLFACRGQTRRAY-EFIKS--SPIEP--NKVVWRC-LLSG--CKTHKDLVLGRYAAEKILSTDPEDTS  583 (672)
Q Consensus       523 ~~~~~~~g~~~~A~-~~~~~--~~~~p--~~~~~~~-l~~~--~~~~g~~~~a~~~~~~~~~~~p~~~~  583 (672)
                      +.+       +.+. ++|..  .|.-+  ....|-. ++.+  |..-|..+.+..+-+++++.-|....
T Consensus        79 ir~-------ea~R~evfag~~~Pgflg~p~p~wva~L~aala~h~dg~gea~~alreqal~aa~~~iG  140 (273)
T COG4455          79 IRC-------EAARNEVFAGGAVPGFLGGPSPEWVAALLAALALHSDGAGEARTALREQALKAAPVPIG  140 (273)
T ss_pred             HHH-------HHHHHHHhccCCCCCCcCCCCHHHHHHHHHHHhcccCCcchHHHHHHHHHHhhCCCCCc
Confidence            554       2222 33432  22111  2334543 3333  33345666677777888887775433

>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=87.06  E-value=0.71  Score=38.72  Aligned_cols=86  Identities=14%  Similarity=0.082  Sum_probs=62.3

Q ss_pred             HHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCCCCcccHHHHHHHHHhcCChHH
Q 005881           81 GAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVH  160 (672)
Q Consensus        81 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  160 (672)
                      .+++.+.+.+.+......++.+...+...+....+.++..|++.++.+...++++....   .-...++..|-+.|.+++
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~   88 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEE   88 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHH
Confidence            45667777888888888888888877667788999999999999888888888873322   444566677777777777


Q ss_pred             HHHHHHHHH
Q 005881          161 GLKIFLLSR  169 (672)
Q Consensus       161 a~~~~~~m~  169 (672)
                      +.-++.++.
T Consensus        89 a~~Ly~~~~   97 (143)
T PF00637_consen   89 AVYLYSKLG   97 (143)
T ss_dssp             HHHHHHCCT
T ss_pred             HHHHHHHcc
Confidence            777666543

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.

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=86.96  E-value=2.1  Score=28.32  Aligned_cols=34  Identities=18%  Similarity=0.265  Sum_probs=26.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHH
Q 005881          553 CLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHI  586 (672)
Q Consensus       553 ~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  586 (672)
                      .+.-++.+.|+++.|+...+.+++++|+|..+..
T Consensus         6 ~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa~~   39 (53)
T PF14853_consen    6 YLAIGHYKLGEYEKARRYCDALLEIEPDNRQAQS   39 (53)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHHHTTS-HHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhhCCCcHHHHH
Confidence            4566789999999999999999999998755433

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=86.93  E-value=27  Score=32.65  Aligned_cols=57  Identities=11%  Similarity=-0.093  Sum_probs=51.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          553 CLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       553 ~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      -....|...|.+.+|.++.++++.++|-+...+..+.++|+..|+--.|.+-++++.
T Consensus       284 kva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         284 KVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            344568899999999999999999999999999999999999999888888887775

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=86.70  E-value=16  Score=34.97  Aligned_cols=49  Identities=18%  Similarity=0.185  Sum_probs=30.1

Q ss_pred             hHHHHHHHHHHhCCCCCChHHHHHHHHHHcC--cC----chHHHHHHHHHHHhcC
Q 005881          361 GEAIELLKDMLFEGHCPNLYTYSNILNISSD--IP----AIEWGKQTHCCIVKPG  409 (672)
Q Consensus       361 ~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~--~~----~~~~a~~~~~~~~~~~  409 (672)
                      ++.+.+++.|.+.|.+-+..+|.+.......  ..    ....+..+++.|++..
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            4556778888888888888777664433322  22    2335566666666553

>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=86.31  E-value=1.6  Score=25.34  Aligned_cols=28  Identities=18%  Similarity=0.217  Sum_probs=25.2

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          583 SAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       583 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      .+|..++.+|...|++++|.+.+++..+
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4688999999999999999999998765

...

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=85.90  E-value=11  Score=30.58  Aligned_cols=27  Identities=22%  Similarity=0.286  Sum_probs=14.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 005881          554 LLSGCKTHKDLVLGRYAAEKILSTDPE  580 (672)
Q Consensus       554 l~~~~~~~g~~~~a~~~~~~~~~~~p~  580 (672)
                      |.-++.+.++++.++++.+.+++.+|+
T Consensus        77 LAvg~yRlkeY~~s~~yvd~ll~~e~~  103 (149)
T KOG3364|consen   77 LAVGHYRLKEYSKSLRYVDALLETEPN  103 (149)
T ss_pred             hHHHHHHHhhHHHHHHHHHHHHhhCCC
Confidence            334455555555555555555555553

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=85.78  E-value=15  Score=30.51  Aligned_cols=66  Identities=12%  Similarity=0.103  Sum_probs=35.0

Q ss_pred             ccCcHHHHHHHHHHhHHhhCCCCch-HHHHHHHHHhhccCChHHHHHHHHhCCCCC-CHHHHHHHHHHHHh
Q 005881          492 HIGLVEEGWHYFNSMIRDHGISPRM-DHIASVVHLFACRGQTRRAYEFIKSSPIEP-NKVVWRCLLSGCKT  560 (672)
Q Consensus       492 ~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~  560 (672)
                      ..++.+++..+++.|.   -+.|+. +.-..-+-.+...|++.+|..+|+++...+ ....-..|+..|..
T Consensus        22 ~~~d~~D~e~lLdALr---vLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~CL~   89 (153)
T TIGR02561        22 RSADPYDAQAMLDALR---VLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAGAPPYGKALLALCLN   89 (153)
T ss_pred             hcCCHHHHHHHHHHHH---HhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCchHHHHHHHHHHH
Confidence            3566777777776665   445532 222223444566777777777777664333 32323344444443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PHA02875 ankyrin repeat protein; Provisional

Probab=85.60  E-value=45  Score=34.02  Aligned_cols=196  Identities=11%  Similarity=0.001  Sum_probs=82.3

Q ss_pred             HHhHhCCCCCCccc--HHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChh--HHHHHHHHHHhcCChHHHHHHhhccCCC
Q 005881           65 RLMVCCVLEPNYYT--YVGAVSACASRGDARSGKEIHGRMYRSGLELNSH--VSNCLINMYGKCGLLSSAQFVFDASLER  140 (672)
Q Consensus        65 ~~m~~~~~~p~~~~--~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~--~~~~li~~~~~~g~~~~a~~~~~~~~~~  140 (672)
                      +.+.+.|..|+...  -.+.+..++..|+.+    +.+.+.+.|..|+..  .....+...++.|+.+.+..+++.....
T Consensus        19 ~~Ll~~g~~~n~~~~~g~tpL~~A~~~~~~~----~v~~Ll~~ga~~~~~~~~~~t~L~~A~~~g~~~~v~~Ll~~~~~~   94 (413)
T PHA02875         19 RRLLDIGINPNFEIYDGISPIKLAMKFRDSE----AIKLLMKHGAIPDVKYPDIESELHDAVEEGDVKAVEELLDLGKFA   94 (413)
T ss_pred             HHHHHCCCCCCccCCCCCCHHHHHHHcCCHH----HHHHHHhCCCCccccCCCcccHHHHHHHCCCHHHHHHHHHcCCcc
Confidence            33334455554422  234445555555554    333444455444321  1122344455667777666666543321


Q ss_pred             ----CcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhh--HHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHH-
Q 005881          141 ----NSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFS--CASVLGACAVLGNLKVGMQIHSLVFKCALEFDKF-  213 (672)
Q Consensus       141 ----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t--~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-  213 (672)
                          +..-++. +...+..|+.    ++++.+.+.|..|+...  -.+.+...+..|+.+.+.    .+++.|..++.. 
T Consensus        95 ~~~~~~~g~tp-L~~A~~~~~~----~iv~~Ll~~gad~~~~~~~g~tpLh~A~~~~~~~~v~----~Ll~~g~~~~~~d  165 (413)
T PHA02875         95 DDVFYKDGMTP-LHLATILKKL----DIMKLLIARGADPDIPNTDKFSPLHLAVMMGDIKGIE----LLIDHKACLDIED  165 (413)
T ss_pred             cccccCCCCCH-HHHHHHhCCH----HHHHHHHhCCCCCCCCCCCCCCHHHHHHHcCCHHHHH----HHHhcCCCCCCCC
Confidence                1111222 2233344443    34444555565554321  123344444555554333    333444332211 


Q ss_pred             -HHHHHHHHhhcCCChhHHHHHHhcCCCCCcch---HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC
Q 005881          214 -VAMGLINLYAKCEKLDLASRVFSNIQLPDLTA---WSALIGGYAQLGKACEAIDLFVKMFSSGLMPS  277 (672)
Q Consensus       214 -~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  277 (672)
                       ...+-+...+..|+.+-+.-+++.-..++...   ..+.+...+..|+.+    +.+.+.+.|..++
T Consensus       166 ~~g~TpL~~A~~~g~~eiv~~Ll~~ga~~n~~~~~~~~t~l~~A~~~~~~~----iv~~Ll~~gad~n  229 (413)
T PHA02875        166 CCGCTPLIIAMAKGDIAICKMLLDSGANIDYFGKNGCVAALCYAIENNKID----IVRLFIKRGADCN  229 (413)
T ss_pred             CCCCCHHHHHHHcCCHHHHHHHHhCCCCCCcCCCCCCchHHHHHHHcCCHH----HHHHHHHCCcCcc
Confidence             11122333344556555555555444333221   123333334444443    3344444555554

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=85.53  E-value=24  Score=30.89  Aligned_cols=90  Identities=8%  Similarity=-0.050  Sum_probs=64.0

Q ss_pred             HHHHhhccCChHHHHHHHHhCCCCCCHHHHHHH-----HHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcC
Q 005881          522 VVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCL-----LSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEAN  596 (672)
Q Consensus       522 l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l-----~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  596 (672)
                      +...+..+|++++|...++..--.|....+..+     .+.....|.++.|...++...+-.= .+..-...++++...|
T Consensus        95 lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w-~~~~~elrGDill~kg  173 (207)
T COG2976          95 LAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW-AAIVAELRGDILLAKG  173 (207)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH-HHHHHHHhhhHHHHcC
Confidence            355678899999999999864334444444443     3446778999999888765432211 2233457899999999


Q ss_pred             ChHHHHHHHHHHhhCC
Q 005881          597 MWDETAKVRKIMKEKS  612 (672)
Q Consensus       597 ~~~~a~~~~~~~~~~~  612 (672)
                      +-++|+.-|++..+.+
T Consensus       174 ~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         174 DKQEARAAYEKALESD  189 (207)
T ss_pred             chHHHHHHHHHHHHcc
Confidence            9999999999988754

>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=85.45  E-value=22  Score=30.40  Aligned_cols=54  Identities=9%  Similarity=0.070  Sum_probs=29.8

Q ss_pred             HHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHH
Q 005881          317 NTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDM  370 (672)
Q Consensus       317 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m  370 (672)
                      ..+++.+...|++-+|.++.+.....+......++.+-.+.++...=..+|+-.
T Consensus        93 ~~iievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~D~~lf~~V~~ff  146 (167)
T PF07035_consen   93 EEIIEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSNDDQLFYAVFRFF  146 (167)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            345556666777777777766654444444455555555555544444444433

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=85.40  E-value=1.6  Score=26.80  Aligned_cols=28  Identities=25%  Similarity=0.267  Sum_probs=23.0

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          583 SAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       583 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      .++..|+.+|...|++++|.+++++..+
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            4577899999999999999999988764

>smart00028 TPR Tetratricopeptide repeats

Probab=85.06  E-value=1.6  Score=24.36  Aligned_cols=28  Identities=25%  Similarity=0.042  Sum_probs=14.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 005881          552 RCLLSGCKTHKDLVLGRYAAEKILSTDP  579 (672)
Q Consensus       552 ~~l~~~~~~~g~~~~a~~~~~~~~~~~p  579 (672)
                      ..+...+...|+++.|...+++++++.|
T Consensus         5 ~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        5 YNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            3344444455555555555555555544

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=84.85  E-value=7.3  Score=29.68  Aligned_cols=60  Identities=10%  Similarity=0.122  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHH
Q 005881          463 EALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVH  524 (672)
Q Consensus       463 ~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  524 (672)
                      +..+-++.+....+-|++....+.+.||.+.+++..|.++|+.+..+.+..  ...|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~--~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNK--KEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT---TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCh--HHHHHHHHH
Confidence            455566666777788999999999999999999999999998887654433  335655544

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 ....

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=84.73  E-value=1.5  Score=25.24  Aligned_cols=28  Identities=11%  Similarity=0.005  Sum_probs=22.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 005881          553 CLLSGCKTHKDLVLGRYAAEKILSTDPE  580 (672)
Q Consensus       553 ~l~~~~~~~g~~~~a~~~~~~~~~~~p~  580 (672)
                      .+...+...|+.++|...++++++..|+
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~~~P~   32 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIKRYPD   32 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence            4556677789999999999999988885

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.66  E-value=30  Score=31.20  Aligned_cols=60  Identities=23%  Similarity=0.248  Sum_probs=36.2

Q ss_pred             HhhccCChHHHHHHHHhCC---CCCCHHHHHH---HH--HHHHhc-CCHHHHHHHHHHHhcCCCCCCch
Q 005881          525 LFACRGQTRRAYEFIKSSP---IEPNKVVWRC---LL--SGCKTH-KDLVLGRYAAEKILSTDPEDTSA  584 (672)
Q Consensus       525 ~~~~~g~~~~A~~~~~~~~---~~p~~~~~~~---l~--~~~~~~-g~~~~a~~~~~~~~~~~p~~~~~  584 (672)
                      .-+..+++.+|.++|+++.   ...+..-|..   ++  ..|.-. .|.-.+...+++-.+++|.-...
T Consensus       163 yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~~~D~v~a~~ALeky~~~dP~F~ds  231 (288)
T KOG1586|consen  163 YAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQELDPAFTDS  231 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHHhcCCccccc
Confidence            3355677777887776531   2222222321   22  224444 78888899999999999975443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=84.54  E-value=24  Score=30.07  Aligned_cols=118  Identities=14%  Similarity=0.117  Sum_probs=66.2

Q ss_pred             HHhcCCHHHHHHHHhhCCCCCchhHHHHH-----HHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHH--HHHhhccCc
Q 005881          424 YAKCGRLNDARKVFDHLSSKNLVSWNTML-----VGYAQHGLGREALEIYSMMQENKIKPNDN-TFIGV--LSACVHIGL  495 (672)
Q Consensus       424 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li-----~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~l--l~~~~~~g~  495 (672)
                      +++.+..++|..-|..+.+.+.-.|-.|.     ....+.|+...|...|++.-...-.|-.. -...|  ...+...|.
T Consensus        68 lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gs  147 (221)
T COG4649          68 LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGS  147 (221)
T ss_pred             HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhcccc
Confidence            34566777777777777765555554432     33456677777777777766543333332 11111  223456677


Q ss_pred             HHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC
Q 005881          496 VEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS  542 (672)
Q Consensus       496 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  542 (672)
                      +++.....+-+.. .+.+.....-..|.-+-.+.|++..|.+.|..+
T Consensus       148 y~dV~srvepLa~-d~n~mR~sArEALglAa~kagd~a~A~~~F~qi  193 (221)
T COG4649         148 YDDVSSRVEPLAG-DGNPMRHSAREALGLAAYKAGDFAKAKSWFVQI  193 (221)
T ss_pred             HHHHHHHhhhccC-CCChhHHHHHHHHhHHHHhccchHHHHHHHHHH
Confidence            7776666655531 121222334445666666777777777777654

>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=84.44  E-value=3.2  Score=35.55  Aligned_cols=33  Identities=21%  Similarity=0.229  Sum_probs=24.6

Q ss_pred             HHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcC
Q 005881          564 LVLGRYAAEKILSTDPEDTSAHIMLSNVYAEAN  596 (672)
Q Consensus       564 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  596 (672)
                      +++|..-+++++.++|+...++.+++++|...+
T Consensus        51 iedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A   83 (186)
T PF06552_consen   51 IEDAISKFEEALKINPNKHDALWCLGNAYTSLA   83 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHH
Confidence            456777788888888888888888888877765

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.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=84.16  E-value=9  Score=28.86  Aligned_cols=62  Identities=11%  Similarity=0.165  Sum_probs=44.8

Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHH
Q 005881          461 GREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVH  524 (672)
Q Consensus       461 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  524 (672)
                      .-++.+-++.+....+-|++....+.+.||.+.+++..|.++|+....+.+.  +...|..+++
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~lq   84 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHHH
Confidence            3355666677777778899999999999999999999999999877644332  3445554443

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.

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=83.30  E-value=3.3  Score=31.23  Aligned_cols=42  Identities=21%  Similarity=0.275  Sum_probs=25.6

Q ss_pred             HHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          569 YAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       569 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ..+++.++.+|+|......++..+...|++++|.+.+-.+.+
T Consensus         9 ~al~~~~a~~P~D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~   50 (90)
T PF14561_consen    9 AALEAALAANPDDLDARYALADALLAAGDYEEALDQLLELVR   50 (90)
T ss_dssp             HHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            345555666666666666666666666777766666665554

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=83.21  E-value=1.4  Score=37.00  Aligned_cols=85  Identities=15%  Similarity=0.075  Sum_probs=60.0

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHH
Q 005881          183 VLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEA  262 (672)
Q Consensus       183 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  262 (672)
                      +++.+.+.+.+.....+++.+.+.+...+....+.++..|++.++.+...++++....   .-...++..+.+.|.++++
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~a   89 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEEA   89 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHHH
Confidence            4556666677777777777777766667788889999999999888888888874332   3345666777777777777


Q ss_pred             HHHHHHHH
Q 005881          263 IDLFVKMF  270 (672)
Q Consensus       263 ~~~~~~m~  270 (672)
                      .-++.++.
T Consensus        90 ~~Ly~~~~   97 (143)
T PF00637_consen   90 VYLYSKLG   97 (143)
T ss_dssp             HHHHHCCT
T ss_pred             HHHHHHcc
Confidence            77776653

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.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=83.02  E-value=5.1  Score=35.40  Aligned_cols=64  Identities=11%  Similarity=0.033  Sum_probs=49.1

Q ss_pred             HHHHHHhhccCChHHHHHHHH-hCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 005881          520 ASVVHLFACRGQTRRAYEFIK-SSPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTS  583 (672)
Q Consensus       520 ~~l~~~~~~~g~~~~A~~~~~-~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  583 (672)
                      ..-+..+.+.+++.+|+...+ +...+| |......++..++-.|++++|..-++-+-++.|++..
T Consensus         5 ~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~   70 (273)
T COG4455           5 RDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTV   70 (273)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccch
Confidence            344567778888888888765 355566 5556777888888899999999999988889887543

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=82.43  E-value=2.8  Score=36.83  Aligned_cols=91  Identities=16%  Similarity=0.142  Sum_probs=56.0

Q ss_pred             HhhccCcHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHhhccCChHHHHHHHHhC-CCCCCHH-HHHHHHHHHHhcCCHH
Q 005881          489 ACVHIGLVEEGWHYFNSMIRDHGISPR-MDHIASVVHLFACRGQTRRAYEFIKSS-PIEPNKV-VWRCLLSGCKTHKDLV  565 (672)
Q Consensus       489 ~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~~l~~~~~~~g~~~  565 (672)
                      .|-+.|.+.-|.--|....   .+.|+ +++++.|.--+...|+++.|.+.|+.. .+.|... +...-.-++.-.|++.
T Consensus        74 lYDSlGL~~LAR~DftQaL---ai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~  150 (297)
T COG4785          74 LYDSLGLRALARNDFSQAL---AIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYK  150 (297)
T ss_pred             hhhhhhHHHHHhhhhhhhh---hcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchH
Confidence            3555666666766666544   56665 467777777777788888888877753 3444221 2211112233457777


Q ss_pred             HHHHHHHHHhcCCCCCC
Q 005881          566 LGRYAAEKILSTDPEDT  582 (672)
Q Consensus       566 ~a~~~~~~~~~~~p~~~  582 (672)
                      .|.+-+.+-...+|+||
T Consensus       151 LAq~d~~~fYQ~D~~DP  167 (297)
T COG4785         151 LAQDDLLAFYQDDPNDP  167 (297)
T ss_pred             hhHHHHHHHHhcCCCCh
Confidence            77777777777777665

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=82.39  E-value=8.4  Score=29.02  Aligned_cols=61  Identities=11%  Similarity=0.035  Sum_probs=44.4

Q ss_pred             hhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHH
Q 005881           58 EVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLIN  119 (672)
Q Consensus        58 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  119 (672)
                      -++.+-++.+....+-|++....+.+++|-+.+++..|..+++-++... ..+..+|..+++
T Consensus        24 we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~-~~~~~~y~~~lq   84 (103)
T cd00923          24 WELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKC-GAHKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cCchhhHHHHHH
Confidence            3556666666667788899999999999999999999999998777432 124446665554

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.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=82.37  E-value=57  Score=32.64  Aligned_cols=81  Identities=12%  Similarity=0.161  Sum_probs=46.2

Q ss_pred             CCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCCC--CcccHHHHHH
Q 005881           73 EPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLER--NSISWVSLLS  150 (672)
Q Consensus        73 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~li~  150 (672)
                      |.|..+|-.+++-+...+..++..+++++|..- ++--+.+|...+++=....++...+.+|.+....  +...|...+.
T Consensus        39 PtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~p-fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l~ldLW~lYl~  117 (660)
T COG5107          39 PTNILSYFQLIQYLETQESMDAEREMYEQLSSP-FPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSLNLDLWMLYLE  117 (660)
T ss_pred             chhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC-CccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhccHhHHHHHHH
Confidence            345556666777776666666666666666432 2223445555555555556666666666655443  4555665555


Q ss_pred             HHHh
Q 005881          151 SYCQ  154 (672)
Q Consensus       151 ~~~~  154 (672)
                      .-.+
T Consensus       118 YIRr  121 (660)
T COG5107         118 YIRR  121 (660)
T ss_pred             HHHh
Confidence            4433

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.30  E-value=25  Score=36.40  Aligned_cols=99  Identities=21%  Similarity=0.176  Sum_probs=57.5

Q ss_pred             cCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHH
Q 005881          224 KCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSL  303 (672)
Q Consensus       224 ~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~  303 (672)
                      +.|+++.|.++..+.  .+..-|..|-++..+.+++..|.+.|.....         |..|+-.+...|+.+....+-..
T Consensus       649 ~lgrl~iA~~la~e~--~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~  717 (794)
T KOG0276|consen  649 KLGRLDIAFDLAVEA--NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASL  717 (794)
T ss_pred             hcCcHHHHHHHHHhh--cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHH
Confidence            455666665554433  3555677777777788888777777766543         44555566666666555555555


Q ss_pred             HHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhC
Q 005881          304 IIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEM  339 (672)
Q Consensus       304 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  339 (672)
                      ..+.|..      |....+|...|+++++.+++.+-
T Consensus       718 ~~~~g~~------N~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  718 AKKQGKN------NLAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             HHhhccc------chHHHHHHHcCCHHHHHHHHHhc
Confidence            4444422      22333455566666666665443

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=82.09  E-value=4.9  Score=33.21  Aligned_cols=82  Identities=5%  Similarity=0.016  Sum_probs=63.4

Q ss_pred             hHHHHHHHHHcCCCchhHHHHHHHhHhCC-----CCCCcccHHHHHHHHhcCCC-hhhHHHHHHHHHHhCCCCChhHHHH
Q 005881           43 SWSALISGFSQIGMPEVALNYFRLMVCCV-----LEPNYYTYVGAVSACASRGD-ARSGKEIHGRMYRSGLELNSHVSNC  116 (672)
Q Consensus        43 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----~~p~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~g~~~~~~~~~~  116 (672)
                      ..|+++.-....+++...+.+++.+....     -..+..+|.+++++..+... --.+..+|..+.+.+.++++.-|..
T Consensus        41 fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~  120 (145)
T PF13762_consen   41 FINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSC  120 (145)
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            36788888888888888888888774321     13456689999999977766 5567888999998888999999999


Q ss_pred             HHHHHHhc
Q 005881          117 LINMYGKC  124 (672)
Q Consensus       117 li~~~~~~  124 (672)
                      +|.++.+-
T Consensus       121 li~~~l~g  128 (145)
T PF13762_consen  121 LIKAALRG  128 (145)
T ss_pred             HHHHHHcC
Confidence            99987664

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=82.01  E-value=51  Score=31.90  Aligned_cols=23  Identities=22%  Similarity=0.276  Sum_probs=13.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHH
Q 005881          584 AHIMLSNVYAEANMWDETAKVRK  606 (672)
Q Consensus       584 ~~~~l~~~~~~~g~~~~a~~~~~  606 (672)
                      .+..++.+|...|.-++-..-+.
T Consensus       333 ~hcrla~iYrs~gl~d~~~~h~~  355 (518)
T KOG1941|consen  333 LHCRLASIYRSKGLQDELRAHVV  355 (518)
T ss_pred             HHHHHHHHHHhccchhHHHHHHH
Confidence            34466777777776665444433

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.84  E-value=81  Score=34.06  Aligned_cols=38  Identities=16%  Similarity=0.307  Sum_probs=23.7

Q ss_pred             ccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 005881          528 CRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGR  568 (672)
Q Consensus       528 ~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~  568 (672)
                      +-++.++|.++.+.-   .|...|..|+.-+...-.+-.+.
T Consensus       673 el~die~AIefvKeq---~D~eLWe~LI~~~ldkPe~~~~l  710 (846)
T KOG2066|consen  673 ELRDIEKAIEFVKEQ---DDSELWEDLINYSLDKPEFIKAL  710 (846)
T ss_pred             HhhCHHHHHHHHHhc---CCHHHHHHHHHHhhcCcHHHHHH
Confidence            344555555555543   48888999988876655544444

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=81.73  E-value=1.5e+02  Score=36.94  Aligned_cols=305  Identities=11%  Similarity=0.009  Sum_probs=155.4

Q ss_pred             HhhccCCchhHHHHHHHHHHh--CCCCchHHHHHHHHHHHccCChHHHHHHHhh-CCCCCcccHHHHHHHHHhcCChhHH
Q 005881          287 AFADVKETIGGRQLHSLIIKM--GFSSFTFVANTVLDFYSKCELLEESLKTFDE-MDEHDVVSWNALIAGHLASCHYGEA  363 (672)
Q Consensus       287 ~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~A  363 (672)
                      +-.+.+.+..|...++.-...  ........+-.+...|...+++|....+... ..+++   ...-|.-....|++..|
T Consensus      1392 aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~s---l~~qil~~e~~g~~~da 1468 (2382)
T KOG0890|consen 1392 ASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFADPS---LYQQILEHEASGNWADA 1468 (2382)
T ss_pred             HHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCcc---HHHHHHHHHhhccHHHH
Confidence            334445555555555542000  0011122333444577777777776666552 32232   22334445667888888


Q ss_pred             HHHHHHHHhCCCCCC-hHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC
Q 005881          364 IELLKDMLFEGHCPN-LYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSS  442 (672)
Q Consensus       364 ~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  442 (672)
                      ...|+.+.+.  .|+ ..+++.++......+.+....-..+-.....-+-....++.=+.+--+.++++...+...   .
T Consensus      1469 ~~Cye~~~q~--~p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~se~~~~~~s~~~eaaW~l~qwD~~e~~l~---~ 1543 (2382)
T KOG0890|consen 1469 AACYERLIQK--DPDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINRSEEVDELNSLGVEAAWRLSQWDLLESYLS---D 1543 (2382)
T ss_pred             HHHHHHhhcC--CCccccchhhHHHhhhcccchhHHHhhhcchhhccCHHHHHHHHHHHHHHhhhcchhhhhhhhh---c
Confidence            8888888765  444 556776666666666666555543333322111111122222333355666666666555   4


Q ss_pred             CCchhHHHH--HHHHHhcC--ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHH----------HhHH
Q 005881          443 KNLVSWNTM--LVGYAQHG--LGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFN----------SMIR  508 (672)
Q Consensus       443 ~~~~~~~~l--i~~~~~~g--~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~----------~~~~  508 (672)
                      .+..+|...  +..+.+..  +.-.-.+..+.+++.-+.|        +.+|+..|.+..+.++.-          ....
T Consensus      1544 ~n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~--------lsa~s~~~Sy~~~Y~~~~kLH~l~el~~~~~~ 1615 (2382)
T KOG0890|consen 1544 RNIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIEN--------LSACSIEGSYVRSYEILMKLHLLLELENSIEE 1615 (2382)
T ss_pred             ccccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhh--------HHHhhccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455556554  22222222  2212223444443321111        112222222111111111          1111


Q ss_pred             hhCCCCch------HHHHHHHHHhhccCChHHHHHHH---Hh------C--CCCC-CHHHHHHHHHHHHhcCCHHHHHHH
Q 005881          509 DHGISPRM------DHIASVVHLFACRGQTRRAYEFI---KS------S--PIEP-NKVVWRCLLSGCKTHKDLVLGRYA  570 (672)
Q Consensus       509 ~~~~~p~~------~~~~~l~~~~~~~g~~~~A~~~~---~~------~--~~~p-~~~~~~~l~~~~~~~g~~~~a~~~  570 (672)
                      ..+..++.      +.|..-   +.+.+....+.+-+   ++      |  ..+- -..+|......++..|.++.|..+
T Consensus      1616 l~~~s~~~~s~~~sd~W~~R---l~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~na 1692 (2382)
T KOG0890|consen 1616 LKKVSYDEDSANNSDNWKNR---LERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQNA 1692 (2382)
T ss_pred             hhccCccccccccchhHHHH---HHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHHH
Confidence            12333322      222222   22222222232222   11      1  1111 245789999999999999999999


Q ss_pred             HHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          571 AEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       571 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                      .-++.+..  -+..+.-.+..+...|+-..|..+++...+..
T Consensus      1693 ll~A~e~r--~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1693 LLNAKESR--LPEIVLERAKLLWQTGDELNALSVLQEILSKN 1732 (2382)
T ss_pred             HHhhhhcc--cchHHHHHHHHHHhhccHHHHHHHHHHHHHhh
Confidence            88888877  46889999999999999999999999877543

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=81.66  E-value=64  Score=32.81  Aligned_cols=29  Identities=3%  Similarity=-0.114  Sum_probs=15.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 005881          547 NKVVWRCLLSGCKTHKDLVLGRYAAEKIL  575 (672)
Q Consensus       547 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  575 (672)
                      |+..|...+.--..+|..+.+-.++.++.
T Consensus       529 d~~lw~~y~~~e~~~g~~en~~~~~~ra~  557 (568)
T KOG2396|consen  529 DSDLWMDYMKEELPLGRPENCGQIYWRAM  557 (568)
T ss_pred             ChHHHHHHHHhhccCCCcccccHHHHHHH
Confidence            44455555555455555555555555554

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=81.52  E-value=8.5  Score=29.35  Aligned_cols=48  Identities=15%  Similarity=0.192  Sum_probs=33.1

Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHH
Q 005881          541 SSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIML  588 (672)
Q Consensus       541 ~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  588 (672)
                      .+.+.|++....+.+.+|++.+|+..|.++++-+-....+....|-.+
T Consensus        38 ~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~~Y~~~   85 (108)
T PF02284_consen   38 GYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKEIYPYI   85 (108)
T ss_dssp             TSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TTHHHHH
T ss_pred             ccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHHHHHHH
Confidence            456789999999999999999999999999998764443333355544

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=81.17  E-value=3.5  Score=25.23  Aligned_cols=28  Identities=29%  Similarity=0.341  Sum_probs=18.3

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 005881          446 VSWNTMLVGYAQHGLGREALEIYSMMQE  473 (672)
Q Consensus       446 ~~~~~li~~~~~~g~~~~A~~~~~~m~~  473 (672)
                      .+++.|...|...|++++|..++++...
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            3566677777777777777777766654

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=81.11  E-value=28  Score=37.52  Aligned_cols=18  Identities=17%  Similarity=0.244  Sum_probs=9.5

Q ss_pred             HHhcCChHHHHHHHHHHh
Q 005881          592 YAEANMWDETAKVRKIMK  609 (672)
Q Consensus       592 ~~~~g~~~~a~~~~~~~~  609 (672)
                      |--+|+++.|.+++....
T Consensus       437 y~La~~~d~vl~lln~~L  454 (613)
T PF04097_consen  437 YHLAEEYDKVLSLLNRLL  454 (613)
T ss_dssp             HHHTT-HHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHH
Confidence            334456666666666554

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.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=80.97  E-value=19  Score=35.91  Aligned_cols=86  Identities=20%  Similarity=0.216  Sum_probs=41.4

Q ss_pred             HhhccCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHH
Q 005881          525 LFACRGQTRRAYEFIKSSP--IEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETA  602 (672)
Q Consensus       525 ~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  602 (672)
                      .+...|.+|.+.+.+....  +.....+..+++......|+.+.|....+.++..+-++++.....+-.-...|-++++.
T Consensus       332 i~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~  411 (831)
T PRK15180        332 IFSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSY  411 (831)
T ss_pred             HHHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccCChhheeeecccHHHHhHHHHHH
Confidence            3344555555555544321  11223344445555555555556655555555554444444333333334445555555


Q ss_pred             HHHHHHhh
Q 005881          603 KVRKIMKE  610 (672)
Q Consensus       603 ~~~~~~~~  610 (672)
                      -.|++...
T Consensus       412 ~~wk~~~~  419 (831)
T PRK15180        412 HYWKRVLL  419 (831)
T ss_pred             HHHHHHhc
Confidence            55555543

>smart00386 HAT HAT (Half-A-TPR) repeats

Probab=80.28  E-value=3.1  Score=23.66  Aligned_cols=30  Identities=17%  Similarity=0.210  Sum_probs=24.6

Q ss_pred             CCHHHHHHHHHHHhcCCCCCCchHHHHHHH
Q 005881          562 KDLVLGRYAAEKILSTDPEDTSAHIMLSNV  591 (672)
Q Consensus       562 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  591 (672)
                      |+.+.+..+|++++...|.++..|..++..
T Consensus         1 ~~~~~~r~i~e~~l~~~~~~~~~W~~y~~~   30 (33)
T smart00386        1 GDIERARKIYERALEKFPKSVELWLKYAEF   30 (33)
T ss_pred             CcHHHHHHHHHHHHHHCCCChHHHHHHHHH
Confidence            567889999999999999888888776654

Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	672
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-10
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-06
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-06
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-06
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-08

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 62.9 bits (151), Expect = 2e-10
 Identities = 25/229 (10%), Positives = 61/229 (26%), Gaps = 10/229 (4%)

Query: 419 ALVDMYAKCGRLNDARKVFDHLSSK-------NLVSWNTMLVGYAQHGLGREALEIYSMM 471
           A         +L  A  +      +        L  +N +++G+A+ G  +E + +  M+
Sbjct: 132 AFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMV 191

Query: 472 QENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQ 531
           ++  + P+  ++   L                   +   G+            L +   +
Sbjct: 192 KDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKL---QALFTAVLLSEEDR 248

Query: 532 TRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNV 591
                   K  P           ++  K  +D+              P  T   +    +
Sbjct: 249 ATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQL 308

Query: 592 YAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQ 640
           + E         V K        K    +   L+++          + +
Sbjct: 309 HMELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWEKALCRALRETK 357

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 50.2 bits (118), Expect = 2e-06
 Identities = 26/186 (13%), Positives = 62/186 (33%), Gaps = 8/186 (4%)

Query: 168 SRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEK 227
           +R++  +  E   A +L       +L V         +  L   +   +         ++
Sbjct: 83  TRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQ 142

Query: 228 LDLASRVF-------SNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVT 280
           L LA  +           +L  L  ++A++ G+A+ G   E + +   +  +GL P  ++
Sbjct: 143 LPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS 202

Query: 281 FSYVLGAFADVKETIGG-RQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEM 339
           ++  L       +  G   +    + + G          +L    +  +L+   K     
Sbjct: 203 YAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTF 262

Query: 340 DEHDVV 345
                +
Sbjct: 263 SLPPQL 268

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 48.3 bits (113), Expect = 7e-06
 Identities = 15/136 (11%), Positives = 41/136 (30%), Gaps = 32/136 (23%)

Query: 1   MITSGFHPNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVA 60
                    +  YN ++L + +     +   +   + +  +                   
Sbjct: 156 QRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGL------------------- 196

Query: 61  LNYFRLMVCCVLEPNYYTYVGAVSACASRG-DARSGKEIHGRMYRSGLELNSHVSNCLIN 119
                        P+  +Y  A+     +  DA + +    +M + GL+L +  +  L++
Sbjct: 197 ------------TPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLS 244

Query: 120 MYGKCGLLSSAQFVFD 135
              +  +L +   V  
Sbjct: 245 EEDRATVLKAVHKVKP 260

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 48.3 bits (113), Expect = 8e-06
 Identities = 15/120 (12%), Positives = 32/120 (26%), Gaps = 7/120 (5%)

Query: 276 PSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKT 335
           P E   + +L            +       +   S                + L  +   
Sbjct: 90  PWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHL 149

Query: 336 FDEMDEH-------DVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNI 388
                          +  +NA++ G      + E + +L  +   G  P+L +Y+  L  
Sbjct: 150 LVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQC 209

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 44.4 bits (103), Expect = 1e-04
 Identities = 28/290 (9%), Positives = 75/290 (25%), Gaps = 17/290 (5%)

Query: 365 ELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMY 424
                    G    L  +     ++  +P        H    +      + + +A++  +
Sbjct: 116 GQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGW 175

Query: 425 AKCGRLNDARKVFDHLSSK----NLVSWNTMLVGYAQHGLGREALEIY-SMMQENKIKPN 479
           A+ G   +   V   +       +L+S+   L    +       +E     M +  +K  
Sbjct: 176 ARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQ 235

Query: 480 DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFI 539
                 +LS      +++       +        P   + + ++     +       +  
Sbjct: 236 ALFTAVLLSEEDRATVLKAVHKVKPTF-SLPPQLPPPVNTSKLLRDVYAKDGRVSYPKL- 293

Query: 540 KSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWD 599
                 P K +               +   + EK      E   A   L  +    + W+
Sbjct: 294 ----HLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLPSKEVKHARKTLKTLR---DQWE 346

Query: 600 ETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMN 649
           +         +  L+++       L   +         +   + L  +  
Sbjct: 347 KALCRALRETKNRLEREVYEGRFSLYPFLCLLDEREVVR---MLLQVLQA 393

>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 = 56.4 bits (135), Expect = 2e-08
 Identities = 78/563 (13%), Positives = 150/563 (26%), Gaps = 169/563 (30%)

Query: 12  TYNHLLLMYV-KFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMVCC 70
            Y  +L ++   F    D + + D    ++++S    I     I   +      RL    
Sbjct: 17  QYKDILSVFEDAFVDNFDCKDVQDMP--KSILS-KEEIDHI--IMSKDAVSGTLRLFWTL 71

Query: 71  VLEPN--YYTYVGAV---------SACASRGDARSGK-----EIHGRMYRSGLELNS-HV 113
           + +       +V  V         S   +     S       E   R+Y         +V
Sbjct: 72  LSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNV 131

Query: 114 S---------NCLIN-----------MYGKCG---LLSSAQFVFDASLER---NSISWVS 147
           S           L+            + G  G   +           ++      I W++
Sbjct: 132 SRLQPYLKLRQALLELRPAKNVLIDGVLG-SGKTWVALDV--CLSYKVQCKMDFKIFWLN 188

Query: 148 L--------------------LSSYCQCGEHV-----------HGLKIFLLSRK------ 170
           L                      ++    +H              L+  L S+       
Sbjct: 189 LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL 248

Query: 171 --SGVAISE------FSCASVL--GACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLIN 220
               V  ++       SC  +L      V   L      H  +   ++         L+ 
Sbjct: 249 VLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL 308

Query: 221 LYAKCEKLDLASRVFSNIQLPDLTAWSALIG-----------GYAQLGKACEAIDLFVKM 269
            Y  C   DL   V +    P      ++I             +  +   C+ +   ++ 
Sbjct: 309 KYLDCRPQDLPREVLTTN--PRRL---SIIAESIRDGLATWDNWKHVN--CDKLTTIIES 361

Query: 270 FSSGLMPSEVTFSYV-LGAF-ADVK------------------ETIGGRQLH--SLIIKM 307
             + L P+E    +  L  F                         +   +LH  SL+ K 
Sbjct: 362 SLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVV-VNKLHKYSLVEKQ 420

Query: 308 GFSSFTFVANTVLDFYSKCE--------LLE--ESLKTFDEMDEHDVVS---WNALIAGH 354
              S   + +  L+   K E        +++     KTFD  D         + + I  H
Sbjct: 421 PKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHH 480

Query: 355 LASCHYGEAIELLKDMLF---------EGHCPNLYTYSNILNISSDIPAIEWGKQTHCCI 405
           L +  + E + L + +                      +ILN    +   +     + C 
Sbjct: 481 LKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYK----PYICD 536

Query: 406 VKPGFDSNVVIGSALVDMYAKCG 428
             P ++  V   +A++D   K  
Sbjct: 537 NDPKYERLV---NAILDFLPKIE 556

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	672
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.95
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.92
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.9
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.9
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.89
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.88
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.87
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.85
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.83
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.82
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.82
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.8
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.79
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.78
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.77
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.77
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.76
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.76
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.76
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.73
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.72
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.72
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.71
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.71
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.7
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.69
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.69
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.67
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.64
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.63
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.62
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.61
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.6
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.57
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.56
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.55
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.53
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.52
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.5
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.5
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.49
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.49
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.48
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.47
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.47
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.47
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.46
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.45
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.44
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.44
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.44
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.44
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.43
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.42
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.42
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.39
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.39
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.38
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.38
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.37
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.36
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.32
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.32
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.31
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.31
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.3
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.3
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.3
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.28
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.28
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.27
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.27
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.23
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.23
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.21
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.19
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.17
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.15
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.11
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.1
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.08
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.08
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.07
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.05
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.03
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.03
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.02
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.01
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.0
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.99
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.98
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.97
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.97
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.95
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.94
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.92
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.89
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.89
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.88
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.87
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.87
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.87
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.82
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.8
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.8
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.78
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.78
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.77
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.76
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.76
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.76
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.75
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.72
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.72
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.71
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.69
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.69
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.64
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.64
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.64
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.63
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.63
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.62
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.62
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.62
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.6
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.59
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.58
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.58
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.57
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.56
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.54
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.49
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.49
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.48
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.48
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.47
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.47
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.46
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.46
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.45
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.43
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.43
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.42
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.41
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.4
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.4
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.39
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.39
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.37
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.35
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.35
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.33
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.32
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.31
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.3
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.29
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.29
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.29
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.29
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.26
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.26
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.23
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.23
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.22
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.22
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.21
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.19
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.17
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.16
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.15
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.14
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.14
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.12
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.11
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.11
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.1
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.09
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.09
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.08
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.08
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.06
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.05
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.04
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.03
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.03
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.01
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.99
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.96
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.96
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.95
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.93
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.89
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.86
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.82
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.74
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.73
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.68
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.68
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.67
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.65
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.53
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.5
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.48
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.42
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.37
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.36
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.34
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.23
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.14
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.12
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.06
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.06
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.96
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.91
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.86
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.82
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.54
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.39
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.38
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.22
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.16
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	95.98
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.85
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	95.61
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	95.29
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.02
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	94.97
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	94.56
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.54
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	93.39
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	93.3
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	93.13
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	92.71
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	92.41
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	91.46
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	89.8
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	89.5
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	88.35
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	88.28
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	88.08
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	87.39
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	87.09
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	87.03
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	86.61
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	86.25
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	85.86
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	85.57
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	85.41
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	85.39
2p58_C	116	Putative type III secretion protein YSCG; type III	85.03
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	83.92
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	83.58
2qx5_A	661	Nucleoporin NIC96; mRNA transport, nuclear pore co	82.21
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	81.98
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	81.77
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	80.64
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	80.55
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	80.34

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1e-40  Score=359.14  Aligned_cols=480  Identities=9%  Similarity=-0.030  Sum_probs=400.1

Q ss_pred             HHhcCChHHHHHHhhccCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHH
Q 005881          121 YGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIH  200 (672)
Q Consensus       121 ~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~  200 (672)
                      +.+.|....+...+..++.+++..|+.++..|.+.|++++|+.+|++|..  ..|+..++..+..+|...|+++.|..++
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~  140 (597)
T 2xpi_A           63 TSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKCLL  140 (597)
T ss_dssp             -------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHHHH
Confidence            45667778888888888888899999999999999999999999999985  5688899999999999999999999999


Q ss_pred             HHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCC-------------------CcchHHHHHHHHHhcCChhH
Q 005881          201 SLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLP-------------------DLTAWSALIGGYAQLGKACE  261 (672)
Q Consensus       201 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-------------------~~~~~~~li~~~~~~~~~~~  261 (672)
                      +.+...  +++..+++.++.+|.+.|++++|.++|+++...                   +..+|+.++.+|.+.|++++
T Consensus       141 ~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  218 (597)
T 2xpi_A          141 TKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDR  218 (597)
T ss_dssp             HHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHH
Confidence            987543  678899999999999999999999999965433                   37789999999999999999


Q ss_pred             HHHHHHHHHHCCCCCChh-hHHHHHHHhhccCCchhH--HHH-HHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHh
Q 005881          262 AIDLFVKMFSSGLMPSEV-TFSYVLGAFADVKETIGG--RQL-HSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFD  337 (672)
Q Consensus       262 a~~~~~~m~~~~~~p~~~-t~~~ll~~~~~~~~~~~a--~~~-~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  337 (672)
                      |+..|++|.+.+  |+.. .+..+...+...+..+..  ..+ +..+...+..+...+++.++..|.+.|++++|.++|+
T Consensus       219 A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~  296 (597)
T 2xpi_A          219 AKECYKEALMVD--AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLS  296 (597)
T ss_dssp             HHHHHHHHHHHC--TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC--chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHH
Confidence            999999998863  5443 344444333333222211  111 4445555556666778888999999999999999999


Q ss_pred             hCCC--CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCccc
Q 005881          338 EMDE--HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVV  415 (672)
Q Consensus       338 ~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  415 (672)
                      ++.+  ++..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..++..++.++.+.|+.++|..+++.+.+.. +.+..
T Consensus       297 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~  374 (597)
T 2xpi_A          297 SINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAV  374 (597)
T ss_dssp             TSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHH
T ss_pred             HhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHH
Confidence            9988  789999999999999999999999999999765 3377889999999999999999999999998654 45678


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhc
Q 005881          416 IGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVH  492 (672)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  492 (672)
                      +++.++.+|.+.|++++|.++|+++.   ..+..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..++..++.+|.+
T Consensus       375 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  453 (597)
T 2xpi_A          375 TWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQ  453 (597)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHH
Confidence            89999999999999999999999875   4567799999999999999999999999999863 4577899999999999


Q ss_pred             cCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-------CCCCC--HHHHHHHHHHHHhcCC
Q 005881          493 IGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-------PIEPN--KVVWRCLLSGCKTHKD  563 (672)
Q Consensus       493 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~--~~~~~~l~~~~~~~g~  563 (672)
                      .|++++|.++|+.+.+..  +.+..+|..++.+|.+.|++++|.++|+++       +..|+  ..+|..++.+|.+.|+
T Consensus       454 ~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  531 (597)
T 2xpi_A          454 LGNILLANEYLQSSYALF--QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKM  531 (597)
T ss_dssp             HTCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTC
T ss_pred             cCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcC
Confidence            999999999999998532  336889999999999999999999999875       56787  7899999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          564 LVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       564 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      +++|...++++++++|+++.+|..++.+|.+.|++++|.+.++++.+.
T Consensus       532 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  579 (597)
T 2xpi_A          532 YDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAI  579 (597)
T ss_dssp             HHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999999999999998763

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=8.2e-41  Score=359.81  Aligned_cols=500  Identities=9%  Similarity=-0.059  Sum_probs=348.0

Q ss_pred             HHhcCCChhHHHHHhccCCCCCcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHH
Q 005881           19 MYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEI   98 (672)
Q Consensus        19 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~   98 (672)
                      .+.+.|....+...|..++.+++..|+.++..|.+.|++++|+.+|++|..  ..|+..++..++.+|.+.|++++|..+
T Consensus        62 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~  139 (597)
T 2xpi_A           62 NTSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKCL  139 (597)
T ss_dssp             --------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cccccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHHH
Confidence            355677788888889998889999999999999999999999999999985  468889999999999999999999999


Q ss_pred             HHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCCC-------------------CcccHHHHHHHHHhcCChH
Q 005881           99 HGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLER-------------------NSISWVSLLSSYCQCGEHV  159 (672)
Q Consensus        99 ~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-------------------~~~~~~~li~~~~~~g~~~  159 (672)
                      ++.+...  ++++.+++.++.+|.++|++++|.++|+++...                   +..+|+.++.+|.+.|+++
T Consensus       140 ~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  217 (597)
T 2xpi_A          140 LTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFD  217 (597)
T ss_dssp             HHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHH
Confidence            9987644  678999999999999999999999999964433                   3788999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCChh-hHHHHHHHHhccCChHH--HHHH-HHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHH
Q 005881          160 HGLKIFLLSRKSGVAISEF-SCASVLGACAVLGNLKV--GMQI-HSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVF  235 (672)
Q Consensus       160 ~a~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~--a~~~-~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  235 (672)
                      +|+++|++|.+.+  |+.. .+..+...+...+....  +..+ +..+...+..+...+++.++..|.+.|++++|.++|
T Consensus       218 ~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~  295 (597)
T 2xpi_A          218 RAKECYKEALMVD--AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYL  295 (597)
T ss_dssp             HHHHHHHHHHHHC--TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC--chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHH
Confidence            9999999998853  4433 33333333322222111  1111 444455555666677888889999999999999999


Q ss_pred             hcCCC--CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCch
Q 005881          236 SNIQL--PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFT  313 (672)
Q Consensus       236 ~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  313 (672)
                      +.+.+  ++..+|+.++..|.+.|++++|+.+|+++.+.+ +.+..++..++.++.+.|+.++|.++++.+.+.. +.+.
T Consensus       296 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~  373 (597)
T 2xpi_A          296 SSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKA  373 (597)
T ss_dssp             HTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSH
T ss_pred             HHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccH
Confidence            99886  788899999999999999999999999998764 2366667777777777777777777777666443 3344


Q ss_pred             HHHHHHHHHHHccCChHHHHHHHhhCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHc
Q 005881          314 FVANTVLDFYSKCELLEESLKTFDEMDE---HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISS  390 (672)
Q Consensus       314 ~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~  390 (672)
                      .+++.++.+|.+.|++++|..+|+++.+   .+..+|+.++.+|.+.|++++|+++|+++.+.+                
T Consensus       374 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----------------  437 (597)
T 2xpi_A          374 VTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF----------------  437 (597)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT----------------
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC----------------
Confidence            4555555555555555555555554421   233344444444444444444444444444321                


Q ss_pred             CcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHH
Q 005881          391 DIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSM  470 (672)
Q Consensus       391 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  470 (672)
                                                                         ..+..+|+.++.+|.+.|++++|.++|++
T Consensus       438 ---------------------------------------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  466 (597)
T 2xpi_A          438 ---------------------------------------------------QGTHLPYLFLGMQHMQLGNILLANEYLQS  466 (597)
T ss_dssp             ---------------------------------------------------TTCSHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             ---------------------------------------------------ccchHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence                                                               22445556666666666666666666666


Q ss_pred             HHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhh---CCCCc--hHHHHHHHHHhhccCChHHHHHHHHhC-CC
Q 005881          471 MQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDH---GISPR--MDHIASVVHLFACRGQTRRAYEFIKSS-PI  544 (672)
Q Consensus       471 m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~  544 (672)
                      +.+.. +.+..+|..++..+.+.|++++|.++|+++.+..   +..|+  ..+|..++.+|.+.|++++|.+.++++ ..
T Consensus       467 ~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  545 (597)
T 2xpi_A          467 SYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLL  545 (597)
T ss_dssp             HHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            66532 3345566666666666666666666666665332   44565  567777777777777777777777653 22


Q ss_pred             CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHh
Q 005881          545 EP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAE  594 (672)
Q Consensus       545 ~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  594 (672)
                      .| +..+|..+...|...|++++|...++++++++|+++..+..++.+|..
T Consensus       546 ~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~  596 (597)
T 2xpi_A          546 STNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIMASDLLKRALEE  596 (597)
T ss_dssp             SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTC-
T ss_pred             CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHhc
Confidence            34 778899999999999999999999999999999999999999988753

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.96  E-value=6.5e-28  Score=247.25  Aligned_cols=216  Identities=12%  Similarity=0.114  Sum_probs=171.2

Q ss_pred             hhHHHHHHHhHhCCCCCCcc-cHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhc
Q 005881           58 EVALNYFRLMVCCVLEPNYY-TYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDA  136 (672)
Q Consensus        58 ~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  136 (672)
                      ..+..+.+++.+.++.+.+. .++.+|.+|++.|++++|.++|++|.+.|+.||..+||+||.+|++.+...++      
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~------   80 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES------   80 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS------
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh------
Confidence            34556667777777766554 58889999999999999999999999999999999999999999887764332      


Q ss_pred             cCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHH
Q 005881          137 SLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAM  216 (672)
Q Consensus       137 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  216 (672)
                                      .+.+..++|.++|++|...|+.||..||+.+|.+|++.|+++.|.+++++|.+.|+.||..   
T Consensus        81 ----------------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~---  141 (501)
T 4g26_A           81 ----------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLR---  141 (501)
T ss_dssp             ----------------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHH---
T ss_pred             ----------------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccc---
Confidence                            2345678899999999999999999999999999999999999999999999999886554   


Q ss_pred             HHHHHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchh
Q 005881          217 GLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIG  296 (672)
Q Consensus       217 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~  296 (672)
                                                  +||++|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|+.++
T Consensus       142 ----------------------------tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~  193 (501)
T 4g26_A          142 ----------------------------SYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADK  193 (501)
T ss_dssp             ----------------------------HHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHH
T ss_pred             ----------------------------eehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHH
Confidence                                        4556666677777778888888888888888999999999998888888888


Q ss_pred             HHHHHHHHHHhCCCCchHHHHHHHHHHHcc
Q 005881          297 GRQLHSLIIKMGFSSFTFVANTVLDFYSKC  326 (672)
Q Consensus       297 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  326 (672)
                      |.+++++|.+.|..|+..+|+.++..|...
T Consensus       194 A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          194 VYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            888888888888888888888888887653

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.95  E-value=1.1e-24  Score=220.46  Aligned_cols=371  Identities=15%  Similarity=0.104  Sum_probs=248.1

Q ss_pred             HHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCC---CCCcchHHHHHHHHHhcCChhH
Q 005881          185 GACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQ---LPDLTAWSALIGGYAQLGKACE  261 (672)
Q Consensus       185 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~  261 (672)
                      ..+...|++++|.+.+..+.+..+ .+...+..+...+...|+.++|...++...   ..+...|..+...+.+.|++++
T Consensus         7 ~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~~   85 (388)
T 1w3b_A            7 HREYQAGDFEAAERHCMQLWRQEP-DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHH
Confidence            345566777777777777665532 233445555556666666666666665443   2334456666666666666666


Q ss_pred             HHHHHHHHHHCCCCCC-hhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCC
Q 005881          262 AIDLFVKMFSSGLMPS-EVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMD  340 (672)
Q Consensus       262 a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  340 (672)
                      |+..|+++...  .|+ ..++..+..++...|++++|.+.+..+.+.. +.+...                         
T Consensus        86 A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~-------------------------  137 (388)
T 1w3b_A           86 AIEHYRHALRL--KPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCV-------------------------  137 (388)
T ss_dssp             HHHHHHHHHHH--CTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHH-------------------------
T ss_pred             HHHHHHHHHHc--CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHH-------------------------
Confidence            66666666543  233 2234445555555555555555555544432 112223                         


Q ss_pred             CCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC-ChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHH
Q 005881          341 EHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCP-NLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSA  419 (672)
Q Consensus       341 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  419 (672)
                            +..+...+...|++++|.+.|+++.+.  .| +..++..+...+...|+++.|...++.+.+... .+...+..
T Consensus       138 ------~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~  208 (388)
T 1w3b_A          138 ------RSDLGNLLKALGRLEEAKACYLKAIET--QPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP-NFLDAYIN  208 (388)
T ss_dssp             ------HHHHHHHHHTTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHH
T ss_pred             ------HHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CcHHHHHH
Confidence                  333444444445555555555555443  22 233444444455555555555555555554331 23455667


Q ss_pred             HHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCc
Q 005881          420 LVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGL  495 (672)
Q Consensus       420 l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~  495 (672)
                      +...+...|++++|...|++..   ..+..+|..+...|...|++++|++.|+++.+.  .|+ ..++..+..++.+.|+
T Consensus       209 lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~  286 (388)
T 1w3b_A          209 LGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGS  286 (388)
T ss_dssp             HHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCC
Confidence            7778888888888888888765   345678888999999999999999999999885  454 5678888999999999


Q ss_pred             HHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005881          496 VEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEK  573 (672)
Q Consensus       496 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~  573 (672)
                      +++|...|+++.+.  .+.+...+..++.++.+.|++++|.+.++++ ...| +..++..+...+.+.|++++|...+++
T Consensus       287 ~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  364 (388)
T 1w3b_A          287 VAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKE  364 (388)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999988743  2446788999999999999999999999863 4556 466888888999999999999999999


Q ss_pred             HhcCCCCCCchHHHHHHHHHhcCC
Q 005881          574 ILSTDPEDTSAHIMLSNVYAEANM  597 (672)
Q Consensus       574 ~~~~~p~~~~~~~~l~~~~~~~g~  597 (672)
                      +++++|+++.++..++.++...|+
T Consensus       365 a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          365 AIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHhhCCCCHHHHHhHHHHHHHccC
Confidence            999999999999999998887764

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.95  E-value=1.5e-27  Score=244.50  Aligned_cols=184  Identities=13%  Similarity=-0.003  Sum_probs=171.0

Q ss_pred             chHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCC---------hhhHHHHHHHHHHhCCCCChh
Q 005881           42 ISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGD---------ARSGKEIHGRMYRSGLELNSH  112 (672)
Q Consensus        42 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~---------~~~a~~~~~~~~~~g~~~~~~  112 (672)
                      ..++.+|.+|++.|++++|+++|++|.+.|++||..||+++|.+|++.+.         ++.|.++|++|.+.|+.||..
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            45889999999999999999999999999999999999999999987664         678999999999999999999


Q ss_pred             HHHHHHHHHHhcCChHHHHHHhhccC----CCCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHh
Q 005881          113 VSNCLINMYGKCGLLSSAQFVFDASL----ERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACA  188 (672)
Q Consensus       113 ~~~~li~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~  188 (672)
                      +|++||++|++.|++++|.++|++|.    .||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|+
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            99999999999999999999998875    46899999999999999999999999999999999999999999999999


Q ss_pred             ccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcC
Q 005881          189 VLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKC  225 (672)
Q Consensus       189 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  225 (672)
                      +.|++++|.+++++|.+.|..|+..|++.++..|+..
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            9999999999999999999999999999988887653

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.95  E-value=2.4e-24  Score=217.82  Aligned_cols=350  Identities=15%  Similarity=0.117  Sum_probs=297.3

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCChh-hHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCC
Q 005881          250 IGGYAQLGKACEAIDLFVKMFSSGLMPSEV-TFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCEL  328 (672)
Q Consensus       250 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  328 (672)
                      ...+.+.|++++|...+.++.+.  .|+.. .+..+...+...|+++.+...+....+.. +.+..++..+...|.+.|+
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCC
Confidence            34567788888888888887765  35444 44445556678888899988888887764 5567788999999999999


Q ss_pred             hHHHHHHHhhCCC--C-CcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChH-HHHHHHHHHcCcCchHHHHHHHHH
Q 005881          329 LEESLKTFDEMDE--H-DVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLY-TYSNILNISSDIPAIEWGKQTHCC  404 (672)
Q Consensus       329 ~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~  404 (672)
                      +++|...|+++..  | +..+|..+..++.+.|++++|++.|+++.+.  .|+.. .+..+...+...|++++|...+..
T Consensus        83 ~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  160 (388)
T 1w3b_A           83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            9999999998764  4 4457899999999999999999999999875  56544 555666788889999999999999


Q ss_pred             HHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-H
Q 005881          405 IVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN-D  480 (672)
Q Consensus       405 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~  480 (672)
                      +.+.. +.+..++..+...|.+.|++++|.+.|+++.   ..+...|..+...+...|++++|+..|++....  .|+ .
T Consensus       161 al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~  237 (388)
T 1w3b_A          161 AIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSL--SPNHA  237 (388)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH--CTTCH
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCCH
Confidence            98864 3356788899999999999999999999986   344568889999999999999999999999884  565 5


Q ss_pred             HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCC-CCHHHHHHHHHH
Q 005881          481 NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIE-PNKVVWRCLLSG  557 (672)
Q Consensus       481 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~  557 (672)
                      .++..+..++...|++++|...|+++.+   ..| +...+..++.++.+.|++++|.+.++++ ... ++..+|..+...
T Consensus       238 ~~~~~l~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  314 (388)
T 1w3b_A          238 VVHGNLACVYYEQGLIDLAIDTYRRAIE---LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANI  314 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH---TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHH
Confidence            7888999999999999999999999884   355 5688999999999999999999999864 223 477899999999


Q ss_pred             HHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          558 CKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       558 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +...|++++|...+++++++.|+++..+..++.+|.+.|++++|.+.++++.+
T Consensus       315 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  367 (388)
T 1w3b_A          315 KREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999875

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.92  E-value=2.7e-22  Score=211.13  Aligned_cols=428  Identities=9%  Similarity=-0.057  Sum_probs=285.1

Q ss_pred             cHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhh
Q 005881          144 SWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYA  223 (672)
Q Consensus       144 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  223 (672)
                      .|......+.+.|++++|+..|+++....  |+...+..+..++...|+++.|...++.+++..+ .+...+..+..+|.
T Consensus         8 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~   84 (514)
T 2gw1_A            8 ALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKP-DYSKVLLRRASANE   84 (514)
T ss_dssp             HHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccCh-HHHHHHHHHHHHHH
Confidence            34555667777888888888888887754  6777777777777777888877777777776542 23344444555555


Q ss_pred             cCCChhHHHHHHhcCCC---CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHH
Q 005881          224 KCEKLDLASRVFSNIQL---PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQL  300 (672)
Q Consensus       224 ~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~  300 (672)
                      +.|++++|...|+.+..   ++......++..+........+.+.+..+...+..|+...+..-....            
T Consensus        85 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~------------  152 (514)
T 2gw1_A           85 GLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERK------------  152 (514)
T ss_dssp             HTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC-----------------------------------
T ss_pred             HHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHH------------
Confidence            55555555444444321   122222233332222222222222222222222222222111100000            


Q ss_pred             HHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCC---------CC-CcccHHHHHHHHHh---cCChhHHHHHH
Q 005881          301 HSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMD---------EH-DVVSWNALIAGHLA---SCHYGEAIELL  367 (672)
Q Consensus       301 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~---------~~-~~~~~~~li~~~~~---~~~~~~A~~~~  367 (672)
                          ......|+..                .+...+....         .| +...+......+..   .|++++|+..|
T Consensus       153 ----~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  212 (514)
T 2gw1_A          153 ----DKQENLPSVT----------------SMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESF  212 (514)
T ss_dssp             --------CCCCHH----------------HHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHH
T ss_pred             ----hhccCCchhH----------------HHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHH
Confidence                0000111111                1111111111         11 12334444444444   78999999999


Q ss_pred             HHHHh-----CCCCC--------ChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHH
Q 005881          368 KDMLF-----EGHCP--------NLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDAR  434 (672)
Q Consensus       368 ~~m~~-----~g~~p--------~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  434 (672)
                      +++..     ....|        +..++..+...+...|+++.|...++.+.+....  ...+..+...|...|++++|.
T Consensus       213 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~  290 (514)
T 2gw1_A          213 TKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYY  290 (514)
T ss_dssp             HHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGG
T ss_pred             HHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHH
Confidence            99887     32222        2345666777888899999999999999887644  777888899999999999999


Q ss_pred             HHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhC
Q 005881          435 KVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHG  511 (672)
Q Consensus       435 ~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  511 (672)
                      +.++.+.+   .+...|..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|...++.+.+.. 
T Consensus       291 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-  368 (514)
T 2gw1_A          291 NYFDKALKLDSNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-  368 (514)
T ss_dssp             GHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-
Confidence            99988763   456788999999999999999999999999853 3345788889999999999999999999988532 


Q ss_pred             CCCchHHHHHHHHHhhccCChHHHHHHHHhC----CCCCC----HHHHHHHHHHHHh---cCCHHHHHHHHHHHhcCCCC
Q 005881          512 ISPRMDHIASVVHLFACRGQTRRAYEFIKSS----PIEPN----KVVWRCLLSGCKT---HKDLVLGRYAAEKILSTDPE  580 (672)
Q Consensus       512 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~----~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~p~  580 (672)
                       +.+...+..++.++.+.|++++|.+.+++.    +..|+    ...|..+...+..   .|++++|...++++++..|+
T Consensus       369 -~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~  447 (514)
T 2gw1_A          369 -PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPR  447 (514)
T ss_dssp             -TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTT
T ss_pred             -ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcc
Confidence             235688899999999999999999998763    22222    4478888889999   99999999999999999999


Q ss_pred             CCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          581 DTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       581 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      ++.++..++.+|.+.|++++|.+.+++..+.
T Consensus       448 ~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  478 (514)
T 2gw1_A          448 SEQAKIGLAQMKLQQEDIDEAITLFEESADL  478 (514)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            9999999999999999999999999988763

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.90  E-value=1.8e-21  Score=204.80  Aligned_cols=259  Identities=10%  Similarity=-0.022  Sum_probs=204.6

Q ss_pred             cCChHHHHHHHhhCCC-----------------CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHH
Q 005881          326 CELLEESLKTFDEMDE-----------------HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNI  388 (672)
Q Consensus       326 ~~~~~~a~~~~~~~~~-----------------~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~  388 (672)
                      .|++++|...|+++.+                 .+...|..+...+...|++++|+..|+++....  |+...+..+...
T Consensus       202 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~  279 (514)
T 2gw1_A          202 PESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALI  279 (514)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHH
Confidence            5666666666655432                 123456667777888888888888888887763  336677777778


Q ss_pred             HcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHH
Q 005881          389 SSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREAL  465 (672)
Q Consensus       389 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~  465 (672)
                      +...|+++.|...++.+.+.. +.+..++..+...|...|++++|...|+.+.   ..+...|..+...+...|++++|.
T Consensus       280 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  358 (514)
T 2gw1_A          280 MADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCE  358 (514)
T ss_dssp             HHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHH
Confidence            888888888888888887654 2356678888899999999999999998875   345678888999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc----hHHHHHHHHHhhc---cCChHHHHHH
Q 005881          466 EIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR----MDHIASVVHLFAC---RGQTRRAYEF  538 (672)
Q Consensus       466 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~---~g~~~~A~~~  538 (672)
                      +.|+++.+.. +.+...+..+...+...|++++|...++.+.....-.++    ...+..++.++..   .|++++|.+.
T Consensus       359 ~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~  437 (514)
T 2gw1_A          359 TLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNL  437 (514)
T ss_dssp             HHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHH
T ss_pred             HHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHH
Confidence            9999998852 334578888999999999999999999988754333333    3488999999999   9999999999


Q ss_pred             HHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHH
Q 005881          539 IKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIML  588 (672)
Q Consensus       539 ~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  588 (672)
                      +++. ...| +..+|..+...+...|++++|...++++++++|+++..+..+
T Consensus       438 ~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  489 (514)
T 2gw1_A          438 LEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLARTMEEKLQAI  489 (514)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSHHHHHHHH
T ss_pred             HHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccccHHHHHHH
Confidence            9763 2334 567888899999999999999999999999999888777665

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.90  E-value=2.4e-21  Score=200.09  Aligned_cols=321  Identities=14%  Similarity=0.105  Sum_probs=221.4

Q ss_pred             chHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHH
Q 005881          244 TAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFY  323 (672)
Q Consensus       244 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  323 (672)
                      ..|..+...+.+.|++++|+..|+++.+.. +.+...+..+..++...|+++.|...++.+.+.+ +.+..++..+..+|
T Consensus        27 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  104 (450)
T 2y4t_A           27 EKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLL  104 (450)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHH
Confidence            345555566666666666666666665431 2234445555555555555555555555555543 22344455555555


Q ss_pred             HccCChHHHHHHHhhCCC--CC-c---ccHHHHHH------------HHHhcCChhHHHHHHHHHHhCCCCCChHHHHHH
Q 005881          324 SKCELLEESLKTFDEMDE--HD-V---VSWNALIA------------GHLASCHYGEAIELLKDMLFEGHCPNLYTYSNI  385 (672)
Q Consensus       324 ~~~~~~~~a~~~~~~~~~--~~-~---~~~~~li~------------~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~l  385 (672)
                      .+.|++++|...|+++.+  |+ .   ..|..++.            .+...|++++|+..|+++..             
T Consensus       105 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~-------------  171 (450)
T 2y4t_A          105 LKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILE-------------  171 (450)
T ss_dssp             HHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH-------------
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-------------
Confidence            556666666655555543  11 1   23333322            24445555555555555443             


Q ss_pred             HHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChH
Q 005881          386 LNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGR  462 (672)
Q Consensus       386 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~  462 (672)
                                            .. +.+..++..+..+|.+.|++++|.+.|+.+.   ..+..+|..++..|...|+++
T Consensus       172 ----------------------~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  228 (450)
T 2y4t_A          172 ----------------------VC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHE  228 (450)
T ss_dssp             ----------------------HC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHH
T ss_pred             ----------------------hC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence                                  32 2244556778888888888888888888875   456778999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHH-HHHHH------------HHHhhccCcHHHHHHHHHHhHHhhCCCCc-----hHHHHHHHH
Q 005881          463 EALEIYSMMQENKIKPNDN-TFIGV------------LSACVHIGLVEEGWHYFNSMIRDHGISPR-----MDHIASVVH  524 (672)
Q Consensus       463 ~A~~~~~~m~~~g~~p~~~-~~~~l------------l~~~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~  524 (672)
                      +|++.|+++...  .|+.. .+..+            ...+.+.|++++|...|+.+.+.   .|+     ..++..++.
T Consensus       229 ~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~l~~  303 (450)
T 2y4t_A          229 LSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSIAEYTVRSKERICH  303 (450)
T ss_dssp             HHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHH
Confidence            999999999874  56554 33333            78899999999999999999853   454     457889999


Q ss_pred             HhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHH------------
Q 005881          525 LFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSN------------  590 (672)
Q Consensus       525 ~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~------------  590 (672)
                      ++.+.|++++|.+.++++ ...| +...|..+..+|...|++++|...++++++++|+++..+..++.            
T Consensus       304 ~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~  383 (450)
T 2y4t_A          304 CFSKDEKPVEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRD  383 (450)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchh
Confidence            999999999999999874 3445 67899999999999999999999999999999999999999984            


Q ss_pred             HHHhcC-----ChHHHHHHHHH
Q 005881          591 VYAEAN-----MWDETAKVRKI  607 (672)
Q Consensus       591 ~~~~~g-----~~~~a~~~~~~  607 (672)
                      .|...|     +.+++.+.+++
T Consensus       384 ~y~~lg~~~~~~~~~~~~~y~~  405 (450)
T 2y4t_A          384 YYKILGVKRNAKKQEIIKAYRK  405 (450)
T ss_dssp             SGGGSCSSTTCCTTHHHHHHHH
T ss_pred             HHHHhCCCccCCHHHHHHHHHH
Confidence            455556     55666777665

>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=99.89  E-value=1.6e-20  Score=198.70  Aligned_cols=418  Identities=10%  Similarity=-0.030  Sum_probs=212.3

Q ss_pred             cHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhh
Q 005881          144 SWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYA  223 (672)
Q Consensus       144 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  223 (672)
                      .|..+...+.+.|++++|++.|+++.... +.+...+..+..++...|+++.|.+.++.+++... .+...+..+..++.
T Consensus        27 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~  104 (537)
T 3fp2_A           27 QLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKP-DHSKALLRRASANE  104 (537)
T ss_dssp             HHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-chHHHHHHHHHHHH
Confidence            44555566666667777777766666542 22445566666666666677777776666666542 24556666666677


Q ss_pred             cCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHC------CCCCChhhHHHHHHHhhccCCchhH
Q 005881          224 KCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSS------GLMPSEVTFSYVLGAFADVKETIGG  297 (672)
Q Consensus       224 ~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~p~~~t~~~ll~~~~~~~~~~~a  297 (672)
                      ..|++++|...|+.+. .+....+..+..+...+...+|...++++...      ...|+...+..              
T Consensus       105 ~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~--------------  169 (537)
T 3fp2_A          105 SLGNFTDAMFDLSVLS-LNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLAS--------------  169 (537)
T ss_dssp             HHTCHHHHHHHHHHHC------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHH--------------
T ss_pred             HcCCHHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHH--------------
Confidence            7777777777765332 22222223344444555556677777776443      12233222222              


Q ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcc---cHHHHHHHHH--------hcCChhHHHHH
Q 005881          298 RQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVV---SWNALIAGHL--------ASCHYGEAIEL  366 (672)
Q Consensus       298 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~li~~~~--------~~~~~~~A~~~  366 (672)
                                               +....+.+.+...+......+..   ....+...+.        ..|++++|+.+
T Consensus       170 -------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~  224 (537)
T 3fp2_A          170 -------------------------FFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDM  224 (537)
T ss_dssp             -------------------------HHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHH
T ss_pred             -------------------------HHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence                                     22222333333332222221111   1111111111        11244455555


Q ss_pred             HHHHHhCCCCCCh--------HHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHh
Q 005881          367 LKDMLFEGHCPNL--------YTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFD  438 (672)
Q Consensus       367 ~~~m~~~g~~p~~--------~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  438 (672)
                      |+++.+.  .|+.        .++..+...+...|+++.|...+..+.+...  +...+..+...|...|++++|.+.|+
T Consensus       225 ~~~~l~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~  300 (537)
T 3fp2_A          225 YHSLLSA--NTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLHP--TPNSYIFLALTLADKENSQEFFKFFQ  300 (537)
T ss_dssp             HHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC--CHHHHHHHHHHTCCSSCCHHHHHHHH
T ss_pred             HHHHHHH--CCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC--CchHHHHHHHHHHHhcCHHHHHHHHH
Confidence            5554433  2221        1233333344445555555555555554332  23444455555555555555555555


Q ss_pred             hCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc
Q 005881          439 HLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR  515 (672)
Q Consensus       439 ~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~  515 (672)
                      .+.   ..+..+|..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|...++.+.+..  +.+
T Consensus       301 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~  377 (537)
T 3fp2_A          301 KAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF--PTL  377 (537)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTC
T ss_pred             HHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCC
Confidence            543   2334455666666666666666666666666532 2223455556666666666666666666655321  223


Q ss_pred             hHHHHHHHHHhhccCChHHHHHHHHhC----C----CCCCHHHHHHHHHHHHhc----------CCHHHHHHHHHHHhcC
Q 005881          516 MDHIASVVHLFACRGQTRRAYEFIKSS----P----IEPNKVVWRCLLSGCKTH----------KDLVLGRYAAEKILST  577 (672)
Q Consensus       516 ~~~~~~l~~~~~~~g~~~~A~~~~~~~----~----~~p~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~  577 (672)
                      ...+..++.++...|++++|.+.+++.    +    .......+......+...          |++++|...++++++.
T Consensus       378 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  457 (537)
T 3fp2_A          378 PEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACEL  457 (537)
T ss_dssp             THHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHh
Confidence            455666666666666666666665542    0    001112233333445555          7777777777777777


Q ss_pred             CCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          578 DPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       578 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +|+++.++..++.+|.+.|++++|.+.+++..+
T Consensus       458 ~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  490 (537)
T 3fp2_A          458 DPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAI  490 (537)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            777777777777777777777777777776654

>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=99.88  E-value=8.5e-20  Score=193.21  Aligned_cols=446  Identities=10%  Similarity=-0.011  Sum_probs=287.4

Q ss_pred             cchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHH
Q 005881           41 VISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINM  120 (672)
Q Consensus        41 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  120 (672)
                      ...|..+...+.+.|++++|++.|+++.+.. +.+..++..+..++...|++++|.+.++.+.+.. +.+...+..+...
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHH
Confidence            4557777888888999999999999888754 4466778888888888899999999999888876 3367778888888


Q ss_pred             HHhcCChHHHHHHhhccCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHH
Q 005881          121 YGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIH  200 (672)
Q Consensus       121 ~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~  200 (672)
                      |...|++++|...|+.+ ..+....+..+..+...+....|+..++.+....  |+.                       
T Consensus       103 ~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~--~~~-----------------------  156 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVL-SLNGDFDGASIEPMLERNLNKQAMKVLNENLSKD--EGR-----------------------  156 (537)
T ss_dssp             HHHHTCHHHHHHHHHHH-C-----------CHHHHHHHHHHHHHHHHHCC------------------------------
T ss_pred             HHHcCCHHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhC--ccc-----------------------
Confidence            88888888888888633 2222223333444445555566777776665431  000                       


Q ss_pred             HHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCcc---hHHHHHHHHHh--------cCChhHHHHHHHHH
Q 005881          201 SLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLT---AWSALIGGYAQ--------LGKACEAIDLFVKM  269 (672)
Q Consensus       201 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~li~~~~~--------~~~~~~a~~~~~~m  269 (672)
                          .....|+..    .+..+....+.+.+...+......+..   ....+...+..        .|++++|..+++++
T Consensus       157 ----~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~  228 (537)
T 3fp2_A          157 ----GSQVLPSNT----SLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSL  228 (537)
T ss_dssp             ------CCCCCHH----HHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ----cccccchHh----HHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHH
Confidence                000011111    112222333344444444333322221   11111111111        12344444444444


Q ss_pred             HHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHH
Q 005881          270 FSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNA  349 (672)
Q Consensus       270 ~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  349 (672)
                      .+..  |+.                                  ...+..+.                        .++..
T Consensus       229 l~~~--p~~----------------------------------~~~~~~~~------------------------~~~~~  248 (537)
T 3fp2_A          229 LSAN--TVD----------------------------------DPLRENAA------------------------LALCY  248 (537)
T ss_dssp             HC----CCC----------------------------------HHHHHHHH------------------------HHHHH
T ss_pred             HHHC--CCc----------------------------------chhhHHHH------------------------HHHHH
Confidence            3321  111                                  11111111                        12333


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCC
Q 005881          350 LIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGR  429 (672)
Q Consensus       350 li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  429 (672)
                      +...+...|++++|+..|++....  .|+...+..+...+...|+++.|...+..+.+... .+..++..+...|...|+
T Consensus       249 ~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~  325 (537)
T 3fp2_A          249 TGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLNP-EYPPTYYHRGQMYFILQD  325 (537)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCC-CCHHHHHHHHHHHHhcCC
Confidence            445566677777777777777764  45566666777777778888888888877776542 356677888889999999


Q ss_pred             HHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHh
Q 005881          430 LNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSM  506 (672)
Q Consensus       430 ~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  506 (672)
                      +++|.+.|+++.   ..+...|..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|...|+.+
T Consensus       326 ~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  404 (537)
T 3fp2_A          326 YKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIA  404 (537)
T ss_dssp             HHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            999999998876   3456788999999999999999999999998853 344568888899999999999999999988


Q ss_pred             HHhhCCCC----chHHHHHHHHHhhcc----------CChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHH
Q 005881          507 IRDHGISP----RMDHIASVVHLFACR----------GQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYA  570 (672)
Q Consensus       507 ~~~~~~~p----~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~  570 (672)
                      .+...-.+    ....+..+..++.+.          |++++|.+.+++. ...| +...|..+...+...|++++|...
T Consensus       405 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  484 (537)
T 3fp2_A          405 KRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIEL  484 (537)
T ss_dssp             HHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHH
Confidence            75432112    223355566778887          9999999999863 3344 567888999999999999999999


Q ss_pred             HHHHhcCCCCCCchHH
Q 005881          571 AEKILSTDPEDTSAHI  586 (672)
Q Consensus       571 ~~~~~~~~p~~~~~~~  586 (672)
                      +++++++.|+++....
T Consensus       485 ~~~al~~~~~~~~~~~  500 (537)
T 3fp2_A          485 FEDSAILARTMDEKLQ  500 (537)
T ss_dssp             HHHHHHHC--CHHHHH
T ss_pred             HHHHHHhCCCcHHHHH
Confidence            9999999998766544

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.87  E-value=6.7e-20  Score=189.29  Aligned_cols=306  Identities=11%  Similarity=0.026  Sum_probs=223.5

Q ss_pred             ChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCC---CCcccHHHHHHH
Q 005881          277 SEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDE---HDVVSWNALIAG  353 (672)
Q Consensus       277 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~  353 (672)
                      +...+..+...+.+.|+++.|..+++.+.+.. +.+..++..+..+|...|++++|...|+++.+   .+...+..+...
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  103 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHL  103 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHH
Confidence            34445555556666666666666666666543 33455556666666666666666666665543   234455556666


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCh----HHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCC
Q 005881          354 HLASCHYGEAIELLKDMLFEGHCPNL----YTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGR  429 (672)
Q Consensus       354 ~~~~~~~~~A~~~~~~m~~~g~~p~~----~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  429 (672)
                      |.+.|++++|.+.|+++...  .|+.    ..+..+...+..                       ..+..+...+.+.|+
T Consensus       104 ~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~-----------------------~~~~~~a~~~~~~~~  158 (450)
T 2y4t_A          104 LLKQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDEM-----------------------QRLRSQALNAFGSGD  158 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTC
T ss_pred             HHHcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHcCC
Confidence            66666666666666666543  3332    222222222110                       012234556888999


Q ss_pred             HHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHh
Q 005881          430 LNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSM  506 (672)
Q Consensus       430 ~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  506 (672)
                      +++|...|+.+.   ..+...+..++..|...|++++|++.|+++.+.. +.+..++..+...+...|++++|...|+.+
T Consensus       159 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  237 (450)
T 2y4t_A          159 YTAAIAFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVREC  237 (450)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999999876   4567789999999999999999999999998853 455678999999999999999999999999


Q ss_pred             HHhhCCCCc-hHHHHHH------------HHHhhccCChHHHHHHHHhC-CCCCC-----HHHHHHHHHHHHhcCCHHHH
Q 005881          507 IRDHGISPR-MDHIASV------------VHLFACRGQTRRAYEFIKSS-PIEPN-----KVVWRCLLSGCKTHKDLVLG  567 (672)
Q Consensus       507 ~~~~~~~p~-~~~~~~l------------~~~~~~~g~~~~A~~~~~~~-~~~p~-----~~~~~~l~~~~~~~g~~~~a  567 (672)
                      ...   .|+ ...+..+            +..+.+.|++++|.+.++++ ...|+     ...|..+...+.+.|++++|
T Consensus       238 ~~~---~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~~~A  314 (450)
T 2y4t_A          238 LKL---DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKPVEA  314 (450)
T ss_dssp             HHH---CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHh---CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHCCCHHHH
Confidence            843   453 4444444            88999999999999999864 34454     34678888889999999999


Q ss_pred             HHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          568 RYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       568 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                      ...++++++++|+++.++..++.+|...|++++|.+.++++.+..
T Consensus       315 ~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  359 (450)
T 2y4t_A          315 IRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHN  359 (450)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            999999999999999999999999999999999999999997643

>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=99.85  E-value=2.8e-16  Score=170.32  Aligned_cols=550  Identities=9%  Similarity=0.015  Sum_probs=372.4

Q ss_pred             CCCCcchhhHHHHHHhcCCChhHHHHHhccCCC---------------CCc----------------ch------HHHHH
Q 005881            6 FHPNVITYNHLLLMYVKFSRINDAQKLFDEMPE---------------RNV----------------IS------WSALI   48 (672)
Q Consensus         6 ~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~---------------~~~----------------~~------~~~li   48 (672)
                      +.-|+.+....|.+.++.|++.+.+++..+-.-               +|.                +.      ....|
T Consensus       721 ~s~d~~vhfkyi~aa~~~~q~~everi~res~~y~~e~vk~flk~~kl~d~~pli~vCdr~~~v~~l~~yLy~n~~~~~i  800 (1630)
T 1xi4_A          721 FSQDPDVHFKYIQAACKTGQIKEVERICRESNCYDPERVKNFLKEAKLTDQLPLIIVCDRFDFVHDLVLYLYRNNLQKYI  800 (1630)
T ss_pred             ccCChHHHHHHHHHHHHhCCchhhhHHhccCCCCCHHHHHHHHhhCCCCCCCCceeeccccccHHHHHHHHHhcCchhHH
Confidence            456888899999999999999998888776321               211                11      12456


Q ss_pred             HHHHcCCCchhHHHHHHHhHhCCCCCC-----------cccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHH
Q 005881           49 SGFSQIGMPEVALNYFRLMVCCVLEPN-----------YYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCL  117 (672)
Q Consensus        49 ~~~~~~g~~~~a~~~~~~m~~~~~~p~-----------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  117 (672)
                      ..|.+.-++..+-.+...+...+...+           .....-|+..+-+.+++......++.-...| ..++.++|+|
T Consensus       801 e~yv~~vnp~~~p~Vvg~lld~d~~e~~ik~ll~~v~~~~~~~~lv~~~ekrnrLkll~p~LE~~~~~g-~~~~~~hnal  879 (1630)
T 1xi4_A          801 EIYVQKVNPSRLPVVIGGLLDVDCSEDVIKNLILVVRGQFSTDELVAEVEKRNRLKLLLPWLEARIHEG-CEEPATHNAL  879 (1630)
T ss_pred             HHHHhccCCcccchhhhhhhcCCCCHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHH
Confidence            677776666666666555554332221           1113334444445556666666677777777 4589999999


Q ss_pred             HHHHHhcCChHHHHHHhhc------------cCCCCccc----------HHHHHHHHHhcCChHHHH-------------
Q 005881          118 INMYGKCGLLSSAQFVFDA------------SLERNSIS----------WVSLLSSYCQCGEHVHGL-------------  162 (672)
Q Consensus       118 i~~~~~~g~~~~a~~~~~~------------~~~~~~~~----------~~~li~~~~~~g~~~~a~-------------  162 (672)
                      ...|...++-.+.  .+.+            ..++|+..          -.-||...-+++.++.--             
T Consensus       880 akiyid~n~npe~--fL~~n~~yd~~~vgkyce~rDp~la~iay~~g~~d~eli~vt~~n~l~k~~arylv~r~d~~lW~  957 (1630)
T 1xi4_A          880 AKIYIDSNNNPER--FLRENPYYDSRVVGKYCEKRDPHLACVAYERGQCDLELINVCNENSLFKSLSRYLVRRKDPELWG  957 (1630)
T ss_pred             HHHHhccCCCHHH--HhhccCcccHHHHHHHHHhcCcchHHHHhcccCCcHHHHHHHhcchhHHHHHHHHHHhcCHHHHH
Confidence            9999876543322  1111            01111110          112333333333222111             


Q ss_pred             -----------HHHHHHHhCC--CCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcC--CCcHHHHHHHHHHhhcCCC
Q 005881          163 -----------KIFLLSRKSG--VAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCAL--EFDKFVAMGLINLYAKCEK  227 (672)
Q Consensus       163 -----------~~~~~m~~~g--~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~  227 (672)
                                 ++.++-....  -..++.-.....+++...|.+.++.++++.++-.+-  ..+....+.|+.+..+. +
T Consensus       958 ~vl~~~n~~RR~Lidqv~a~aL~e~~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D 1036 (1630)
T 1xi4_A          958 SVLLESNPYRRPLIDQVVQTALSETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-D 1036 (1630)
T ss_pred             HHhcCCcHHHHHHHHHHHHhhcccccCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-C
Confidence                       1111111111  122333445667777888888888888888874321  23445666677776666 4


Q ss_pred             hhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHh
Q 005881          228 LDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKM  307 (672)
Q Consensus       228 ~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~  307 (672)
                      ..+..+..+.....+   ...+...+...|.+++|..+|++..     -.......++   ...+++++|.++.+..   
T Consensus      1037 ~~Rv~eyI~kLd~~d---~~eIA~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLi---e~i~nldrAiE~Aerv--- 1102 (1630)
T 1xi4_A         1037 RTRVMEYINRLDNYD---APDIANIAISNELFEEAFAIFRKFD-----VNTSAVQVLI---EHIGNLDRAYEFAERC--- 1102 (1630)
T ss_pred             hhhHHHHHHHhhhcc---HHHHHHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHH---HHHhhHHHHHHHHHhc---
Confidence            455555555544222   4556777888999999999998852     1111122222   2667788888887754   


Q ss_pred             CCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHH
Q 005881          308 GFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILN  387 (672)
Q Consensus       308 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  387 (672)
                         .+..+|..+..++...|++++|...|.+.  .|...|..++.++.+.|++++|++.|...++..  ++....+.+..
T Consensus      1103 ---n~p~vWsqLAKAql~~G~~kEAIdsYiKA--dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~Laf 1175 (1630)
T 1xi4_A         1103 ---NEPAVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIF 1175 (1630)
T ss_pred             ---CCHHHHHHHHHHHHhCCCHHHHHHHHHhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHH
Confidence               34778888999999999999999999764  667778889999999999999999998877654  33333445778


Q ss_pred             HHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHH
Q 005881          388 ISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEI  467 (672)
Q Consensus       388 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  467 (672)
                      +|++.++++....+.    +   .++...+..+.+.|...|++++|..+|...     ..|..+...|.+.|++++|.+.
T Consensus      1176 aYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEa 1243 (1630)
T 1xi4_A         1176 ALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDG 1243 (1630)
T ss_pred             HHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHH
Confidence            888888887544442    1   334455667888999999999999999985     4899999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHh-CCCCC
Q 005881          468 YSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP  546 (672)
Q Consensus       468 ~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p  546 (672)
                      +++.      -+..+|..+..+|...|++..|......      +..+++.+..++..|.+.|.+++|+.+++. ++++|
T Consensus      1244 arKA------~n~~aWkev~~acve~~Ef~LA~~cgl~------Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Ler 1311 (1630)
T 1xi4_A         1244 ARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH------IVVHADELEELINYYQDRGYFEELITMLEAALGLER 1311 (1630)
T ss_pred             HHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHh------hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCh
Confidence            9876      4457888889999999999988886543      345677788999999999999999999975 45555


Q ss_pred             CH-HHHHHHHHHHHh--cCCHHHHHHHHHHHhcCCC-----CCCchHHHHHHHHHhcCChHHHHHH
Q 005881          547 NK-VVWRCLLSGCKT--HKDLVLGRYAAEKILSTDP-----EDTSAHIMLSNVYAEANMWDETAKV  604 (672)
Q Consensus       547 ~~-~~~~~l~~~~~~--~g~~~~a~~~~~~~~~~~p-----~~~~~~~~l~~~~~~~g~~~~a~~~  604 (672)
                      .. ..|+-+...+.+  .++..++.+.|..-+.+.|     .+...|..++.+|.+.|+|+.|...
T Consensus      1312 aH~gmftELaiLyaKy~peklmEhlk~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~t 1377 (1630)
T 1xi4_A         1312 AHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT 1377 (1630)
T ss_pred             hHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHH
Confidence            33 355555555544  4678888888888888777     7888899999999999999999853

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.83  E-value=8.3e-18  Score=167.70  Aligned_cols=302  Identities=11%  Similarity=0.018  Sum_probs=215.8

Q ss_pred             hhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCC---CCcccHHHHHHHHH
Q 005881          279 VTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDE---HDVVSWNALIAGHL  355 (672)
Q Consensus       279 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~  355 (672)
                      ..+..+...+...|++++|...++.+.+.. +.+..++..+..+|...|++++|...|+++.+   .+...|..+...+.
T Consensus         4 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~   82 (359)
T 3ieg_A            4 EKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLL   82 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHH
Confidence            345555666677777777777777777654 33455666677777777777777777776543   24456666677777


Q ss_pred             hcCChhHHHHHHHHHHhCCCCC---ChHH-HHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHH
Q 005881          356 ASCHYGEAIELLKDMLFEGHCP---NLYT-YSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLN  431 (672)
Q Consensus       356 ~~~~~~~A~~~~~~m~~~g~~p---~~~t-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  431 (672)
                      ..|++++|+..|++..+.  .|   +... +..+...       ..                ...+..+...+...|+++
T Consensus        83 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~-------~~----------------~~~~~~~a~~~~~~~~~~  137 (359)
T 3ieg_A           83 KQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKA-------DE----------------MQRLRSQALDAFDGADYT  137 (359)
T ss_dssp             HHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHH-------HH----------------HHHHHHHHHHHHHTTCHH
T ss_pred             HcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHH-------HH----------------HHHHHHHHHHHHHccCHH
Confidence            777777777777777654  34   2211 1111100       00                011223456778889999


Q ss_pred             HHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHH
Q 005881          432 DARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIR  508 (672)
Q Consensus       432 ~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  508 (672)
                      +|.+.|+.+.   ..+...+..+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|...|+.+.+
T Consensus       138 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~  216 (359)
T 3ieg_A          138 AAITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLK  216 (359)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            9999888875   3456678888888999999999999999988853 44556788888888899999999999988874


Q ss_pred             hhCCCCc-hHHHH------------HHHHHhhccCChHHHHHHHHhC-CCCCC-H----HHHHHHHHHHHhcCCHHHHHH
Q 005881          509 DHGISPR-MDHIA------------SVVHLFACRGQTRRAYEFIKSS-PIEPN-K----VVWRCLLSGCKTHKDLVLGRY  569 (672)
Q Consensus       509 ~~~~~p~-~~~~~------------~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~----~~~~~l~~~~~~~g~~~~a~~  569 (672)
                      .   .|+ ...+.            .++..+.+.|++++|.+.+++. ...|+ .    ..+..+...+...|++++|..
T Consensus       217 ~---~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  293 (359)
T 3ieg_A          217 L---DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIR  293 (359)
T ss_dssp             H---CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             h---CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHH
Confidence            3   343 23222            3367788999999999998763 23343 2    224456677889999999999


Q ss_pred             HHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          570 AAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       570 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      .++++++.+|+++..+..++.+|...|++++|.+.+++..+
T Consensus       294 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~  334 (359)
T 3ieg_A          294 ICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQE  334 (359)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999998875

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.82  E-value=1.2e-17  Score=166.64  Aligned_cols=315  Identities=13%  Similarity=0.086  Sum_probs=239.1

Q ss_pred             CcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHH
Q 005881          242 DLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLD  321 (672)
Q Consensus       242 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  321 (672)
                      |+..+..+...+...|++++|+..|+++.+.. +.+...+..+...+...|+++.|...++.+.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            34567788889999999999999999998853 3456778888889999999999999999999875 445678889999


Q ss_pred             HHHccCChHHHHHHHhhCCCCCc------ccHHHH------------HHHHHhcCChhHHHHHHHHHHhCCCCCChHHHH
Q 005881          322 FYSKCELLEESLKTFDEMDEHDV------VSWNAL------------IAGHLASCHYGEAIELLKDMLFEGHCPNLYTYS  383 (672)
Q Consensus       322 ~~~~~~~~~~a~~~~~~~~~~~~------~~~~~l------------i~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~  383 (672)
                      +|...|++++|...|++..+.++      ..+..+            ...+...|++++|++.++++.+.          
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~----------  149 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEV----------  149 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----------
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh----------
Confidence            99999999999999999866332      233333            24445555555555555555433          


Q ss_pred             HHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCC
Q 005881          384 NILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGL  460 (672)
Q Consensus       384 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~  460 (672)
                                               . +.+...+..+...+...|++++|...++.+.   ..+...|..+...+...|+
T Consensus       150 -------------------------~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~  203 (359)
T 3ieg_A          150 -------------------------C-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGD  203 (359)
T ss_dssp             -------------------------C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTC
T ss_pred             -------------------------C-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence                                     2 1234455667777888888888888887765   3455678888888888899


Q ss_pred             hHHHHHHHHHHHHCCCCCCHH-HHH------------HHHHHhhccCcHHHHHHHHHHhHHhhCCCCch--HHHHHHHHH
Q 005881          461 GREALEIYSMMQENKIKPNDN-TFI------------GVLSACVHIGLVEEGWHYFNSMIRDHGISPRM--DHIASVVHL  525 (672)
Q Consensus       461 ~~~A~~~~~~m~~~g~~p~~~-~~~------------~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~--~~~~~l~~~  525 (672)
                      +++|.+.|++..+.  .|+.. .+.            .+...+.+.|++++|...++.+.+...-.+..  ..+..++.+
T Consensus       204 ~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~  281 (359)
T 3ieg_A          204 HELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHC  281 (359)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhh--CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHH
Confidence            99999999888874  44432 222            23566888999999999999988543211111  345668889


Q ss_pred             hhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcC
Q 005881          526 FACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEAN  596 (672)
Q Consensus       526 ~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  596 (672)
                      +...|++++|.+.+++. ...| +...|..+...+...|++++|...++++++++|+++..+..+..++...+
T Consensus       282 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~  354 (359)
T 3ieg_A          282 FSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQRLLK  354 (359)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHH
Confidence            99999999999999763 3345 67789999999999999999999999999999999998888888766543

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.82  E-value=1e-14  Score=158.37  Aligned_cols=532  Identities=13%  Similarity=0.043  Sum_probs=358.0

Q ss_pred             hhHHHHHHhcCCChhHHHHHhccCCC-CC-----cchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHH
Q 005881           13 YNHLLLMYVKFSRINDAQKLFDEMPE-RN-----VISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSAC   86 (672)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~~~~-~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~   86 (672)
                      -...+++|...|.+.+|+++++++.- |+     ....+.++..-.+. +..+..++.+++...       ...-+...|
T Consensus       988 Vs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~-------d~~eIA~Ia 1059 (1630)
T 1xi4_A          988 VSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY-------DAPDIANIA 1059 (1630)
T ss_pred             hHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc-------cHHHHHHHH
Confidence            35567888888888888888888763 22     24455666666666 556666666665421       134477778


Q ss_pred             hcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCCCCcccHHHHHHHHHhcCChHHHHHHHH
Q 005881           87 ASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFL  166 (672)
Q Consensus        87 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  166 (672)
                      ...|.+++|..+|+...     ......+.++.   ..+++++|.++.++..  +..+|..+..++...|++++|++.|.
T Consensus      1060 i~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aervn--~p~vWsqLAKAql~~G~~kEAIdsYi 1129 (1630)
T 1xi4_A         1060 ISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAIDSYI 1129 (1630)
T ss_pred             HhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            88999999999998752     12222233333   6788999999988763  46789999999999999999999996


Q ss_pred             HHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCcchH
Q 005881          167 LSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAW  246 (672)
Q Consensus       167 ~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  246 (672)
                      +.      -|...|..++.+|.+.|+++++.+.+....+..  +++.+.+.++.+|++.+++++...+.   ..++...|
T Consensus      1130 KA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI---~~~n~ad~ 1198 (1630)
T 1xi4_A         1130 KA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI---NGPNNAHI 1198 (1630)
T ss_pred             hc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---hCCCHHHH
Confidence            64      467788889999999999999999999887765  33334445889999999988655553   34566777


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHcc
Q 005881          247 SALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKC  326 (672)
Q Consensus       247 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  326 (672)
                      ..+...|...|++++|...|...         ..|..+..++.+.|+++.|.+.++..      .+..+|..+-.+|...
T Consensus      1199 ~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~ 1263 (1630)
T 1xi4_A         1199 QQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDG 1263 (1630)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhh
Confidence            88889999999999999999985         47899999999999999999998876      4568888888899999


Q ss_pred             CChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC-hHHH--HHHHHHHcCcCchHHHHHHHH
Q 005881          327 ELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPN-LYTY--SNILNISSDIPAIEWGKQTHC  403 (672)
Q Consensus       327 ~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~t~--~~ll~~~~~~~~~~~a~~~~~  403 (672)
                      |++..|......+ ..+...+..++..|.+.|.+++|+.+++.....  .|. ...|  ...+.+-.+.++..+..+.|.
T Consensus      1264 ~Ef~LA~~cgl~I-iv~~deLeeli~yYe~~G~feEAI~LlE~aL~L--eraH~gmftELaiLyaKy~peklmEhlk~f~ 1340 (1630)
T 1xi4_A         1264 KEFRLAQMCGLHI-VVHADELEELINYYQDRGYFEELITMLEAALGL--ERAHMGMFTELAILYSKFKPQKMREHLELFW 1340 (1630)
T ss_pred             hHHHHHHHHHHhh-hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--ChhHhHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            9999998887653 345556778899999999999999999887643  332 2233  334444445555555555554


Q ss_pred             HHHhcCCCC------cccHHHHHHHHHHhcCCHHHHHHHHhhC-------------C--CCCchhHHHHHHHHHhcC---
Q 005881          404 CIVKPGFDS------NVVIGSALVDMYAKCGRLNDARKVFDHL-------------S--SKNLVSWNTMLVGYAQHG---  459 (672)
Q Consensus       404 ~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------------~--~~~~~~~~~li~~~~~~g---  459 (672)
                      .-.  ++++      ....|.-++-.|.+.|+++.|....-+-             .  ..|+..|...+.-|...+   
T Consensus      1341 ~ri--ni~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~kv~n~elyykai~Fyl~~~P~~ 1418 (1630)
T 1xi4_A         1341 SRV--NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYLEFKPLL 1418 (1630)
T ss_pred             Hhc--ccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhcccccHHHHHHHHHHHHhhChHH
Confidence            322  2222      5667888999999999999998332211             1  245555655555555544   


Q ss_pred             ------------ChHHHHHHHHHHHHCCCCCCHHHHH-------------HHHHHhhccCcHHHHHHHHHHhH------H
Q 005881          460 ------------LGREALEIYSMMQENKIKPNDNTFI-------------GVLSACVHIGLVEEGWHYFNSMI------R  508 (672)
Q Consensus       460 ------------~~~~A~~~~~~m~~~g~~p~~~~~~-------------~ll~~~~~~g~~~~a~~~~~~~~------~  508 (672)
                                  +++++.++|.+.   |--|-...|.             .+...+....+++.-..-.+...      -
T Consensus      1419 lndLl~~l~~rlD~~R~V~l~~~~---~~l~lik~yl~~vq~~n~~~Vneal~el~ieeed~~~Lr~si~~~~nfd~~~L 1495 (1630)
T 1xi4_A         1419 LNDLLMVLSPRLDHTRAVNYFSKV---KQLPLVKPYLRSVQNHNNKSVNESLNNLFITEEDYQALRTSIDAYDNFDNISL 1495 (1630)
T ss_pred             HHHHHHHhhhcCChHHHHHHHHHc---CChHHhHHHHHHHHHhcchhhhHHHHHHhcCccchHHHHHHHhhccCcCHHHH
Confidence                        666666666531   1111111111             11122222222221111110000      0


Q ss_pred             hhCCC-CchHHHHHH-HHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHH
Q 005881          509 DHGIS-PRMDHIASV-VHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHI  586 (672)
Q Consensus       509 ~~~~~-p~~~~~~~l-~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  586 (672)
                      ...++ .+.--+..+ ..+|.+.|+++.|.+++++-+.      |.-.+......|+.+.++.++.--.+.  .+.+.|.
T Consensus      1496 a~~lekheLl~frrIAa~ly~~n~~~~~ai~l~k~d~l------~~dAm~~a~~S~d~e~~e~ll~~F~~~--~~~E~f~ 1567 (1630)
T 1xi4_A         1496 AQRLEKHELIEFRRIAAYLFKGNNRWKQSVELCKKDSL------YKDAMQYASESKDTELAEELLQWFLQE--EKRECFG 1567 (1630)
T ss_pred             HHHhhhhhHHHHHHHHHHHHHhcCcHHHHHHHHHhccC------HHHHHHHHHHcCCHHHHHHHHHHHHhc--CChhHHH
Confidence            00000 011111222 3445667999999999988763      555677888899999998888877776  4667777


Q ss_pred             HHHHHHHhcCChHHHHHH
Q 005881          587 MLSNVYAEANMWDETAKV  604 (672)
Q Consensus       587 ~l~~~~~~~g~~~~a~~~  604 (672)
                      ...-.+...=+.+-+.++
T Consensus      1568 a~Ly~cy~l~~pd~vle~ 1585 (1630)
T 1xi4_A         1568 ACLFTCYDLLRPDVVLET 1585 (1630)
T ss_pred             HHHHHHhccCCchHHHHH
Confidence            777777777777766554

>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=99.80  E-value=1.8e-17  Score=163.15  Aligned_cols=286  Identities=9%  Similarity=-0.055  Sum_probs=201.3

Q ss_pred             CCchHHHHHHHHHHHccCChHHHHHHHhhCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHH
Q 005881          310 SSFTFVANTVLDFYSKCELLEESLKTFDEMDE---HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNIL  386 (672)
Q Consensus       310 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll  386 (672)
                      +.+..++..+...+...|++++|..+|+++.+   .+...+..++..+...|++++|...++++.+.. +.+...+..+.
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            33444555666666667777777777776643   234455666677777777777777777777642 22445566666


Q ss_pred             HHHcCcC-chHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChH
Q 005881          387 NISSDIP-AIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGR  462 (672)
Q Consensus       387 ~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~  462 (672)
                      ..+...| +++.|...++.+.+.. +.+...+..+...|...|++++|.+.|+++.   ..+...+..+...|...|+++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHH
Confidence            6666777 7777777777776654 2245667777888888888888888888765   334566777888888888888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCC-------CCchHHHHHHHHHhhccCChHHH
Q 005881          463 EALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGI-------SPRMDHIASVVHLFACRGQTRRA  535 (672)
Q Consensus       463 ~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-------~p~~~~~~~l~~~~~~~g~~~~A  535 (672)
                      +|.+.|++..+.. +.+...+..+...+...|++++|...++.+.+...-       +.....+..++.+|...|++++|
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            8888888888752 334567777888888888888888888877753211       22356788888888888888888


Q ss_pred             HHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHH-HhcCCh
Q 005881          536 YEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVY-AEANMW  598 (672)
Q Consensus       536 ~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~  598 (672)
                      .+.+++. ...| +...|..+...+...|++++|...++++++++|+++..+..++.++ ...|+.
T Consensus       256 ~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          256 LDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             HHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC-
T ss_pred             HHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCch
Confidence            8888753 2233 5567777888888888888888888888888888888888888877 445554

>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=99.79  E-value=1.1e-16  Score=155.97  Aligned_cols=345  Identities=14%  Similarity=0.086  Sum_probs=136.8

Q ss_pred             hcCCChhHHHHHhccCCCCCcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHH
Q 005881           21 VKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHG  100 (672)
Q Consensus        21 ~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  100 (672)
                      -+.|++++|.+.++++..|+  +|..+..++.+.|++++|++.|.+      .+|..+|..++.++...|++++|...++
T Consensus        14 ~~~~~ld~A~~fae~~~~~~--vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~   85 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQ   85 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            36788999999999997664  899999999999999999999975      3678899999999999999999999888


Q ss_pred             HHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhH
Q 005881          101 RMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSC  180 (672)
Q Consensus       101 ~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~  180 (672)
                      ..++.  .+++.+.+.|+.+|.++|+++++.++++.   |+..+|+.+...|...|++++|...|..+         ..|
T Consensus        86 ~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~  151 (449)
T 1b89_A           86 MARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNF  151 (449)
T ss_dssp             -------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCH
T ss_pred             HHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhH
Confidence            77775  45688899999999999999999988864   67789999999999999999999999977         468


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChh
Q 005881          181 ASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKAC  260 (672)
Q Consensus       181 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~  260 (672)
                      ..+..++.+.|+++.|.+.+..+      .++.+|..++.+|...|+++.|......+. .++.....++..|.+.|+++
T Consensus       152 ~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~e  224 (449)
T 1b89_A          152 GRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFE  224 (449)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHH
Confidence            88888888888888888888776      266777777777777777777766655543 33333445667777777777


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHc--cCChHHHHHHHhh
Q 005881          261 EAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSK--CELLEESLKTFDE  338 (672)
Q Consensus       261 ~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~--~~~~~~a~~~~~~  338 (672)
                      +|+.+++......  +                                  ....+|+.|.-+|++  -+++.+..+.|..
T Consensus       225 Eai~lLe~aL~le--~----------------------------------ah~~~ftel~il~~ky~p~k~~ehl~~~~~  268 (449)
T 1b89_A          225 ELITMLEAALGLE--R----------------------------------AHMGMFTELAILYSKFKPQKMREHLELFWS  268 (449)
T ss_dssp             HHHHHHHHHTTST--T----------------------------------CCHHHHHHHHHHHHTTCHHHHHHHHHHHST
T ss_pred             HHHHHHHHHhCCc--H----------------------------------HHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            7777777665332  1                                  122222333333332  2233344444433


Q ss_pred             CCC--------CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCC
Q 005881          339 MDE--------HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGF  410 (672)
Q Consensus       339 ~~~--------~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  410 (672)
                      -..        .+...|..+.-.|.+.++++.|...   |.+.  .|+...-..+.....+..+.+---+....-...  
T Consensus       269 ~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~t---m~~h--~~~a~~~~~f~~~~~kv~n~elyYkai~fyl~~--  341 (449)
T 1b89_A          269 RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT---MMNH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--  341 (449)
T ss_dssp             TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH---HHHS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--
T ss_pred             HhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH---HHhC--ChhhhhhHHHHHHHhchhHHHHHHHHHHHHHhc--
Confidence            222        2456788888888888888888763   4433  233333333333333444433322222222211  


Q ss_pred             CCcccHHHHHHHHHHhcCCHHHHHHHHhh
Q 005881          411 DSNVVIGSALVDMYAKCGRLNDARKVFDH  439 (672)
Q Consensus       411 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  439 (672)
                        .+...+-|+.++...=+.+++.++|+.
T Consensus       342 --~p~~l~~ll~~l~~~ld~~r~v~~~~~  368 (449)
T 1b89_A          342 --KPLLLNDLLMVLSPRLDHTRAVNYFSK  368 (449)
T ss_dssp             --CGGGHHHHHHHHGGGCCHHHHHHHHHH
T ss_pred             --CHHHHHHHHHHHHhccCcHHHHHHHHH
Confidence              122244444444444444455444444

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.78  E-value=9e-17  Score=158.13  Aligned_cols=263  Identities=11%  Similarity=0.051  Sum_probs=225.1

Q ss_pred             CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHH
Q 005881          342 HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALV  421 (672)
Q Consensus       342 ~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  421 (672)
                      .+...+..+...+...|++++|+++|+++.+.. +.+...+..+...+...|++++|...+..+.+.. +.+...+..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            456677888889999999999999999998763 2244556667788889999999999999999865 33567788899


Q ss_pred             HHHHhcC-CHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHH
Q 005881          422 DMYAKCG-RLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVE  497 (672)
Q Consensus       422 ~~~~~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~  497 (672)
                      ..+...| ++++|.+.|+++.+   .+...|..+...+...|++++|++.|+++.+.. +.+...+..+...+...|+++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHH
Confidence            9999999 99999999998763   456789999999999999999999999999853 334567777899999999999


Q ss_pred             HHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-------C----CCCCHHHHHHHHHHHHhcCCHH
Q 005881          498 EGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-------P----IEPNKVVWRCLLSGCKTHKDLV  565 (672)
Q Consensus       498 ~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~----~~p~~~~~~~l~~~~~~~g~~~  565 (672)
                      +|...++.+.   ...| +...+..++..+...|++++|.+.+++.       +    .......|..+...+...|+++
T Consensus       177 ~A~~~~~~al---~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  253 (330)
T 3hym_B          177 LAERFFSQAL---SIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYA  253 (330)
T ss_dssp             HHHHHHHHHH---TTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHH---HhCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHH
Confidence            9999999987   3455 5788999999999999999999998753       1    1234568889999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          566 LGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       566 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +|...+++++++.|+++..+..++.+|...|++++|.+.+++..+
T Consensus       254 ~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  298 (330)
T 3hym_B          254 EALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALG  298 (330)
T ss_dssp             HHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHc
Confidence            999999999999999999999999999999999999999997754

>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=99.77  E-value=1.4e-17  Score=162.10  Aligned_cols=286  Identities=13%  Similarity=0.075  Sum_probs=134.6

Q ss_pred             cCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHH
Q 005881          224 KCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSL  303 (672)
Q Consensus       224 ~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~  303 (672)
                      +.|++++|.++++++..|  .+|..+..++.+.|++++|++.|.+      .+|..+|..++.++...|+++++..+++.
T Consensus        15 ~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~~   86 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQM   86 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            678899999999999655  4899999999999999999999965      36778999999999999999999998887


Q ss_pred             HHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHH
Q 005881          304 IIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYS  383 (672)
Q Consensus       304 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~  383 (672)
                      .++.  .+++.+.+.|+.+|.+.|+++++..+++.   |+..+|+.+...|...|++++|...|..+         ..|.
T Consensus        87 ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~  152 (449)
T 1b89_A           87 ARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFG  152 (449)
T ss_dssp             ------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCHH
T ss_pred             HHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHH
Confidence            7774  44577888999999999999998887753   77789999999999999999999999977         4788


Q ss_pred             HHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHH
Q 005881          384 NILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGRE  463 (672)
Q Consensus       384 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  463 (672)
                      .+..++.+.|++++|.+.+..+      .++.+|..++.+|...|+++.|......+. .++.-...++..|.+.|++++
T Consensus       153 ~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~eE  225 (449)
T 1b89_A          153 RLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFEE  225 (449)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHHH
Confidence            9999999999999999998887      367889999999999999999988777655 444445568889999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHhh--ccCcHHHHHHHHHHhHHhhCCCC------chHHHHHHHHHhhccCChHHH
Q 005881          464 ALEIYSMMQENKIKPNDNTFIGVLSACV--HIGLVEEGWHYFNSMIRDHGISP------RMDHIASVVHLFACRGQTRRA  535 (672)
Q Consensus       464 A~~~~~~m~~~g~~p~~~~~~~ll~~~~--~~g~~~~a~~~~~~~~~~~~~~p------~~~~~~~l~~~~~~~g~~~~A  535 (672)
                      |+.+++..+... +.-...|..+.-+++  +.+++.+.++.|.   .+-+++|      +...|.-++..|...++++.|
T Consensus       226 ai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~---~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A  301 (449)
T 1b89_A          226 LITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFW---SRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNA  301 (449)
T ss_dssp             HHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHS---TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHH---HHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHH
Confidence            999999988643 223345555544444  4455555555554   3335555      356789999999999999998


Q ss_pred             HHHHHhC
Q 005881          536 YEFIKSS  542 (672)
Q Consensus       536 ~~~~~~~  542 (672)
                      ...+-+-
T Consensus       302 ~~tm~~h  308 (449)
T 1b89_A          302 IITMMNH  308 (449)
T ss_dssp             HHHHHHS
T ss_pred             HHHHHhC
Confidence            8776543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.77  E-value=3e-15  Score=157.47  Aligned_cols=210  Identities=11%  Similarity=0.021  Sum_probs=167.4

Q ss_pred             HHHHHHHHHHhcCCCCcccHHHHHHHHHHh-------cCCHH-------HHHHHHhhCCC---C-CchhHHHHHHHHHhc
Q 005881          397 WGKQTHCCIVKPGFDSNVVIGSALVDMYAK-------CGRLN-------DARKVFDHLSS---K-NLVSWNTMLVGYAQH  458 (672)
Q Consensus       397 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~g~~~-------~A~~~~~~~~~---~-~~~~~~~li~~~~~~  458 (672)
                      .+..+++.+.... +.+..+|..++..+.+       .|+++       +|..+|++..+   | +...|..++..+.+.
T Consensus       256 ~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~  334 (530)
T 2ooe_A          256 RVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  334 (530)
T ss_dssp             HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            6667788877753 3456778888877775       68887       89999998763   3 466899999999999


Q ss_pred             CChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHH-hhccCChHH
Q 005881          459 GLGREALEIYSMMQENKIKPND--NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHL-FACRGQTRR  534 (672)
Q Consensus       459 g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~-~~~~g~~~~  534 (672)
                      |++++|..+|+++++  +.|+.  ..|..++..+.+.|++++|..+|++..+   ..| +...+...+.. +...|+.++
T Consensus       335 g~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~---~~~~~~~~~~~~a~~~~~~~~~~~~  409 (530)
T 2ooe_A          335 MKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARE---DARTRHHVYVTAALMEYYCSKDKSV  409 (530)
T ss_dssp             TCHHHHHHHHHHHHH--SSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT---CTTCCTHHHHHHHHHHHHHTCCHHH
T ss_pred             CCHHHHHHHHHHHhC--ccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHh---ccCCchHHHHHHHHHHHHHcCChhH
Confidence            999999999999999  46654  4788888888899999999999999873   344 33444333332 346899999


Q ss_pred             HHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc----hHHHHHHHHHhcCChHHHHHHHHHH
Q 005881          535 AYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTS----AHIMLSNVYAEANMWDETAKVRKIM  608 (672)
Q Consensus       535 A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~----~~~~l~~~~~~~g~~~~a~~~~~~~  608 (672)
                      |.++|++ +...| ++..|..++..+...|+.+.|..+|++++...|.++.    .|...+......|+.+.+.++.+++
T Consensus       410 A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~  489 (530)
T 2ooe_A          410 AFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  489 (530)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999985 33345 5788999999999999999999999999998876665    7778888888999999999999988


Q ss_pred             hhCC
Q 005881          609 KEKS  612 (672)
Q Consensus       609 ~~~~  612 (672)
                      .+.-
T Consensus       490 ~~~~  493 (530)
T 2ooe_A          490 FTAF  493 (530)
T ss_dssp             HHHT
T ss_pred             HHHC
Confidence            7643

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.76  E-value=3.1e-15  Score=155.67  Aligned_cols=351  Identities=11%  Similarity=0.003  Sum_probs=239.3

Q ss_pred             CCChhHHHHHHhcCCC-CCcchHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhc----cCCch
Q 005881          225 CEKLDLASRVFSNIQL-PDLTAWSALIGGYAQ----LGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFAD----VKETI  295 (672)
Q Consensus       225 ~g~~~~a~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~----~~~~~  295 (672)
                      .++.++|...|+...+ .+...+..+...|..    .+++++|+..|++..+.|   +...+..+-..+..    .++++
T Consensus        56 ~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~  132 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKA  132 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHH
T ss_pred             CcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHH
Confidence            4445555555444322 233444445555555    556666666666665543   33333344444444    45666


Q ss_pred             hHHHHHHHHHHhCCCCchHHHHHHHHHHHc----cCChHHHHHHHhhCCC-CCcccHHHHHHHHHh----cCChhHHHHH
Q 005881          296 GGRQLHSLIIKMGFSSFTFVANTVLDFYSK----CELLEESLKTFDEMDE-HDVVSWNALIAGHLA----SCHYGEAIEL  366 (672)
Q Consensus       296 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~A~~~  366 (672)
                      +|...++...+.|   +...+..|..+|..    .++.++|...|++..+ .+...+..+...|..    .+++++|++.
T Consensus       133 ~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~  209 (490)
T 2xm6_A          133 ESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGYMYSRGLGVERNDAISAQW  209 (490)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred             HHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCCcCHHHHHHH
Confidence            6666666666554   34445556666655    6677777777766543 455566666666766    6788888888


Q ss_pred             HHHHHhCCCCCChHHHHHHHHHHcC----cCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHh----cCCHHHHHHHHh
Q 005881          367 LKDMLFEGHCPNLYTYSNILNISSD----IPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAK----CGRLNDARKVFD  438 (672)
Q Consensus       367 ~~~m~~~g~~p~~~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~  438 (672)
                      |++..+.|   +...+..+-..+..    .++.++|...++...+.+   +...+..+..+|..    .+++++|.+.|+
T Consensus       210 ~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~  283 (490)
T 2xm6_A          210 YRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYR  283 (490)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHH
Confidence            88877654   33444444444543    677888888888877764   33455666667776    789999999998


Q ss_pred             hCCC-CCchhHHHHHHHHHhc-----CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccC---cHHHHHHHHHHhHHh
Q 005881          439 HLSS-KNLVSWNTMLVGYAQH-----GLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIG---LVEEGWHYFNSMIRD  509 (672)
Q Consensus       439 ~~~~-~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g---~~~~a~~~~~~~~~~  509 (672)
                      ...+ .+...+..+...|...     +++++|+..|++..+.|   +...+..+...+...|   +.++|.+.|++..+.
T Consensus       284 ~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~  360 (490)
T 2xm6_A          284 KSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK  360 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC
Confidence            8764 4566777888888877     89999999999999865   3455666666666655   789999999988742


Q ss_pred             hCCCCchHHHHHHHHHhhc----cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHhcCCCC-
Q 005881          510 HGISPRMDHIASVVHLFAC----RGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKT----HKDLVLGRYAAEKILSTDPE-  580 (672)
Q Consensus       510 ~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~p~-  580 (672)
                          .++..+..|..+|..    .+++++|.+++++.-...++..+..+...+..    .+|.++|...|+++++.+|+ 
T Consensus       361 ----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~  436 (490)
T 2xm6_A          361 ----GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDMNL  436 (490)
T ss_dssp             ----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCCH
T ss_pred             ----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCCC
Confidence                467788889999988    89999999999874323467788888888887    89999999999999999854 


Q ss_pred             --CCchHHHHHHHHHh
Q 005881          581 --DTSAHIMLSNVYAE  594 (672)
Q Consensus       581 --~~~~~~~l~~~~~~  594 (672)
                        ++.+...++.++..
T Consensus       437 ~~~~~a~~~l~~~~~~  452 (490)
T 2xm6_A          437 FGTENRNITEKKLTAK  452 (490)
T ss_dssp             HHHHHHHHHHTTSCHH
T ss_pred             cCCHHHHHHHHhcCHh
Confidence              67777777776654

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.76  E-value=1.1e-16  Score=153.13  Aligned_cols=267  Identities=10%  Similarity=0.017  Sum_probs=185.3

Q ss_pred             ccCChHHHHHHHhhCCCCCc----ccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHH
Q 005881          325 KCELLEESLKTFDEMDEHDV----VSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQ  400 (672)
Q Consensus       325 ~~~~~~~a~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~  400 (672)
                      ..|++..|+..++.....++    ...-.+..+|...|++++|+..++.    .-.|+..++..+...+...++.+.|.+
T Consensus        11 ~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~~A~~   86 (291)
T 3mkr_A           11 YIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRDAIVA   86 (291)
T ss_dssp             HTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHHHHHH
T ss_pred             HHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHHHHHH
Confidence            34555555555554443221    1223344555555555555554432    123344455555555555556666666


Q ss_pred             HHHHHHhcCCCC-cccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 005881          401 THCCIVKPGFDS-NVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN  479 (672)
Q Consensus       401 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  479 (672)
                      .++.+...+..| +...+..+...|...|++++|.+.+++  ..+...+..++..|.+.|++++|.+.|+++.+.  .|+
T Consensus        87 ~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~  162 (291)
T 3mkr_A           87 ELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ--DED  162 (291)
T ss_dssp             HHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT
T ss_pred             HHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CcC
Confidence            666555544323 344456677889999999999999998  567788999999999999999999999999985  566


Q ss_pred             HHHH---HHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHH
Q 005881          480 DNTF---IGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCL  554 (672)
Q Consensus       480 ~~~~---~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l  554 (672)
                      ....   ..++..+...|++++|..+|+++.+.  .+.+...++.++.++.+.|++++|.+.+++ +...| ++.+|..+
T Consensus       163 ~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~~l  240 (291)
T 3mkr_A          163 ATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINL  240 (291)
T ss_dssp             CHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            5321   12334445569999999999999864  244788899999999999999999999987 34456 67788888


Q ss_pred             HHHHHhcCCHHH-HHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHH
Q 005881          555 LSGCKTHKDLVL-GRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVR  605 (672)
Q Consensus       555 ~~~~~~~g~~~~-a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  605 (672)
                      +..+...|+.++ +..+++++++++|+++.+    .++..+.+.++++..-|
T Consensus       241 ~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~----~d~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          241 VVLSQHLGKPPEVTNRYLSQLKDAHRSHPFI----KEYRAKENDFDRLVLQY  288 (291)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHCTTCHHH----HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHHhCCCChHH----HHHHHHHHHHHHHHHHc
Confidence            888888998865 678999999999988754    34566666666665543

>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=99.76  E-value=5.5e-17  Score=162.43  Aligned_cols=279  Identities=10%  Similarity=-0.022  Sum_probs=218.0

Q ss_pred             HHccCChHHHHH-HHhhCCC-----C--CcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCc
Q 005881          323 YSKCELLEESLK-TFDEMDE-----H--DVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPA  394 (672)
Q Consensus       323 ~~~~~~~~~a~~-~~~~~~~-----~--~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~  394 (672)
                      +...|++++|.. .|++...     |  +...+..+...+.+.|++++|+..|+++.+.. +.+...+..+..++...|+
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  113 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQ  113 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcC
Confidence            334577888887 7775543     1  34568888888999999999999999988763 3355677778888889999


Q ss_pred             hHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC--C-CchhHHH---------------HHHHHH
Q 005881          395 IEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSS--K-NLVSWNT---------------MLVGYA  456 (672)
Q Consensus       395 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~---------------li~~~~  456 (672)
                      ++.|...+..+.+.. +.+..++..+...|...|++++|.+.|+.+..  | +...+..               .+..+.
T Consensus       114 ~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  192 (368)
T 1fch_A          114 ELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLL  192 (368)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHH
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHh
Confidence            999999999888775 33667788888999999999999999988762  2 2222221               133344


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCC---HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCCh
Q 005881          457 QHGLGREALEIYSMMQENKIKPN---DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQT  532 (672)
Q Consensus       457 ~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~  532 (672)
                      ..|++++|+..|+++.+.  .|+   ..++..+...+...|++++|...|+.+...   .| +...+..++.++...|++
T Consensus       193 ~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~---~~~~~~~~~~l~~~~~~~g~~  267 (368)
T 1fch_A          193 SDSLFLEVKELFLAAVRL--DPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV---RPNDYLLWNKLGATLANGNQS  267 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHH--STTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCH
T ss_pred             hcccHHHHHHHHHHHHHh--CcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcCCHHHHHHHHHHHHHcCCH
Confidence            889999999999999985  454   678899999999999999999999998843   44 578899999999999999


Q ss_pred             HHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC-----------CchHHHHHHHHHhcCChH
Q 005881          533 RRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPED-----------TSAHIMLSNVYAEANMWD  599 (672)
Q Consensus       533 ~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~  599 (672)
                      ++|.+.+++. ...| +...|..+...+...|++++|...+++++++.|++           ...|..++.+|...|+++
T Consensus       268 ~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  347 (368)
T 1fch_A          268 EEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSD  347 (368)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGG
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChH
Confidence            9999999863 3345 57788999999999999999999999999999877           788999999999999999


Q ss_pred             HHHHHHHHH
Q 005881          600 ETAKVRKIM  608 (672)
Q Consensus       600 ~a~~~~~~~  608 (672)
                      +|..++++.
T Consensus       348 ~A~~~~~~~  356 (368)
T 1fch_A          348 AYGAADARD  356 (368)
T ss_dssp             GHHHHHTTC
T ss_pred             hHHHhHHHH
Confidence            999988743

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.73  E-value=3.1e-14  Score=148.07  Aligned_cols=352  Identities=14%  Similarity=0.056  Sum_probs=286.0

Q ss_pred             CCcchHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhc----cCCchhHHHHHHHHHHhCCCCc
Q 005881          241 PDLTAWSALIGGYAQ----LGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFAD----VKETIGGRQLHSLIIKMGFSSF  312 (672)
Q Consensus       241 ~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~  312 (672)
                      .+...+..+...|..    .+++++|+..|++..+.|   +...+..+-..+..    .++.++|.+.++...+.|   +
T Consensus        37 g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~  110 (490)
T 2xm6_A           37 GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---L  110 (490)
T ss_dssp             TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---C
T ss_pred             CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---C
Confidence            355556666666776    899999999999998864   45566666667776    889999999999998876   5


Q ss_pred             hHHHHHHHHHHHc----cCChHHHHHHHhhCCC-CCcccHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCChHHHH
Q 005881          313 TFVANTVLDFYSK----CELLEESLKTFDEMDE-HDVVSWNALIAGHLA----SCHYGEAIELLKDMLFEGHCPNLYTYS  383 (672)
Q Consensus       313 ~~~~~~li~~~~~----~~~~~~a~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~A~~~~~~m~~~g~~p~~~t~~  383 (672)
                      ...+..|...|..    .+++++|...|++..+ .+...+..+...|..    .+++++|++.|++..+.|   +...+.
T Consensus       111 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~  187 (490)
T 2xm6_A          111 PQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCN  187 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            5666778888888    7899999999998765 456677788888887    789999999999998875   455666


Q ss_pred             HHHHHHcC----cCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHh----cCCHHHHHHHHhhCC-CCCchhHHHHHHH
Q 005881          384 NILNISSD----IPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAK----CGRLNDARKVFDHLS-SKNLVSWNTMLVG  454 (672)
Q Consensus       384 ~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~-~~~~~~~~~li~~  454 (672)
                      .+-..+..    .++.++|...+....+.+   +...+..+..+|..    .+++++|.++|+... ..+...+..+...
T Consensus       188 ~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~  264 (490)
T 2xm6_A          188 QLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYI  264 (490)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            66666665    899999999999998875   45567778888876    789999999999876 4566677888888


Q ss_pred             HHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhcc-----CcHHHHHHHHHHhHHhhCCCCchHHHHHHHHH
Q 005881          455 YAQ----HGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHI-----GLVEEGWHYFNSMIRDHGISPRMDHIASVVHL  525 (672)
Q Consensus       455 ~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~-----g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  525 (672)
                      |..    .+++++|++.|++..+.|   +...+..+...+...     +++++|...|++..+.    .+...+..+..+
T Consensus       265 y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~  337 (490)
T 2xm6_A          265 LEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ----GDATAQANLGAI  337 (490)
T ss_dssp             HHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT----TCHHHHHHHHHH
T ss_pred             HHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc----CCHHHHHHHHHH
Confidence            887    899999999999998865   345666677777666     8999999999988742    245677888888


Q ss_pred             hhccC---ChHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHh----
Q 005881          526 FACRG---QTRRAYEFIKSSPIEPNKVVWRCLLSGCKT----HKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAE----  594 (672)
Q Consensus       526 ~~~~g---~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----  594 (672)
                      |...|   +.++|.+++++.-...++..+..+...+..    .+++++|...++++.+.+  ++.++..|+.+|..    
T Consensus       338 y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~--~~~a~~~Lg~~y~~g~g~  415 (490)
T 2xm6_A          338 YFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG--LSAAQVQLGEIYYYGLGV  415 (490)
T ss_dssp             HHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSS
T ss_pred             HHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC--CHHHHHHHHHHHHcCCCC
Confidence            88766   789999999874323578888889988888    899999999999999864  68899999999999    


Q ss_pred             cCChHHHHHHHHHHhhCCC
Q 005881          595 ANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       595 ~g~~~~a~~~~~~~~~~~~  613 (672)
                      .+++++|.+.+++..+.+.
T Consensus       416 ~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          416 ERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             CCCHHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHCCC
Confidence            8999999999999987663

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.72  E-value=1.3e-16  Score=159.47  Aligned_cols=259  Identities=10%  Similarity=-0.037  Sum_probs=208.1

Q ss_pred             CcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHH
Q 005881          343 DVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVD  422 (672)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  422 (672)
                      +...|..+...+.+.|++++|++.|+++.+.. +.+...+..+...+...|++++|...++.+.+.. +.+...+..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            44568888888999999999999999988763 2356778888888889999999999999888765 335677888999


Q ss_pred             HHHhcCCHHHHHHHHhhCCC--CC-----------chhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC---CHHHHHHH
Q 005881          423 MYAKCGRLNDARKVFDHLSS--KN-----------LVSWNTMLVGYAQHGLGREALEIYSMMQENKIKP---NDNTFIGV  486 (672)
Q Consensus       423 ~~~~~g~~~~A~~~~~~~~~--~~-----------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~~~~~l  486 (672)
                      .|...|++++|.+.|+++.+  |+           ...+..+...+...|++++|+++|+++.+.  .|   +..++..+
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~l  219 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQ--NGDMIDPDLQTGL  219 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHH--SCSSCCHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHh--CcCccCHHHHHHH
Confidence            99999999999999988763  11           123344578889999999999999999985  44   46789999


Q ss_pred             HHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCH
Q 005881          487 LSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDL  564 (672)
Q Consensus       487 l~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~  564 (672)
                      ...+...|++++|...|+++.+..  +.+...+..++.+|...|++++|.+.+++. ...| +..+|..+...+...|++
T Consensus       220 ~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~  297 (365)
T 4eqf_A          220 GVLFHLSGEFNRAIDAFNAALTVR--PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAY  297 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCH
Confidence            999999999999999999988432  336789999999999999999999999863 3445 477899999999999999


Q ss_pred             HHHHHHHHHHhcCCCC------------CCchHHHHHHHHHhcCChHHHHHHHHH
Q 005881          565 VLGRYAAEKILSTDPE------------DTSAHIMLSNVYAEANMWDETAKVRKI  607 (672)
Q Consensus       565 ~~a~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~  607 (672)
                      ++|...+++++++.|+            +...+..++.++...|+.+.+.++.++
T Consensus       298 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          298 REAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            9999999999998886            367789999999999999998887764

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.72  E-value=2.3e-14  Score=150.62  Aligned_cols=405  Identities=8%  Similarity=0.023  Sum_probs=266.8

Q ss_pred             CcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHH
Q 005881          141 NSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLIN  220 (672)
Q Consensus       141 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  220 (672)
                      +...|..++. +.+.|++++|..+|+++.+. .+-+...|...+..+.+.|+++.|..+|+.+++..  |+...|..++.
T Consensus        12 ~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~-~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~~   87 (530)
T 2ooe_A           12 DLDAWSILIR-EAQNQPIDKARKTYERLVAQ-FPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYLS   87 (530)
T ss_dssp             CHHHHHHHHH-HHHSSCHHHHHHHHHHHHTT-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHHH
T ss_pred             CHHHHHHHHH-HHHhCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHHH
Confidence            5556777776 36677788888888887764 22345567777777777888888888888877654  46666666664


Q ss_pred             -HhhcCCChhHHHH----HHhcCC------CCCcchHHHHHHHHHh---------cCChhHHHHHHHHHHHCCCCCCh--
Q 005881          221 -LYAKCEKLDLASR----VFSNIQ------LPDLTAWSALIGGYAQ---------LGKACEAIDLFVKMFSSGLMPSE--  278 (672)
Q Consensus       221 -~~~~~g~~~~a~~----~~~~~~------~~~~~~~~~li~~~~~---------~~~~~~a~~~~~~m~~~~~~p~~--  278 (672)
                       .....|+.+.|.+    +|+...      .++...|...+....+         .|++++|..+|++....   |+.  
T Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~---P~~~~  164 (530)
T 2ooe_A           88 YVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVN---PMINI  164 (530)
T ss_dssp             HHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTS---CCTTH
T ss_pred             HHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhc---hhhhH
Confidence             2334566666554    555431      1344567666665544         57778888888877762   332  


Q ss_pred             -hhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhh-------CC------CCC-
Q 005881          279 -VTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDE-------MD------EHD-  343 (672)
Q Consensus       279 -~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~-------~~------~~~-  343 (672)
                       ..|..........+. ..+                   ..++.  .+.+++..|..++..       +.      .|+ 
T Consensus       165 ~~~~~~~~~~e~~~~~-~~~-------------------~~~l~--~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~  222 (530)
T 2ooe_A          165 EQLWRDYNKYEEGINI-HLA-------------------KKMIE--DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQN  222 (530)
T ss_dssp             HHHHHHHHHHHHHHCH-HHH-------------------HHHHH--TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC-
T ss_pred             HHHHHHHHHHHHhhch-hHH-------------------HHHHH--HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCC
Confidence             122111110000000 000                   01110  122334445444432       11      111 


Q ss_pred             -------cccHHHHHHHHHhc----CCh----hHHHHHHHHHHhCCCCC-ChHHHHHHHHHHcC-------cCchH----
Q 005881          344 -------VVSWNALIAGHLAS----CHY----GEAIELLKDMLFEGHCP-NLYTYSNILNISSD-------IPAIE----  396 (672)
Q Consensus       344 -------~~~~~~li~~~~~~----~~~----~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~-------~~~~~----  396 (672)
                             ...|...+.-....    ++.    .++..+|++....  .| +...|......+.+       .|+++    
T Consensus       223 ~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~--~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~  300 (530)
T 2ooe_A          223 TPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLV--LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKL  300 (530)
T ss_dssp             -CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHH
T ss_pred             ChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhchhhhhccchhhhhh
Confidence                   13454444332222    222    3777888888875  34 45566666666554       68877    


Q ss_pred             ---HHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC--CCC-c-hhHHHHHHHHHhcCChHHHHHHHH
Q 005881          397 ---WGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS--SKN-L-VSWNTMLVGYAQHGLGREALEIYS  469 (672)
Q Consensus       397 ---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~-~-~~~~~li~~~~~~g~~~~A~~~~~  469 (672)
                         .|..+++..++.-.+.+..++..++..+.+.|++++|..+|+++.  .|+ . ..|..++..+.+.|+.++|.++|+
T Consensus       301 ~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~  380 (530)
T 2ooe_A          301 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  380 (530)
T ss_dssp             HHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHH
Confidence               889999998874334567888999999999999999999999876  343 2 479999999999999999999999


Q ss_pred             HHHHCCCCCC-HHHHHHHHHH-hhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC----C
Q 005881          470 MMQENKIKPN-DNTFIGVLSA-CVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS----P  543 (672)
Q Consensus       470 ~m~~~g~~p~-~~~~~~ll~~-~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~  543 (672)
                      +..+.  .|+ ...|...... +...|++++|..+|+...+..  +.+...|..+++.+.+.|+.++|..+|++.    +
T Consensus       381 ~Al~~--~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~  456 (530)
T 2ooe_A          381 KARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  456 (530)
T ss_dssp             HHHTC--TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCC
T ss_pred             HHHhc--cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccC
Confidence            99985  343 2333332222 335899999999999988553  235789999999999999999999999863    3


Q ss_pred             CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 005881          544 IEPN--KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPE  580 (672)
Q Consensus       544 ~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  580 (672)
                      ..|+  ...|...+.....+|+.+.+..+++++.+..|+
T Consensus       457 ~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p~  495 (530)
T 2ooe_A          457 LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFRE  495 (530)
T ss_dssp             SCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHTHH
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCch
Confidence            3342  558888888889999999999999999999984

>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=99.71  E-value=3.5e-16  Score=156.55  Aligned_cols=270  Identities=11%  Similarity=-0.025  Sum_probs=146.9

Q ss_pred             HHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCC---CCcccHHHHHHHHHhc
Q 005881          281 FSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDE---HDVVSWNALIAGHLAS  357 (672)
Q Consensus       281 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~  357 (672)
                      +..+...+...|+++.|...++.+.+.. +.+..++..+..+|.+.|++++|...|+++.+   .+..++..+...|...
T Consensus        67 ~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~  145 (368)
T 1fch_A           67 PFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNE  145 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHc
Confidence            3333334444444444444444444332 22344455556666666666666666665432   3455667777777777


Q ss_pred             CChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHH
Q 005881          358 CHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVF  437 (672)
Q Consensus       358 ~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  437 (672)
                      |++++|++.|+++....  |+........      +....           ...+ ...+..+...+ ..|++++|...|
T Consensus       146 g~~~~A~~~~~~~~~~~--~~~~~~~~~~------~~~~~-----------~~~~-~~~~~~~~~~~-~~~~~~~A~~~~  204 (368)
T 1fch_A          146 SLQRQACEILRDWLRYT--PAYAHLVTPA------EEGAG-----------GAGL-GPSKRILGSLL-SDSLFLEVKELF  204 (368)
T ss_dssp             TCHHHHHHHHHHHHHTS--TTTGGGCC---------------------------------CTTHHHH-HHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC--cCcHHHHHHH------HHHhh-----------hhcc-cHHHHHHHHHh-hcccHHHHHHHH
Confidence            88888888887777653  3222111000      00000           0000 00001122222 556666666666


Q ss_pred             hhCC--CC---CchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCC
Q 005881          438 DHLS--SK---NLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGI  512 (672)
Q Consensus       438 ~~~~--~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  512 (672)
                      +++.  .|   +..+|..+...|...|++++|+..|+++.... +.+..++..+...+...|++++|...|+++.+.   
T Consensus       205 ~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~---  280 (368)
T 1fch_A          205 LAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALEL---  280 (368)
T ss_dssp             HHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---
T ss_pred             HHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---
Confidence            6554  22   34566666666677777777777777666631 223456666666677777777777777666532   


Q ss_pred             CC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC------------CHHHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 005881          513 SP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP------------NKVVWRCLLSGCKTHKDLVLGRYAAEKILS  576 (672)
Q Consensus       513 ~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  576 (672)
                      .| +...+..++.+|.+.|++++|.+.+++. ...|            ...+|..+..++...|+.++|..++++.++
T Consensus       281 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  358 (368)
T 1fch_A          281 QPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARDLS  358 (368)
T ss_dssp             CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTCHH
T ss_pred             CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHHHH
Confidence            33 4566666777777777777777666542 1111            146677777777777777777777665543

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.71  E-value=7.8e-16  Score=147.31  Aligned_cols=245  Identities=10%  Similarity=-0.009  Sum_probs=199.0

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCh--HHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcC
Q 005881          351 IAGHLASCHYGEAIELLKDMLFEGHCPNL--YTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCG  428 (672)
Q Consensus       351 i~~~~~~~~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  428 (672)
                      |.-....|+++.|+..+++....  .|+.  .....+.+++...|+++.|...++.    .-+|+...+..+...+...|
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCC
Confidence            34556789999999998876543  4543  3445667899999999999875533    24567778888999999999


Q ss_pred             CHHHHHHHHhhCC----CC-CchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHH
Q 005881          429 RLNDARKVFDHLS----SK-NLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYF  503 (672)
Q Consensus       429 ~~~~A~~~~~~~~----~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~  503 (672)
                      +.++|.+.++++.    .| +...+..+...+...|++++|++.+++      +.+...+..+...+.+.|++++|...|
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l  153 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKEL  153 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999999864    24 455677788999999999999999987      466678888999999999999999999


Q ss_pred             HHhHHhhCCCCchH---HHHHHHHHhhccCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC
Q 005881          504 NSMIRDHGISPRMD---HIASVVHLFACRGQTRRAYEFIKSS-P-IEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTD  578 (672)
Q Consensus       504 ~~~~~~~~~~p~~~---~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  578 (672)
                      +.+.+.   .|+..   ....++..+...|++++|.++|+++ . ..++...|+.+..++...|++++|+..++++++++
T Consensus       154 ~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~  230 (291)
T 3mkr_A          154 KKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD  230 (291)
T ss_dssp             HHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999854   45532   2233445566679999999999874 2 23477889999999999999999999999999999


Q ss_pred             CCCCchHHHHHHHHHhcCChHH-HHHHHHHHhh
Q 005881          579 PEDTSAHIMLSNVYAEANMWDE-TAKVRKIMKE  610 (672)
Q Consensus       579 p~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~  610 (672)
                      |+++.++..++.++...|++++ +.++++++.+
T Consensus       231 p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~  263 (291)
T 3mkr_A          231 SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKD  263 (291)
T ss_dssp             TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            9999999999999999999986 5688888875

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.70  E-value=3.4e-15  Score=154.91  Aligned_cols=361  Identities=12%  Similarity=-0.051  Sum_probs=189.7

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHC-------CCCC-ChhhHHHHHHHhhccCCchhHHHHHHHHHHhC------CC
Q 005881          245 AWSALIGGYAQLGKACEAIDLFVKMFSS-------GLMP-SEVTFSYVLGAFADVKETIGGRQLHSLIIKMG------FS  310 (672)
Q Consensus       245 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-------~~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~------~~  310 (672)
                      .||.+...+...|++++|++.|++..+.       ...| ...+|..+-.++...|++++|...++.+.+..      ..
T Consensus        53 ~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~  132 (472)
T 4g1t_A           53 MCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYR  132 (472)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccc
Confidence            3444444444445555554444443221       0111 22344555555555555555555555443320      00


Q ss_pred             -CchHHHHHHHHHHHc--cCChHHHHHHHhhCCC--C-CcccHHHHHHH---HHhcCChhHHHHHHHHHHhCCCCCC-hH
Q 005881          311 -SFTFVANTVLDFYSK--CELLEESLKTFDEMDE--H-DVVSWNALIAG---HLASCHYGEAIELLKDMLFEGHCPN-LY  380 (672)
Q Consensus       311 -~~~~~~~~li~~~~~--~~~~~~a~~~~~~~~~--~-~~~~~~~li~~---~~~~~~~~~A~~~~~~m~~~g~~p~-~~  380 (672)
                       ....++..+..++.+  .+++++|...|++..+  | +...+..+...   +...++.++|++.+++..+.  .|+ ..
T Consensus       133 ~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l--~p~~~~  210 (472)
T 4g1t_A          133 IESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRL--NPDNQY  210 (472)
T ss_dssp             CCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHH--CSSCHH
T ss_pred             hhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhc--CCcchH
Confidence             112233333333333  3356666666666543  2 22333333332   33456666777777766654  332 23


Q ss_pred             HHHHHHHHH----cCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHH
Q 005881          381 TYSNILNIS----SDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLV  453 (672)
Q Consensus       381 t~~~ll~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~  453 (672)
                      .+..+...+    ...++.++|.+.++...+... .+..++..+...|...|++++|...|++..   ..+..+|..+..
T Consensus       211 ~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~  289 (472)
T 4g1t_A          211 LKVLLALKLHKMREEGEEEGEGEKLVEEALEKAP-GVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGC  289 (472)
T ss_dssp             HHHHHHHHHHHCC------CHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCc-cHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHHH
Confidence            333332222    234566677777776665542 244556667777777777777777777665   223345555554


Q ss_pred             HHHh-------------------cCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCC
Q 005881          454 GYAQ-------------------HGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGIS  513 (672)
Q Consensus       454 ~~~~-------------------~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  513 (672)
                      .|..                   .+.++.|...|++..+.  .|+ ..++..+...+...|++++|...|++..+   ..
T Consensus       290 ~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~---~~  364 (472)
T 4g1t_A          290 CYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEA--NDNLFRVCSILASLHALADQYEEAEYYFQKEFS---KE  364 (472)
T ss_dssp             HHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHH--CTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHH---SC
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhc--CCchhhhhhhHHHHHHHhccHHHHHHHHHHHHh---cC
Confidence            4432                   12356788888887774  344 35677788888999999999999988773   23


Q ss_pred             CchH----HHHHHHHH-hhccCChHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHH
Q 005881          514 PRMD----HIASVVHL-FACRGQTRRAYEFIKS-SPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIM  587 (672)
Q Consensus       514 p~~~----~~~~l~~~-~~~~g~~~~A~~~~~~-~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  587 (672)
                      |+..    .+..+... +...|+.++|++.+++ +.+.|+...+..         ....+..++++.++.+|+++.++..
T Consensus       365 ~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~---------~~~~l~~~~~~~l~~~p~~~~~~~~  435 (472)
T 4g1t_A          365 LTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEK---------MKDKLQKIAKMRLSKNGADSEALHV  435 (472)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHH---------HHHHHHHHHHHHHHHCC-CTTHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHH---------HHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            4322    23333332 3467889999988875 445665443322         2345567788889999999999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhCCCccCCceeEE
Q 005881          588 LSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWT  622 (672)
Q Consensus       588 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  622 (672)
                      ++.+|...|++++|.+.+++..+.+.....+.+|+
T Consensus       436 LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~  470 (472)
T 4g1t_A          436 LAFLQELNEKMQQADEDSERGLESGSLIPSASSWN  470 (472)
T ss_dssp             HHHHHHHHHHCC-----------------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcC
Confidence            99999999999999999999988776555566664

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.69  E-value=1.1e-15  Score=152.72  Aligned_cols=231  Identities=12%  Similarity=0.012  Sum_probs=193.6

Q ss_pred             ChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHH
Q 005881          378 NLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVG  454 (672)
Q Consensus       378 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~  454 (672)
                      +...+..+...+.+.|++++|...++.+.+.. +.+..++..+...|.+.|++++|.+.|+++.   ..+..+|..+...
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVS  142 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            34457778888999999999999999999875 3467788999999999999999999999886   3457799999999


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCHH-----------HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHH
Q 005881          455 YAQHGLGREALEIYSMMQENKIKPNDN-----------TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVV  523 (672)
Q Consensus       455 ~~~~g~~~~A~~~~~~m~~~g~~p~~~-----------~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  523 (672)
                      |...|++++|++.|+++.+.  .|+..           .+..+...+...|++++|...|+++.+.....++...+..++
T Consensus       143 ~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQ--NPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHh--CccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            99999999999999999883  45432           233457788999999999999999986533323678999999


Q ss_pred             HHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHH
Q 005881          524 HLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDET  601 (672)
Q Consensus       524 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  601 (672)
                      .+|.+.|++++|.+.+++. ...| +..+|..+...+...|++++|+..+++++++.|+++.++..++.+|...|++++|
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHH
Confidence            9999999999999999863 3344 6779999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhC
Q 005881          602 AKVRKIMKEK  611 (672)
Q Consensus       602 ~~~~~~~~~~  611 (672)
                      .+.++++.+.
T Consensus       301 ~~~~~~al~~  310 (365)
T 4eqf_A          301 VSNFLTALSL  310 (365)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998764

>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=99.69  E-value=1.6e-15  Score=148.85  Aligned_cols=258  Identities=8%  Similarity=-0.088  Sum_probs=181.5

Q ss_pred             cHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHH
Q 005881          346 SWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYA  425 (672)
Q Consensus       346 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  425 (672)
                      .+..+...+...|++++|+.+|+++.+.. +.+...+..+..++...|+++.|...++.+.+.. +.+...+..+...|.
T Consensus        23 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~  100 (327)
T 3cv0_A           23 NPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHT  100 (327)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHH
Confidence            34444455555555555555555555431 1133344444455555555555555555555442 223445556666666


Q ss_pred             hcCCHHHHHHHHhhCCC---CCchhHHHH--------------HH-HHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005881          426 KCGRLNDARKVFDHLSS---KNLVSWNTM--------------LV-GYAQHGLGREALEIYSMMQENKIKPNDNTFIGVL  487 (672)
Q Consensus       426 ~~g~~~~A~~~~~~~~~---~~~~~~~~l--------------i~-~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll  487 (672)
                      ..|++++|.+.++.+.+   .+...+..+              .. .+...|++++|.+.++++.+.. +.+...+..+.
T Consensus       101 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la  179 (327)
T 3cv0_A          101 NEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLG  179 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHH
Confidence            67777777766666542   122222222              22 3667789999999999998853 34567888889


Q ss_pred             HHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCH
Q 005881          488 SACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDL  564 (672)
Q Consensus       488 ~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~  564 (672)
                      ..+...|++++|...++.+.+.   .| +...+..++.++...|++++|.+.+++. ...| +...|..+...+...|++
T Consensus       180 ~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~  256 (327)
T 3cv0_A          180 VLYNLSNNYDSAAANLRRAVEL---RPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQY  256 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhccHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhccH
Confidence            9999999999999999988743   34 5788999999999999999999999763 3334 577888999999999999


Q ss_pred             HHHHHHHHHHhcCCCC------------CCchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          565 VLGRYAAEKILSTDPE------------DTSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       565 ~~a~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      ++|...++++++..|+            ++..+..++.+|...|++++|.+++++..
T Consensus       257 ~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          257 DLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             HHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            9999999999999998            68899999999999999999999987543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.67  E-value=1.4e-17  Score=174.88  Aligned_cols=147  Identities=13%  Similarity=0.123  Sum_probs=125.4

Q ss_pred             cchhhHHHHHHhcCCChhHHHHHhccCC-------CCCcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHH
Q 005881           10 VITYNHLLLMYVKFSRINDAQKLFDEMP-------ERNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGA   82 (672)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~-------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l   82 (672)
                      ..|||+||++|++.|++++|.++|++|.       .||+++||+||.+||+.|++++|.++|++|.+.|+.||..||+++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            3589999999999999999999997763       499999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCCh-hhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCCC-----CcccHHHHHHHHHhcC
Q 005881           83 VSACASRGDA-RSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLER-----NSISWVSLLSSYCQCG  156 (672)
Q Consensus        83 l~~~~~~~~~-~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~li~~~~~~g  156 (672)
                      |.++++.|+. +.|.+++++|.+.|+.||..+|++++....+.+-++.+.+++..+..+     .+.+...|...|.+.+
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s~d~  286 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDG  286 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHCCCS
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHccCC
Confidence            9999999985 789999999999999999999999999888776666665554443321     2334455666666555

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.64  E-value=5.2e-15  Score=135.16  Aligned_cols=193  Identities=16%  Similarity=0.131  Sum_probs=156.0

Q ss_pred             CCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHH
Q 005881          411 DSNVVIGSALVDMYAKCGRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NTFIGV  486 (672)
Q Consensus       411 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~l  486 (672)
                      +++...+..+...+.+.|++++|...|++..+   .+...|..+...+.+.|++++|+..|++..+.  .|+. ..+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVAR--TPRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHH
Confidence            45667778888899999999999999998763   45668889999999999999999999999984  5654 578888


Q ss_pred             HHHhhcc-----------CcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCCCHHHHHH
Q 005881          487 LSACVHI-----------GLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEPNKVVWRC  553 (672)
Q Consensus       487 l~~~~~~-----------g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~  553 (672)
                      ...+...           |++++|+..|++..+   +.| +...+..+..+|...|++++|++.+++. ....++..|..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~---~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAER---VNPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHH---hCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHH
Confidence            8899999           999999999999884   356 5688999999999999999999999863 11268889999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHH
Q 005881          554 LLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIM  608 (672)
Q Consensus       554 l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  608 (672)
                      +...+...|++++|...++++++++|+++..+..++.++...|++++|.+.+++.
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999998865

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.63  E-value=1.8e-16  Score=166.73  Aligned_cols=148  Identities=14%  Similarity=0.141  Sum_probs=117.0

Q ss_pred             cHHHHHHHHHHhhcCCChhHHHHHHhcCC-------CCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHH
Q 005881          211 DKFVAMGLINLYAKCEKLDLASRVFSNIQ-------LPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSY  283 (672)
Q Consensus       211 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~-------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~  283 (672)
                      -..+|++||++|++.|++++|.++|+.|.       .||+.+||+||.+|++.|++++|.++|++|.+.|+.||.+||++
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            34578888888888888888888886542       58999999999999999999999999999999999999999999


Q ss_pred             HHHHhhccCCc-hhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCC-----CCcccHHHHHHHHHhc
Q 005881          284 VLGAFADVKET-IGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDE-----HDVVSWNALIAGHLAS  357 (672)
Q Consensus       284 ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~li~~~~~~  357 (672)
                      +|.++++.|+. +.|.+++++|.+.|+.||..+|++++..+.+.+-++...+++..+..     +.+.+...|...|.+.
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s~d  285 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKD  285 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHCCC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHccC
Confidence            99999999985 78899999999999999999999998877666555444444333332     1133444455556554


Q ss_pred             C
Q 005881          358 C  358 (672)
Q Consensus       358 ~  358 (672)
                      +
T Consensus       286 ~  286 (1134)
T 3spa_A          286 G  286 (1134)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=99.62  E-value=3.8e-14  Score=139.06  Aligned_cols=273  Identities=11%  Similarity=0.034  Sum_probs=145.2

Q ss_pred             cchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHH
Q 005881          243 LTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDF  322 (672)
Q Consensus       243 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  322 (672)
                      ...|..+...+...|++++|..+|+++.+.. +.+...+                                   ..+..+
T Consensus        21 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~-----------------------------------~~l~~~   64 (327)
T 3cv0_A           21 HENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAW-----------------------------------RSLGLT   64 (327)
T ss_dssp             SSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH-----------------------------------HHHHHH
T ss_pred             hHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHH-----------------------------------HHHHHH
Confidence            3445566666777777777777777766542 1122333                                   334444


Q ss_pred             HHccCChHHHHHHHhhCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHH-HHHHHHHHcCcCchHHH
Q 005881          323 YSKCELLEESLKTFDEMDE---HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYT-YSNILNISSDIPAIEWG  398 (672)
Q Consensus       323 ~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t-~~~ll~~~~~~~~~~~a  398 (672)
                      +...|++++|...|+++.+   .+...+..+...+...|++++|++.++++...  .|+... +..+...+         
T Consensus        65 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~---------  133 (327)
T 3cv0_A           65 QAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWLLS--QPQYEQLGSVNLQAD---------  133 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--STTTTTC-----------------
T ss_pred             HHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccHHHHHHHhHHH---------
Confidence            4445555555555544432   23445566666667777777777777776654  232211 11110000         


Q ss_pred             HHHHHHHHhcCCCCcccHHHHH-HH-HHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 005881          399 KQTHCCIVKPGFDSNVVIGSAL-VD-MYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQE  473 (672)
Q Consensus       399 ~~~~~~~~~~~~~~~~~~~~~l-~~-~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  473 (672)
                                   |+......+ .. .+...|++++|.+.++++.   ..+...+..+...+...|++++|.+.++++.+
T Consensus       134 -------------~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  200 (327)
T 3cv0_A          134 -------------VDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHASLGVLYNLSNNYDSAAANLRRAVE  200 (327)
T ss_dssp             -------------------------CCTTSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -------------HHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence                         000000111 11 2444555555555555543   22344566666666666666666666666665


Q ss_pred             CCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-----
Q 005881          474 NKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-----  546 (672)
Q Consensus       474 ~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-----  546 (672)
                      .. +.+..++..+...+...|++++|...++++.+.   .| +...+..++.+|.+.|++++|.+.+++. ...|     
T Consensus       201 ~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~  276 (327)
T 3cv0_A          201 LR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDI---NPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTP  276 (327)
T ss_dssp             HC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-
T ss_pred             hC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccc
Confidence            32 223445666666666666666666666666532   23 4556666666666666666666666542 1122     


Q ss_pred             --------CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 005881          547 --------NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDP  579 (672)
Q Consensus       547 --------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  579 (672)
                              +...|..+...+...|+.+.|...++++++..|
T Consensus       277 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~  317 (327)
T 3cv0_A          277 TGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVEPFA  317 (327)
T ss_dssp             ----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSHHHH
T ss_pred             cccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcc
Confidence                    245666677777777777777777776655444

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.61  E-value=3e-14  Score=134.43  Aligned_cols=216  Identities=10%  Similarity=0.047  Sum_probs=165.3

Q ss_pred             cHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHH
Q 005881          346 SWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYA  425 (672)
Q Consensus       346 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  425 (672)
                      .|..+...+...|++++|+..|++..+..  .                                   +...+..+...|.
T Consensus         7 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~-----------------------------------~~~~~~~~~~~~~   49 (258)
T 3uq3_A            7 KEKAEGNKFYKARQFDEAIEHYNKAWELH--K-----------------------------------DITYLNNRAAAEY   49 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--C-----------------------------------CTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhh--c-----------------------------------cHHHHHHHHHHHH
Confidence            44555556666666666666666665543  3                                   3444455566666


Q ss_pred             hcCCHHHHHHHHhhCCC--C----C----chhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCc
Q 005881          426 KCGRLNDARKVFDHLSS--K----N----LVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGL  495 (672)
Q Consensus       426 ~~g~~~~A~~~~~~~~~--~----~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  495 (672)
                      ..|++++|.+.|+...+  |    +    ...|..+...|...|++++|++.|++...  +.|+..       .+...|+
T Consensus        50 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~--~~~~~~-------~~~~~~~  120 (258)
T 3uq3_A           50 EKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLT--EHRTAD-------ILTKLRN  120 (258)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCCCHH-------HHHHHHH
T ss_pred             HcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHh--cCchhH-------HHHHHhH
Confidence            66666666666665542  1    1    45778888888899999999999999888  456643       3556688


Q ss_pred             HHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 005881          496 VEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAE  572 (672)
Q Consensus       496 ~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~  572 (672)
                      +++|...++.+..   ..| +...+..++..+...|++++|.+.+++. ...| +...|..+...+...|++++|...++
T Consensus       121 ~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  197 (258)
T 3uq3_A          121 AEKELKKAEAEAY---VNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCN  197 (258)
T ss_dssp             HHHHHHHHHHHHH---CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH---cCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            8999999988773   345 4678888999999999999999998763 2334 57788889999999999999999999


Q ss_pred             HHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          573 KILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       573 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ++++..|+++..+..++.+|...|++++|.+.+++..+
T Consensus       198 ~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  235 (258)
T 3uq3_A          198 KAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAART  235 (258)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999998875

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.60  E-value=2.2e-13  Score=141.25  Aligned_cols=382  Identities=11%  Similarity=-0.031  Sum_probs=221.7

Q ss_pred             CChhhHHHHHHHHhccCChHHHHHHHHHHHHh-----c--CCC-cHHHHHHHHHHhhcCCChhHHHHHHhcCCC------
Q 005881          175 ISEFSCASVLGACAVLGNLKVGMQIHSLVFKC-----A--LEF-DKFVAMGLINLYAKCEKLDLASRVFSNIQL------  240 (672)
Q Consensus       175 p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~--~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~------  240 (672)
                      .....|+.+-..+...|+.++|.+.+++.++.     +  ..| ...+|+.+...|...|++++|...+++..+      
T Consensus        49 ~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~  128 (472)
T 4g1t_A           49 FKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFS  128 (472)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcc
Confidence            34557888888888999999999999887653     1  122 345788888999999999999888776531      


Q ss_pred             ----C-CcchHHHHHHHHHh--cCChhHHHHHHHHHHHCCCCCChhh-HHHHHH---HhhccCCchhHHHHHHHHHHhCC
Q 005881          241 ----P-DLTAWSALIGGYAQ--LGKACEAIDLFVKMFSSGLMPSEVT-FSYVLG---AFADVKETIGGRQLHSLIIKMGF  309 (672)
Q Consensus       241 ----~-~~~~~~~li~~~~~--~~~~~~a~~~~~~m~~~~~~p~~~t-~~~ll~---~~~~~~~~~~a~~~~~~~~~~~~  309 (672)
                          + ...++..+..++..  .+++++|+..|++..+.  .|+... +..+..   .+...++.+.|.+.++..++.. 
T Consensus       129 ~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-  205 (472)
T 4g1t_A          129 SPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-  205 (472)
T ss_dssp             CSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-
T ss_pred             cccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-
Confidence                1 12344444444444  45688999999988775  455433 222222   2345677788888888887765 


Q ss_pred             CCchHHHHHHHHHHH----ccCChHHHHHHHhhCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCh-HH
Q 005881          310 SSFTFVANTVLDFYS----KCELLEESLKTFDEMDE---HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNL-YT  381 (672)
Q Consensus       310 ~~~~~~~~~li~~~~----~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~t  381 (672)
                      +.+..++..+...+.    ..+++++|.+.+++...   .+...+..+...|...|++++|+..+++..+.  .|+. ..
T Consensus       206 p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~  283 (472)
T 4g1t_A          206 PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPNNAYL  283 (472)
T ss_dssp             SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHH
T ss_pred             CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCChHHH
Confidence            233444444444443    34667788888877543   45567788888888999999999999888765  4543 33


Q ss_pred             HHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhc
Q 005881          382 YSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQH  458 (672)
Q Consensus       382 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~  458 (672)
                      +..+..++...+..         .....       ...........+..+.|...|+...   ..+..+|..+...|...
T Consensus       284 ~~~lg~~y~~~~~~---------~~~~~-------~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~  347 (472)
T 4g1t_A          284 HCQIGCCYRAKVFQ---------VMNLR-------ENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALA  347 (472)
T ss_dssp             HHHHHHHHHHHHHH---------HHHC-------------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHH---------hhhHH-------HHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHh
Confidence            33333222111000         00000       0001111112234667777777664   45566889999999999


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHH--HHHHHHH-HhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHH
Q 005881          459 GLGREALEIYSMMQENKIKPNDN--TFIGVLS-ACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRA  535 (672)
Q Consensus       459 g~~~~A~~~~~~m~~~g~~p~~~--~~~~ll~-~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  535 (672)
                      |++++|++.|++.++....|...  .+..+.. .....|+.++|+..|++..   .+.|+........         ..+
T Consensus       348 ~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal---~i~~~~~~~~~~~---------~~l  415 (472)
T 4g1t_A          348 DQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGV---KINQKSREKEKMK---------DKL  415 (472)
T ss_dssp             TCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHH---HSCCCCHHHHHHH---------HHH
T ss_pred             ccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH---hcCcccHHHHHHH---------HHH
Confidence            99999999999999854333222  2233332 2357799999999999887   4566543322222         222


Q ss_pred             HHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHH
Q 005881          536 YEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLS  589 (672)
Q Consensus       536 ~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  589 (672)
                      .+++++ +...| +..+|..+...+...|++++|+..|+++++++|.+|.+...++
T Consensus       416 ~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~G  471 (472)
T 4g1t_A          416 QKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWNG  471 (472)
T ss_dssp             HHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC------------------------
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcCC
Confidence            333322 12234 5668999999999999999999999999999999888776654

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.57  E-value=5.8e-14  Score=132.43  Aligned_cols=236  Identities=11%  Similarity=0.040  Sum_probs=174.0

Q ss_pred             hHHHHHHHHHHHccCChHHHHHHHhhCCC--CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCC--CChHHHHHHHHH
Q 005881          313 TFVANTVLDFYSKCELLEESLKTFDEMDE--HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHC--PNLYTYSNILNI  388 (672)
Q Consensus       313 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~--p~~~t~~~ll~~  388 (672)
                      ...+..+...+...|++++|...|++..+  .+...|..+...+...|++++|++.+++..+....  |+...       
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~-------   77 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKV-------   77 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHH-------
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHH-------
Confidence            45678888999999999999999987643  66778899999999999999999999998764211  11100       


Q ss_pred             HcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCchhHHHHHHHHHhcCChHHHHH
Q 005881          389 SSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSS--KNLVSWNTMLVGYAQHGLGREALE  466 (672)
Q Consensus       389 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~  466 (672)
                                              ...++..+...|...|++++|.+.|++..+  |+       ...+...|++++|.+
T Consensus        78 ------------------------~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-------~~~~~~~~~~~~a~~  126 (258)
T 3uq3_A           78 ------------------------ISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRT-------ADILTKLRNAEKELK  126 (258)
T ss_dssp             ------------------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-------HHHHHHHHHHHHHHH
T ss_pred             ------------------------HHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCch-------hHHHHHHhHHHHHHH
Confidence                                    023345566666666777777776666552  33       234556677888888


Q ss_pred             HHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-CC
Q 005881          467 IYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-PI  544 (672)
Q Consensus       467 ~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~  544 (672)
                      .++++...  .|+. ..+..+...+...|++++|...++.+.+..  +.+...+..++.+|.+.|++++|.+.+++. ..
T Consensus       127 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  202 (258)
T 3uq3_A          127 KAEAEAYV--NPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIEK  202 (258)
T ss_dssp             HHHHHHHC--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHc--CcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            88888874  4444 467777888888888888888888887432  235677888888888888888888888753 23


Q ss_pred             CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC------CCCCchHHHHHH
Q 005881          545 EP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTD------PEDTSAHIMLSN  590 (672)
Q Consensus       545 ~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~------p~~~~~~~~l~~  590 (672)
                      .| +...|..+...+...|++++|...+++++++.      |++...+..+..
T Consensus       203 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~~  255 (258)
T 3uq3_A          203 DPNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYK  255 (258)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHHH
Confidence            34 56788888888999999999999999999988      776666655544

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.56  E-value=1.4e-13  Score=131.29  Aligned_cols=241  Identities=8%  Similarity=-0.056  Sum_probs=182.2

Q ss_pred             hcCChhHHHHHHHHHHhCCCC--C-ChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHH
Q 005881          356 ASCHYGEAIELLKDMLFEGHC--P-NLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLND  432 (672)
Q Consensus       356 ~~~~~~~A~~~~~~m~~~g~~--p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  432 (672)
                      ..|++++|++.|+++.+....  | +...+..+...+...|++++|...+..+.+... .+..++..+...|...|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHccCHHH
Confidence            346677777777777765321  1 344566666677777888888888777776642 356677888899999999999


Q ss_pred             HHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHh
Q 005881          433 ARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRD  509 (672)
Q Consensus       433 A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  509 (672)
                      |.+.|+++.   ..+...|..+...|...|++++|.+.|+++.+  +.|+.......+..+...|++++|...++.....
T Consensus        96 A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           96 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQ--DDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            999999876   34577899999999999999999999999998  4566665555556667789999999999887744


Q ss_pred             hCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-CCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 005881          510 HGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-PIEPN-----KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTS  583 (672)
Q Consensus       510 ~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  583 (672)
                      .  +++...+ .++..+...++.++|.+.+++. ...|+     ...|..+...+...|++++|...++++++++|++..
T Consensus       174 ~--~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  250 (275)
T 1xnf_A          174 S--DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFV  250 (275)
T ss_dssp             S--CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCH
T ss_pred             C--CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHH
Confidence            2  3343444 4777788888889999998763 33332     467888888999999999999999999999997754


Q ss_pred             hHHHHHHHHHhcCChHHHHHHH
Q 005881          584 AHIMLSNVYAEANMWDETAKVR  605 (672)
Q Consensus       584 ~~~~l~~~~~~~g~~~~a~~~~  605 (672)
                      .   .+.++...|++++|.+.+
T Consensus       251 ~---~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          251 E---HRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             H---HHHHHHHHHHHHHC----
T ss_pred             H---HHHHHHHHHHHHhhHHHH
Confidence            4   466788889999988776

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.55  E-value=2.4e-13  Score=129.41  Aligned_cols=238  Identities=12%  Similarity=0.010  Sum_probs=131.6

Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCC-ChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCc--ccHHHHHHHHHHhcC
Q 005881          352 AGHLASCHYGEAIELLKDMLFEGHCP-NLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSN--VVIGSALVDMYAKCG  428 (672)
Q Consensus       352 ~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g  428 (672)
                      ..+...|++++|+..|++..+.  .| +...+..+...+...|+++.|...+..+.+....++  ...+..+...|...|
T Consensus        11 ~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~   88 (272)
T 3u4t_A           11 DFLFKNNNYAEAIEVFNKLEAK--KYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKG   88 (272)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHT--TCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhcCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcc
Confidence            3334444444444444444432  12 112333333344444444444444444443211111  112455666666666


Q ss_pred             CHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHH
Q 005881          429 RLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFN  504 (672)
Q Consensus       429 ~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~  504 (672)
                      ++++|.+.|++..   ..+...|..+...|...|++++|++.|++..+.  .|+. ..+..+...+...+++++|...|+
T Consensus        89 ~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  166 (272)
T 3u4t_A           89 QDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELGQAYYYNKEYVKADSSFV  166 (272)
T ss_dssp             CHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666654   234456666777777777777777777776664  3333 344444423334457777777777


Q ss_pred             HhHHhhCCCC-chHHHHHHHHHhhccCC---hHHHHHHHHhC----CCCCC------HHHHHHHHHHHHhcCCHHHHHHH
Q 005881          505 SMIRDHGISP-RMDHIASVVHLFACRGQ---TRRAYEFIKSS----PIEPN------KVVWRCLLSGCKTHKDLVLGRYA  570 (672)
Q Consensus       505 ~~~~~~~~~p-~~~~~~~l~~~~~~~g~---~~~A~~~~~~~----~~~p~------~~~~~~l~~~~~~~g~~~~a~~~  570 (672)
                      .+.+.   .| +...+..+..++...|+   +++|...+++.    ...|+      ..+|..+...+...|++++|...
T Consensus       167 ~a~~~---~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  243 (272)
T 3u4t_A          167 KVLEL---KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAA  243 (272)
T ss_dssp             HHHHH---STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHh---CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            66632   33 34556666666666665   55565555432    11233      24667777888899999999999


Q ss_pred             HHHHhcCCCCCCchHHHHHHHHHhcC
Q 005881          571 AEKILSTDPEDTSAHIMLSNVYAEAN  596 (672)
Q Consensus       571 ~~~~~~~~p~~~~~~~~l~~~~~~~g  596 (672)
                      ++++++++|+++.++..+..+....+
T Consensus       244 ~~~al~~~p~~~~a~~~l~~~~~~~~  269 (272)
T 3u4t_A          244 WKNILALDPTNKKAIDGLKMKLEHHH  269 (272)
T ss_dssp             HHHHHHHCTTCHHHHHHHC-------
T ss_pred             HHHHHhcCccHHHHHHHhhhhhcccc
Confidence            99999999999888877766655443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.53  E-value=1.1e-12  Score=134.02  Aligned_cols=366  Identities=10%  Similarity=0.050  Sum_probs=202.2

Q ss_pred             ccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCCh---hHHHHHHhcCCCCCcchHHHHHHHHHhcC-----Chh
Q 005881          189 VLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKL---DLASRVFSNIQLPDLTAWSALIGGYAQLG-----KAC  260 (672)
Q Consensus       189 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~---~~a~~~~~~~~~~~~~~~~~li~~~~~~~-----~~~  260 (672)
                      +.|++++|.+++....+.|.   ...+..|..+|...|+.   ++|...|+...+.+...+..+...+...+     +++
T Consensus        15 ~~g~~~~A~~~~~~aa~~g~---~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~~~~~~~   91 (452)
T 3e4b_A           15 KRGDTVTAQQNYQQLAELGY---SEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGATEAEHH   91 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHTC---CTGGGTCC----------------------------CHHHHHHHHHTC--CCHHHHH
T ss_pred             hCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCCCCcCHH
Confidence            34444555555555444432   11222333444445555   77777777766556666666666455554     677


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCc---hhHHHHHHHHHHhCCCCchHHHHHHHHHHHccC----ChHHHH
Q 005881          261 EAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKET---IGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCE----LLEESL  333 (672)
Q Consensus       261 ~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~----~~~~a~  333 (672)
                      +|+..|++..+.|...   .+..+-..+...+..   ..+.+.+....+.|.   ......|...|...+    ..+.+.
T Consensus        92 ~A~~~~~~Aa~~g~~~---A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~Lg~~y~~~~~~~~~~~~a~  165 (452)
T 3e4b_A           92 EAESLLKKAFANGEGN---TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGY---PEAGLAQVLLYRTQGTYDQHLDDVE  165 (452)
T ss_dssp             HHHHHHHHHHHTTCSS---CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTC---TTHHHHHHHHHHHHTCGGGGHHHHH
T ss_pred             HHHHHHHHHHHCCCHH---HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCC---HHHHHHHHHHHHcCCCcccCHHHHH
Confidence            8888888888766433   344444444443332   334444444444443   334455666666666    344555


Q ss_pred             HHHhhCCCCCcccHHHHHHHHHhcC---ChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCC
Q 005881          334 KTFDEMDEHDVVSWNALIAGHLASC---HYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGF  410 (672)
Q Consensus       334 ~~~~~~~~~~~~~~~~li~~~~~~~---~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  410 (672)
                      .+++.....++..+..|...|...|   +.++|++.|++..+.|.. +...+                            
T Consensus       166 ~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~----------------------------  216 (452)
T 3e4b_A          166 RICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRV----------------------------  216 (452)
T ss_dssp             HHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHH----------------------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHH----------------------------
Confidence            5666666666667777777777777   777777777777766522 22221                            


Q ss_pred             CCcccHHHHHHHHHHhc----CCHHHHHHHHhhCCCCCchhHHHHHHH-H--HhcCChHHHHHHHHHHHHCCCCCCHHHH
Q 005881          411 DSNVVIGSALVDMYAKC----GRLNDARKVFDHLSSKNLVSWNTMLVG-Y--AQHGLGREALEIYSMMQENKIKPNDNTF  483 (672)
Q Consensus       411 ~~~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~~~~~~~li~~-~--~~~g~~~~A~~~~~~m~~~g~~p~~~~~  483 (672)
                             ..|..+|...    +++++|.+.|+.....++..+..|... |  ...+++++|++.|++..+.|   +...+
T Consensus       217 -------~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~  286 (452)
T 3e4b_A          217 -------DSVARVLGDATLGTPDEKTAQALLEKIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAE  286 (452)
T ss_dssp             -------HHHHHHHTCGGGSSCCHHHHHHHHHHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             -------HHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence                   2233333222    566677777766653344556666655 3  35678888888888888766   45555


Q ss_pred             HHHHHHhhccC-----cHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhc----cCChHHHHHHHHhCCCCCCHHHHHHH
Q 005881          484 IGVLSACVHIG-----LVEEGWHYFNSMIRDHGISPRMDHIASVVHLFAC----RGQTRRAYEFIKSSPIEPNKVVWRCL  554 (672)
Q Consensus       484 ~~ll~~~~~~g-----~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l  554 (672)
                      ..+...|. .|     ++++|...|++..     .-++..+..|..+|..    ..+.++|.++|++.-...++.....|
T Consensus       287 ~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~L  360 (452)
T 3e4b_A          287 LLLGKLYY-EGKWVPADAKAAEAHFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADFAI  360 (452)
T ss_dssp             HHHHHHHH-HCSSSCCCHHHHHHHHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHHH
T ss_pred             HHHHHHHH-cCCCCCCCHHHHHHHHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHHHH
Confidence            55665555 45     8888888887553     3356777777777766    44888899888764222344455555


Q ss_pred             HHHHHh----cCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHH--hcCChHHHHHHHHHHhh
Q 005881          555 LSGCKT----HKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYA--EANMWDETAKVRKIMKE  610 (672)
Q Consensus       555 ~~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~--~~g~~~~a~~~~~~~~~  610 (672)
                      ...|..    ..|.++|...++++.+.++.  .+...+..+..  ..++.++|.++.++..+
T Consensus       361 g~~y~~G~g~~~d~~~A~~~~~~A~~~g~~--~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          361 AQLFSQGKGTKPDPLNAYVFSQLAKAQDTP--EANDLATQLEAPLTPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             HHHHHSCTTBCCCHHHHHHHHHHHHTTCCH--HHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCCCCHHHHHHHHHHHHHCCCH--HHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            555543    45899999999999887753  34444444433  33456677777776554

>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=99.52  E-value=9.5e-13  Score=123.59  Aligned_cols=197  Identities=11%  Similarity=0.005  Sum_probs=163.9

Q ss_pred             ccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHh
Q 005881          414 VVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSAC  490 (672)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  490 (672)
                      ...+..+...+...|++++|.+.|+++.   ..+...|..+...|...|++++|.+.|+++.+.. +.+...+..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            4556677778888899999998888775   3456688888899999999999999999988853 33556788888889


Q ss_pred             hccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHH
Q 005881          491 VHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLG  567 (672)
Q Consensus       491 ~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a  567 (672)
                      ...|++++|..+++++.. .+..| +...+..++.++...|++++|.+.+++. ...| +...+..+...+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHH
Confidence            999999999999998874 22455 4678888999999999999999998763 2334 577888888899999999999


Q ss_pred             HHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          568 RYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       568 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                      ...++++++..|++...+..++.+|...|++++|.+.++++.+..
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            999999999999999999999999999999999999999887643

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.50  E-value=1.4e-12  Score=133.27  Aligned_cols=343  Identities=8%  Similarity=-0.021  Sum_probs=224.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccCCc---hhHHHHHHHHHHhCCCCchHHHHHHHHHHHc
Q 005881          249 LIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVKET---IGGRQLHSLIIKMGFSSFTFVANTVLDFYSK  325 (672)
Q Consensus       249 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  325 (672)
                      +...+.+.|++++|+.+|++..+.|- ++  .+..+-..+...|+.   ++|...++...+.    ++..+..|...+..
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g~-~~--A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~   81 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELGY-SE--AQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAA   81 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTC-CT--GGGTCC--------------------------------CHHHHHHHHHT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCCC-HH--HHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHh
Confidence            56677889999999999999988763 32  233333444556666   8899998888755    44455566664544


Q ss_pred             cC-----ChHHHHHHHhhCCC-CCcccHHHHHHHHHhcCChh---HHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchH
Q 005881          326 CE-----LLEESLKTFDEMDE-HDVVSWNALIAGHLASCHYG---EAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIE  396 (672)
Q Consensus       326 ~~-----~~~~a~~~~~~~~~-~~~~~~~~li~~~~~~~~~~---~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~  396 (672)
                      .+     +.++|...|++..+ .+...+..|...|...+..+   ++.+.+......|.   ......+-..+...+.++
T Consensus        82 ~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~Lg~~y~~~~~~~  158 (452)
T 3e4b_A           82 KPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGY---PEAGLAQVLLYRTQGTYD  158 (452)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTC---TTHHHHHHHHHHHHTCGG
T ss_pred             CCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCC---HHHHHHHHHHHHcCCCcc
Confidence            44     67889998888765 35557888888888776544   44555555554443   334444555555556454


Q ss_pred             HHHHHHHHHHhcCCCCcccHHHHHHHHHHhcC---CHHHHHHHHhhCCC---CCchhHHHHHHHHHhc----CChHHHHH
Q 005881          397 WGKQTHCCIVKPGFDSNVVIGSALVDMYAKCG---RLNDARKVFDHLSS---KNLVSWNTMLVGYAQH----GLGREALE  466 (672)
Q Consensus       397 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~----g~~~~A~~  466 (672)
                      .+........+.-...++..+..|..+|.+.|   +.++|.+.|+...+   ++...+..+...|...    +++++|++
T Consensus       159 ~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~  238 (452)
T 3e4b_A          159 QHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQA  238 (452)
T ss_dssp             GGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHH
T ss_pred             cCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHH
Confidence            44444333333322334447888889999999   89999999988763   3333446677777554    68999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHH-h--hccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccC-----ChHHHHHH
Q 005881          467 IYSMMQENKIKPNDNTFIGVLSA-C--VHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRG-----QTRRAYEF  538 (672)
Q Consensus       467 ~~~~m~~~g~~p~~~~~~~ll~~-~--~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-----~~~~A~~~  538 (672)
                      .|++.. .|   +...+..+... +  ...+++++|...|++..+ .+   +...+..|..+|. .|     ++++|.++
T Consensus       239 ~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~-~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~  309 (452)
T 3e4b_A          239 LLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRA-AD---QPRAELLLGKLYY-EGKWVPADAKAAEAH  309 (452)
T ss_dssp             HHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHH
T ss_pred             HHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH-CC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHH
Confidence            999987 33   33445555554 3  568999999999998873 23   6677788888887 55     99999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHh----cCChHHHHHHHHHHhh
Q 005881          539 IKSSPIEPNKVVWRCLLSGCKT----HKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAE----ANMWDETAKVRKIMKE  610 (672)
Q Consensus       539 ~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~  610 (672)
                      |++.- ..++..+..+...|..    ..|.++|...|+++.+.  .++.+...|+.+|..    ..+.++|...+++..+
T Consensus       310 ~~~Aa-~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~--g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~  386 (452)
T 3e4b_A          310 FEKAV-GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARN--GQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKA  386 (452)
T ss_dssp             HHTTT-TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTT--TCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHT
T ss_pred             HHHHh-CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhh--ChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHH
Confidence            99877 5577788777776665    34999999999999874  468889999999986    4589999999999887


Q ss_pred             CCC
Q 005881          611 KSL  613 (672)
Q Consensus       611 ~~~  613 (672)
                      .|.
T Consensus       387 ~g~  389 (452)
T 3e4b_A          387 QDT  389 (452)
T ss_dssp             TCC
T ss_pred             CCC
Confidence            765

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.50  E-value=1.6e-12  Score=119.63  Aligned_cols=197  Identities=14%  Similarity=0.034  Sum_probs=162.3

Q ss_pred             cccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005881          413 NVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSA  489 (672)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  489 (672)
                      +...+..+...+...|++++|.+.|+.+.   ..+...|..+...|...|++++|.+.|+++.+.. +.+..++..+...
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            44556777888888899999998888765   3456688888899999999999999999988853 3455678888888


Q ss_pred             hhcc-CcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHH
Q 005881          490 CVHI-GLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLV  565 (672)
Q Consensus       490 ~~~~-g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~  565 (672)
                      +... |++++|...++.+.+ .+..| +...+..++.++...|++++|.+.+++. ...| +...+..+...+...|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHH
Confidence            9999 999999999998874 22344 3577888999999999999999998763 2334 5778888888899999999


Q ss_pred             HHHHHHHHHhcCCC-CCCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          566 LGRYAAEKILSTDP-EDTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       566 ~a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      +|...++++++..| +++..+..++.++...|+.++|...++.+.+.
T Consensus       165 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          165 DADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            99999999999999 88899999999999999999999999988653

>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=99.49  E-value=1.1e-12  Score=129.75  Aligned_cols=241  Identities=10%  Similarity=0.033  Sum_probs=168.3

Q ss_pred             cHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC-hHHHHHHHHHHcCcCc-hHHHHHHHHHHHhcCCCCcccHHHHHHHH
Q 005881          346 SWNALIAGHLASCHYGEAIELLKDMLFEGHCPN-LYTYSNILNISSDIPA-IEWGKQTHCCIVKPGFDSNVVIGSALVDM  423 (672)
Q Consensus       346 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  423 (672)
                      .|+.+...+.+.|++++|++.+++.+..  .|+ ...|..+-.++...|+ +++|...++.+++.... +...|..+..+
T Consensus        99 a~~~lg~~~~~~g~~~~Al~~~~~al~l--~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~~  175 (382)
T 2h6f_A           99 VYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHH
Confidence            4555555566666666666666666653  342 3344444455555554 66666666666554422 45566777778


Q ss_pred             HHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhc-cCcHHH
Q 005881          424 YAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVH-IGLVEE  498 (672)
Q Consensus       424 ~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~-~g~~~~  498 (672)
                      +.+.|++++|...|+++.   ..+...|..+..++...|++++|+..|+++++.  .|+ ...|..+..++.. .|..++
T Consensus       176 ~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcchH
Confidence            888888888888888776   345678888888888889999999999988884  454 4577778777777 555466


Q ss_pred             H-----HHHHHHhHHhhCCCC-chHHHHHHHHHhhccC--ChHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcC-------
Q 005881          499 G-----WHYFNSMIRDHGISP-RMDHIASVVHLFACRG--QTRRAYEFIKSSPIEP-NKVVWRCLLSGCKTHK-------  562 (672)
Q Consensus       499 a-----~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~g-------  562 (672)
                      |     +..|++.+.   +.| +...|..+..+|...|  ++++|.+.++++...| +...+..+...+...|       
T Consensus       254 A~~~~el~~~~~Al~---l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          254 AVLEREVQYTLEMIK---LVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             HHHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             HHHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccccch
Confidence            6     477777763   356 4677888888888877  5888888887765555 4557777777777653       


Q ss_pred             -C-HHHHHHHHHHH-hcCCCCCCchHHHHHHHHHh
Q 005881          563 -D-LVLGRYAAEKI-LSTDPEDTSAHIMLSNVYAE  594 (672)
Q Consensus       563 -~-~~~a~~~~~~~-~~~~p~~~~~~~~l~~~~~~  594 (672)
                       + .++|+.+++++ ++++|.....|..++..+..
T Consensus       331 ~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~  365 (382)
T 2h6f_A          331 EDILNKALELCEILAKEKDTIRKEYWRYIGRSLQS  365 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHH
Confidence             2 58899999998 89999888888877776654

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.49  E-value=7.5e-12  Score=119.01  Aligned_cols=224  Identities=10%  Similarity=-0.053  Sum_probs=153.3

Q ss_pred             CcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHH
Q 005881          343 DVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVD  422 (672)
Q Consensus       343 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  422 (672)
                      +..++..+...+...|++++|++.|++..+.+   +.                                   ..+..+..
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~-----------------------------------~a~~~lg~   46 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---EN-----------------------------------SGCFNLGV   46 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CH-----------------------------------HHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CH-----------------------------------HHHHHHHH
Confidence            34455666666777777777777777766521   12                                   22334445


Q ss_pred             HHHh----cCCHHHHHHHHhhCC-CCCchhHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhc-
Q 005881          423 MYAK----CGRLNDARKVFDHLS-SKNLVSWNTMLVGYAQ----HGLGREALEIYSMMQENKIKPNDNTFIGVLSACVH-  492 (672)
Q Consensus       423 ~~~~----~g~~~~A~~~~~~~~-~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~-  492 (672)
                      .|..    .+++++|.+.|++.. ..+...+..+...|..    .+++++|++.|++..+.+   +...+..+...+.. 
T Consensus        47 ~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~  123 (273)
T 1ouv_A           47 LYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDG  123 (273)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHC
T ss_pred             HHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcC
Confidence            5555    666666666666654 2345566667777777    777777777777777754   55666667777776 


Q ss_pred             ---cCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhc----cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHh----c
Q 005881          493 ---IGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFAC----RGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKT----H  561 (672)
Q Consensus       493 ---~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~  561 (672)
                         .+++++|...|++..+. +   +...+..+..+|..    .+++++|.+.+++.-...+...+..+...+..    .
T Consensus       124 ~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~  199 (273)
T 1ouv_A          124 KVVTRDFKKAVEYFTKACDL-N---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGAT  199 (273)
T ss_dssp             SSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSC
T ss_pred             CCcccCHHHHHHHHHHHHhc-C---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCC
Confidence               77888888887777632 2   45566677777776    77888888877653212355667777777777    8


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHh----cCChHHHHHHHHHHhhCCC
Q 005881          562 KDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAE----ANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       562 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~  613 (672)
                      +++++|...++++++.+|  +..+..++.+|..    .+++++|.+.+++..+.+.
T Consensus       200 ~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          200 KNFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             CCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             ccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCC
Confidence            888888888888888765  6778888888888    8888888888888766543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.48  E-value=7e-13  Score=123.68  Aligned_cols=196  Identities=11%  Similarity=0.085  Sum_probs=142.2

Q ss_pred             cccHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005881          413 NVVIGSALVDMYAKCGRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSA  489 (672)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  489 (672)
                      ....+..+...+...|++++|...|+++.+   .+...|..+...+...|++++|++.|+++.+.. +.+...+..+...
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  100 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNV  100 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHH
Confidence            445556677777888888888888887752   355677888888888999999999998888752 3355677888888


Q ss_pred             hhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHH
Q 005881          490 CVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLG  567 (672)
Q Consensus       490 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a  567 (672)
                      +...|++++|...++++.+..  +.+...+..++..+.+.|++++|.+.+++. ...| +...+..+...+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRAG--MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHT--CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHH
Confidence            888899999999998887432  235677888888899999999999888763 2233 567788888888899999999


Q ss_pred             HHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          568 RYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       568 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      ...++++++..|+++..+..++.+|...|++++|.+.++++.+.
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          179 LSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            99999999999988889999999999999999999999988763

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.47  E-value=2.8e-12  Score=113.73  Aligned_cols=164  Identities=15%  Similarity=0.096  Sum_probs=138.3

Q ss_pred             CchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHH
Q 005881          444 NLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIAS  521 (672)
Q Consensus       444 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~  521 (672)
                      +...|..+...|...|++++|++.|++.++.  .|+. .++..+..++.+.|++++|...+......   .| +...+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~   78 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKA--DPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL---DTTSAEAYYI   78 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CchhHHHHHH
Confidence            4567888888899999999999999998884  5554 57888888889999999999999887743   34 5677778


Q ss_pred             HHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChH
Q 005881          522 VVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWD  599 (672)
Q Consensus       522 l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  599 (672)
                      +...+...+++++|.+.+++. ...| +...+..+...+...|++++|+..++++++++|+++.++..++.+|.+.|+++
T Consensus        79 ~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           79 LGSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHH
Confidence            888889999999999888753 3344 56788888888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhCC
Q 005881          600 ETAKVRKIMKEKS  612 (672)
Q Consensus       600 ~a~~~~~~~~~~~  612 (672)
                      +|.+.+++..+.+
T Consensus       159 ~A~~~~~~al~~~  171 (184)
T 3vtx_A          159 EAVKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCC
Confidence            9999999987644

>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=99.47  E-value=2.3e-12  Score=127.34  Aligned_cols=222  Identities=10%  Similarity=0.090  Sum_probs=187.3

Q ss_pred             HHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCC-HHHHHHHHhhCC---CCCchhHHHHHHHH
Q 005881          380 YTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGR-LNDARKVFDHLS---SKNLVSWNTMLVGY  455 (672)
Q Consensus       380 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~---~~~~~~~~~li~~~  455 (672)
                      ..|..+-..+...|++++|...++.+++... .+...|+.+...+...|+ +++|+..|+++.   ..+...|+.+...+
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P-~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~  176 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELNA-ANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            3455666677889999999999999998763 356778889999999997 999999999987   34667999999999


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhc-cCCh
Q 005881          456 AQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFAC-RGQT  532 (672)
Q Consensus       456 ~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~-~g~~  532 (672)
                      ...|++++|+..|+++++.  .|+ ...|..+..++...|++++|+..|+++++   +.| +...|..+..+|.+ .|..
T Consensus       177 ~~~g~~~eAl~~~~kal~l--dP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~---l~P~~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLK---EDVRNNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCSC
T ss_pred             HHccCHHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcCChHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHhcCcc
Confidence            9999999999999999994  555 46899999999999999999999999984   356 67889999999999 6666


Q ss_pred             HHH-----HHHHHh-CCCCC-CHHHHHHHHHHHHhcC--CHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcC-------
Q 005881          533 RRA-----YEFIKS-SPIEP-NKVVWRCLLSGCKTHK--DLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEAN-------  596 (672)
Q Consensus       533 ~~A-----~~~~~~-~~~~p-~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-------  596 (672)
                      ++|     ++.+++ +.+.| +...|..+...+...|  ++++|...++++ +.+|+++.++..++++|.+.|       
T Consensus       252 ~eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             hHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccch
Confidence            777     466654 34566 5668888888888888  689999999998 999999999999999999975       


Q ss_pred             --ChHHHHHHHHHH
Q 005881          597 --MWDETAKVRKIM  608 (672)
Q Consensus       597 --~~~~a~~~~~~~  608 (672)
                        ..++|.++++++
T Consensus       331 ~~~~~~A~~~~~~l  344 (382)
T 2h6f_A          331 EDILNKALELCEIL  344 (382)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence              358999999988

>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=99.47  E-value=9.6e-12  Score=118.27  Aligned_cols=225  Identities=8%  Similarity=-0.108  Sum_probs=166.1

Q ss_pred             chHHHHHHHHHHHccCChHHHHHHHhhCCCC-CcccHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCChHHHHHHH
Q 005881          312 FTFVANTVLDFYSKCELLEESLKTFDEMDEH-DVVSWNALIAGHLA----SCHYGEAIELLKDMLFEGHCPNLYTYSNIL  386 (672)
Q Consensus       312 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~li~~~~~----~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll  386 (672)
                      +...+..+...|...|++++|...|++..++ +...+..+...|..    .+++++|++.|++..+.+   +...+    
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~----   77 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGC----   77 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH----
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHH----
Confidence            5667778888999999999999999987664 45677788888888    999999999999988764   33333    


Q ss_pred             HHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHh----cCCHHHHHHHHhhCC-CCCchhHHHHHHHHHh----
Q 005881          387 NISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAK----CGRLNDARKVFDHLS-SKNLVSWNTMLVGYAQ----  457 (672)
Q Consensus       387 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~-~~~~~~~~~li~~~~~----  457 (672)
                                                     ..+...|..    .+++++|.+.|++.. ..+...+..+...|..    
T Consensus        78 -------------------------------~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~  126 (273)
T 1ouv_A           78 -------------------------------HLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVV  126 (273)
T ss_dssp             -------------------------------HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSS
T ss_pred             -------------------------------HHHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCc
Confidence                                           334444444    566666666666554 2345566777777777    


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhc----cCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhc----c
Q 005881          458 HGLGREALEIYSMMQENKIKPNDNTFIGVLSACVH----IGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFAC----R  529 (672)
Q Consensus       458 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~  529 (672)
                      .+++++|++.|++..+.+   +...+..+...+..    .+++++|...|++..+.    .+...+..+..+|..    .
T Consensus       127 ~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~~  199 (273)
T 1ouv_A          127 TRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGAT  199 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSC
T ss_pred             ccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCC
Confidence            788888888888888754   44556666666766    78888888888877642    245677778888888    8


Q ss_pred             CChHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHhcCCCCC
Q 005881          530 GQTRRAYEFIKSSPIEPNKVVWRCLLSGCKT----HKDLVLGRYAAEKILSTDPED  581 (672)
Q Consensus       530 g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~p~~  581 (672)
                      +++++|.+.+++.-...+...+..+...+..    .+++++|...++++++++|++
T Consensus       200 ~~~~~A~~~~~~a~~~~~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~  255 (273)
T 1ouv_A          200 KNFKEALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKG  255 (273)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             ccHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCCHH
Confidence            8888888888763212236677777788887    899999999999999998843

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.46  E-value=4.1e-13  Score=138.16  Aligned_cols=190  Identities=7%  Similarity=-0.052  Sum_probs=162.4

Q ss_pred             cccHHHHHHHHHHhcCCH-HHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005881          413 NVVIGSALVDMYAKCGRL-NDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLS  488 (672)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  488 (672)
                      +...+..+...|...|++ ++|.+.|++..   ..+...|..+...|...|++++|.+.|++..+  +.|+...+..+..
T Consensus       101 ~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~lg~  178 (474)
T 4abn_A          101 EAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALT--HCKNKVSLQNLSM  178 (474)
T ss_dssp             CHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TCCCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCHHHHHHHHH
Confidence            455566677777778888 88888887765   33466889999999999999999999999998  4688788888999


Q ss_pred             Hhhcc---------CcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhcc--------CChHHHHHHHHhC-CCCC---
Q 005881          489 ACVHI---------GLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACR--------GQTRRAYEFIKSS-PIEP---  546 (672)
Q Consensus       489 ~~~~~---------g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~--------g~~~~A~~~~~~~-~~~p---  546 (672)
                      .+...         |++++|+..|++..+.   .| +...|..++.+|...        |++++|.+.|++. ...|   
T Consensus       179 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~  255 (474)
T 4abn_A          179 VLRQLQTDSGDEHSRHVMDSVRQAKLAVQM---DVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKAS  255 (474)
T ss_dssp             HHTTCCCSCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGG
T ss_pred             HHHHhccCChhhhhhhHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcc
Confidence            99999         9999999999998843   45 578899999999988        9999999999763 3455   


Q ss_pred             -CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHH
Q 005881          547 -NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKI  607 (672)
Q Consensus       547 -~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  607 (672)
                       +...|..+...+...|++++|...++++++++|+++.++..++.++...|++++|.+.+.+
T Consensus       256 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          256 SNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             GCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence             6778999999999999999999999999999999999999999999999999999976543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.45  E-value=4e-12  Score=120.87  Aligned_cols=226  Identities=9%  Similarity=-0.005  Sum_probs=182.0

Q ss_pred             HHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCch----hHHHHHHHH
Q 005881          382 YSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSS--KNLV----SWNTMLVGY  455 (672)
Q Consensus       382 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~----~~~~li~~~  455 (672)
                      +......+...|+++.|...+..+.+... .+...+..+...|...|++++|.+.|+...+  ++..    .|..+...+
T Consensus         6 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~   84 (272)
T 3u4t_A            6 EFRYADFLFKNNNYAEAIEVFNKLEAKKY-NSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKIL   84 (272)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHTTC-CCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHH
Confidence            44455678889999999999999988653 3455788889999999999999999998764  3332    488899999


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHH
Q 005881          456 AQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRR  534 (672)
Q Consensus       456 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~  534 (672)
                      ...|++++|++.|++..+.. +.+...+..+...+...|++++|...|++..   ...| +...+..++..+...+++++
T Consensus        85 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al---~~~~~~~~~~~~l~~~~~~~~~~~~  160 (272)
T 3u4t_A           85 MKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQI---RPTTTDPKVFYELGQAYYYNKEYVK  160 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGC---CSSCCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHh---hcCCCcHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999852 3344788999999999999999999999887   4456 56778888834444569999


Q ss_pred             HHHHHHhC-CCCC-CHHHHHHHHHHHHhcCC---HHHHHHHHHHHhcCC---CCC-----CchHHHHHHHHHhcCChHHH
Q 005881          535 AYEFIKSS-PIEP-NKVVWRCLLSGCKTHKD---LVLGRYAAEKILSTD---PED-----TSAHIMLSNVYAEANMWDET  601 (672)
Q Consensus       535 A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~---p~~-----~~~~~~l~~~~~~~g~~~~a  601 (672)
                      |.+.+++. ...| +...+..+...+...|+   .++|...+++++++.   |+.     ..++..++.+|...|++++|
T Consensus       161 A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  240 (272)
T 3u4t_A          161 ADSSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKA  240 (272)
T ss_dssp             HHHHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHH
Confidence            99999763 3445 46677777788887788   888999999998875   432     25788899999999999999


Q ss_pred             HHHHHHHhhCC
Q 005881          602 AKVRKIMKEKS  612 (672)
Q Consensus       602 ~~~~~~~~~~~  612 (672)
                      .+.+++..+..
T Consensus       241 ~~~~~~al~~~  251 (272)
T 3u4t_A          241 DAAWKNILALD  251 (272)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHhcC
Confidence            99999987643

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.44  E-value=1.7e-12  Score=121.04  Aligned_cols=214  Identities=10%  Similarity=0.063  Sum_probs=147.1

Q ss_pred             cccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHH
Q 005881          344 VVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDM  423 (672)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  423 (672)
                      ...|..+...+...|++++|...|+++.+.  .|+                                  +...+..+...
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~~~----------------------------------~~~~~~~la~~   66 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEE--NKE----------------------------------DAIPYINFANL   66 (243)
T ss_dssp             -------------------CCTTHHHHHTT--CTT----------------------------------CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHh--Ccc----------------------------------cHHHHHHHHHH
Confidence            344555666666667777777777666653  221                                  23444556666


Q ss_pred             HHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHH
Q 005881          424 YAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGW  500 (672)
Q Consensus       424 ~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~  500 (672)
                      |...|++++|.+.|+++.   ..+...|..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|.
T Consensus        67 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~  145 (243)
T 2q7f_A           67 LSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLAL  145 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHH
Confidence            777777777777777665   3455678888888899999999999999988853 345667888888899999999999


Q ss_pred             HHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC
Q 005881          501 HYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTD  578 (672)
Q Consensus       501 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  578 (672)
                      ..++++.+..  +.+...+..++.++.+.|++++|.+.+++. ...| +...|..+...+...|++++|...++++++++
T Consensus       146 ~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          146 PYLQRAVELN--ENDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHC--TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhC--CccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            9999887432  235778888999999999999999998763 2233 57788889999999999999999999999999


Q ss_pred             CCCCchHHHHHHHHHhcC
Q 005881          579 PEDTSAHIMLSNVYAEAN  596 (672)
Q Consensus       579 p~~~~~~~~l~~~~~~~g  596 (672)
                      |+++..+..++.+....|
T Consensus       224 p~~~~~~~~~~~l~~~~~  241 (243)
T 2q7f_A          224 PDHMLALHAKKLLGHHHH  241 (243)
T ss_dssp             TTCHHHHHHHTC------
T ss_pred             cchHHHHHHHHHHHhhcc
Confidence            999888887766654433

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.44  E-value=7.1e-13  Score=134.62  Aligned_cols=196  Identities=12%  Similarity=-0.004  Sum_probs=139.8

Q ss_pred             cHHHHHHHHHHhcCCHHHHHHHHhhCCC-----C----CchhHHHHHHHHHhcCC-----------------hHHHHHHH
Q 005881          415 VIGSALVDMYAKCGRLNDARKVFDHLSS-----K----NLVSWNTMLVGYAQHGL-----------------GREALEIY  468 (672)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~----~~~~~~~li~~~~~~g~-----------------~~~A~~~~  468 (672)
                      .++..+...|...|++++|.+.|++...     .    ...++..+...|...|+                 +++|++.+
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            4455666677777777777777766542     1    12366777778888888                 88888888


Q ss_pred             HHHHHC----CCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc----hHHHHHHHHHhhccCChHHHHHHH
Q 005881          469 SMMQEN----KIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR----MDHIASVVHLFACRGQTRRAYEFI  539 (672)
Q Consensus       469 ~~m~~~----g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~  539 (672)
                      ++..+.    +-.|.. .++..+...+...|++++|...+++..+...-.++    ...+..++.+|...|++++|.+.+
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            776542    111222 36777888888899999999988887643211112    236788888999999999998888


Q ss_pred             HhC-------CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC------CchHHHHHHHHHhcCChHHHHHHH
Q 005881          540 KSS-------PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPED------TSAHIMLSNVYAEANMWDETAKVR  605 (672)
Q Consensus       540 ~~~-------~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~~~~  605 (672)
                      ++.       +..+ ...++..+...+...|++++|...+++++++.+..      ..++..++.+|...|++++|.+.+
T Consensus       287 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  366 (411)
T 4a1s_A          287 KRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYA  366 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHH
Confidence            652       1111 14567778888899999999999999998875532      347889999999999999999999


Q ss_pred             HHHhh
Q 005881          606 KIMKE  610 (672)
Q Consensus       606 ~~~~~  610 (672)
                      ++..+
T Consensus       367 ~~al~  371 (411)
T 4a1s_A          367 EQHLQ  371 (411)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            88764

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.44  E-value=1.6e-12  Score=123.79  Aligned_cols=219  Identities=12%  Similarity=-0.009  Sum_probs=177.5

Q ss_pred             HcCcCchHHHHHHHHHHHhcCC---CCcccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChH
Q 005881          389 SSDIPAIEWGKQTHCCIVKPGF---DSNVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGR  462 (672)
Q Consensus       389 ~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~  462 (672)
                      ....+++++|...++.+.+...   +.+..++..+...|...|++++|...|+++.   ..+...|..+...|...|+++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHH
Confidence            3456889999999999988642   2256778889999999999999999999876   345778999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC
Q 005881          463 EALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS  542 (672)
Q Consensus       463 ~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  542 (672)
                      +|++.|+++.+.. +.+...+..+...+...|++++|...|+.+.+   ..|+..........+...|++++|...+++.
T Consensus        95 ~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           95 AAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQ---DDPNDPFRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            9999999999852 33567889999999999999999999999984   3565444444555667789999999999642


Q ss_pred             -CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC----CCchHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          543 -PIE-PNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPE----DTSAHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       543 -~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                       ... ++...| .++..+...++.+.|...++++++..|.    ++..+..++.+|...|++++|.+.+++..+..
T Consensus       171 ~~~~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          171 FEKSDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             HHHSCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HhcCCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence             222 333334 3666788889999999999999988774    36888999999999999999999999987643

>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=99.44  E-value=1.5e-11  Score=115.36  Aligned_cols=204  Identities=13%  Similarity=0.009  Sum_probs=154.2

Q ss_pred             cccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHH
Q 005881          344 VVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDM  423 (672)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  423 (672)
                      ...|..+...+...|++++|++.|+++...  .|+                                  +...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~----------------------------------~~~~~~~la~~   80 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEI--DPS----------------------------------SADAHAALAVV   80 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHH--CTT----------------------------------CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCC----------------------------------hHHHHHHHHHH
Confidence            345666677777777777777777777654  221                                  23344556666


Q ss_pred             HHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHH
Q 005881          424 YAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEG  499 (672)
Q Consensus       424 ~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a  499 (672)
                      |...|++++|.+.|+++.   ..+...|..+...|...|++++|.++|+++.+.+..|+. ..+..+...+...|++++|
T Consensus        81 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  160 (252)
T 2ho1_A           81 FQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQA  160 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHH
Confidence            777777777777777654   335567788888888899999999999988874445544 5677788888899999999


Q ss_pred             HHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 005881          500 WHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILS  576 (672)
Q Consensus       500 ~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  576 (672)
                      ...++.+.+.   .| +...+..++.++...|++++|.+.+++. ...| +...+..+...+...|+.++|...++++++
T Consensus       161 ~~~~~~~~~~---~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~  237 (252)
T 2ho1_A          161 KEYFEKSLRL---NRNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKR  237 (252)
T ss_dssp             HHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhc---CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            9999888743   34 5678888999999999999999998763 3334 566788888889999999999999999999


Q ss_pred             CCCCCCchHH
Q 005881          577 TDPEDTSAHI  586 (672)
Q Consensus       577 ~~p~~~~~~~  586 (672)
                      ..|+++....
T Consensus       238 ~~p~~~~~~~  247 (252)
T 2ho1_A          238 LYPGSLEYQE  247 (252)
T ss_dssp             HCTTSHHHHH
T ss_pred             HCCCCHHHHH
Confidence            9998766544

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.43  E-value=4.8e-12  Score=115.36  Aligned_cols=108  Identities=13%  Similarity=0.121  Sum_probs=46.6

Q ss_pred             CCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHH
Q 005881          428 GRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFN  504 (672)
Q Consensus       428 g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  504 (672)
                      |++++|...|++..   ..+...|..+...+...|++++|+..|++..+..  .+...+..+..++...|++++|+..|+
T Consensus        98 g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~  175 (217)
T 2pl2_A           98 GYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYA  175 (217)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            55555555554443   1223344455555555555555555555555543  344445555555555555555555555


Q ss_pred             HhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHH
Q 005881          505 SMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIK  540 (672)
Q Consensus       505 ~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~  540 (672)
                      ++.+.   .| +...+..+..++.+.|++++|.+.++
T Consensus       176 ~al~~---~P~~~~~~~~la~~~~~~g~~~~A~~~~~  209 (217)
T 2pl2_A          176 KALEQ---APKDLDLRVRYASALLLKGKAEEAARAAA  209 (217)
T ss_dssp             HHHHH---STTCHHHHHHHHHHHTC------------
T ss_pred             HHHHh---CCCChHHHHHHHHHHHHccCHHHHHHHHH
Confidence            54421   23 33444445555555555555554444

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.42  E-value=2.1e-12  Score=126.92  Aligned_cols=258  Identities=12%  Similarity=0.020  Sum_probs=171.9

Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCC-----hHHHHHHHHHHcCcCchHHHHHHHHHHHhc----CCC-CcccHHHHHH
Q 005881          352 AGHLASCHYGEAIELLKDMLFEGHCPN-----LYTYSNILNISSDIPAIEWGKQTHCCIVKP----GFD-SNVVIGSALV  421 (672)
Q Consensus       352 ~~~~~~~~~~~A~~~~~~m~~~g~~p~-----~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~  421 (672)
                      ..+...|++++|+..|+++.+.  .|+     ...+..+...+...|+++.|...+....+.    +.. ....++..+.
T Consensus        13 ~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~   90 (338)
T 3ro2_A           13 ERLCKSGDCRAGVSFFEAAVQV--GTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLG   90 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHH
Confidence            3444555555555555555443  122     123334444455555555555555444321    111 1234556677


Q ss_pred             HHHHhcCCHHHHHHHHhhCCC-----CC----chhHHHHHHHHHhcCC--------------------hHHHHHHHHHHH
Q 005881          422 DMYAKCGRLNDARKVFDHLSS-----KN----LVSWNTMLVGYAQHGL--------------------GREALEIYSMMQ  472 (672)
Q Consensus       422 ~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~--------------------~~~A~~~~~~m~  472 (672)
                      ..|...|++++|...+++..+     ++    ..++..+...|...|+                    +++|.+.+++..
T Consensus        91 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~  170 (338)
T 3ro2_A           91 NTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENL  170 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHH
Confidence            777788888888887776541     22    2367777888888888                    888888887765


Q ss_pred             HC----CCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc----hHHHHHHHHHhhccCChHHHHHHHHhC-
Q 005881          473 EN----KIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR----MDHIASVVHLFACRGQTRRAYEFIKSS-  542 (672)
Q Consensus       473 ~~----g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-  542 (672)
                      ..    +-.|. ..++..+...+...|++++|...++...+...-.++    ...+..++..+...|++++|.+.+++. 
T Consensus       171 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  250 (338)
T 3ro2_A          171 SLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTL  250 (338)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            42    11122 236777888889999999999999887643211122    247888899999999999999988752 


Q ss_pred             ---CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC------CchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          543 ---PIEPN----KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPED------TSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       543 ---~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                         +..++    ..++..+...+...|++++|...+++++++.|..      ..++..++.+|...|++++|.+.+++..
T Consensus       251 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  330 (338)
T 3ro2_A          251 LLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHL  330 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHH
Confidence               11112    4466777888999999999999999998876533      3478899999999999999999999887


Q ss_pred             hC
Q 005881          610 EK  611 (672)
Q Consensus       610 ~~  611 (672)
                      +.
T Consensus       331 ~~  332 (338)
T 3ro2_A          331 EI  332 (338)
T ss_dssp             HC
T ss_pred             HH
Confidence            53

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.42  E-value=4.5e-12  Score=128.40  Aligned_cols=194  Identities=12%  Similarity=0.029  Sum_probs=106.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCC-----CC----chhHHHHHHHHHhcCC--------------------hHHHHH
Q 005881          416 IGSALVDMYAKCGRLNDARKVFDHLSS-----KN----LVSWNTMLVGYAQHGL--------------------GREALE  466 (672)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~--------------------~~~A~~  466 (672)
                      ++..+...|...|++++|...+++..+     ++    ..++..+...|...|+                    +++|.+
T Consensus        89 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~  168 (406)
T 3sf4_A           89 ASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVD  168 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHH
Confidence            344455555555666666555554431     11    2245555666666666                    666666


Q ss_pred             HHHHHHHC----CCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc----hHHHHHHHHHhhccCChHHHHH
Q 005881          467 IYSMMQEN----KIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR----MDHIASVVHLFACRGQTRRAYE  537 (672)
Q Consensus       467 ~~~~m~~~----g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~  537 (672)
                      .+++....    +-.|.. .++..+...+...|++++|...+++..+...-.++    ...+..++.+|...|++++|.+
T Consensus       169 ~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  248 (406)
T 3sf4_A          169 FYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASE  248 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            66554431    111111 24555666666667777776666665532211121    2356666666667777777666


Q ss_pred             HHHhC----CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC------CchHHHHHHHHHhcCChHHHHH
Q 005881          538 FIKSS----PIEPN----KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPED------TSAHIMLSNVYAEANMWDETAK  603 (672)
Q Consensus       538 ~~~~~----~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~~  603 (672)
                      .+++.    +..++    ..++..+...+...|++++|...+++++++.+..      ..++..++.+|...|++++|.+
T Consensus       249 ~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  328 (406)
T 3sf4_A          249 YYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMH  328 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            66542    00011    3345556666666777777777777776654322      3456667777777777777777


Q ss_pred             HHHHHh
Q 005881          604 VRKIMK  609 (672)
Q Consensus       604 ~~~~~~  609 (672)
                      .+++..
T Consensus       329 ~~~~al  334 (406)
T 3sf4_A          329 FAEKHL  334 (406)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            766654

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.39  E-value=4.5e-11  Score=109.72  Aligned_cols=206  Identities=11%  Similarity=0.004  Sum_probs=151.7

Q ss_pred             cccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHH
Q 005881          344 VVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDM  423 (672)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  423 (672)
                      ...|..+...+...|++++|++.|+++.+.  .|+                                  +...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~----------------------------------~~~~~~~l~~~   51 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKS--DPK----------------------------------NELAWLVRAEI   51 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT----------------------------------CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--Ccc----------------------------------chHHHHHHHHH
Confidence            345556666666677777777777666653  221                                  23345566666


Q ss_pred             HHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhc-CChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHH
Q 005881          424 YAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQH-GLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEE  498 (672)
Q Consensus       424 ~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~  498 (672)
                      |...|++++|.+.|+++.   ..+...|..+...+... |++++|.+.++++.+.+..|+ ...+..+...+...|++++
T Consensus        52 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  131 (225)
T 2vq2_A           52 YQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGL  131 (225)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHH
Confidence            777777777777777664   34556778888888888 999999999998887433454 3567788888889999999


Q ss_pred             HHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005881          499 GWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIE--PNKVVWRCLLSGCKTHKDLVLGRYAAEKI  574 (672)
Q Consensus       499 a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~--p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  574 (672)
                      |...++.+.+.   .| +...+..++.++.+.|++++|.+.+++. ...  .+...+..+...+...|+.+.+...++.+
T Consensus       132 A~~~~~~~~~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  208 (225)
T 2vq2_A          132 AEAYLKRSLAA---QPQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQL  208 (225)
T ss_dssp             HHHHHHHHHHH---STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh---CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            99999888743   34 4678888999999999999999988763 222  35666766777788999999999999999


Q ss_pred             hcCCCCCCchHHHH
Q 005881          575 LSTDPEDTSAHIML  588 (672)
Q Consensus       575 ~~~~p~~~~~~~~l  588 (672)
                      .+..|+++.....+
T Consensus       209 ~~~~p~~~~~~~~l  222 (225)
T 2vq2_A          209 QANFPYSEELQTVL  222 (225)
T ss_dssp             HHHCTTCHHHHHHH
T ss_pred             HHhCCCCHHHHHHh
Confidence            99999887765544

>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=99.39  E-value=2.4e-12  Score=137.53  Aligned_cols=161  Identities=18%  Similarity=0.145  Sum_probs=139.8

Q ss_pred             chhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHH
Q 005881          445 LVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASV  522 (672)
Q Consensus       445 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l  522 (672)
                      ..+|+.|...|.+.|++++|++.|++.++  +.|+. .++..+..++.+.|++++|+..|++..+   +.| +...|..+
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~--l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~---l~P~~~~a~~nL   83 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALE--VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR---ISPTFADAYSNM   83 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHH
Confidence            45788888899999999999999999888  45664 5788889999999999999999998873   356 46889999


Q ss_pred             HHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHH
Q 005881          523 VHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDE  600 (672)
Q Consensus       523 ~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  600 (672)
                      +.+|...|++++|++.+++ +.+.| +...|..+...+...|++++|+..|+++++++|+++.++..++.+|...|+|++
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHH
Confidence            9999999999999999876 34566 567899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhh
Q 005881          601 TAKVRKIMKE  610 (672)
Q Consensus       601 a~~~~~~~~~  610 (672)
                      |.+.+++..+
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9998887653

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.38  E-value=2.8e-12  Score=129.87  Aligned_cols=154  Identities=11%  Similarity=-0.001  Sum_probs=111.6

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc----h
Q 005881          446 VSWNTMLVGYAQHGLGREALEIYSMMQENKI-KPN----DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR----M  516 (672)
Q Consensus       446 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~  516 (672)
                      .++..+...|...|++++|.+.+++..+... .++    ..++..+...+...|++++|...++.......-.++    .
T Consensus       188 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  267 (406)
T 3sf4_A          188 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA  267 (406)
T ss_dssp             HHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHH
Confidence            3567777888888888888888888765210 122    126777888888899999999888877643211112    4


Q ss_pred             HHHHHHHHHhhccCChHHHHHHHHhC-------CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC------CCC
Q 005881          517 DHIASVVHLFACRGQTRRAYEFIKSS-------PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDP------EDT  582 (672)
Q Consensus       517 ~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p------~~~  582 (672)
                      ..+..++.+|...|++++|.+.+++.       +..+ ...++..+...+...|++++|...+++++++.+      ...
T Consensus       268 ~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  347 (406)
T 3sf4_A          268 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGEL  347 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchh
Confidence            57778888999999999998888652       1111 144677788889999999999999999987643      235


Q ss_pred             chHHHHHHHHHhcCChH
Q 005881          583 SAHIMLSNVYAEANMWD  599 (672)
Q Consensus       583 ~~~~~l~~~~~~~g~~~  599 (672)
                      .++..++.+|...|+..
T Consensus       348 ~~~~~l~~~~~~~g~~~  364 (406)
T 3sf4_A          348 TARLNLSDLQMVLGLSY  364 (406)
T ss_dssp             HHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHhhHhH
Confidence            66778888888888764

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.38  E-value=6.5e-12  Score=111.35  Aligned_cols=166  Identities=13%  Similarity=0.104  Sum_probs=141.5

Q ss_pred             cccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005881          413 NVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSA  489 (672)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  489 (672)
                      +..+|..+...|.+.|++++|.+.|++..   ..++.+|..+...|...|++++|+..+++..... +-+...+..+...
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~   82 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSA   82 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHH
Confidence            45678889999999999999999999876   3456789999999999999999999999998852 3344567777888


Q ss_pred             hhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHH
Q 005881          490 CVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVL  566 (672)
Q Consensus       490 ~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~  566 (672)
                      +...++++.|...+......   .| +...+..++.+|.+.|++++|++.+++. ...| +..+|..+...+...|++++
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~---~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIAL---NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh---CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHH
Confidence            89999999999999988743   44 5788999999999999999999999763 3455 67789999999999999999


Q ss_pred             HHHHHHHHhcCCCCCC
Q 005881          567 GRYAAEKILSTDPEDT  582 (672)
Q Consensus       567 a~~~~~~~~~~~p~~~  582 (672)
                      |+..++++++++|+++
T Consensus       160 A~~~~~~al~~~p~~a  175 (184)
T 3vtx_A          160 AVKYFKKALEKEEKKA  175 (184)
T ss_dssp             HHHHHHHHHHTTHHHH
T ss_pred             HHHHHHHHHhCCccCH
Confidence            9999999999999653

>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=99.37  E-value=3.5e-09  Score=111.82  Aligned_cols=415  Identities=8%  Similarity=0.030  Sum_probs=251.6

Q ss_pred             CcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCC---hHHHHHHHHHHHHhc-CCCcHHHHH
Q 005881          141 NSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGN---LKVGMQIHSLVFKCA-LEFDKFVAM  216 (672)
Q Consensus       141 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~---~~~a~~~~~~~~~~~-~~~~~~~~~  216 (672)
                      |..+|..++..+.+.+.++.+..+|+.+... .+.....|...+..-.+.++   .+.+..+|+..+... .+|++..|.
T Consensus        65 d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW~  143 (679)
T 4e6h_A           65 DIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLWL  143 (679)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHHH
T ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            6778888888888888888888888888775 33445566666666666677   888888888877764 246666777


Q ss_pred             HHHHHhhcCCCh--------hHHHHHHhcCC------CC-CcchHHHHHHHHHh---------cCChhHHHHHHHHHHHC
Q 005881          217 GLINLYAKCEKL--------DLASRVFSNIQ------LP-DLTAWSALIGGYAQ---------LGKACEAIDLFVKMFSS  272 (672)
Q Consensus       217 ~li~~~~~~g~~--------~~a~~~~~~~~------~~-~~~~~~~li~~~~~---------~~~~~~a~~~~~~m~~~  272 (672)
                      ..+....+.++.        +...++|+...      .+ +...|...+.....         .++++.+..+|+..+..
T Consensus       144 ~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~i  223 (679)
T 4e6h_A          144 SYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLCQ  223 (679)
T ss_dssp             HHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHhC
Confidence            666554444432        22335555421      12 23456666554332         23355566666666532


Q ss_pred             CCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhh-------CCC----
Q 005881          273 GLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDE-------MDE----  341 (672)
Q Consensus       273 ~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~-------~~~----  341 (672)
                      ....-..+|.... .+.+.-+...+.+++.+..                     .+++.|...+.+       +..    
T Consensus       224 P~~~~~~~w~~Y~-~fe~~~~~~~a~~~~~e~~---------------------~~y~~Ar~~~~e~~~~~~~l~r~~p~  281 (679)
T 4e6h_A          224 PMDCLESMWQRYT-QWEQDVNQLTARRHIGELS---------------------AQYMNARSLYQDWLNITKGLKRNLPI  281 (679)
T ss_dssp             CCSSHHHHHHHHH-HHHHHHCTTTHHHHHHHHH---------------------HHHHHHHHHHHHHHHHTTTCCCCCCS
T ss_pred             ccHHHHHHHHHHH-HHHHhcCcchHHHHHHHhh---------------------HHHHHHHHHHHHHHHHHHhHhhcccc
Confidence            1000111121111 1111001111222211110                     112222222221       110    


Q ss_pred             ----------C--C------cccHHHHHHHHHhcC-------ChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchH
Q 005881          342 ----------H--D------VVSWNALIAGHLASC-------HYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIE  396 (672)
Q Consensus       342 ----------~--~------~~~~~~li~~~~~~~-------~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~  396 (672)
                                |  +      ...|...+.---..+       ..+.+..+|++.+.. ..-+...|.....-+...|+.+
T Consensus       282 ~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~  360 (679)
T 4e6h_A          282 TLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDS  360 (679)
T ss_dssp             SSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCT
T ss_pred             ccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHH
Confidence                      0  0      123444443322222       123355667777664 2235566666666667778888


Q ss_pred             HHH-HHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC-------------CC------------chhHHH
Q 005881          397 WGK-QTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSS-------------KN------------LVSWNT  450 (672)
Q Consensus       397 ~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------------~~------------~~~~~~  450 (672)
                      .|. .+++...... +.+..++-.++...-+.|+++.|.++|+.+..             |+            ...|-.
T Consensus       361 ~a~r~il~rAi~~~-P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~  439 (679)
T 4e6h_A          361 TVITKYLKLGQQCI-PNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCV  439 (679)
T ss_dssp             THHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHH
Confidence            886 9999888643 44566677788888889999999999988763             31            235777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHhhc-cCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhc
Q 005881          451 MLVGYAQHGLGREALEIYSMMQEN-KIKPNDNTFIGVLSACVH-IGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFAC  528 (672)
Q Consensus       451 li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~~~ll~~~~~-~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  528 (672)
                      .+....+.|+.+.|..+|.+.++. + .+....|......-.+ .++.+.|..+|+...+.+  +-+...+...++....
T Consensus       440 y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~--p~~~~~w~~y~~fe~~  516 (679)
T 4e6h_A          440 YMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHISKDTKTACKVLELGLKYF--ATDGEYINKYLDFLIY  516 (679)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCchHHHHHHHHHHHh
Confidence            788888889999999999999885 2 1122333322222222 356899999999998654  3355677788888888


Q ss_pred             cCChHHHHHHHHhC-CCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 005881          529 RGQTRRAYEFIKSS-PIEP----NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTS  583 (672)
Q Consensus       529 ~g~~~~A~~~~~~~-~~~p----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  583 (672)
                      .|+.+.|..+|++. ...|    ....|...+..-...|+.+.+..+.+++.+..|+++.
T Consensus       517 ~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~~  576 (679)
T 4e6h_A          517 VNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVNK  576 (679)
T ss_dssp             HTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCCH
T ss_pred             CCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCcH
Confidence            99999999999863 3333    3457888888888999999999999999999997643

>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=99.36  E-value=4.3e-09  Score=111.10  Aligned_cols=213  Identities=9%  Similarity=-0.028  Sum_probs=111.1

Q ss_pred             chHHHHHHHHHHHccCChHHHH-HHHhhCCC--C-CcccHHHHHHHHHhcCChhHHHHHHHHHHhCC---------CCCC
Q 005881          312 FTFVANTVLDFYSKCELLEESL-KTFDEMDE--H-DVVSWNALIAGHLASCHYGEAIELLKDMLFEG---------HCPN  378 (672)
Q Consensus       312 ~~~~~~~li~~~~~~~~~~~a~-~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g---------~~p~  378 (672)
                      ...+|-..+..+...|+.++|. .+|++...  | +...|-..+...-+.|++++|.++|+++....         -.|+
T Consensus       342 ~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~  421 (679)
T 4e6h_A          342 APEIWFNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPT  421 (679)
T ss_dssp             CHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTT
T ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCc
Confidence            4444444444444555555553 55544332  2 22234444444555555555555555554421         0121


Q ss_pred             ------------hHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhc-CCHHHHHHHHhhCC---C
Q 005881          379 ------------LYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKC-GRLNDARKVFDHLS---S  442 (672)
Q Consensus       379 ------------~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~---~  442 (672)
                                  ...|...+....+.+..+.|+.++..+.+....+...+|...+..-.+. ++.+.|.++|+...   .
T Consensus       422 ~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p  501 (679)
T 4e6h_A          422 NESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFA  501 (679)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHT
T ss_pred             chhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCC
Confidence                        2245555555556666777777777766541111222333222222333 34677777777665   2


Q ss_pred             CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHH
Q 005881          443 KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND--NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIA  520 (672)
Q Consensus       443 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~  520 (672)
                      .+...|...+.-....|+.+.|..+|++.......++.  ..|...+.--.+.|+.+.+..+.+++.+.   .|+.....
T Consensus       502 ~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~---~P~~~~~~  578 (679)
T 4e6h_A          502 TDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK---FPEVNKLE  578 (679)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH---STTCCHHH
T ss_pred             CchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCcHHH
Confidence            34455666666666667777777777777665321211  34555666556667777777777777643   34444444


Q ss_pred             HHHHHhh
Q 005881          521 SVVHLFA  527 (672)
Q Consensus       521 ~l~~~~~  527 (672)
                      .+++-|.
T Consensus       579 ~f~~ry~  585 (679)
T 4e6h_A          579 EFTNKYK  585 (679)
T ss_dssp             HHHHHTC
T ss_pred             HHHHHhc
Confidence            4455553

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.32  E-value=3.1e-11  Score=124.16  Aligned_cols=178  Identities=8%  Similarity=-0.009  Sum_probs=155.0

Q ss_pred             HHHHHHHHhhCC---CCCchhHHHHHHHHHhcCCh-HHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHHHHHHHH
Q 005881          430 LNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLG-REALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEEGWHYFN  504 (672)
Q Consensus       430 ~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~  504 (672)
                      ++++...++...   ..+...|..+...|...|++ ++|++.|++..+.  .|+ ...+..+..++...|++++|...|+
T Consensus        84 ~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKL--EPELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            556666665543   34567888999999999999 9999999999985  455 5689999999999999999999999


Q ss_pred             HhHHhhCCCCchHHHHHHHHHhhcc---------CChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc--------CCHH
Q 005881          505 SMIRDHGISPRMDHIASVVHLFACR---------GQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTH--------KDLV  565 (672)
Q Consensus       505 ~~~~~~~~~p~~~~~~~l~~~~~~~---------g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~--------g~~~  565 (672)
                      +..   .+.|+...+..+..+|...         |++++|.+.+++. ...| +...|..+..++...        |+++
T Consensus       162 ~al---~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GAL---THCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHH---TTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHH---hhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            988   5578888999999999999         9999999999863 3455 577899999999888        9999


Q ss_pred             HHHHHHHHHhcCCC---CCCchHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          566 LGRYAAEKILSTDP---EDTSAHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       566 ~a~~~~~~~~~~~p---~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                      +|+..++++++++|   +++..+..++.+|...|++++|.+.+++..+..
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~  288 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD  288 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999   999999999999999999999999999987643

>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=99.32  E-value=3.9e-11  Score=110.54  Aligned_cols=162  Identities=9%  Similarity=-0.036  Sum_probs=85.5

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHH
Q 005881          446 VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVH  524 (672)
Q Consensus       446 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~  524 (672)
                      ..|......+...|++++|++.|++..+...+++...+..+..++...|++++|+..|+...   ...| +...+..++.
T Consensus         8 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al---~~~p~~~~~~~~l~~   84 (228)
T 4i17_A            8 NQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAI---KKNYNLANAYIGKSA   84 (228)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH---HTTCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHH---HhCcchHHHHHHHHH
Confidence            34444455555555555555555555553211444444445555555555555555555544   2233 2344555555


Q ss_pred             HhhccCChHHHHHHHHhC-CCCC-CH-------HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC--CCchHHHHHHHHH
Q 005881          525 LFACRGQTRRAYEFIKSS-PIEP-NK-------VVWRCLLSGCKTHKDLVLGRYAAEKILSTDPE--DTSAHIMLSNVYA  593 (672)
Q Consensus       525 ~~~~~g~~~~A~~~~~~~-~~~p-~~-------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~  593 (672)
                      +|...|++++|.+.+++. ...| +.       ..|..+...+...|++++|+..++++++++|+  ++.++..++.+|.
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~  164 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVLFY  164 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHH
Confidence            555555555555555432 1222 22       23444444455556666666666666666665  5555555666555


Q ss_pred             hcCCh---------------------------HHHHHHHHHHhh
Q 005881          594 EANMW---------------------------DETAKVRKIMKE  610 (672)
Q Consensus       594 ~~g~~---------------------------~~a~~~~~~~~~  610 (672)
                      ..|+.                           ++|...+++..+
T Consensus       165 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~  208 (228)
T 4i17_A          165 NNGADVLRKATPLASSNKEKYASEKAKADAAFKKAVDYLGEAVT  208 (228)
T ss_dssp             HHHHHHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            55555                           888888887765

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.31  E-value=1.2e-10  Score=112.65  Aligned_cols=176  Identities=13%  Similarity=0.086  Sum_probs=88.2

Q ss_pred             HHHHHHHhhCCC---C-CchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-H-HHHHHHHHhhccCcHHHHHHHHH
Q 005881          431 NDARKVFDHLSS---K-NLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-N-TFIGVLSACVHIGLVEEGWHYFN  504 (672)
Q Consensus       431 ~~A~~~~~~~~~---~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~-~~~~ll~~~~~~g~~~~a~~~~~  504 (672)
                      ++|..+|++..+   | +...|..++..+...|++++|.++|++.++  +.|+. . .|..+...+.+.|++++|..+|+
T Consensus        81 ~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~  158 (308)
T 2ond_A           81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--SSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHh--ccccCccHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            555555554432   1 223455555555555555555555555555  33432 1 45555555555555555555555


Q ss_pred             HhHHhhCCCC-chHHHHHHHHHhh-ccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC---
Q 005881          505 SMIRDHGISP-RMDHIASVVHLFA-CRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILST---  577 (672)
Q Consensus       505 ~~~~~~~~~p-~~~~~~~l~~~~~-~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---  577 (672)
                      +..+   ..| +...|...+.... ..|+.++|.++|++. ...| +...|..++..+...|+.++|..+|+++++.   
T Consensus       159 ~a~~---~~p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l  235 (308)
T 2ond_A          159 KARE---DARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHT---STTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHh---cCCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCC
Confidence            5542   222 2333332222211 245555555555432 1122 3445555555555556666666666666553   


Q ss_pred             CCC-CCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          578 DPE-DTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       578 ~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      .|+ ....|..++..+.+.|++++|..+++++.+.
T Consensus       236 ~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            332 3445555566666666666666666555543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.31  E-value=5.3e-11  Score=119.37  Aligned_cols=163  Identities=11%  Similarity=0.025  Sum_probs=86.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CCCH----HHHHHHHHHhhccCcHHHHHHHHHHhHHhh---CCCC-chH
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMMQENKI-KPND----NTFIGVLSACVHIGLVEEGWHYFNSMIRDH---GISP-RMD  517 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~~~p-~~~  517 (672)
                      +++.+...|...|++++|++.|++..+..- .++.    .++..+...+...|++++|...+++..+..   +..| ...
T Consensus       186 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  265 (383)
T 3ulq_A          186 CHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQ  265 (383)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHH
Confidence            445555555566666666666555543200 0111    245555666666666666666666554311   1212 235


Q ss_pred             HHHHHHHHhhccCChHHHHHHHHhC-C-----CCCC-HHHHHHHHHHHHhcCC---HHHHHHHHHHHhcCCCCCCchHHH
Q 005881          518 HIASVVHLFACRGQTRRAYEFIKSS-P-----IEPN-KVVWRCLLSGCKTHKD---LVLGRYAAEKILSTDPEDTSAHIM  587 (672)
Q Consensus       518 ~~~~l~~~~~~~g~~~~A~~~~~~~-~-----~~p~-~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~  587 (672)
                      .+..++.+|.+.|++++|.+.+++. .     ..|. ...+..+...+...|+   .++|...+++. ...|.....+..
T Consensus       266 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~  344 (383)
T 3ulq_A          266 AYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLEDFAID  344 (383)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHHHHHH
Confidence            5566666666666666666665432 0     0111 1123444445556666   55666665554 233334456667


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhh
Q 005881          588 LSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       588 l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ++.+|...|++++|.+.+++..+
T Consensus       345 la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          345 VAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            77777777777777777776643

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.30  E-value=4.6e-10  Score=108.51  Aligned_cols=219  Identities=6%  Similarity=0.052  Sum_probs=161.1

Q ss_pred             hHHHHHHHHHHhCCCCC-ChHHHHHHHHHHc-------CcCch-------HHHHHHHHHHHhcCCCCcccHHHHHHHHHH
Q 005881          361 GEAIELLKDMLFEGHCP-NLYTYSNILNISS-------DIPAI-------EWGKQTHCCIVKPGFDSNVVIGSALVDMYA  425 (672)
Q Consensus       361 ~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~-------~~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  425 (672)
                      ++|...|++.+..  .| +...|..+...+.       ..|+.       ++|..+++..++.-.+.+...|..++..+.
T Consensus        33 ~~a~~~~~~al~~--~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLV--LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH--cCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            4666666666653  33 3334444444433       34554       777777777776322334567888888888


Q ss_pred             hcCCHHHHHHHHhhCCC--C-Cch-hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHh-hccCcHHHHH
Q 005881          426 KCGRLNDARKVFDHLSS--K-NLV-SWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSAC-VHIGLVEEGW  500 (672)
Q Consensus       426 ~~g~~~~A~~~~~~~~~--~-~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~-~~~g~~~~a~  500 (672)
                      +.|++++|.++|+++.+  | +.. .|..++..+.+.|++++|..+|++..+.. +++...|....... ...|++++|.
T Consensus       111 ~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~  189 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             hcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999988763  3 333 79999999999999999999999999853 33334454433332 2369999999


Q ss_pred             HHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC----CCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005881          501 HYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS----PIEP--NKVVWRCLLSGCKTHKDLVLGRYAAEKI  574 (672)
Q Consensus       501 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~  574 (672)
                      .+|+...+..  +-+...|..++..+.+.|+.++|..+|++.    .+.|  ....|..++......|+.+.|..+++++
T Consensus       190 ~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          190 KIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999988543  226788999999999999999999999863    2345  4668999999999999999999999999


Q ss_pred             hcCCCCCCch
Q 005881          575 LSTDPEDTSA  584 (672)
Q Consensus       575 ~~~~p~~~~~  584 (672)
                      ++..|+++..
T Consensus       268 ~~~~p~~~~~  277 (308)
T 2ond_A          268 FTAFREEYEG  277 (308)
T ss_dssp             HHHTTTTTSS
T ss_pred             HHHccccccc
Confidence            9999976543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.30  E-value=2.6e-11  Score=123.05  Aligned_cols=133  Identities=10%  Similarity=-0.055  Sum_probs=93.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC----chH
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMMQENKI-KPN----DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP----RMD  517 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p----~~~  517 (672)
                      .|..+...|...|++++|++.|++..+... .++    ..++..+...+...|++++|...+++......-..    ...
T Consensus       225 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  304 (411)
T 4a1s_A          225 ACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQ  304 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            566677777777788877777777665210 011    12667777788888888888888877664321111    146


Q ss_pred             HHHHHHHHhhccCChHHHHHHHHhC-------CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 005881          518 HIASVVHLFACRGQTRRAYEFIKSS-------PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDP  579 (672)
Q Consensus       518 ~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  579 (672)
                      .+..++.+|...|++++|.+.+++.       +..+ ...++..+...+...|++++|...+++++++.+
T Consensus       305 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  374 (411)
T 4a1s_A          305 SCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLAX  374 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHh
Confidence            6778888888888888888887653       1111 134667778889999999999999999998877

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.30  E-value=3.3e-11  Score=120.86  Aligned_cols=292  Identities=10%  Similarity=0.030  Sum_probs=209.3

Q ss_pred             hhccCCchhHHHHHHHHHHh--CC--CCchHHHHHHHHHH--HccCChHHHH-----------HHHhhCCC-C-CcccH-
Q 005881          288 FADVKETIGGRQLHSLIIKM--GF--SSFTFVANTVLDFY--SKCELLEESL-----------KTFDEMDE-H-DVVSW-  347 (672)
Q Consensus       288 ~~~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~li~~~--~~~~~~~~a~-----------~~~~~~~~-~-~~~~~-  347 (672)
                      +.+.+++++|..+.+++.+.  .+  .++...|-.++..-  ...+.++.+.           ..++.+.. + +...+ 
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~~~~~~~l  101 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQARLTGLL  101 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHTHHHHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcCCCchhHH
Confidence            45789999999999998764  33  23334444444321  1223333333           44544432 1 11111 


Q ss_pred             -----HHHHHHHHhcCChhHHHHHHHHHHhCCC-CCC----hHHHHHHHHHHcCcCchHHHHHHHHHHHhcCC------C
Q 005881          348 -----NALIAGHLASCHYGEAIELLKDMLFEGH-CPN----LYTYSNILNISSDIPAIEWGKQTHCCIVKPGF------D  411 (672)
Q Consensus       348 -----~~li~~~~~~~~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~------~  411 (672)
                           ......+...|++++|+..|++....-. .++    ..++..+-..+...|+++.|...+....+...      .
T Consensus       102 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~  181 (383)
T 3ulq_A          102 EYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNI  181 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchH
Confidence                 1144567789999999999999886411 122    34677777889999999999999998876411      1


Q ss_pred             CcccHHHHHHHHHHhcCCHHHHHHHHhhCCC-----CCc----hhHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCC
Q 005881          412 SNVVIGSALVDMYAKCGRLNDARKVFDHLSS-----KNL----VSWNTMLVGYAQHGLGREALEIYSMMQEN----KIKP  478 (672)
Q Consensus       412 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p  478 (672)
                      ....+++.+...|...|++++|.+.|++..+     ++.    .++..+...|...|++++|++.|++..+.    +..|
T Consensus       182 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~  261 (383)
T 3ulq_A          182 RLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILP  261 (383)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGG
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccch
Confidence            1235678888999999999999999988762     222    37888999999999999999999998872    2324


Q ss_pred             C-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCC--C-chHHHHHHHHHhhccCC---hHHHHHHHHhCCCCCCHH-H
Q 005881          479 N-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGIS--P-RMDHIASVVHLFACRGQ---TRRAYEFIKSSPIEPNKV-V  550 (672)
Q Consensus       479 ~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~--p-~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~p~~~-~  550 (672)
                      + ..++..+...+...|++++|...+++......-.  | ....+..+...|...|+   +++|++++++.+..|+.. .
T Consensus       262 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~  341 (383)
T 3ulq_A          262 SLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDF  341 (383)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHH
Confidence            4 3578899999999999999999999887432211  2 22346778889999999   999999999986555433 5


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 005881          551 WRCLLSGCKTHKDLVLGRYAAEKILSTDP  579 (672)
Q Consensus       551 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  579 (672)
                      +..+...+...|++++|...+++++++..
T Consensus       342 ~~~la~~y~~~g~~~~A~~~~~~al~~~~  370 (383)
T 3ulq_A          342 AIDVAKYYHERKNFQKASAYFLKVEQVRQ  370 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence            66778889999999999999999987654

>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=99.28  E-value=1.7e-10  Score=106.20  Aligned_cols=204  Identities=13%  Similarity=0.081  Sum_probs=132.1

Q ss_pred             ChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCchhHHHHHHH
Q 005881          378 NLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSS---KNLVSWNTMLVG  454 (672)
Q Consensus       378 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~  454 (672)
                      |+..+...-..+...|++++|...+...++...+++...+..+..++...|++++|.+.|++..+   .+...|..+...
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   85 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSAA   85 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHHH
Confidence            44556666667777777777777777777766545555555577777777777777777776652   233466777777


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCH--------HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc---hHHHHHHH
Q 005881          455 YAQHGLGREALEIYSMMQENKIKPND--------NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR---MDHIASVV  523 (672)
Q Consensus       455 ~~~~g~~~~A~~~~~~m~~~g~~p~~--------~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~  523 (672)
                      |...|++++|++.|++..+.  .|+.        ..|..+...+...|++++|+..|+++.   ...|+   ...+..+.
T Consensus        86 ~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al---~~~p~~~~~~~~~~l~  160 (228)
T 4i17_A           86 YRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHAT---DVTSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT---TSSCHHHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHH---hcCCCcccHHHHHHHH
Confidence            77777777777777777763  3432        235566666777777777777777666   34554   35666666


Q ss_pred             HHhhccCCh--HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHH
Q 005881          524 HLFACRGQT--RRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYA  593 (672)
Q Consensus       524 ~~~~~~g~~--~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  593 (672)
                      .+|...|+.  ++|..+    . ..+...+....  ....+.+++|...++++++++|+++.+...+..+..
T Consensus       161 ~~~~~~~~~~~~~a~~~----~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~~  225 (228)
T 4i17_A          161 VLFYNNGADVLRKATPL----A-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVKA  225 (228)
T ss_dssp             HHHHHHHHHHHHHHGGG----T-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHhc----c-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHH
Confidence            666554433  222111    1 11233332222  233456799999999999999999888887776643

>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=99.28  E-value=1.4e-10  Score=102.62  Aligned_cols=160  Identities=13%  Similarity=0.046  Sum_probs=97.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhc
Q 005881          449 NTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFAC  528 (672)
Q Consensus       449 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  528 (672)
                      ..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|...++.+.+..  +.+...+..++..+..
T Consensus        12 ~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~   88 (186)
T 3as5_A           12 RDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA--PDNVKVATVLGLTYVQ   88 (186)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHH
Confidence            333444444444444444444444321 1223344444445555555555555555444221  1234445555555555


Q ss_pred             cCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHH
Q 005881          529 RGQTRRAYEFIKSS-PI-EPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRK  606 (672)
Q Consensus       529 ~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  606 (672)
                      .|++++|.+.+++. .. ..+...+..+...+...|++++|...++++++..|+++..+..++.+|...|++++|.+.++
T Consensus        89 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  168 (186)
T 3as5_A           89 VQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPHFK  168 (186)
T ss_dssp             HTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            55555555555432 11 22556677777778888888888888888888888888888899999999999999999888


Q ss_pred             HHhhC
Q 005881          607 IMKEK  611 (672)
Q Consensus       607 ~~~~~  611 (672)
                      +..+.
T Consensus       169 ~~~~~  173 (186)
T 3as5_A          169 KANEL  173 (186)
T ss_dssp             HHHHH
T ss_pred             HHHHc
Confidence            87654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.27  E-value=4.4e-11  Score=117.45  Aligned_cols=134  Identities=11%  Similarity=-0.005  Sum_probs=86.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc----hH
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMMQENKI-KPN----DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR----MD  517 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~  517 (672)
                      .+..+...+...|++++|.+.+++..+... .++    ..++..+...+...|++++|...++.......-.++    ..
T Consensus       185 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  264 (338)
T 3ro2_A          185 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ  264 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHH
Confidence            455666667777777777777776654210 011    125666777777788888888777776533211111    45


Q ss_pred             HHHHHHHHhhccCChHHHHHHHHhC-------CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 005881          518 HIASVVHLFACRGQTRRAYEFIKSS-------PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPE  580 (672)
Q Consensus       518 ~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  580 (672)
                      .+..++.+|...|++++|.+.+++.       +..+ ...++..+...+...|++++|...+++++++.+.
T Consensus       265 ~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  335 (338)
T 3ro2_A          265 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISRE  335 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence            6777788888888888888877642       1111 1336677778888999999999999999888763

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.27  E-value=6.7e-12  Score=121.87  Aligned_cols=237  Identities=13%  Similarity=0.069  Sum_probs=128.6

Q ss_pred             cccHHHHHHHHHhcCChhHHHHHHHHHHhC-------CCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhc------CC
Q 005881          344 VVSWNALIAGHLASCHYGEAIELLKDMLFE-------GHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKP------GF  410 (672)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~-------g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~  410 (672)
                      ..++..+...+...|++++|+.+|+++.+.       ........+..+...+...|++++|...+..+.+.      +-
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            346777788888899999999988888753       11112223333444444444444444444443322      00


Q ss_pred             CCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHC------CCCCCH-HHH
Q 005881          411 DSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQEN------KIKPND-NTF  483 (672)
Q Consensus       411 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~~-~~~  483 (672)
                      .|                              ....++..+...|...|++++|.+.|+++.+.      +-.|+. ..+
T Consensus       107 ~~------------------------------~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  156 (311)
T 3nf1_A          107 HP------------------------------AVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQL  156 (311)
T ss_dssp             CH------------------------------HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             Ch------------------------------HHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHH
Confidence            00                              01234555566666666666666666666542      112222 345


Q ss_pred             HHHHHHhhccCcHHHHHHHHHHhHHhh-----CCCC-chHHHHHHHHHhhccCChHHHHHHHHhCC----------CCCC
Q 005881          484 IGVLSACVHIGLVEEGWHYFNSMIRDH-----GISP-RMDHIASVVHLFACRGQTRRAYEFIKSSP----------IEPN  547 (672)
Q Consensus       484 ~~ll~~~~~~g~~~~a~~~~~~~~~~~-----~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----------~~p~  547 (672)
                      ..+...+...|++++|..+++.+....     +..| ....+..++.+|...|++++|.+.+++.-          ..|.
T Consensus       157 ~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  236 (311)
T 3nf1_A          157 NNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDE  236 (311)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC-----
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcc
Confidence            666666677777777777776665321     1122 23556666777777777777777665421          1111


Q ss_pred             -------HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          548 -------KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       548 -------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                             ...+..+...+...+.+..+...++++....|..+.++..++.+|.+.|++++|.+.+++..+
T Consensus       237 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          237 NKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             -CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                   111122222334455666677777888878888888888999999999999999999887754

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.23  E-value=2.3e-11  Score=117.99  Aligned_cols=246  Identities=12%  Similarity=0.027  Sum_probs=149.9

Q ss_pred             CchHHHHHHHHHHHccCChHHHHHHHhhCCC--------C---CcccHHHHHHHHHhcCChhHHHHHHHHHHhC------
Q 005881          311 SFTFVANTVLDFYSKCELLEESLKTFDEMDE--------H---DVVSWNALIAGHLASCHYGEAIELLKDMLFE------  373 (672)
Q Consensus       311 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--------~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~------  373 (672)
                      ....++..+...|...|++++|...|+++.+        .   ....+..+...|...|++++|+..+++....      
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            3466788899999999999999999988764        1   2346778888999999999999999998764      


Q ss_pred             CCCC-ChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHH
Q 005881          374 GHCP-NLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTML  452 (672)
Q Consensus       374 g~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li  452 (672)
                      +-.| ....+..+...+...|++++|...+..+.+...               +.         +..-.......+..+.
T Consensus       105 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~---------------~~---------~~~~~~~~~~~~~~la  160 (311)
T 3nf1_A          105 KDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIRE---------------KV---------LGKDHPDVAKQLNNLA  160 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH---------------HH---------HCTTCHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHH---------------Hh---------cCCCChHHHHHHHHHH
Confidence            2122 234455555566666666666666555543200               00         0000000123455666


Q ss_pred             HHHHhcCChHHHHHHHHHHHHC------CCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhh------CCCCc----
Q 005881          453 VGYAQHGLGREALEIYSMMQEN------KIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDH------GISPR----  515 (672)
Q Consensus       453 ~~~~~~g~~~~A~~~~~~m~~~------g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~------~~~p~----  515 (672)
                      ..+...|++++|+++|+++.+.      +-.|+. .++..+...+...|++++|...++++.+..      ...+.    
T Consensus       161 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  240 (311)
T 3nf1_A          161 LLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPI  240 (311)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHH
Confidence            6777777777777777776653      113332 356677777888888888888887776321      11111    


Q ss_pred             ---hHHHHHHHHHhhccCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 005881          516 ---MDHIASVVHLFACRGQTRRAYEFIKSSP-IEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPE  580 (672)
Q Consensus       516 ---~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  580 (672)
                         ...+..+...+...+.+.+|...++... ..| +..+|..+...+...|++++|...+++++++.|+
T Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          241 WMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             HHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence               1222333344455566666666666543 334 4557888888999999999999999999998774

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.23  E-value=3.5e-09  Score=105.65  Aligned_cols=194  Identities=11%  Similarity=0.014  Sum_probs=129.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCCC-------C---C-chhHHHHHHHHHhcCChHHHHHHHHHHHHCCCC--C--CHH
Q 005881          417 GSALVDMYAKCGRLNDARKVFDHLSS-------K---N-LVSWNTMLVGYAQHGLGREALEIYSMMQENKIK--P--NDN  481 (672)
Q Consensus       417 ~~~l~~~~~~~g~~~~A~~~~~~~~~-------~---~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p--~~~  481 (672)
                      +..+...+...|++++|.+.+++...       +   . ...+..+...+...|++++|...+++.....-.  +  ...
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            34566667777888877777766541       1   1 124556777788888888888888887753211  1  124


Q ss_pred             HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHH-----HHHHHhhccCChHHHHHHHHhCC-CCCC-----HHH
Q 005881          482 TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIA-----SVVHLFACRGQTRRAYEFIKSSP-IEPN-----KVV  550 (672)
Q Consensus       482 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~-----~l~~~~~~~g~~~~A~~~~~~~~-~~p~-----~~~  550 (672)
                      ++..+...+...|++++|...+++.............+.     ..+..+...|++++|.+.+++.. ..|.     ...
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            566777778888889888888887764322111111111     23344778899999988887642 2221     234


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC------CchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          551 WRCLLSGCKTHKDLVLGRYAAEKILSTDPED------TSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       551 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +..+...+...|++++|...++++++..+..      ...+..++.+|...|++++|...+++...
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            5666777888899999999998887654321      13666788889999999999998887754

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.21  E-value=5.8e-10  Score=111.48  Aligned_cols=220  Identities=11%  Similarity=-0.002  Sum_probs=141.0

Q ss_pred             cCcCchHHHHHHHHHHHhcCC--C---CcccHHHHHHHHHHhcCCHHHHHHHHhhCCC-----CC-----chhHHHHHHH
Q 005881          390 SDIPAIEWGKQTHCCIVKPGF--D---SNVVIGSALVDMYAKCGRLNDARKVFDHLSS-----KN-----LVSWNTMLVG  454 (672)
Q Consensus       390 ~~~~~~~~a~~~~~~~~~~~~--~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~-----~~~~~~li~~  454 (672)
                      ...|+++.|...+..+.+...  .   ....++..+...|...|+++.|...+++..+     ++     ..+++.+...
T Consensus       112 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~  191 (378)
T 3q15_A          112 FDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGN  191 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHH
Confidence            344555555555554443210  0   1233456667777777777777777665541     11     2366778888


Q ss_pred             HHhcCChHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhC--CCC-chHHHHHHHHHh
Q 005881          455 YAQHGLGREALEIYSMMQEN----KIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHG--ISP-RMDHIASVVHLF  526 (672)
Q Consensus       455 ~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~--~~p-~~~~~~~l~~~~  526 (672)
                      |...|++++|.+.|++..+.    +-.+. ..++..+...+...|++++|...+++......  ..| ....+..++.+|
T Consensus       192 y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  271 (378)
T 3q15_A          192 YDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTL  271 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHH
Confidence            88888888888888877652    11111 13577788888888888888888887764111  123 356777888888


Q ss_pred             hccCChHHHHHHHHhC----CC--CCC-HHHHHHHHHHHHhcCC---HHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcC
Q 005881          527 ACRGQTRRAYEFIKSS----PI--EPN-KVVWRCLLSGCKTHKD---LVLGRYAAEKILSTDPEDTSAHIMLSNVYAEAN  596 (672)
Q Consensus       527 ~~~g~~~~A~~~~~~~----~~--~p~-~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  596 (672)
                      .+.|++++|.+.+++.    ..  .|. ...+..+...+...++   +.+|...+++. ...|.....+..++.+|...|
T Consensus       272 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g  350 (378)
T 3q15_A          272 CKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSAAAVFESSC  350 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHHHHHHHHCC
Confidence            8889988888888652    11  232 2344445555667777   77777777662 233334556778999999999


Q ss_pred             ChHHHHHHHHHHhh
Q 005881          597 MWDETAKVRKIMKE  610 (672)
Q Consensus       597 ~~~~a~~~~~~~~~  610 (672)
                      ++++|.+.+++..+
T Consensus       351 ~~~~A~~~~~~al~  364 (378)
T 3q15_A          351 HFEQAAAFYRKVLK  364 (378)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999998887653

>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=99.19  E-value=1.1e-09  Score=96.66  Aligned_cols=167  Identities=11%  Similarity=0.012  Sum_probs=140.6

Q ss_pred             cHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhh
Q 005881          415 VIGSALVDMYAKCGRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACV  491 (672)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~  491 (672)
                      ..+..+...+...|++++|.+.|+.+.+   .+...|..+...+...|++++|.+.++++.+.. +.+...+..+...+.
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            3456677888899999999999999874   456688889999999999999999999998852 345678888899999


Q ss_pred             ccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHH
Q 005881          492 HIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRY  569 (672)
Q Consensus       492 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~  569 (672)
                      ..|++++|...++.+...  .+.+...+..++.++...|++++|.+.+++. ...| +...+..+...+...|++++|..
T Consensus        88 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999998753  2346788899999999999999999999763 2234 56788889999999999999999


Q ss_pred             HHHHHhcCCCCCCch
Q 005881          570 AAEKILSTDPEDTSA  584 (672)
Q Consensus       570 ~~~~~~~~~p~~~~~  584 (672)
                      .++++++..|+++..
T Consensus       166 ~~~~~~~~~~~~~~~  180 (186)
T 3as5_A          166 HFKKANELDEGASVE  180 (186)
T ss_dssp             HHHHHHHHHHCCCGG
T ss_pred             HHHHHHHcCCCchhh
Confidence            999999999877643

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.17  E-value=3.6e-10  Score=108.29  Aligned_cols=188  Identities=12%  Similarity=-0.039  Sum_probs=128.8

Q ss_pred             HHHHhcCCHHHHHHHHhhCCC-----CC----chhHHHHHHHHHhcCChHHHHHHHHHHHHCCC---CCC--HHHHHHHH
Q 005881          422 DMYAKCGRLNDARKVFDHLSS-----KN----LVSWNTMLVGYAQHGLGREALEIYSMMQENKI---KPN--DNTFIGVL  487 (672)
Q Consensus       422 ~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~~~~~ll  487 (672)
                      ..|...|++++|.+.|++...     .+    ..+|+.+...|...|++++|+..|++..+...   .+.  ..++..+.
T Consensus        45 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  124 (292)
T 1qqe_A           45 TIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELG  124 (292)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            345666777777776665531     11    34677888888888889888888888765210   111  24678888


Q ss_pred             HHhhcc-CcHHHHHHHHHHhHHhhCCCCc----hHHHHHHHHHhhccCChHHHHHHHHhC-CCCCC---H-----HHHHH
Q 005881          488 SACVHI-GLVEEGWHYFNSMIRDHGISPR----MDHIASVVHLFACRGQTRRAYEFIKSS-PIEPN---K-----VVWRC  553 (672)
Q Consensus       488 ~~~~~~-g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~---~-----~~~~~  553 (672)
                      ..+... |++++|+..|++..+...-..+    ...+..++.+|.+.|++++|++.+++. ...|+   .     ..|..
T Consensus       125 ~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  204 (292)
T 1qqe_A          125 EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLK  204 (292)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHH
T ss_pred             HHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHH
Confidence            888886 9999999999988743211111    356888999999999999999999763 22222   1     15667


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhcCCCCCCch-----HHHHHHHHH--hcCChHHHHHHHHHHh
Q 005881          554 LLSGCKTHKDLVLGRYAAEKILSTDPEDTSA-----HIMLSNVYA--EANMWDETAKVRKIMK  609 (672)
Q Consensus       554 l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-----~~~l~~~~~--~~g~~~~a~~~~~~~~  609 (672)
                      +...+...|+++.|...++++++++|+....     +..++..|.  ..+++++|.+.++.+.
T Consensus       205 lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          205 KGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             HHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence            7777889999999999999999999976553     344566665  4567888888887553

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.15  E-value=1.7e-08  Score=100.68  Aligned_cols=226  Identities=8%  Similarity=0.043  Sum_probs=160.8

Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCC-CCC----hHHHHHHHHHHcCcCchHHHHHHHHHHHhcC-----CCC-cccHHHHH
Q 005881          352 AGHLASCHYGEAIELLKDMLFEGH-CPN----LYTYSNILNISSDIPAIEWGKQTHCCIVKPG-----FDS-NVVIGSAL  420 (672)
Q Consensus       352 ~~~~~~~~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~-~~~~~~~l  420 (672)
                      ..+...|++++|+..|++...... .++    ..++..+-..+...|+++.|...+....+..     ..+ ...+++.+
T Consensus       109 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  188 (378)
T 3q15_A          109 MYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVI  188 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHH
T ss_pred             HHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHH
Confidence            344566777777777776654311 122    2344555556666777777777666665421     111 24456778


Q ss_pred             HHHHHhcCCHHHHHHHHhhCCC-----CC----chhHHHHHHHHHhcCChHHHHHHHHHHHH-----CCCCCCHHHHHHH
Q 005881          421 VDMYAKCGRLNDARKVFDHLSS-----KN----LVSWNTMLVGYAQHGLGREALEIYSMMQE-----NKIKPNDNTFIGV  486 (672)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~~~~~l  486 (672)
                      ...|...|++++|.+.|++..+     ++    ..+++.+...|...|++++|++.|++..+     .. +....++..+
T Consensus       189 g~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~l  267 (378)
T 3q15_A          189 AGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFGL  267 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHHH
Confidence            8888899999999988877652     22    23678888999999999999999999887     42 2224678889


Q ss_pred             HHHhhccCcHHHHHHHHHHhHHhhCCCCc---hHHHHHHHHHhhccCC---hHHHHHHHHhCCCCCCHH-HHHHHHHHHH
Q 005881          487 LSACVHIGLVEEGWHYFNSMIRDHGISPR---MDHIASVVHLFACRGQ---TRRAYEFIKSSPIEPNKV-VWRCLLSGCK  559 (672)
Q Consensus       487 l~~~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~p~~~-~~~~l~~~~~  559 (672)
                      ...+.+.|++++|...+++..+...-.++   ...+..+...+...|+   +++|+.++++.+..|+.. .+..+...+.
T Consensus       268 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~y~  347 (378)
T 3q15_A          268 SWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAAVFE  347 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHH
Confidence            99999999999999999998754332222   3556777788888888   999999999876555433 5566777899


Q ss_pred             hcCCHHHHHHHHHHHhcCC
Q 005881          560 THKDLVLGRYAAEKILSTD  578 (672)
Q Consensus       560 ~~g~~~~a~~~~~~~~~~~  578 (672)
                      ..|++++|...++++++..
T Consensus       348 ~~g~~~~A~~~~~~al~~~  366 (378)
T 3q15_A          348 SSCHFEQAAAFYRKVLKAQ  366 (378)
T ss_dssp             HTTCHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHH
Confidence            9999999999999987653

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.11  E-value=3.7e-09  Score=99.47  Aligned_cols=202  Identities=9%  Similarity=-0.026  Sum_probs=119.7

Q ss_pred             cHHHHHHHHHHhcCCHHHHHHHHhhCCC--CC----chhHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CCC-HHHHHHH
Q 005881          415 VIGSALVDMYAKCGRLNDARKVFDHLSS--KN----LVSWNTMLVGYAQHGLGREALEIYSMMQENKI-KPN-DNTFIGV  486 (672)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~-~~~~~~l  486 (672)
                      ..+-.+...+.+.|++++|...|+.+.+  |+    ...+..+..+|...|++++|+..|++..+... .|. ...+..+
T Consensus        16 ~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l   95 (261)
T 3qky_A           16 QEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYER   95 (261)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHH
Confidence            3344445555566666666666666542  22    23455555666666666666666666665311 111 1234445


Q ss_pred             HHHhhc--------cCcHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHH
Q 005881          487 LSACVH--------IGLVEEGWHYFNSMIRDHGISPR-MDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSG  557 (672)
Q Consensus       487 l~~~~~--------~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~  557 (672)
                      ..++..        .|++++|...|+++.+.+   |+ ......+.......+..               ...+..+...
T Consensus        96 g~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~---p~~~~~~~a~~~~~~~~~~~---------------~~~~~~la~~  157 (261)
T 3qky_A           96 AMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY---PNHELVDDATQKIRELRAKL---------------ARKQYEAARL  157 (261)
T ss_dssp             HHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC---TTCTTHHHHHHHHHHHHHHH---------------HHHHHHHHHH
T ss_pred             HHHHHHhcccccccchhHHHHHHHHHHHHHHC---cCchhHHHHHHHHHHHHHHH---------------HHHHHHHHHH
Confidence            555555        566666666666655332   22 11111111110000000               0113556777


Q ss_pred             HHhcCCHHHHHHHHHHHhcCCCCC---CchHHHHHHHHHhc----------CChHHHHHHHHHHhhCCCccCCceeEEEe
Q 005881          558 CKTHKDLVLGRYAAEKILSTDPED---TSAHIMLSNVYAEA----------NMWDETAKVRKIMKEKSLKKDTGCSWTEL  624 (672)
Q Consensus       558 ~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  624 (672)
                      +...|+++.|+..++++++..|++   +.++..++.+|...          |++++|.+.++++.+..+           
T Consensus       158 ~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p-----------  226 (261)
T 3qky_A          158 YERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFP-----------  226 (261)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCT-----------
T ss_pred             HHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCC-----------
Confidence            899999999999999999999984   45788999999977          999999999999876322           


Q ss_pred             CCEEEEEEeccccCCChHHHHHHHHHHHHHHHh
Q 005881          625 QNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFD  657 (672)
Q Consensus       625 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  657 (672)
                                  .+|...+....+..+...+.+
T Consensus       227 ------------~~~~~~~a~~~l~~~~~~~~~  247 (261)
T 3qky_A          227 ------------DSPLLRTAEELYTRARQRLTE  247 (261)
T ss_dssp             ------------TCTHHHHHHHHHHHHHHHHHH
T ss_pred             ------------CChHHHHHHHHHHHHHHHHHH
Confidence                        245556667677776666654

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.10  E-value=3.2e-10  Score=121.30  Aligned_cols=162  Identities=14%  Similarity=0.148  Sum_probs=138.2

Q ss_pred             cccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHH
Q 005881          413 NVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NTFIGVLS  488 (672)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~  488 (672)
                      +...++.|...|.+.|++++|.+.|++..   ..+..+|+.+...|.+.|++++|++.|++.++  +.|+. ..|..+..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~--l~P~~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHH
Confidence            45667888899999999999999999876   34567899999999999999999999999998  46664 68899999


Q ss_pred             HhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHH
Q 005881          489 ACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLV  565 (672)
Q Consensus       489 ~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~  565 (672)
                      ++...|++++|++.|++..+   +.| +...+..++.+|...|++++|++.+++ +.+.| +...|..+...+...|+++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~---l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQ---INPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHH
Confidence            99999999999999998883   356 568899999999999999999999976 44566 5668889999999999999


Q ss_pred             HHHHHHHHHhcCCC
Q 005881          566 LGRYAAEKILSTDP  579 (672)
Q Consensus       566 ~a~~~~~~~~~~~p  579 (672)
                      +|.+.+++++++.|
T Consensus       163 ~A~~~~~kal~l~~  176 (723)
T 4gyw_A          163 DYDERMKKLVSIVA  176 (723)
T ss_dssp             THHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCh
Confidence            99999999987654

>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=99.08  E-value=8.7e-11  Score=99.66  Aligned_cols=138  Identities=7%  Similarity=-0.075  Sum_probs=88.6

Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCCh
Q 005881          455 YAQHGLGREALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQT  532 (672)
Q Consensus       455 ~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~  532 (672)
                      +...|++++|+..+++....  .|+. ..+..+...|.+.|++++|++.|++..+   +.| +...|..++.+|.+.|++
T Consensus         7 ~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~---~~p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYIN---VQERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCch
Confidence            33445566666666555442  3332 2344555666666666666666666652   234 456666666666666666


Q ss_pred             HHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHH-HHHHHhcCCCCCCchHHHHHHHHHhcCC
Q 005881          533 RRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRY-AAEKILSTDPEDTSAHIMLSNVYAEANM  597 (672)
Q Consensus       533 ~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~-~~~~~~~~~p~~~~~~~~l~~~~~~~g~  597 (672)
                      ++|...|++ +.+.| +...|..+...+...|+.++|.. .++++++++|+++.+|...+.++...|+
T Consensus        82 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           82 DKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            666666654 23445 45677777777888888766554 4588888999888888888888887775

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.08  E-value=4.8e-10  Score=106.88  Aligned_cols=197  Identities=14%  Similarity=0.163  Sum_probs=115.6

Q ss_pred             ccHHHHHHHHHHhcCCHHHHHHHHhhCCC-------C----CchhHHHHHHHHHhcCChHHHHHHHHHHHHC------CC
Q 005881          414 VVIGSALVDMYAKCGRLNDARKVFDHLSS-------K----NLVSWNTMLVGYAQHGLGREALEIYSMMQEN------KI  476 (672)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~  476 (672)
                      ..++..+...|...|++++|...|++..+       +    ...+|..+...|...|++++|.+.|++....      .-
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  122 (283)
T 3edt_B           43 ATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKF  122 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCC
Confidence            34455566666666666666666655431       1    1235666777777777777777777776653      11


Q ss_pred             CCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhh-----CCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-------
Q 005881          477 KPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDH-----GISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-------  542 (672)
Q Consensus       477 ~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-----~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------  542 (672)
                      .|+ ..++..+...+...|++++|...++++.+..     +..| ....+..++.+|...|++++|.+.+++.       
T Consensus       123 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~  202 (283)
T 3edt_B          123 HPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEK  202 (283)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh
Confidence            122 2456777777778888888888777776431     1123 3456777778888888888887777542       


Q ss_pred             ---CCCCC-HHHHHHHHHHHHhcC------CHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          543 ---PIEPN-KVVWRCLLSGCKTHK------DLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       543 ---~~~p~-~~~~~~l~~~~~~~g------~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                         ...|. ...|..+.......+      .+..+...++......|..+..+..++.+|...|++++|.+.+++..+
T Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          203 EFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               11222 223333333332222      233344444444444555667788999999999999999999988764

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.07  E-value=2.2e-09  Score=102.81  Aligned_cols=212  Identities=10%  Similarity=-0.029  Sum_probs=135.8

Q ss_pred             ChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhC----CCCCChHHHHHHHHHHcCcCchHHHHHHHH
Q 005881          328 LLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFE----GHCPNLYTYSNILNISSDIPAIEWGKQTHC  403 (672)
Q Consensus       328 ~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~----g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~  403 (672)
                      ++++|...|+..           ...|...|++++|++.|.+....    |-.++                         
T Consensus        32 ~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~-------------------------   75 (292)
T 1qqe_A           32 KFEEAADLCVQA-----------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDE-------------------------   75 (292)
T ss_dssp             HHHHHHHHHHHH-----------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHH-------------------------
T ss_pred             cHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHH-------------------------
Confidence            477777766553           66677788888888887776542    11111                         


Q ss_pred             HHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC-----CC----chhHHHHHHHHHhc-CChHHHHHHHHHHHH
Q 005881          404 CIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSS-----KN----LVSWNTMLVGYAQH-GLGREALEIYSMMQE  473 (672)
Q Consensus       404 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~-g~~~~A~~~~~~m~~  473 (672)
                               ...+++.+..+|.+.|++++|...|++..+     .+    ..+|+.+...|... |++++|+..|++..+
T Consensus        76 ---------~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~  146 (292)
T 1qqe_A           76 ---------AGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGE  146 (292)
T ss_dssp             ---------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             ---------HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHH
Confidence                     022334445555555555555555544431     11    23577788888886 999999999988876


Q ss_pred             CCCCCC-------HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCch-----HHHHHHHHHhhccCChHHHHHHHHh
Q 005881          474 NKIKPN-------DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRM-----DHIASVVHLFACRGQTRRAYEFIKS  541 (672)
Q Consensus       474 ~g~~p~-------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-----~~~~~l~~~~~~~g~~~~A~~~~~~  541 (672)
                      .  .|+       ..++..+...+...|++++|+..|++..+...-.+..     ..+..++.++...|++++|...+++
T Consensus       147 ~--~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~  224 (292)
T 1qqe_A          147 W--YAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQE  224 (292)
T ss_dssp             H--HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHG
T ss_pred             H--HHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3  221       2467788888999999999999999887432111221     2567788889999999999999986


Q ss_pred             C-CCCCCHH------HHHHHHHHHH--hcCCHHHHHHHHHHHhcCCCCCCchHH
Q 005881          542 S-PIEPNKV------VWRCLLSGCK--THKDLVLGRYAAEKILSTDPEDTSAHI  586 (672)
Q Consensus       542 ~-~~~p~~~------~~~~l~~~~~--~~g~~~~a~~~~~~~~~~~p~~~~~~~  586 (672)
                      . .+.|+..      .+..++.++.  ..+++++|+..|+++++++|.+...+.
T Consensus       225 al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~~~~~  278 (292)
T 1qqe_A          225 GQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKITILN  278 (292)
T ss_dssp             GGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHHHHHH
T ss_pred             HHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHHHHHH
Confidence            3 4455422      2344455554  457799999999999998885544333

>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=99.05  E-value=3.8e-10  Score=95.68  Aligned_cols=122  Identities=10%  Similarity=-0.012  Sum_probs=101.3

Q ss_pred             HHHHhhccCcHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcC
Q 005881          486 VLSACVHIGLVEEGWHYFNSMIRDHGISPR-MDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHK  562 (672)
Q Consensus       486 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g  562 (672)
                      |...+...|++++|+..++...   ...|+ ...+..+..+|.+.|++++|.+.|++ +.+.| +..+|..+...+...|
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~---~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~   79 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGST---PSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEE   79 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHS---CSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHcChHHHHHHHHHHhc---ccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            4556778899999999998765   44553 45567799999999999999999986 34566 6778999999999999


Q ss_pred             CHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHH-HHHHhh
Q 005881          563 DLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKV-RKIMKE  610 (672)
Q Consensus       563 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~-~~~~~~  610 (672)
                      ++++|+..|+++++++|+++.++..++.+|.+.|++++|.+. +++..+
T Consensus        80 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~  128 (150)
T 4ga2_A           80 NTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAK  128 (150)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999887776 476654

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.03  E-value=1e-08  Score=93.85  Aligned_cols=179  Identities=13%  Similarity=0.052  Sum_probs=115.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCC--CCc----hhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH----HHHH
Q 005881          416 IGSALVDMYAKCGRLNDARKVFDHLSS--KNL----VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDN----TFIG  485 (672)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----~~~~  485 (672)
                      .+..+...+.+.|++++|...|+.+.+  |+.    ..+..+..+|.+.|++++|+..|+++.+.  .|+..    .+..
T Consensus         6 ~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~--~P~~~~~~~a~~~   83 (225)
T 2yhc_A            6 EIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCcHHHHHHH
Confidence            344455667777888888888877652  321    35666777777888888888888887764  34331    3333


Q ss_pred             HHHHhhc------------------cCcHHHHHHHHHHhHHhhCCCCch-HHHHHHHHHhhccCChHHHHHHHHhCCCCC
Q 005881          486 VLSACVH------------------IGLVEEGWHYFNSMIRDHGISPRM-DHIASVVHLFACRGQTRRAYEFIKSSPIEP  546 (672)
Q Consensus       486 ll~~~~~------------------~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p  546 (672)
                      +..++..                  .|++++|...|+.+++   ..|+. ..+.......    ......          
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~---~~P~~~~a~~a~~~l~----~~~~~~----------  146 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVR---GYPNSQYTTDATKRLV----FLKDRL----------  146 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHT---TCTTCTTHHHHHHHHH----HHHHHH----------
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHH---HCcCChhHHHHHHHHH----HHHHHH----------
Confidence            4444432                  4566666666666652   23321 1111111100    000000          


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC---chHHHHHHHHHhcCChHHHHHHHHHHhhCCCc
Q 005881          547 NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDT---SAHIMLSNVYAEANMWDETAKVRKIMKEKSLK  614 (672)
Q Consensus       547 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  614 (672)
                       ......+...+...|+++.|+..++++++..|+++   .++..++.+|.+.|++++|.+.++.+...++.
T Consensus       147 -~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          147 -AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSN  216 (225)
T ss_dssp             -HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSC
T ss_pred             -HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC
Confidence             00112445668889999999999999999999875   56889999999999999999999998876553

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.03  E-value=2.4e-08  Score=93.28  Aligned_cols=173  Identities=9%  Similarity=0.019  Sum_probs=100.1

Q ss_pred             HHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHH
Q 005881          433 ARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIR  508 (672)
Q Consensus       433 A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  508 (672)
                      |...|++..   .++..++..+..++...|++++|++++.+.+..|-.++ ...+..++..+.+.|+++.|.+.++.|.+
T Consensus        85 a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~  164 (310)
T 3mv2_B           85 NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN  164 (310)
T ss_dssp             CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            445555444   23334445566666666777777777766655432122 24556666666777777777777776652


Q ss_pred             hhCCCC-----chHHHHHHHHH--hhc--cCChHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC-
Q 005881          509 DHGISP-----RMDHIASVVHL--FAC--RGQTRRAYEFIKSSPI-EPNKVVWRCLLSGCKTHKDLVLGRYAAEKILST-  577 (672)
Q Consensus       509 ~~~~~p-----~~~~~~~l~~~--~~~--~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-  577 (672)
                         ..|     +..+...|+.+  ...  .++.++|..+|+++.. .|+..+-..++.++.+.|++++|+..++.+++. 
T Consensus       165 ---~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          165 ---AIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             ---HSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             ---cCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence               244     23444444433  222  2367777777766432 234222233344666677777777777766665 


Q ss_pred             ---------CCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          578 ---------DPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       578 ---------~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                               +|+++.++..++.+....|+  +|.++++++.+
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~  281 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVK  281 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHH
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHH
Confidence                     46677777677666666676  67777777765

>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=99.02  E-value=6.5e-10  Score=119.68  Aligned_cols=167  Identities=10%  Similarity=-0.034  Sum_probs=103.2

Q ss_pred             HhcCCHHHHHHHHhhCC-----------CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhc
Q 005881          425 AKCGRLNDARKVFDHLS-----------SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVH  492 (672)
Q Consensus       425 ~~~g~~~~A~~~~~~~~-----------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~  492 (672)
                      ...|++++|.+.+++..           ..+...|..+...+...|++++|++.|++..+.  .|+ ...+..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAER--VGWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HCCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhcc--CcchHHHHHHHHHHHHH
Confidence            44566666666666554           233445666666666777777777777776663  333 3456666666667


Q ss_pred             cCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHH
Q 005881          493 IGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRY  569 (672)
Q Consensus       493 ~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~  569 (672)
                      .|++++|...|+++.+   +.| +...+..+..+|.+.|++++ .+.+++. ...| +...|..+..++...|++++|+.
T Consensus       480 ~g~~~~A~~~~~~al~---l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLD---TFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             HTCHHHHHHHHHHHHH---HSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHH
Confidence            7777777777766653   234 44666666777777777766 6666542 2334 44566666666777777777777


Q ss_pred             HHHHHhcCCCCCCchHHHHHHHHHhcCC
Q 005881          570 AAEKILSTDPEDTSAHIMLSNVYAEANM  597 (672)
Q Consensus       570 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~  597 (672)
                      .++++++++|++..++..++.+|...|+
T Consensus       556 ~~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          556 TLDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HHHhhcccCcccHHHHHHHHHHHHccCC
Confidence            7777777777666777777777655443

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.01  E-value=1.1e-07  Score=94.70  Aligned_cols=121  Identities=11%  Similarity=-0.142  Sum_probs=53.8

Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCChh----hHHHHHHHhhccCCchhHHHHHHHHHHhCCC---C--chHHHHHHHHH
Q 005881          252 GYAQLGKACEAIDLFVKMFSSGLMPSEV----TFSYVLGAFADVKETIGGRQLHSLIIKMGFS---S--FTFVANTVLDF  322 (672)
Q Consensus       252 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~----t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---~--~~~~~~~li~~  322 (672)
                      .+...|++++|...+++........+..    .+..+-..+...|+++.|...+....+....   +  ...++..+...
T Consensus        23 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~  102 (373)
T 1hz4_A           23 VAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEI  102 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            3445666666666666655543111111    2222333444455555555555554432100   0  01123334444


Q ss_pred             HHccCChHHHHHHHhhCCC-------C----CcccHHHHHHHHHhcCChhHHHHHHHHHHh
Q 005881          323 YSKCELLEESLKTFDEMDE-------H----DVVSWNALIAGHLASCHYGEAIELLKDMLF  372 (672)
Q Consensus       323 ~~~~~~~~~a~~~~~~~~~-------~----~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  372 (672)
                      +...|++++|...+++...       +    ....+..+...+...|++++|...+++...
T Consensus       103 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  163 (373)
T 1hz4_A          103 LFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIE  163 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            5555555555555544321       1    011233344455555555555555555443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.00  E-value=4.7e-09  Score=99.98  Aligned_cols=175  Identities=7%  Similarity=-0.048  Sum_probs=138.1

Q ss_pred             HHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHH
Q 005881          430 LNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIR  508 (672)
Q Consensus       430 ~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~  508 (672)
                      .+...+.+......+...+..+...+...|++++|...|++..+.  .|+. ..+..+...+...|++++|...++++..
T Consensus       102 ~~~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~  179 (287)
T 3qou_A          102 EEAIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQL--SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPL  179 (287)
T ss_dssp             HHHHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCG
T ss_pred             HHHHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCch
Confidence            334445555555455566777888889999999999999999884  5554 5788888999999999999999998863


Q ss_pred             hhCCCCchHHHH-HHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC--Cc
Q 005881          509 DHGISPRMDHIA-SVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPED--TS  583 (672)
Q Consensus       509 ~~~~~p~~~~~~-~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~--~~  583 (672)
                         ..|+..... .....+.+.++.++|.+.+++ +...| +...+..+...+...|++++|...++++++.+|++  ..
T Consensus       180 ---~~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~  256 (287)
T 3qou_A          180 ---QDQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQ  256 (287)
T ss_dssp             ---GGCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGH
T ss_pred             ---hhcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccch
Confidence               345543332 333346677888888888765 33455 67788899999999999999999999999999987  88


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          584 AHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       584 ~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      ++..++.+|...|+.++|...+++..
T Consensus       257 a~~~l~~~~~~~g~~~~a~~~~r~al  282 (287)
T 3qou_A          257 TRXTFQEILAALGTGDALASXYRRQL  282 (287)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHH
Confidence            99999999999999999999888754

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.99  E-value=6.8e-09  Score=97.60  Aligned_cols=202  Identities=8%  Similarity=-0.009  Sum_probs=140.4

Q ss_pred             ChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCC--cccHHHHHHHHHHhcCCHHHHHHHHhhCCC--CC----chhHH
Q 005881          378 NLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDS--NVVIGSALVDMYAKCGRLNDARKVFDHLSS--KN----LVSWN  449 (672)
Q Consensus       378 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~  449 (672)
                      +...+......+.+.|++++|...++.+++.....  ....+..+..+|.+.|++++|...|+.+.+  |+    ...+.
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            45566666778889999999999999999875322  156677888999999999999999999873  32    23677


Q ss_pred             HHHHHHHh--------cCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHH
Q 005881          450 TMLVGYAQ--------HGLGREALEIYSMMQENKIKPNDN-TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIA  520 (672)
Q Consensus       450 ~li~~~~~--------~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~  520 (672)
                      .+..++..        .|++++|+..|++.++.  .|+.. ....+              ..+..+...     -...+.
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~--------------~~~~~~~~~-----~~~~~~  152 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDAT--------------QKIRELRAK-----LARKQY  152 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHHH--------------HHHHHHHHH-----HHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHHH--------------HHHHHHHHH-----HHHHHH
Confidence            78888888        99999999999999984  45532 22111              111111100     012355


Q ss_pred             HHHHHhhccCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhc----------CCHHHHHHHHHHHhcCCCCCCch-
Q 005881          521 SVVHLFACRGQTRRAYEFIKSS-PIEPN----KVVWRCLLSGCKTH----------KDLVLGRYAAEKILSTDPEDTSA-  584 (672)
Q Consensus       521 ~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~p~~~~~-  584 (672)
                      .++.+|.+.|++++|...+++. ...|+    ...+..+..++...          |++++|...++++++..|+++.. 
T Consensus       153 ~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  232 (261)
T 3qky_A          153 EAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLR  232 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHHH
Confidence            6777788888888888887653 12232    34566666666655          89999999999999999988643 


Q ss_pred             --HHHHHHHHHhcCChHH
Q 005881          585 --HIMLSNVYAEANMWDE  600 (672)
Q Consensus       585 --~~~l~~~~~~~g~~~~  600 (672)
                        ...+..++...|++++
T Consensus       233 ~a~~~l~~~~~~~~~~~~  250 (261)
T 3qky_A          233 TAEELYTRARQRLTELEG  250 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHhhh
Confidence              4455555655555543

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.98  E-value=4.2e-08  Score=91.62  Aligned_cols=240  Identities=8%  Similarity=-0.023  Sum_probs=157.6

Q ss_pred             HHccCChHHHHHHHhhCCCCCccc-HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHH
Q 005881          323 YSKCELLEESLKTFDEMDEHDVVS-WNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQT  401 (672)
Q Consensus       323 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~  401 (672)
                      ..-.|.+..++.-...+...+... ---+.++|...|+++..         ..-.|....+..+...+ ..+    +...
T Consensus        23 ~fy~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~----a~~~   88 (310)
T 3mv2_B           23 NYYTGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK----NIEE   88 (310)
T ss_dssp             HHTTTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT----CCHH
T ss_pred             HHHhhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc----HHHH
Confidence            344677777776555554322222 22234677777766531         11233333333333322 222    4556


Q ss_pred             HHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCC-----CchhHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 005881          402 HCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSK-----NLVSWNTMLVGYAQHGLGREALEIYSMMQENKI  476 (672)
Q Consensus       402 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  476 (672)
                      ++...+.+ .++......+..++...|++++|.+++.+....     +...+-.++..+.+.|+.+.|.+.+++|.+  .
T Consensus        89 l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~--~  165 (310)
T 3mv2_B           89 LENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN--A  165 (310)
T ss_dssp             HHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--H
T ss_pred             HHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--c
Confidence            66665554 334444557788888999999999999987432     345677788899999999999999999988  4


Q ss_pred             CC-----CHHHHHHHHHH--hhccC--cHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCC---
Q 005881          477 KP-----NDNTFIGVLSA--CVHIG--LVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPI---  544 (672)
Q Consensus       477 ~p-----~~~~~~~ll~~--~~~~g--~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---  544 (672)
                      .|     +..+...+..+  ....|  ++.+|..+|+++..   ..|+......+..++.+.|++++|.+.++.+..   
T Consensus       166 ~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~---~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p  242 (310)
T 3mv2_B          166 IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQ---TFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYY  242 (310)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHT---TSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHH
T ss_pred             CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHH---hCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcc
Confidence            77     36666667666  33334  89999999999873   345533334444489999999999999875321   


Q ss_pred             --------CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCch
Q 005881          545 --------EP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSA  584 (672)
Q Consensus       545 --------~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  584 (672)
                              .| ++.+...++......|+  .|.++++++.+..|+++..
T Consensus       243 ~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i  289 (310)
T 3mv2_B          243 SVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFI  289 (310)
T ss_dssp             HTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHH
T ss_pred             cccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHH
Confidence                    25 45566566666666777  8899999999999988654

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.97  E-value=2.1e-08  Score=82.96  Aligned_cols=129  Identities=20%  Similarity=0.240  Sum_probs=80.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhh
Q 005881          448 WNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFA  527 (672)
Q Consensus       448 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  527 (672)
                      |..+...+...|++++|.++|+++.+.+ +.+...+..+...+...|++++|...++.+...   .              
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---~--------------   65 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL---D--------------   65 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---C--------------
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH---C--------------
Confidence            4455555556666666666666655532 223344445555555555555555555554421   1              


Q ss_pred             ccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHH
Q 005881          528 CRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKI  607 (672)
Q Consensus       528 ~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  607 (672)
                                       ..+...|..+...+...|++++|...++++++..|+++..+..++.+|...|++++|.+.+++
T Consensus        66 -----------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  128 (136)
T 2fo7_A           66 -----------------PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQK  128 (136)
T ss_dssp             -----------------TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             -----------------CCchHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHH
Confidence                             123445666666677777777888888877777777777777888888888888888888877


Q ss_pred             HhhC
Q 005881          608 MKEK  611 (672)
Q Consensus       608 ~~~~  611 (672)
                      +.+.
T Consensus       129 ~~~~  132 (136)
T 2fo7_A          129 ALEL  132 (136)
T ss_dssp             HHHH
T ss_pred             HHcc
Confidence            6553

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.97  E-value=5.8e-08  Score=87.69  Aligned_cols=172  Identities=5%  Similarity=-0.062  Sum_probs=136.9

Q ss_pred             HHHHHhhCC-CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccC----cHHHHHHHHHHhH
Q 005881          433 ARKVFDHLS-SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIG----LVEEGWHYFNSMI  507 (672)
Q Consensus       433 A~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g----~~~~a~~~~~~~~  507 (672)
                      |.+.|++.. ..++..+..+...|...+++++|++.|++..+.|   +...+..+...|.. +    ++++|..+|++..
T Consensus         5 A~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            444444443 3566778888888888999999999999998865   45666777777777 6    8999999999886


Q ss_pred             HhhCCCCchHHHHHHHHHhhc----cCChHHHHHHHHhC-CCCCC---HHHHHHHHHHHHh----cCCHHHHHHHHHHHh
Q 005881          508 RDHGISPRMDHIASVVHLFAC----RGQTRRAYEFIKSS-PIEPN---KVVWRCLLSGCKT----HKDLVLGRYAAEKIL  575 (672)
Q Consensus       508 ~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~-~~~p~---~~~~~~l~~~~~~----~g~~~~a~~~~~~~~  575 (672)
                      +    .-++..+..|..+|..    .+++++|.+++++. ...|.   +..+..|...|..    .++.++|...++++.
T Consensus        81 ~----~g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~  156 (212)
T 3rjv_A           81 E----AGSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSS  156 (212)
T ss_dssp             H----TTCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHH
T ss_pred             H----CCCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            3    2356778888888887    88999999999874 34443   7788888888887    789999999999999


Q ss_pred             cCCCCCCchHHHHHHHHHhc-C-----ChHHHHHHHHHHhhCCC
Q 005881          576 STDPEDTSAHIMLSNVYAEA-N-----MWDETAKVRKIMKEKSL  613 (672)
Q Consensus       576 ~~~p~~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~~~~~~~  613 (672)
                      ++ |.++.++..|+.+|... |     ++++|.+.+++..+.|.
T Consensus       157 ~~-~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          157 SL-SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HT-SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             Hc-CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            98 66888999999999864 3     89999999998876543

>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=98.95  E-value=2e-08  Score=95.55  Aligned_cols=165  Identities=13%  Similarity=0.108  Sum_probs=105.6

Q ss_pred             ccHHHHHHHHHHhcCCHHHHHHHHhhCCC-------C----CchhHHHHHHHHHhcCChHHHHHHHHHHHHC------CC
Q 005881          414 VVIGSALVDMYAKCGRLNDARKVFDHLSS-------K----NLVSWNTMLVGYAQHGLGREALEIYSMMQEN------KI  476 (672)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~  476 (672)
                      ..++..+...|...|++++|.+.|++...       +    ...+|..+...|...|++++|.+.|+++.+.      +-
T Consensus        85 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  164 (283)
T 3edt_B           85 AATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPD  164 (283)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTT
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCC
Confidence            34556666677777777777777666541       1    1346777888888889999999998888763      11


Q ss_pred             CCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhh------CCCC-chHHHHHHHHHhhccC------ChHHHHHHHHhC
Q 005881          477 KPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDH------GISP-RMDHIASVVHLFACRG------QTRRAYEFIKSS  542 (672)
Q Consensus       477 ~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~------~~~p-~~~~~~~l~~~~~~~g------~~~~A~~~~~~~  542 (672)
                      .|+ ..++..+...+...|++++|...++.+.+..      ...+ ....+..+...+...+      .+.++...++..
T Consensus       165 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (283)
T 3edt_B          165 DPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKAC  244 (283)
T ss_dssp             CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CC
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhc
Confidence            333 2468888889999999999999998887431      1122 2234444444443333      344555555555


Q ss_pred             CC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC
Q 005881          543 PI-EP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTD  578 (672)
Q Consensus       543 ~~-~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  578 (672)
                      .. .| ...++..+...+...|++++|...++++++..
T Consensus       245 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  282 (283)
T 3edt_B          245 KVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRNR  282 (283)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            42 23 34467788888999999999999999998763

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.94  E-value=3.5e-09  Score=89.14  Aligned_cols=101  Identities=12%  Similarity=0.016  Sum_probs=87.2

Q ss_pred             CCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHH
Q 005881          511 GISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIM  587 (672)
Q Consensus       511 ~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  587 (672)
                      .+.| +...+..++..+.+.|++++|.+.|++. ...| +...|..+..++...|++++|+..|+++++++|+++.++..
T Consensus        30 ~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~  109 (151)
T 3gyz_A           30 AIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFH  109 (151)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHH
Confidence            4555 3567777888888888888888888763 3456 67789999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhC
Q 005881          588 LSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       588 l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      ++.+|...|++++|.+.+++..+.
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            999999999999999999998764

>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=1.1e-08  Score=108.19  Aligned_cols=158  Identities=10%  Similarity=-0.002  Sum_probs=122.8

Q ss_pred             cCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHHHHHH
Q 005881          427 CGRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEEGWHY  502 (672)
Q Consensus       427 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~  502 (672)
                      .|++++|.+.|++..+   .+...|..+...|...|++++|.+.|++..+.  .|+ ...+..+..++...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLAL--HPGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4788999999998873   34568899999999999999999999999985  454 56888899999999999999999


Q ss_pred             HHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc---CCHHHHHHHHHHHhc
Q 005881          503 FNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTH---KDLVLGRYAAEKILS  576 (672)
Q Consensus       503 ~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~  576 (672)
                      +++..+.   .| +...+..+..+|.+.|++++|.+.+++. ...| +...+..+...+...   |+.++|...++++++
T Consensus        80 ~~~al~~---~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           80 LQQASDA---APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHhc---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            9998843   45 5788999999999999999999999863 3345 567888888899999   999999999999999


Q ss_pred             CCCCCCchHHHHH
Q 005881          577 TDPEDTSAHIMLS  589 (672)
Q Consensus       577 ~~p~~~~~~~~l~  589 (672)
                      .+|++...+..++
T Consensus       157 ~~p~~~~~~~~l~  169 (568)
T 2vsy_A          157 QGVGAVEPFAFLS  169 (568)
T ss_dssp             HTCCCSCHHHHTT
T ss_pred             cCCcccChHHHhC
Confidence            9999988888776

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.89  E-value=1.6e-08  Score=88.39  Aligned_cols=155  Identities=8%  Similarity=-0.005  Sum_probs=94.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHH-hhc
Q 005881          451 MLVGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHL-FAC  528 (672)
Q Consensus       451 li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~-~~~  528 (672)
                      +...+...|++++|...|++..+.  .|+ ...+..+...+...|++++|...++.+...   .|+...+..+... +..
T Consensus        12 ~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A           12 QVSELLQQGEHAQALNVIQTLSDE--LQSRGDVKLAKADCLLETKQFELAQELLATIPLE---YQDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSCHH--HHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG---GCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc---cCChHHHHHHHHHHHHh
Confidence            344445555555555555554442  232 234444555555555555555555544422   2222222111111 111


Q ss_pred             cCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC--CchHHHHHHHHHhcCChHHHHHH
Q 005881          529 RGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPED--TSAHIMLSNVYAEANMWDETAKV  604 (672)
Q Consensus       529 ~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~a~~~  604 (672)
                      .+...+|.+.+++ +...| +...+..+...+...|++++|...++++++.+|+.  +..+..++.+|...|+.++|...
T Consensus        87 ~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~  166 (176)
T 2r5s_A           87 QAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASK  166 (176)
T ss_dssp             HHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHH
T ss_pred             hcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHH
Confidence            1222234555543 22345 56788888889999999999999999999999975  55899999999999999999999


Q ss_pred             HHHHhh
Q 005881          605 RKIMKE  610 (672)
Q Consensus       605 ~~~~~~  610 (672)
                      +++...
T Consensus       167 y~~al~  172 (176)
T 2r5s_A          167 YRRQLY  172 (176)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            987653

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.89  E-value=1.6e-08  Score=91.24  Aligned_cols=151  Identities=11%  Similarity=0.106  Sum_probs=109.7

Q ss_pred             HHhcCCHHHHHHHHhhCCC--C-CchhHHH----------------HHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHH
Q 005881          424 YAKCGRLNDARKVFDHLSS--K-NLVSWNT----------------MLVGYAQHGLGREALEIYSMMQENKIKPN-DNTF  483 (672)
Q Consensus       424 ~~~~g~~~~A~~~~~~~~~--~-~~~~~~~----------------li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~  483 (672)
                      +...|++++|...|+...+  | +...|..                +...|...|++++|+..|++.++.  .|+ ...+
T Consensus        14 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~   91 (208)
T 3urz_A           14 AIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK--APNNVDCL   91 (208)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHH
Confidence            4455566666666555542  1 1223444                888999999999999999999984  555 4678


Q ss_pred             HHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCC--hHHHHHHHHhCCCCCCHH--HHHHHHHHH
Q 005881          484 IGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQ--TRRAYEFIKSSPIEPNKV--VWRCLLSGC  558 (672)
Q Consensus       484 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~p~~~--~~~~l~~~~  558 (672)
                      ..+..++...|++++|...|++..+   +.| +...+..++.+|...|.  .+.+...++... .|++.  .+.....++
T Consensus        92 ~~lg~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~a~~~~g~~~  167 (208)
T 3urz_A           92 EACAEMQVCRGQEKDALRMYEKILQ---LEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLS-SPTKMQYARYRDGLSK  167 (208)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH---cCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHh-CCCchhHHHHHHHHHH
Confidence            8899999999999999999999884   356 57888889988876654  344556665543 44443  344455566


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCC
Q 005881          559 KTHKDLVLGRYAAEKILSTDPE  580 (672)
Q Consensus       559 ~~~g~~~~a~~~~~~~~~~~p~  580 (672)
                      ...|++++|+..+++++++.|+
T Consensus       168 ~~~~~~~~A~~~~~~al~l~P~  189 (208)
T 3urz_A          168 LFTTRYEKARNSLQKVILRFPS  189 (208)
T ss_dssp             HHHHTHHHHHHHHHHHTTTSCC
T ss_pred             HHccCHHHHHHHHHHHHHhCCC
Confidence            7789999999999999999995

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.88  E-value=1.7e-08  Score=82.36  Aligned_cols=94  Identities=7%  Similarity=0.080  Sum_probs=60.7

Q ss_pred             HHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHh
Q 005881          517 DHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAE  594 (672)
Q Consensus       517 ~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  594 (672)
                      ..+...+..|.+.|++++|++.|++ +...| +...|..+..++...|++++|+..++++++++|+++.+|..++.+|..
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~   93 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLVA   93 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence            4455556666666666666666654 22334 455666666666677777777777777777777777777777777777


Q ss_pred             cCChHHHHHHHHHHhh
Q 005881          595 ANMWDETAKVRKIMKE  610 (672)
Q Consensus       595 ~g~~~~a~~~~~~~~~  610 (672)
                      .|++++|.+.+++..+
T Consensus        94 ~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           94 MREWSKAQRAYEDALQ  109 (126)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            7777777777776654

>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=98.87  E-value=6.8e-09  Score=87.56  Aligned_cols=101  Identities=10%  Similarity=0.003  Sum_probs=84.5

Q ss_pred             CCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHH
Q 005881          511 GISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIM  587 (672)
Q Consensus       511 ~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  587 (672)
                      .+.| +...+..++..+.+.|++++|.+.|++. ...| +...|..+..++...|++++|+..++++++++|+++..+..
T Consensus        15 ~~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~   94 (148)
T 2vgx_A           15 EISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFH   94 (148)
T ss_dssp             TCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHH
T ss_pred             cCCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHH
Confidence            4455 4566777788888888888888888753 3345 67788888888999999999999999999999999999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhC
Q 005881          588 LSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       588 l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      ++.+|...|++++|.+.+++..+.
T Consensus        95 lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           95 AAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999999999988653

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.87  E-value=8.4e-09  Score=84.14  Aligned_cols=114  Identities=12%  Similarity=0.064  Sum_probs=90.5

Q ss_pred             CCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHH
Q 005881          476 IKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVW  551 (672)
Q Consensus       476 ~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~  551 (672)
                      +.|+. ..+......+.+.|++++|+..|++.++.   .| +...|..++.+|.+.|++++|++.+++ +.+.| +...|
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~   84 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKR---DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGY   84 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHH
Confidence            45554 35667777888888888888888877732   44 567788888888888888888888875 33445 56788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHH
Q 005881          552 RCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVY  592 (672)
Q Consensus       552 ~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  592 (672)
                      ..+..++...|++++|+..|+++++++|+++.++..++.++
T Consensus        85 ~~lg~~~~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~l  125 (126)
T 4gco_A           85 IRKAACLVAMREWSKAQRAYEDALQVDPSNEEAREGVRNCL  125 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHC
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHhc
Confidence            88999999999999999999999999999999888887653

>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=98.87  E-value=3.5e-08  Score=95.08  Aligned_cols=219  Identities=9%  Similarity=-0.013  Sum_probs=150.1

Q ss_pred             cCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcC-cCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHH
Q 005881          357 SCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSD-IPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARK  435 (672)
Q Consensus       357 ~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  435 (672)
                      .|++++|.+++++..+..  +..         +.. .++++.|...+..+               ...|...|++++|.+
T Consensus         4 ~~~~~eA~~~~~~a~k~~--~~~---------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYL--KTS---------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHH--CCC---------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHc--ccc---------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            456777888777766431  110         111 45666666665443               456777788888888


Q ss_pred             HHhhCCC-----CC----chhHHHHHHHHHhcCChHHHHHHHHHHHHCC---CCCC--HHHHHHHHHHhhccCcHHHHHH
Q 005881          436 VFDHLSS-----KN----LVSWNTMLVGYAQHGLGREALEIYSMMQENK---IKPN--DNTFIGVLSACVHIGLVEEGWH  501 (672)
Q Consensus       436 ~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g---~~p~--~~~~~~ll~~~~~~g~~~~a~~  501 (672)
                      .|.+...     .+    ..+|+.+...|...|++++|+..|++..+.-   -.|.  ..++..+...|.. |++++|+.
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            7776542     12    2377888889999999999999999876521   1222  2467788888888 99999999


Q ss_pred             HHHHhHHhhCCCC----chHHHHHHHHHhhccCChHHHHHHHHhC-------CCCCC-HHHHHHHHHHHHhcCCHHHHHH
Q 005881          502 YFNSMIRDHGISP----RMDHIASVVHLFACRGQTRRAYEFIKSS-------PIEPN-KVVWRCLLSGCKTHKDLVLGRY  569 (672)
Q Consensus       502 ~~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~~l~~~~~~~g~~~~a~~  569 (672)
                      .|++......-..    ....+..+..+|.+.|++++|++.+++.       +..+. ...+..+...+...|+++.|..
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            9998874321111    1467888999999999999999998753       11111 2255566666778899999999


Q ss_pred             HHHHHhcCCCCCCch-----HHHHHHHHHhcCChHHHHHH
Q 005881          570 AAEKILSTDPEDTSA-----HIMLSNVYAEANMWDETAKV  604 (672)
Q Consensus       570 ~~~~~~~~~p~~~~~-----~~~l~~~~~~~g~~~~a~~~  604 (672)
                      .+++++ +.|.....     ...++..+ ..|+.+.+.++
T Consensus       217 ~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          217 CVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            999999 99976543     33455555 56777766663

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.82  E-value=2.4e-08  Score=90.03  Aligned_cols=158  Identities=10%  Similarity=0.099  Sum_probs=121.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHH----------------HHHHhhccCcHHHHHHHHHHhHHhh
Q 005881          448 WNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NTFIG----------------VLSACVHIGLVEEGWHYFNSMIRDH  510 (672)
Q Consensus       448 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~----------------ll~~~~~~g~~~~a~~~~~~~~~~~  510 (672)
                      +-.....+...|++++|+..|++..+  ..|+. ..+..                +..++...|++++|+..|++..+  
T Consensus         7 ~~~~g~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--   82 (208)
T 3urz_A            7 MLQKVSAAIEAGQNGQAVSYFRQTIA--LNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQ--   82 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH--HCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--
Confidence            33455677889999999999999998  46665 35666                88889999999999999999884  


Q ss_pred             CCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC--CHHHHHHHHHHHhcCCCCCCchH
Q 005881          511 GISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHK--DLVLGRYAAEKILSTDPEDTSAH  585 (672)
Q Consensus       511 ~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~~p~~~~~~  585 (672)
                       +.| +...+..++.+|...|++++|.+.|++. ...| +..+|..+...+...|  +.+.+...+++++...| ....+
T Consensus        83 -~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~a~  160 (208)
T 3urz_A           83 -KAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTK-MQYAR  160 (208)
T ss_dssp             -HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCH-HHHHH
T ss_pred             -HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCc-hhHHH
Confidence             356 6788999999999999999999999863 4556 5668888888776554  34556667777665444 22356


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          586 IMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       586 ~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      ..++.++...|++++|...+++..+.
T Consensus       161 ~~~g~~~~~~~~~~~A~~~~~~al~l  186 (208)
T 3urz_A          161 YRDGLSKLFTTRYEKARNSLQKVILR  186 (208)
T ss_dssp             HHHHHHHHHHHTHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            67788888999999999999998753

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.80  E-value=1.1e-07  Score=102.33  Aligned_cols=191  Identities=10%  Similarity=0.051  Sum_probs=143.0

Q ss_pred             cCcCchHHHHHHHHHHHh-------cCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcC
Q 005881          390 SDIPAIEWGKQTHCCIVK-------PGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHG  459 (672)
Q Consensus       390 ~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g  459 (672)
                      ...+++++|.+.++...+       ...+.+...+..+...|.+.|++++|.+.|+++.   ..+...|..+..+|...|
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g  481 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTG  481 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHT
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHcC
Confidence            566677777777776661       1123355677788888999999999999999887   356678899999999999


Q ss_pred             ChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHH
Q 005881          460 LGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYE  537 (672)
Q Consensus       460 ~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~  537 (672)
                      ++++|++.|++..+.  .|+ ...+..+..++...|++++ +..|+++.+   +.| +...+..+..+|.+.|++++|.+
T Consensus       482 ~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~---~~P~~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          482 DYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWS---TNDGVISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             CHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHH---hCCchHHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999984  564 4678889999999999999 999998874   355 56889999999999999999999


Q ss_pred             HHHhC-CCCCC-HHHHHHHHHHHHhcCC-----HHHHHHHHHHHhcCCCCCCchHH
Q 005881          538 FIKSS-PIEPN-KVVWRCLLSGCKTHKD-----LVLGRYAAEKILSTDPEDTSAHI  586 (672)
Q Consensus       538 ~~~~~-~~~p~-~~~~~~l~~~~~~~g~-----~~~a~~~~~~~~~~~p~~~~~~~  586 (672)
                      .+++. ...|+ ...|..+..++...++     .+...++.+.+..+.++++....
T Consensus       556 ~~~~al~l~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~~~~~~~~~~~  611 (681)
T 2pzi_A          556 TLDEVPPTSRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEALPPTEPRVLQ  611 (681)
T ss_dssp             HHHTSCTTSTTHHHHHHHHHHHTC-------CCHHHHHHHHHHHHTSCTTSTTHHH
T ss_pred             HHHhhcccCcccHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhhCCCCcHHHHH
Confidence            99875 56776 4467777777666554     34455555555566665555443

>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=98.80  E-value=6.8e-08  Score=102.18  Aligned_cols=147  Identities=12%  Similarity=0.054  Sum_probs=78.7

Q ss_pred             CChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHH
Q 005881          459 GLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAY  536 (672)
Q Consensus       459 g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~  536 (672)
                      |++++|++.|++..+.  .|+ ...+..+...+...|++++|...+++..   ...| +...+..++.+|...|++++|.
T Consensus         3 g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al---~~~p~~~~~~~~lg~~~~~~g~~~~A~   77 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRH--RPQDFVAWLMLADAELGMGDTTAGEMAVQRGL---ALHPGHPEAVARLGRVRWTQQRHAEAA   77 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHH---TTSTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH---HhCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            5566666666666553  333 3455666666666666666666666655   3344 3456666666666666666666


Q ss_pred             HHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhc---CChHHHHHHHHHHhh
Q 005881          537 EFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEA---NMWDETAKVRKIMKE  610 (672)
Q Consensus       537 ~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~  610 (672)
                      +.+++. ...| +...|..+...+...|++++|...++++++++|+++..+..++.+|...   |++++|.+.+++..+
T Consensus        78 ~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           78 VLLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            666542 2233 3455666666666666666666666666666666666666666666666   666666666665544

>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=98.78  E-value=2.9e-08  Score=95.72  Aligned_cols=197  Identities=10%  Similarity=-0.060  Sum_probs=148.1

Q ss_pred             CcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHH
Q 005881          391 DIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSM  470 (672)
Q Consensus       391 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  470 (672)
                      ..|++++|.++++...+.... .         .+...++++.|...|..           ....|...|++++|.+.|.+
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~-~---------~~~~~~~~~~A~~~~~~-----------a~~~~~~~g~~~~A~~~~~~   61 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKT-S---------FMKWKPDYDSAASEYAK-----------AAVAFKNAKQLEQAKDAYLQ   61 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCC-C---------SSSCSCCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHccc-c---------ccCCCCCHHHHHHHHHH-----------HHHHHHHcCCHHHHHHHHHH
Confidence            356778888888877754221 1         11115788888888765           46778899999999999998


Q ss_pred             HHHC----CCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCC--C--chHHHHHHHHHhhccCChHHHHHHHHh
Q 005881          471 MQEN----KIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGIS--P--RMDHIASVVHLFACRGQTRRAYEFIKS  541 (672)
Q Consensus       471 m~~~----g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~--p--~~~~~~~l~~~~~~~g~~~~A~~~~~~  541 (672)
                      ..+.    |-.+. ..+|..+...|...|++++|+..|++..+.+.-.  |  ....+..+..+|.. |++++|++.+++
T Consensus        62 al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~  140 (307)
T 2ifu_A           62 EAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQ  140 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHH
Confidence            8753    21111 2478888999999999999999999876432111  2  13678889999998 999999999875


Q ss_pred             C-CCC-----C--CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC------chHHHHHHHHHhcCChHHHHHHHHH
Q 005881          542 S-PIE-----P--NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDT------SAHIMLSNVYAEANMWDETAKVRKI  607 (672)
Q Consensus       542 ~-~~~-----p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~a~~~~~~  607 (672)
                      . .+.     +  ...++..+...+...|++++|+..+++++++.|++.      ..+..++.++...|++++|.+.+++
T Consensus       141 Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~  220 (307)
T 2ifu_A          141 AAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRE  220 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            2 111     1  145678888889999999999999999999876543      2667888889999999999999998


Q ss_pred             Hh
Q 005881          608 MK  609 (672)
Q Consensus       608 ~~  609 (672)
                      ..
T Consensus       221 al  222 (307)
T 2ifu_A          221 SY  222 (307)
T ss_dssp             HT
T ss_pred             Hh
Confidence            87

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.78  E-value=9.3e-08  Score=86.56  Aligned_cols=126  Identities=11%  Similarity=-0.058  Sum_probs=68.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhh
Q 005881          448 WNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFA  527 (672)
Q Consensus       448 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  527 (672)
                      +..+...+...|++++|++.|++.    +.|+...+..+..++...|++++|...|+...+..  +.+...+..++.+|.
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHH
Confidence            444555566666666666666655    24555566666666666666666666666655321  123445555555555


Q ss_pred             ccCChHHHHHHHHhC-CCCC-----------------CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 005881          528 CRGQTRRAYEFIKSS-PIEP-----------------NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDP  579 (672)
Q Consensus       528 ~~g~~~~A~~~~~~~-~~~p-----------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  579 (672)
                      ..|++++|.+.+++. ...|                 ....|..+...+...|++++|...+++++++.|
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  152 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCc
Confidence            555555555555432 1111                 113444455555555555555555555555555

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.77  E-value=7.6e-08  Score=91.57  Aligned_cols=134  Identities=6%  Similarity=-0.068  Sum_probs=112.7

Q ss_pred             CCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCCCHHHHHHH
Q 005881          477 KPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEPNKVVWRCL  554 (672)
Q Consensus       477 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l  554 (672)
                      +.+...+..+...+...|++++|...|+++.+.   .| +...+..++.+|.+.|++++|.+.+++. ...|+.......
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQL---SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh---CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHH
Confidence            334456778888899999999999999998843   56 5688999999999999999999999986 356776644444


Q ss_pred             HHH-HHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCC
Q 005881          555 LSG-CKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       555 ~~~-~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  613 (672)
                      ... +...++.+.|...++++++.+|+++..+..++.+|...|++++|.+.++++.+...
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p  250 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDL  250 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhccc
Confidence            333 66778888999999999999999999999999999999999999999999876443

>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=98.76  E-value=8.1e-07  Score=84.87  Aligned_cols=161  Identities=7%  Similarity=-0.059  Sum_probs=119.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCC-CCCCHH----HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc----hHHHH
Q 005881          450 TMLVGYAQHGLGREALEIYSMMQENK-IKPNDN----TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR----MDHIA  520 (672)
Q Consensus       450 ~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~----~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~  520 (672)
                      ..+..+...|++++|.+++++..+.. ..|+..    .+..+...+...|++++|+..|+.+.....-.++    ...++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            34667888899999999999988742 122221    2334666777788999999999988753222223    24688


Q ss_pred             HHHHHhhccCChHHHHHHHHhC--------CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC------CchH
Q 005881          521 SVVHLFACRGQTRRAYEFIKSS--------PIEPN-KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPED------TSAH  585 (672)
Q Consensus       521 ~l~~~~~~~g~~~~A~~~~~~~--------~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~  585 (672)
                      .++.+|...|++++|.+++++.        ...|. ..++..+...|...|++++|...+++++++.+..      +.+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            8999999999999998888653        22222 2367788888999999999999999999876433      5678


Q ss_pred             HHHHHHHHhcCC-hHHHHHHHHHHhh
Q 005881          586 IMLSNVYAEANM-WDETAKVRKIMKE  610 (672)
Q Consensus       586 ~~l~~~~~~~g~-~~~a~~~~~~~~~  610 (672)
                      ..++.+|.+.|+ +++|.+.+++...
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            899999999995 6999999887653

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.76  E-value=2.6e-07  Score=76.24  Aligned_cols=121  Identities=17%  Similarity=0.239  Sum_probs=83.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhc
Q 005881          416 IGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVH  492 (672)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  492 (672)
                      .+..+...+...|++++|..+|+.+.   ..+...|..+...+...|++++|..+|+++...+ +.+...+..+...+..
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            35667777888899999998888765   3456678888888999999999999999988753 3445677778888888


Q ss_pred             cCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHH
Q 005881          493 IGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFI  539 (672)
Q Consensus       493 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  539 (672)
                      .|++++|...++.+....  +.+...+..++.++.+.|++++|.+.+
T Consensus        82 ~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~  126 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD--PRSAEAWYNLGNAYYKQGDYDEAIEYY  126 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHccHHHHHHHH
Confidence            888888888888776321  112333444444444444444444333

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.76  E-value=4.6e-08  Score=81.92  Aligned_cols=100  Identities=7%  Similarity=-0.056  Sum_probs=83.4

Q ss_pred             CCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHH
Q 005881          511 GISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIM  587 (672)
Q Consensus       511 ~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  587 (672)
                      .+.| +...+..++..+.+.|++++|.+.|++. ...| +...|..+...+...|++++|...++++++++|+++..+..
T Consensus        12 ~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~   91 (142)
T 2xcb_A           12 GLSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFH   91 (142)
T ss_dssp             TCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHH
Confidence            3445 3456667777888888888888888753 3345 67788888888999999999999999999999999999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhh
Q 005881          588 LSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       588 l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ++.+|...|++++|.+.+++..+
T Consensus        92 lg~~~~~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           92 AAECHLQLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999999999999999998865

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.75  E-value=8.4e-06  Score=83.55  Aligned_cols=202  Identities=10%  Similarity=-0.043  Sum_probs=110.3

Q ss_pred             hHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHH-HHHHhh
Q 005881          361 GEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDA-RKVFDH  439 (672)
Q Consensus       361 ~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A-~~~~~~  439 (672)
                      +.+..+|++++... +.+...|...+.-+.+.|+.+.|..+++..+..  +.+...+..    |+...+.++. ..+.+.
T Consensus       196 ~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~~~~l~~~  268 (493)
T 2uy1_A          196 SRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAVYGDLKRK  268 (493)
T ss_dssp             HHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHHHHHHHHH
Confidence            34566777776642 334555666666666778888888888888877  333333222    2221111111 111111


Q ss_pred             CC------------CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhh-ccCcHHHHHHHHHHh
Q 005881          440 LS------------SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACV-HIGLVEEGWHYFNSM  506 (672)
Q Consensus       440 ~~------------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~-~~g~~~~a~~~~~~~  506 (672)
                      ..            ......|-..+..+.+.++.+.|..+|++. .. ...+...|......-. ..++.+.|..+|+..
T Consensus       269 ~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~a  346 (493)
T 2uy1_A          269 YSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSG  346 (493)
T ss_dssp             TC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHH
T ss_pred             HHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHH
Confidence            10            001134555555555666777777777777 21 1122333322111111 123577777777777


Q ss_pred             HHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 005881          507 IRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKIL  575 (672)
Q Consensus       507 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  575 (672)
                      .+.++-  ++..+...++.....|+.+.|..+|++..  .....|...+..-..+|+.+.+..++++..
T Consensus       347 l~~~~~--~~~~~~~yid~e~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~  411 (493)
T 2uy1_A          347 LLKHPD--STLLKEEFFLFLLRIGDEENARALFKRLE--KTSRMWDSMIEYEFMVGSMELFRELVDQKM  411 (493)
T ss_dssp             HHHCTT--CHHHHHHHHHHHHHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            654321  23445556666667777777777777763  245667776666666777777777776665

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.72  E-value=1e-06  Score=83.30  Aligned_cols=178  Identities=13%  Similarity=0.173  Sum_probs=100.1

Q ss_pred             CHHHHHHHHhhCC---CCCchhHHHHHHHH----Hhc---CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHH-
Q 005881          429 RLNDARKVFDHLS---SKNLVSWNTMLVGY----AQH---GLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVE-  497 (672)
Q Consensus       429 ~~~~A~~~~~~~~---~~~~~~~~~li~~~----~~~---g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~-  497 (672)
                      +++++.+.++.+.   ..+..+|+.-...+    ...   +++++++++++++.+.. +-|...|..-...+.+.|.++ 
T Consensus        84 ~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~  162 (306)
T 3dra_A           84 NLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHND  162 (306)
T ss_dssp             CHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTC
T ss_pred             cHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccCh
Confidence            5555555555544   22333444433333    333   55666666666666632 233345555444555555555 


Q ss_pred             -HHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCC------hHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCC-HHH
Q 005881          498 -EGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQ------TRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKD-LVL  566 (672)
Q Consensus       498 -~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~------~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~-~~~  566 (672)
                       ++++.++.+.+.   .| +...|+.-..++.+.|+      ++++++++++ +...| |...|+.+...+.+.|+ .+.
T Consensus       163 ~~EL~~~~~~i~~---d~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~  239 (306)
T 3dra_A          163 AKELSFVDKVIDT---DLKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQ  239 (306)
T ss_dssp             HHHHHHHHHHHHH---CTTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGG
T ss_pred             HHHHHHHHHHHHh---CCCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHH
Confidence             666666666532   23 44555555555555554      6666666654 23344 55667666666666555 333


Q ss_pred             HHHHHHHHhcCC---CCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          567 GRYAAEKILSTD---PEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       567 a~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ....++++++++   |.++.++..++++|.+.|+.++|.++++.+.+
T Consensus       240 ~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          240 LEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             GHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            455666666655   66667777777777777777777777777654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.72  E-value=2.6e-07  Score=88.31  Aligned_cols=163  Identities=6%  Similarity=-0.057  Sum_probs=119.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-----HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc----hH
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-----NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR----MD  517 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~  517 (672)
                      .+...+..+...|++++|.+.+++..+.....+.     ..+..+...+...|++++|...++..........+    ..
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            4445677788899999999999888875322111     12344556677888999999999887632211111    35


Q ss_pred             HHHHHHHHhhccCChHHHHHHHHhC-------CCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC------CC
Q 005881          518 HIASVVHLFACRGQTRRAYEFIKSS-------PIEPN--KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPE------DT  582 (672)
Q Consensus       518 ~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~------~~  582 (672)
                      .+..++..|...|++++|.+.+++.       +..+.  ..++..+...|...|++++|...+++++++.++      -.
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            7888999999999999999888652       22221  257788888899999999999999999876542      15


Q ss_pred             chHHHHHHHHHhcCChHHH-HHHHHHHh
Q 005881          583 SAHIMLSNVYAEANMWDET-AKVRKIMK  609 (672)
Q Consensus       583 ~~~~~l~~~~~~~g~~~~a-~~~~~~~~  609 (672)
                      .+|..++.+|.+.|++++| ...+++..
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            6788999999999999999 77777664

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.71  E-value=9.2e-08  Score=83.51  Aligned_cols=155  Identities=9%  Similarity=-0.039  Sum_probs=114.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH-hhc
Q 005881          417 GSALVDMYAKCGRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSA-CVH  492 (672)
Q Consensus       417 ~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~-~~~  492 (672)
                      ...+...+.+.|++++|...|++..+   .+...|..+...+...|++++|+..|++....  .|+...+..+... +..
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHHHHHHHHHHHh
Confidence            34566678888999999999999873   45668888899999999999999999988764  4444332222111 112


Q ss_pred             cCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHh-CCCCCC---HHHHHHHHHHHHhcCCHHHH
Q 005881          493 IGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEPN---KVVWRCLLSGCKTHKDLVLG  567 (672)
Q Consensus       493 ~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~---~~~~~~l~~~~~~~g~~~~a  567 (672)
                      .+...+|...+++..+   ..| +...+..++.++...|++++|.+.+++ +...|+   ...+..+...+...|+.++|
T Consensus        87 ~~~~~~a~~~~~~al~---~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           87 QAAESPELKRLEQELA---ANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHTSCHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             hcccchHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            2223346778887773   356 578888999999999999999999876 344554   55788888889999999999


Q ss_pred             HHHHHHHhc
Q 005881          568 RYAAEKILS  576 (672)
Q Consensus       568 ~~~~~~~~~  576 (672)
                      ...|++++.
T Consensus       164 ~~~y~~al~  172 (176)
T 2r5s_A          164 ASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988763

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.69  E-value=2.9e-07  Score=84.05  Aligned_cols=184  Identities=10%  Similarity=-0.028  Sum_probs=129.4

Q ss_pred             HHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCC--cccHHHHHHHHHHhcCCHHHHHHHHhhCC--CCCch----hHHHH
Q 005881          380 YTYSNILNISSDIPAIEWGKQTHCCIVKPGFDS--NVVIGSALVDMYAKCGRLNDARKVFDHLS--SKNLV----SWNTM  451 (672)
Q Consensus       380 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~----~~~~l  451 (672)
                      ..+......+...|++++|...++.+.+.....  ....+..+..+|.+.|++++|...|+++.  .|+..    .+..+
T Consensus         5 ~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~   84 (225)
T 2yhc_A            5 NEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMR   84 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHH
Confidence            344455667888999999999999999864332  23567778899999999999999999986  23322    45555


Q ss_pred             HHHHHh------------------cCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHhhccCcHHHHHHHHHHhHHhhCC
Q 005881          452 LVGYAQ------------------HGLGREALEIYSMMQENKIKPNDN-TFIGVLSACVHIGLVEEGWHYFNSMIRDHGI  512 (672)
Q Consensus       452 i~~~~~------------------~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  512 (672)
                      ..++..                  .|++++|+..|+++++.  .|+.. .......          ...+...+.     
T Consensus        85 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~----------l~~~~~~~~-----  147 (225)
T 2yhc_A           85 GLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKR----------LVFLKDRLA-----  147 (225)
T ss_dssp             HHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHH----------HHHHHHHHH-----
T ss_pred             HHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHH----------HHHHHHHHH-----
Confidence            555554                  57899999999999985  56653 2211110          001111111     


Q ss_pred             CCchHHHHHHHHHhhccCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCch
Q 005881          513 SPRMDHIASVVHLFACRGQTRRAYEFIKSS-PIEPN----KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSA  584 (672)
Q Consensus       513 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  584 (672)
                          .....++..|.+.|++++|...++++ ...|+    ...+..+..++.+.|+.++|+..++++....|++...
T Consensus       148 ----~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~~~  220 (225)
T 2yhc_A          148 ----KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTLEH  220 (225)
T ss_dssp             ----HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCCCC
T ss_pred             ----HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCchhh
Confidence                12235678888999999999998763 22343    2467788888999999999999999999999976543

>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=98.69  E-value=3e-08  Score=94.02  Aligned_cols=190  Identities=8%  Similarity=-0.023  Sum_probs=131.6

Q ss_pred             ccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHH
Q 005881          414 VVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSA  489 (672)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~  489 (672)
                      ...+..+...+.+.|++++|...|+...   ..+...|..+...|...|++++|++.+++..+.  .|+ ...+..+..+
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~   81 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLGQC   81 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            3455667778888899999999998775   346678888999999999999999999999884  454 4578888889


Q ss_pred             hhccCcHHHHHHHHHHhHHhhCCCCch-HHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 005881          490 CVHIGLVEEGWHYFNSMIRDHGISPRM-DHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGR  568 (672)
Q Consensus       490 ~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~  568 (672)
                      +...|++++|...|+...+.   .|+. ..+...+....+..+...... .......++......+ ..+ ..|+.++|.
T Consensus        82 ~~~~g~~~~A~~~~~~al~l---~p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~l-~~l-~~~~~~~A~  155 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSL---AKEQRLNFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSYL-TRL-IAAEREREL  155 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---HHHTTCCCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHHH-HHH-HHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh---CccchhhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHH-HHH-HHHHHHHHH
Confidence            99999999999999887743   2211 111111111111111111111 2222223343333333 333 368999999


Q ss_pred             HHHHHHhcCCCCCCchHHHHHHHHHhc-CChHHHHHHHHHHhhC
Q 005881          569 YAAEKILSTDPEDTSAHIMLSNVYAEA-NMWDETAKVRKIMKEK  611 (672)
Q Consensus       569 ~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~  611 (672)
                      ..++++++++|++......+..++.+. +.+++|.++|+++.+.
T Consensus       156 ~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          156 EECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             TTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            999999999998887777888888776 7899999999988653

>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=98.64  E-value=2.4e-07  Score=75.63  Aligned_cols=95  Identities=7%  Similarity=0.002  Sum_probs=78.2

Q ss_pred             hHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHH
Q 005881          516 MDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYA  593 (672)
Q Consensus       516 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  593 (672)
                      ...+..++..+.+.|++++|.+.|++. ...| +...|..+...+...|++++|+..++++++++|+++..+..++.+|.
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            345666677777777777777777652 3344 56788888888999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHhh
Q 005881          594 EANMWDETAKVRKIMKE  610 (672)
Q Consensus       594 ~~g~~~~a~~~~~~~~~  610 (672)
                      ..|++++|.+.+++..+
T Consensus        84 ~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           84 AVKEYASALETLDAART  100 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHH
Confidence            99999999999998865

>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=98.64  E-value=1.2e-06  Score=79.10  Aligned_cols=150  Identities=9%  Similarity=-0.005  Sum_probs=117.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHH
Q 005881          418 SALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVE  497 (672)
Q Consensus       418 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~  497 (672)
                      ..+...+...|++++|.+.|++...++...|..+...|...|++++|++.|++..+.. +.+...+..+..++...|+++
T Consensus        10 ~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~   88 (213)
T 1hh8_A           10 WNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYD   88 (213)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccHH
Confidence            4566778889999999999999998888999999999999999999999999999853 344568888999999999999


Q ss_pred             HHHHHHHHhHHhhC-------------CCC-chHHHHHHHHHhhccCChHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcC
Q 005881          498 EGWHYFNSMIRDHG-------------ISP-RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEPNKVVWRCLLSGCKTHK  562 (672)
Q Consensus       498 ~a~~~~~~~~~~~~-------------~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~~~~~~~l~~~~~~~g  562 (672)
                      +|...|+...+...             ..| ....+..++.+|...|++++|.+.+++ +...|+.           ..+
T Consensus        89 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~-----------~~~  157 (213)
T 1hh8_A           89 LAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP-----------RHS  157 (213)
T ss_dssp             HHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG-----------GGG
T ss_pred             HHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc-----------ccc
Confidence            99999999885322             112 237888999999999999999999986 3556654           224


Q ss_pred             CHHHHHHHHHHHhcCCC
Q 005881          563 DLVLGRYAAEKILSTDP  579 (672)
Q Consensus       563 ~~~~a~~~~~~~~~~~p  579 (672)
                      ..+.+...+++.....|
T Consensus       158 ~~~~a~~~~~~~~~~~~  174 (213)
T 1hh8_A          158 KIDKAMECVWKQKLYEP  174 (213)
T ss_dssp             HHHHHHHHHHTTCCCCC
T ss_pred             hHHHHHHHHHhcccccc
Confidence            45555555554443333

>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=98.64  E-value=1.1e-07  Score=92.65  Aligned_cols=94  Identities=14%  Similarity=0.030  Sum_probs=77.7

Q ss_pred             hHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHH
Q 005881          516 MDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYA  593 (672)
Q Consensus       516 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  593 (672)
                      ...|..+..+|.+.|++++|++.+++. .+.| +...|..+..++...|++++|+..++++++++|+++.++..++.++.
T Consensus       196 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  275 (336)
T 1p5q_A          196 LASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQ  275 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            356777777888888888888777652 3344 66788888999999999999999999999999999999999999999


Q ss_pred             hcCChHHH-HHHHHHHh
Q 005881          594 EANMWDET-AKVRKIMK  609 (672)
Q Consensus       594 ~~g~~~~a-~~~~~~~~  609 (672)
                      ..|++++| .+.++.|.
T Consensus       276 ~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          276 RIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            99999999 44555553

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.63  E-value=2.5e-05  Score=80.04  Aligned_cols=101  Identities=11%  Similarity=-0.000  Sum_probs=64.8

Q ss_pred             cCC-CchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCC-hHHH
Q 005881           53 QIG-MPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGL-LSSA  130 (672)
Q Consensus        53 ~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~-~~~a  130 (672)
                      +.| ++..|..+|+.+...  -|.              ++++.+.++|+..+..  .|+..+|...+....+.+. .+..
T Consensus         6 ~~~~~i~~aR~vyer~l~~--~P~--------------~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i   67 (493)
T 2uy1_A            6 KMGVELSSPSAIMEHARRL--YMS--------------KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKL   67 (493)
T ss_dssp             ------CCHHHHHHHHHHH--HHT--------------TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CT
T ss_pred             HcCcchHHHHHHHHHHHHH--CCC--------------CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHH
Confidence            345 377788888877653  233              8899999999988885  4688888888887777663 3445


Q ss_pred             HHHhhccC------CCCcccHHHHHHHHH----hcCChHHHHHHHHHHHhC
Q 005881          131 QFVFDASL------ERNSISWVSLLSSYC----QCGEHVHGLKIFLLSRKS  171 (672)
Q Consensus       131 ~~~~~~~~------~~~~~~~~~li~~~~----~~g~~~~a~~~~~~m~~~  171 (672)
                      ..+|+...      ..+...|...+..+.    .+++.+.+.++|++....
T Consensus        68 ~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~  118 (493)
T 2uy1_A           68 YEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQT  118 (493)
T ss_dssp             HHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhC
Confidence            55665432      124566777776543    245677788888888763

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.63  E-value=6.2e-07  Score=82.62  Aligned_cols=181  Identities=7%  Similarity=-0.035  Sum_probs=128.0

Q ss_pred             hcCCHHHHHHHHhhCCC--C-CchhHHHH-------HHHHHhcCChHHHHHHHHHHHHCCCCCCHH--------------
Q 005881          426 KCGRLNDARKVFDHLSS--K-NLVSWNTM-------LVGYAQHGLGREALEIYSMMQENKIKPNDN--------------  481 (672)
Q Consensus       426 ~~g~~~~A~~~~~~~~~--~-~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--------------  481 (672)
                      ..++.+.|.+.|.++..  | ....|+.+       ...+...++..+++..+.+-..  +.|+..              
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCcccccc
Confidence            46788888888888762  3 34577766       4555555555555555555444  333321              


Q ss_pred             --------HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCH----H
Q 005881          482 --------TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNK----V  549 (672)
Q Consensus       482 --------~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~----~  549 (672)
                              ....+...+...|++++|.+.|+.+.   ...|+......+...+.+.|++++|++.|+.....|++    .
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~---~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~  172 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAP---VAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGA  172 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSC---CTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHH---hcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHH
Confidence                    22345667788899999999998775   23464336666777888999999999999865433433    3


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCC--CC-CCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          550 VWRCLLSGCKTHKDLVLGRYAAEKILSTD--PE-DTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       550 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      .+..+..++...|++++|+..|+++....  |. .+.....++.++.+.|+.++|...|+++...
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            56667777889999999999999998543  54 4457888999999999999999999988764

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.62  E-value=2.7e-07  Score=75.97  Aligned_cols=113  Identities=12%  Similarity=0.030  Sum_probs=72.0

Q ss_pred             HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 005881          482 TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGC  558 (672)
Q Consensus       482 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  558 (672)
                      .+..+...+...|++++|...|+...   ...| +...+..++.++...|++++|.+.+++. ...| +...|..+...+
T Consensus        18 ~~~~~~~~~~~~~~~~~A~~~~~~al---~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   94 (133)
T 2lni_A           18 MVKNKGNECFQKGDYPQAMKHYTEAI---KRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHTTCSHHHHHHHHHHH---TTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH---HcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            34444444555555555555555444   2223 3444555555555555555555555432 1223 456777777888


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCC
Q 005881          559 KTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANM  597 (672)
Q Consensus       559 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  597 (672)
                      ...|++++|...++++++++|++...+..++.++...|+
T Consensus        95 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            888999999999999999999888888888888887664

>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=98.62  E-value=4.3e-07  Score=78.17  Aligned_cols=126  Identities=7%  Similarity=0.012  Sum_probs=90.5

Q ss_pred             HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 005881          482 TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGC  558 (672)
Q Consensus       482 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  558 (672)
                      .+..+...+...|++++|...|+.....   .| +...+..++.++...|++++|.+.+++. ...| +...|..+...+
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~   91 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            3445555566666666666666666532   23 4566666667777777777777766542 2233 566788888889


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCchHHH--HHHHHHhcCChHHHHHHHHHHhh
Q 005881          559 KTHKDLVLGRYAAEKILSTDPEDTSAHIM--LSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       559 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~--l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ...|++++|...+++++++.|++...+..  ++..+...|++++|.+.+.....
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            99999999999999999999998888754  44448889999999999887643

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.62  E-value=9.2e-07  Score=79.70  Aligned_cols=172  Identities=10%  Similarity=-0.052  Sum_probs=127.0

Q ss_pred             HHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC-CCCchhHHHHHHHHHhcC----ChHHHHHHHHHHH
Q 005881          398 GKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS-SKNLVSWNTMLVGYAQHG----LGREALEIYSMMQ  472 (672)
Q Consensus       398 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~li~~~~~~g----~~~~A~~~~~~m~  472 (672)
                      |.+.+....+.|   ++..+..+...|...+++++|.+.|++.. ..++..+..|...|.. +    ++++|+++|++..
T Consensus         5 A~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            334444444443   45556677777888888888888888876 3456677777777777 6    8999999999998


Q ss_pred             HCCCCCCHHHHHHHHHHhhc----cCcHHHHHHHHHHhHHhhCCCCc---hHHHHHHHHHhhc----cCChHHHHHHHHh
Q 005881          473 ENKIKPNDNTFIGVLSACVH----IGLVEEGWHYFNSMIRDHGISPR---MDHIASVVHLFAC----RGQTRRAYEFIKS  541 (672)
Q Consensus       473 ~~g~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~----~g~~~~A~~~~~~  541 (672)
                      +.|   +...+..|...+..    .+++++|..+|++..   ...|.   +..+..|..+|..    .++.++|.++|++
T Consensus        81 ~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~---~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           81 EAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAA---RDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHT---SSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHH---HcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            854   45667777777776    789999999998876   33443   6788888888888    8899999999986


Q ss_pred             CC-CCCCHHHHHHHHHHHHhc-C-----CHHHHHHHHHHHhcCCC
Q 005881          542 SP-IEPNKVVWRCLLSGCKTH-K-----DLVLGRYAAEKILSTDP  579 (672)
Q Consensus       542 ~~-~~p~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~~~~~~p  579 (672)
                      .- ..++...+..|...|... |     +.++|...++++.+..+
T Consensus       155 A~~~~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          155 SSSLSRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHTSCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            42 224555677777776543 3     89999999999988764

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.60  E-value=1.6e-05  Score=75.07  Aligned_cols=224  Identities=12%  Similarity=0.035  Sum_probs=154.1

Q ss_pred             hhHHHHHHHHHHhCCCCCChHH-HHHHHHHHcCcC--chHHHHHHHHHHHhcCCCCcccHHHHHHHHH----Hhc---CC
Q 005881          360 YGEAIELLKDMLFEGHCPNLYT-YSNILNISSDIP--AIEWGKQTHCCIVKPGFDSNVVIGSALVDMY----AKC---GR  429 (672)
Q Consensus       360 ~~~A~~~~~~m~~~g~~p~~~t-~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---g~  429 (672)
                      .++|+++++.++..  .|+..| ++.--..+...+  +++++...++.++..+.+ +..+|+.-...+    ...   ++
T Consensus        49 s~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~  125 (306)
T 3dra_A           49 SERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFD  125 (306)
T ss_dssp             SHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCC
T ss_pred             CHHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCC
Confidence            34566666665543  443332 333333344444  666666666666654432 233333322222    333   78


Q ss_pred             HHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChH--HHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCc------HHH
Q 005881          430 LNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGR--EALEIYSMMQENKIKPNDNTFIGVLSACVHIGL------VEE  498 (672)
Q Consensus       430 ~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~--~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~------~~~  498 (672)
                      ++++.++++.+.   ..|..+|+.-.-.+...|+++  ++++.++++++.. +-|...|+.....+.+.|.      +++
T Consensus       126 ~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~~e  204 (306)
T 3dra_A          126 PYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTIDE  204 (306)
T ss_dssp             THHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhHHH
Confidence            899999998887   456678888888888889888  9999999999864 3455667666666666666      899


Q ss_pred             HHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHH-HHHHHHhCC-C----CCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 005881          499 GWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRR-AYEFIKSSP-I----EPNKVVWRCLLSGCKTHKDLVLGRYAA  571 (672)
Q Consensus       499 a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~-~----~p~~~~~~~l~~~~~~~g~~~~a~~~~  571 (672)
                      +++.++.++.   ..| |...|+.+..++.+.|+..+ +.++.++.- .    ..+...+..++..+.+.|+.++|.+++
T Consensus       205 El~~~~~aI~---~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~  281 (306)
T 3dra_A          205 ELNYVKDKIV---KCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVY  281 (306)
T ss_dssp             HHHHHHHHHH---HCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHH---hCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            9999998884   355 67889899999988888555 445666531 1    237788999999999999999999999


Q ss_pred             HHHhc-CCCCCCchHHHHHH
Q 005881          572 EKILS-TDPEDTSAHIMLSN  590 (672)
Q Consensus       572 ~~~~~-~~p~~~~~~~~l~~  590 (672)
                      +.+.+ .+|-....|...+.
T Consensus       282 ~~l~~~~Dpir~~yW~~~~~  301 (306)
T 3dra_A          282 DLLKSKYNPIRSNFWDYQIS  301 (306)
T ss_dssp             HHHHHTTCGGGHHHHHHHHH
T ss_pred             HHHHhccChHHHHHHHHHHh
Confidence            99996 89987777765544

>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=98.59  E-value=1.4e-07  Score=82.36  Aligned_cols=119  Identities=10%  Similarity=0.106  Sum_probs=73.4

Q ss_pred             hccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHH-HHhcCCH--H
Q 005881          491 VHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSG-CKTHKDL--V  565 (672)
Q Consensus       491 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~-~~~~g~~--~  565 (672)
                      ...|++++|...++......  +.+...+..++.+|...|++++|.+.+++. ...| +...|..+... +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN--PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC--CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchH
Confidence            34455555655555554321  124455566666666666666666666542 1223 45556666666 6677777  7


Q ss_pred             HHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          566 LGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       566 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      +|...++++++.+|+++..+..++.+|...|++++|.+.+++..+.
T Consensus        99 ~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           99 QTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            8888888888888877777778888888888888888888777653

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.58  E-value=1.8e-07  Score=78.64  Aligned_cols=103  Identities=11%  Similarity=0.074  Sum_probs=85.9

Q ss_pred             CCCCHH-HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHH
Q 005881          476 IKPNDN-TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVW  551 (672)
Q Consensus       476 ~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~  551 (672)
                      +.|+.. .+..+...+.+.|++++|...|+.+..   +.| +...|..++.+|...|++++|++.|++. .+.| ++..|
T Consensus        31 l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~---~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~  107 (151)
T 3gyz_A           31 IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCI---YDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPV  107 (151)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHH
Confidence            456553 677788888999999999999998884   356 6788999999999999999999999763 3455 56688


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhcCCCCC
Q 005881          552 RCLLSGCKTHKDLVLGRYAAEKILSTDPED  581 (672)
Q Consensus       552 ~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  581 (672)
                      ..+..++...|++++|+..|++++++.|++
T Consensus       108 ~~lg~~~~~lg~~~eA~~~~~~al~l~~~~  137 (151)
T 3gyz_A          108 FHTGQCQLRLKAPLKAKECFELVIQHSNDE  137 (151)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCCH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCH
Confidence            889999999999999999999999999964

>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=98.58  E-value=6.3e-08  Score=81.56  Aligned_cols=115  Identities=9%  Similarity=-0.034  Sum_probs=84.6

Q ss_pred             HHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CC
Q 005881          468 YSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PI  544 (672)
Q Consensus       468 ~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~  544 (672)
                      |+++..  +.|+. ..+..+...+...|++++|...|+.+...   .| +...|..+..+|...|++++|.+.+++. ..
T Consensus        10 ~~~al~--~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l   84 (148)
T 2vgx_A           10 IAMLNE--ISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVL---DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVM   84 (148)
T ss_dssp             HHHHTT--CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHc--CCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHc---CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            444444  34544 35666777777888888888888877632   44 5677778888888888888888888753 33


Q ss_pred             CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHH
Q 005881          545 EP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIM  587 (672)
Q Consensus       545 ~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  587 (672)
                      .| ++..|..+..++...|++++|+..+++++++.|+++.....
T Consensus        85 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~  128 (148)
T 2vgx_A           85 DIXEPRFPFHAAECLLQXGELAEAESGLFLAQELIANXPEFXEL  128 (148)
T ss_dssp             STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCGGGHHH
T ss_pred             CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCCcchHH
Confidence            44 55678888888999999999999999999999987766443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.57  E-value=1.5e-07  Score=76.01  Aligned_cols=95  Identities=14%  Similarity=0.040  Sum_probs=79.6

Q ss_pred             HHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhc
Q 005881          518 HIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEA  595 (672)
Q Consensus       518 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  595 (672)
                      .+..++..+.+.|++++|...+++. ...| +...|..+...+...|++++|+..++++++++|+++.++..++.+|...
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            3455667777888888888888753 3445 6778888888899999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHhhCC
Q 005881          596 NMWDETAKVRKIMKEKS  612 (672)
Q Consensus       596 g~~~~a~~~~~~~~~~~  612 (672)
                      |++++|.+.+++..+..
T Consensus        99 g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           99 HNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHC--
T ss_pred             CCHHHHHHHHHHHHHhC
Confidence            99999999999887643

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.56  E-value=5.2e-07  Score=73.85  Aligned_cols=116  Identities=11%  Similarity=0.055  Sum_probs=83.8

Q ss_pred             HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 005881          481 NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGC  558 (672)
Q Consensus       481 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  558 (672)
                      ..+..+...+...|++++|...++......  +.+...+..++.++...|++++|.+.+++. ...| +...|..+...+
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELN--PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            345555666666666777766666665321  224556666667777777777777766542 2233 466777888889


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCCh
Q 005881          559 KTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMW  598 (672)
Q Consensus       559 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  598 (672)
                      ...|++++|...+++++++.|+++..+..++.++...|++
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999888875

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.54  E-value=1e-06  Score=71.31  Aligned_cols=114  Identities=17%  Similarity=0.239  Sum_probs=76.4

Q ss_pred             HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 005881          481 NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGC  558 (672)
Q Consensus       481 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  558 (672)
                      ..+..+...+...|++++|...++.+.+..  +.+...+..++..+.+.|++++|..++++. ...| +...|..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHH
Confidence            344555555556666666666666555321  123455556666666666666666666542 1123 566777888888


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcC
Q 005881          559 KTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEAN  596 (672)
Q Consensus       559 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  596 (672)
                      ...|++++|...++++++..|+++..+..++.++...|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            88999999999999999999988888888888877654

>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=98.49  E-value=1.7e-05  Score=75.61  Aligned_cols=158  Identities=6%  Similarity=-0.095  Sum_probs=117.9

Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCCCC---ch------hHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-CC----HHHHHH
Q 005881          420 LVDMYAKCGRLNDARKVFDHLSSKN---LV------SWNTMLVGYAQHGLGREALEIYSMMQENKIK-PN----DNTFIG  485 (672)
Q Consensus       420 l~~~~~~~g~~~~A~~~~~~~~~~~---~~------~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~~~~~  485 (672)
                      .+..+...|++++|.+.++...+..   ..      .+..+...+...|++++|+..|++..+.... ++    ..+++.
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            3567788899999999998865311   11      2334666677778999999999999984322 22    126888


Q ss_pred             HHHHhhccCcHHHHHHHHHHhHHhhC----CCC-chHHHHHHHHHhhccCChHHHHHHHHhC-------CCCCC-HHHHH
Q 005881          486 VLSACVHIGLVEEGWHYFNSMIRDHG----ISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-------PIEPN-KVVWR  552 (672)
Q Consensus       486 ll~~~~~~g~~~~a~~~~~~~~~~~~----~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~  552 (672)
                      +...|...|++++|..+|+.+.+...    ..+ ...++..++.+|.+.|++++|.+++++.       +..+. ..+|.
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            99999999999999999998874321    122 2357889999999999999999988642       22233 56788


Q ss_pred             HHHHHHHhcC-CHHHHHHHHHHHhcC
Q 005881          553 CLLSGCKTHK-DLVLGRYAAEKILST  577 (672)
Q Consensus       553 ~l~~~~~~~g-~~~~a~~~~~~~~~~  577 (672)
                      .+...+...| ++++|...+++++++
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            8888899999 469999999998764

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.49  E-value=1.9e-06  Score=76.97  Aligned_cols=61  Identities=16%  Similarity=0.022  Sum_probs=38.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC--C----CchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          550 VWRCLLSGCKTHKDLVLGRYAAEKILSTDPE--D----TSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       550 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~--~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      .+..+...+...|++++|...+++++++.+.  +    ...+..++.+|...|++++|.+.+++..+
T Consensus       109 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          109 NAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            3455555666667777777777776654321  1    12346777778888888888777776653

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.48  E-value=5.9e-07  Score=77.26  Aligned_cols=106  Identities=13%  Similarity=0.111  Sum_probs=74.7

Q ss_pred             HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHH
Q 005881          481 NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSG  557 (672)
Q Consensus       481 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~  557 (672)
                      ..+..+...+...|++++|+..|++..+.   .| +...+..+..+|.+.|++++|++.+++. .+.| +...|..+...
T Consensus        12 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~   88 (164)
T 3sz7_A           12 DKLKSEGNAAMARKEYSKAIDLYTQALSI---APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            45667777777888888888888877633   34 5667777777777777777777777652 3344 45667777777


Q ss_pred             HHhcCCHHHHHHHHHHHhcCCCCCCchHHHHH
Q 005881          558 CKTHKDLVLGRYAAEKILSTDPEDTSAHIMLS  589 (672)
Q Consensus       558 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  589 (672)
                      +...|++++|+..++++++++|+++..+...+
T Consensus        89 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~  120 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEAEGNGGSDAMKRG  120 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence            77777777777777777777777777554433

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.48  E-value=5.9e-08  Score=86.67  Aligned_cols=169  Identities=8%  Similarity=-0.054  Sum_probs=96.8

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHH
Q 005881          421 VDMYAKCGRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVE  497 (672)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~  497 (672)
                      +......|.++.+.+.++.-..   .....+..+...+...|++++|++.|++....  .|+...+...        ...
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~--------~~~   80 (198)
T 2fbn_A           11 SSGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHTEEWDDQ--------ILL   80 (198)
T ss_dssp             -----------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTCTTCCCH--------HHH
T ss_pred             hhhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--Hhcccccchh--------hHH
Confidence            3334445666666665554331   12335556666667777777777777777663  2221100000        000


Q ss_pred             HHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 005881          498 EGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKIL  575 (672)
Q Consensus       498 ~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  575 (672)
                      .-.   ..        .....+..+..+|.+.|++++|++.+++. ...| +...+..+..++...|++++|...+++++
T Consensus        81 ~~~---~~--------~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al  149 (198)
T 2fbn_A           81 DKK---KN--------IEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAA  149 (198)
T ss_dssp             HHH---HH--------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHH---HH--------HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            000   00        01245666777777777887777777652 2334 56678888888999999999999999999


Q ss_pred             cCCCCCCchHHHHHHHHHhcCChHHHH-HHHHHHhh
Q 005881          576 STDPEDTSAHIMLSNVYAEANMWDETA-KVRKIMKE  610 (672)
Q Consensus       576 ~~~p~~~~~~~~l~~~~~~~g~~~~a~-~~~~~~~~  610 (672)
                      +++|+++.++..++.++...|+.+++. ..+..+..
T Consensus       150 ~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          150 SLNPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             HHSTTCHHHHHHHHHHHHHHHHHHC-----------
T ss_pred             HHCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            999999999999999999988888777 45555543

>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=98.47  E-value=1.3e-06  Score=76.25  Aligned_cols=128  Identities=7%  Similarity=0.037  Sum_probs=95.9

Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHH-hhccCCh--
Q 005881          456 AQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHL-FACRGQT--  532 (672)
Q Consensus       456 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~g~~--  532 (672)
                      ...|++++|+..+++..+.. +.+...+..+...+...|++++|...|+++.+..  +.+...+..++.+ +...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcch
Confidence            34577888888888887742 3345678888888888899999999988887432  2256777788888 7788888  


Q ss_pred             HHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHH
Q 005881          533 RRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHI  586 (672)
Q Consensus       533 ~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  586 (672)
                      ++|.+.+++. ...| +...|..+...+...|++++|...+++++++.|+++....
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  153 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINRTQ  153 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCHHH
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccHHH
Confidence            9998888763 3345 5677888888899999999999999999999998866443

>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=98.47  E-value=9.9e-07  Score=73.07  Aligned_cols=97  Identities=11%  Similarity=0.037  Sum_probs=78.2

Q ss_pred             chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHH
Q 005881          515 RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVY  592 (672)
Q Consensus       515 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  592 (672)
                      +...+..++..+...|++++|...+++. ...| +...|..+...+...|+++.|...++++++++|+++..+..++.+|
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~   87 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQ   87 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHHH
Confidence            4566667777777777777777777642 2334 4667888888888999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHhhC
Q 005881          593 AEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       593 ~~~g~~~~a~~~~~~~~~~  611 (672)
                      ...|++++|.+.+++..+.
T Consensus        88 ~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           88 LEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHH
Confidence            9999999999999988753

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.46  E-value=3e-07  Score=84.70  Aligned_cols=135  Identities=10%  Similarity=-0.103  Sum_probs=98.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc--hHHHHHHHHHh
Q 005881          449 NTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR--MDHIASVVHLF  526 (672)
Q Consensus       449 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~  526 (672)
                      -.+...+...|++++|.++|+.+...  .|+......+...+.+.+++++|+..|+.... .. .|.  ...+..+..++
T Consensus       106 LayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~-~~-d~~~~~~a~~~LG~al  181 (282)
T 4f3v_A          106 MGFAACEAAQGNYADAMEALEAAPVA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGK-WP-DKFLAGAAGVAHGVAA  181 (282)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTSSCCT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGG-CS-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhc-cC-CcccHHHHHHHHHHHH
Confidence            34566777888999998888887764  46555555556678888999999999875541 11 121  34677888899


Q ss_pred             hccCChHHHHHHHHhCC---CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHH
Q 005881          527 ACRGQTRRAYEFIKSSP---IEPN--KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIML  588 (672)
Q Consensus       527 ~~~g~~~~A~~~~~~~~---~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  588 (672)
                      .+.|++++|++.+++..   ..|.  ...+.....++.+.|+.++|...|++++..+|+ +.+...|
T Consensus       182 ~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL  247 (282)
T 4f3v_A          182 ANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAAL  247 (282)
T ss_dssp             HHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHH
Confidence            99999999999998642   2243  335666777788999999999999999999996 5555554

>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=98.46  E-value=5.6e-07  Score=73.36  Aligned_cols=93  Identities=11%  Similarity=-0.007  Sum_probs=74.8

Q ss_pred             HHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc-------hHHHH
Q 005881          518 HIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTS-------AHIML  588 (672)
Q Consensus       518 ~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~-------~~~~l  588 (672)
                      .+..++..+.+.|++++|++.|++ +.+.| +...|..+..++...|++++|+..++++++++|++..       +|..+
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~l   89 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRA   89 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHH
Confidence            455567777777777777777765 33455 5667888888899999999999999999999887654       57788


Q ss_pred             HHHHHhcCChHHHHHHHHHHhh
Q 005881          589 SNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       589 ~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +.+|...|++++|.+.+++..+
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Confidence            8999999999999999998764

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.45  E-value=1e-06  Score=69.74  Aligned_cols=98  Identities=6%  Similarity=-0.026  Sum_probs=79.1

Q ss_pred             hHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC--CCchHHHHHHH
Q 005881          516 MDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPE--DTSAHIMLSNV  591 (672)
Q Consensus       516 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~  591 (672)
                      ...+..++..+...|++++|...+++. ...| +...|..+...+...|++++|...++++++..|+  +...+..++.+
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            455666777777777787777777652 2233 5667888888889999999999999999999998  88999999999


Q ss_pred             HHhc-CChHHHHHHHHHHhhCCC
Q 005881          592 YAEA-NMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       592 ~~~~-g~~~~a~~~~~~~~~~~~  613 (672)
                      |... |++++|.+.++...+...
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhccc
Confidence            9999 999999999998876544

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.43  E-value=5.7e-07  Score=75.12  Aligned_cols=107  Identities=6%  Similarity=-0.093  Sum_probs=76.7

Q ss_pred             HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 005881          482 TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGC  558 (672)
Q Consensus       482 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  558 (672)
                      .+..+...+...|++++|...|+.+...   .| +...|..+..+|.+.|++++|.+.+++. ...| ++..|..+...+
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCML---DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Confidence            4555566667777777777777776632   34 5566777777777777777777777652 2334 455677788888


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHH
Q 005881          559 KTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNV  591 (672)
Q Consensus       559 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  591 (672)
                      ...|++++|...+++++++.|+++........+
T Consensus        97 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~  129 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARALAAAQPAHEALAARA  129 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHTCGGGHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCcchHHHHHHH
Confidence            999999999999999999999887766554443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.43  E-value=8.8e-06  Score=77.60  Aligned_cols=160  Identities=6%  Similarity=-0.108  Sum_probs=114.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCCC--C-Cc------hhHHHHHHHHHhcCChHHHHHHHHHHHHCCC---CCC--HHHH
Q 005881          418 SALVDMYAKCGRLNDARKVFDHLSS--K-NL------VSWNTMLVGYAQHGLGREALEIYSMMQENKI---KPN--DNTF  483 (672)
Q Consensus       418 ~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~~~  483 (672)
                      ...+..+...|++++|.+.+....+  + ..      ..+..+...+...|++++|++.+++..+...   .+.  ..++
T Consensus        79 ~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  158 (293)
T 2qfc_A           79 KDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIE  158 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHH
Confidence            4456677788999999888875441  1 11      1234455667788899999999998876321   222  2478


Q ss_pred             HHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc-----hHHHHHHHHHhhccCChHHHHHHHHhC-------CCCC-CHHH
Q 005881          484 IGVLSACVHIGLVEEGWHYFNSMIRDHGISPR-----MDHIASVVHLFACRGQTRRAYEFIKSS-------PIEP-NKVV  550 (672)
Q Consensus       484 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p-~~~~  550 (672)
                      ..+...|...|++++|...|+++.+.....|+     ...+..++.+|...|++++|.+++++.       +..+ -..+
T Consensus       159 ~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~  238 (293)
T 2qfc_A          159 NAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQL  238 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            88888999999999999999888733222222     257888999999999999999998752       1111 1557


Q ss_pred             HHHHHHHHHhcCCHHHH-HHHHHHHhcC
Q 005881          551 WRCLLSGCKTHKDLVLG-RYAAEKILST  577 (672)
Q Consensus       551 ~~~l~~~~~~~g~~~~a-~~~~~~~~~~  577 (672)
                      |..+...+...|++++| ...+++++.+
T Consensus       239 ~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          239 YYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            78888889999999999 7888888754

>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=98.42  E-value=8.1e-07  Score=72.38  Aligned_cols=109  Identities=7%  Similarity=-0.061  Sum_probs=70.8

Q ss_pred             HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 005881          482 TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGC  558 (672)
Q Consensus       482 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  558 (672)
                      .+..+...+...|++++|+..|+...+.   .| +...+..++.+|.+.|++++|++.+++. ...| +...|..+...+
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKR---APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            3444555555666666666666655522   23 3455666666666666666666666542 2334 456777778888


Q ss_pred             HhcCCHHHHHHHHHHHhcCC------CCCCchHHHHHHHHH
Q 005881          559 KTHKDLVLGRYAAEKILSTD------PEDTSAHIMLSNVYA  593 (672)
Q Consensus       559 ~~~g~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~~~  593 (672)
                      ...|++++|...++++++++      |++......+..+..
T Consensus        83 ~~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~~  123 (126)
T 3upv_A           83 IAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKASQ  123 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHHH
Confidence            88889999999999998888      777776666665543

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.41  E-value=2.1e-06  Score=70.47  Aligned_cols=97  Identities=7%  Similarity=0.019  Sum_probs=87.4

Q ss_pred             chHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHH
Q 005881          515 RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVY  592 (672)
Q Consensus       515 ~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  592 (672)
                      +...+..++..+.+.|++++|.+.+++ +...| +...|..+...+...|++++|...++++++..|+++..+..++.+|
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   94 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            457788899999999999999999986 34455 6778888888999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHhhC
Q 005881          593 AEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       593 ~~~g~~~~a~~~~~~~~~~  611 (672)
                      ...|++++|.+.+++..+.
T Consensus        95 ~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHh
Confidence            9999999999999988753

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.40  E-value=1.2e-06  Score=75.18  Aligned_cols=95  Identities=15%  Similarity=0.091  Sum_probs=53.6

Q ss_pred             hHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHH
Q 005881          516 MDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYA  593 (672)
Q Consensus       516 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  593 (672)
                      ...+..+...+.+.|++++|++.|++. ...| +...|..+...+...|++++|+..++++++++|+++..+..++.+|.
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   90 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLARF   90 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            344555555555666666666655542 2233 44455555555556666666666666666666665666666666666


Q ss_pred             hcCChHHHHHHHHHHhh
Q 005881          594 EANMWDETAKVRKIMKE  610 (672)
Q Consensus       594 ~~g~~~~a~~~~~~~~~  610 (672)
                      ..|++++|.+.+++..+
T Consensus        91 ~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           91 DMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HccCHHHHHHHHHHHHH
Confidence            66666666665555543

>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=98.40  E-value=4e-06  Score=66.97  Aligned_cols=107  Identities=12%  Similarity=0.139  Sum_probs=60.1

Q ss_pred             HHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHH
Q 005881          483 FIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCK  559 (672)
Q Consensus       483 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~  559 (672)
                      +..+...+...|++++|...|+.....   .| +...+..++.++...|++++|.+.+++. ...| +...|..+...+.
T Consensus         7 ~~~~~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            7 LKEKGNKALSVGNIDDALQCYSEAIKL---DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            334444444555555555555544421   22 3444444555555555555555554431 1223 4556666667777


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHH
Q 005881          560 THKDLVLGRYAAEKILSTDPEDTSAHIMLSNVY  592 (672)
Q Consensus       560 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  592 (672)
                      ..|++++|...++++++.+|+++..+..++.+.
T Consensus        84 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  116 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKHEANNPQLKEGLQNME  116 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHhh
Confidence            777777777777777777777776666665543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.39  E-value=2.8e-06  Score=71.25  Aligned_cols=108  Identities=7%  Similarity=-0.027  Sum_probs=57.5

Q ss_pred             HHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc----hHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHH
Q 005881          483 FIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR----MDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLS  556 (672)
Q Consensus       483 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~  556 (672)
                      +..+...+...|++++|...|++..   ...|+    ...+..+..+|...|++++|.+.+++. ...| +...|..+..
T Consensus        31 ~~~~a~~~~~~~~~~~A~~~~~~a~---~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~  107 (148)
T 2dba_A           31 LRKEGNELFKCGDYGGALAAYTQAL---GLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRSQ  107 (148)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHH---TSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHH---HHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHHH
Confidence            3334444444444444444444433   22232    233444444444445555554444331 1223 4455666666


Q ss_pred             HHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHH
Q 005881          557 GCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYA  593 (672)
Q Consensus       557 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  593 (672)
                      .+...|++++|...++++++++|++...+..+..+..
T Consensus       108 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  144 (148)
T 2dba_A          108 ALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNISG  144 (148)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHC
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHh
Confidence            6777777777777777777777777666666655543

>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=98.39  E-value=1.1e-06  Score=72.91  Aligned_cols=62  Identities=11%  Similarity=-0.028  Sum_probs=55.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhcC-------CCCCCchH----HHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          549 VVWRCLLSGCKTHKDLVLGRYAAEKILST-------DPEDTSAH----IMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       549 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------~p~~~~~~----~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ..|..+..++...|++++|+..+++++++       +|+++.+|    ..++.++...|++++|.+.|++..+
T Consensus        58 ~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           58 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            37888888888889999999999998888       99999999    9999999999999999999998875

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.37  E-value=3.2e-06  Score=70.90  Aligned_cols=96  Identities=13%  Similarity=0.028  Sum_probs=87.2

Q ss_pred             chHHHHHHHHHhhccCChHHHHHHHHh-CCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHH
Q 005881          515 RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEPN----KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLS  589 (672)
Q Consensus       515 ~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  589 (672)
                      +...+..++..+...|++++|.+.+++ +...|+    ...|..+...+...|++++|...+++++++.|+++..+..++
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a  106 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRS  106 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHH
Confidence            567888899999999999999999986 456677    567888888899999999999999999999999999999999


Q ss_pred             HHHHhcCChHHHHHHHHHHhh
Q 005881          590 NVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       590 ~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      .+|...|++++|.+.+++..+
T Consensus       107 ~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          107 QALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            999999999999999998875

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.35  E-value=2.2e-06  Score=73.40  Aligned_cols=63  Identities=13%  Similarity=0.084  Sum_probs=54.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          548 KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ...|..+..++...|+++.|+..++++++++|+++.+|..++.+|...|++++|.+.+++..+
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  125 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLR  125 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHh
Confidence            346777777888889999999999999999999999999999999999999999999988765

>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=98.35  E-value=3.8e-06  Score=67.07  Aligned_cols=97  Identities=10%  Similarity=0.092  Sum_probs=85.8

Q ss_pred             chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHH
Q 005881          515 RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVY  592 (672)
Q Consensus       515 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  592 (672)
                      ....+..++..+...|++++|.+.+++. ...| +...|..+...+...|++++|...++++++..|+++..+..++.+|
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   82 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            3466778889999999999999999863 2344 6778888888899999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHhhC
Q 005881          593 AEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       593 ~~~g~~~~a~~~~~~~~~~  611 (672)
                      ...|++++|.+.+++..+.
T Consensus        83 ~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhhHHHHHHHHHHHHHc
Confidence            9999999999999988753

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.33  E-value=1.2e-05  Score=71.73  Aligned_cols=152  Identities=12%  Similarity=-0.047  Sum_probs=75.6

Q ss_pred             cCCHHHHHH---HHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHH----CCCCCC-HHHHHHHHHHhhccCcHHH
Q 005881          427 CGRLNDARK---VFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQE----NKIKPN-DNTFIGVLSACVHIGLVEE  498 (672)
Q Consensus       427 ~g~~~~A~~---~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p~-~~~~~~ll~~~~~~g~~~~  498 (672)
                      .|++++|.+   .+..-.......+..+...+...|++++|...+++..+    .+..|. ..++..+...+...|++++
T Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~   84 (203)
T 3gw4_A            5 AHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDA   84 (203)
T ss_dssp             --CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             cccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHH
Confidence            345555555   33222222233455555555555666666555555543    111111 1245555555666666666


Q ss_pred             HHHHHHHhHHh---hCCCC--chHHHHHHHHHhhccCChHHHHHHHHhC----C--CCCC--HHHHHHHHHHHHhcCCHH
Q 005881          499 GWHYFNSMIRD---HGISP--RMDHIASVVHLFACRGQTRRAYEFIKSS----P--IEPN--KVVWRCLLSGCKTHKDLV  565 (672)
Q Consensus       499 a~~~~~~~~~~---~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~--~~p~--~~~~~~l~~~~~~~g~~~  565 (672)
                      |...+++....   .+-.|  ....+..+...+...|++++|.+.+++.    .  ..|.  ..++..+...+...|+++
T Consensus        85 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  164 (203)
T 3gw4_A           85 ARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLL  164 (203)
T ss_dssp             HHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHH
Confidence            66666555432   11111  1244555666666666666666665431    0  0111  123455556677777777


Q ss_pred             HHHHHHHHHhcCC
Q 005881          566 LGRYAAEKILSTD  578 (672)
Q Consensus       566 ~a~~~~~~~~~~~  578 (672)
                      +|...+++++++.
T Consensus       165 ~A~~~~~~al~~~  177 (203)
T 3gw4_A          165 EAQQHWLRARDIF  177 (203)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            7777777776543

>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=98.32  E-value=4.5e-06  Score=85.07  Aligned_cols=143  Identities=13%  Similarity=0.058  Sum_probs=95.2

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHH
Q 005881          446 VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHL  525 (672)
Q Consensus       446 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  525 (672)
                      ..|..+...|.+.|++++|+..|++.++.  .|+...+          . .+...+ ...        .....|..+..+
T Consensus       269 ~~~~~~G~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~----------~-~~~~~~-~~~--------~~~~~~~nla~~  326 (457)
T 1kt0_A          269 AIVKEKGTVYFKGGKYMQAVIQYGKIVSW--LEMEYGL----------S-EKESKA-SES--------FLLAAFLNLAMC  326 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTTCCSC----------C-HHHHHH-HHH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccC----------C-hHHHHH-HHH--------HHHHHHHHHHHH
Confidence            35666666677777777777777766652  2221100          0 000000 000        013567777888


Q ss_pred             hhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHH
Q 005881          526 FACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAK  603 (672)
Q Consensus       526 ~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  603 (672)
                      |.+.|++++|++.+++. .+.| +...|..+..++...|++++|+..|+++++++|++..++..++.++.+.|+++++.+
T Consensus       327 ~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~  406 (457)
T 1kt0_A          327 YLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERDR  406 (457)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888887652 3344 567888889999999999999999999999999999999999999999999998875


Q ss_pred             -HHHHHhh
Q 005881          604 -VRKIMKE  610 (672)
Q Consensus       604 -~~~~~~~  610 (672)
                       .++.|..
T Consensus       407 ~~~~~~f~  414 (457)
T 1kt0_A          407 RIYANMFK  414 (457)
T ss_dssp             HHHHHC--
T ss_pred             HHHHHHHh
Confidence             4555543

>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=98.31  E-value=1.1e-06  Score=89.91  Aligned_cols=117  Identities=7%  Similarity=0.024  Sum_probs=89.7

Q ss_pred             HHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCH
Q 005881          488 SACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDL  564 (672)
Q Consensus       488 ~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~  564 (672)
                      ..+.+.|++++|.+.|++..+.   .| +...+..++.+|.+.|++++|.+.+++. ...| +...|..+..++...|++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            3456677788888877777633   44 4677777888888888888888877652 3445 566888888899999999


Q ss_pred             HHHHHHHHHHhcCCCCCCchHHHHHHH--HHhcCChHHHHHHHHH
Q 005881          565 VLGRYAAEKILSTDPEDTSAHIMLSNV--YAEANMWDETAKVRKI  607 (672)
Q Consensus       565 ~~a~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~a~~~~~~  607 (672)
                      ++|+..++++++++|+++..+..++.+  +.+.|++++|.+.+++
T Consensus        91 ~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           91 RAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             HHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            999999999999999999999999888  8899999999999884

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.30  E-value=4.7e-06  Score=67.32  Aligned_cols=96  Identities=20%  Similarity=0.253  Sum_probs=85.5

Q ss_pred             hHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHH
Q 005881          516 MDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYA  593 (672)
Q Consensus       516 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  593 (672)
                      ...+..++..+...|++++|.+.+++. ...| +...|..+...+...|++++|...++++++..|+++..+..++.+|.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~   88 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHH
Confidence            567888999999999999999999764 2234 67788888999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHhhC
Q 005881          594 EANMWDETAKVRKIMKEK  611 (672)
Q Consensus       594 ~~g~~~~a~~~~~~~~~~  611 (672)
                      ..|++++|.+.++++.+.
T Consensus        89 ~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHh
Confidence            999999999999988753

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.29  E-value=5.6e-06  Score=84.72  Aligned_cols=82  Identities=12%  Similarity=0.151  Sum_probs=37.7

Q ss_pred             HHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHHH
Q 005881          424 YAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEEG  499 (672)
Q Consensus       424 ~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a  499 (672)
                      +.+.|++++|.+.|++..   ..+...|..+..+|.+.|++++|++.+++..+.  .|+ ...+..+..++...|++++|
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHH
Confidence            344455555555554443   122334444445555555555555555554442  222 23444444444445555555


Q ss_pred             HHHHHHhH
Q 005881          500 WHYFNSMI  507 (672)
Q Consensus       500 ~~~~~~~~  507 (672)
                      .+.|++..
T Consensus        94 ~~~~~~al  101 (477)
T 1wao_1           94 LRDYETVV  101 (477)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55544444

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.29  E-value=1.2e-05  Score=65.53  Aligned_cols=96  Identities=14%  Similarity=0.066  Sum_probs=85.6

Q ss_pred             chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHH
Q 005881          515 RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVY  592 (672)
Q Consensus       515 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  592 (672)
                      +...+..++..+...|++++|.+.+++. ...| +...|..+...+...|++++|...++++++..|+++..+..++.+|
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            4567888899999999999999999863 2334 6778888888999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHhh
Q 005881          593 AEANMWDETAKVRKIMKE  610 (672)
Q Consensus       593 ~~~g~~~~a~~~~~~~~~  610 (672)
                      ...|++++|.+.+++..+
T Consensus        91 ~~~~~~~~A~~~~~~~~~  108 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALE  108 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHh
Confidence            999999999999998875

>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=98.29  E-value=4.1e-05  Score=73.04  Aligned_cols=178  Identities=16%  Similarity=0.095  Sum_probs=101.6

Q ss_pred             CHHHHHHHHhhCCC---CCchhHHHHHHHHHhc-C-ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHH------
Q 005881          429 RLNDARKVFDHLSS---KNLVSWNTMLVGYAQH-G-LGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVE------  497 (672)
Q Consensus       429 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~-g-~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~------  497 (672)
                      .++++.++++.+..   .+..+|+.-...+... + ++++++++++++.+.. +-|...|..-...+.+.|.++      
T Consensus       104 ~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~  182 (349)
T 3q7a_A          104 SLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQ  182 (349)
T ss_dssp             CHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHH
T ss_pred             hHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhh
Confidence            36666666665542   3334555555555444 5 6666777777666532 223344444444443434333      


Q ss_pred             --HHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCC-------hHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCH-
Q 005881          498 --EGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQ-------TRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDL-  564 (672)
Q Consensus       498 --~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~-------~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~-  564 (672)
                        ++++.++++.+.   .| +...|+....++.+.++       ++++++++++ +...| |...|+-+...+.+.|.. 
T Consensus       183 ~~eELe~~~k~I~~---dp~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~  259 (349)
T 3q7a_A          183 WGSELDWCNEMLRV---DGRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPL  259 (349)
T ss_dssp             HHHHHHHHHHHHHH---CTTCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCc
Confidence              667777666632   33 55666666666666655       5666666654 33345 556676666655555443 


Q ss_pred             -------------------HHHHHHHHHHhcCC------CCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          565 -------------------VLGRYAAEKILSTD------PEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       565 -------------------~~a~~~~~~~~~~~------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                                         .........++...      +..+.+...|+++|...|+.++|.++++.+.+
T Consensus       260 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          260 VPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             GGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence                               22222333332222      45667788999999999999999999999864

>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=98.29  E-value=8.9e-06  Score=69.73  Aligned_cols=126  Identities=13%  Similarity=-0.029  Sum_probs=65.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHh
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLF  526 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  526 (672)
                      .|..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...++...+..  +.+...+..++.++
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~~~   91 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHH
Confidence            34445555555566666666666555531 2233455555555566666666666666555321  12345555666666


Q ss_pred             hccCChHHHHHHHHhC-CCCC-CHHHHHH--HHHHHHhcCCHHHHHHHHHHHh
Q 005881          527 ACRGQTRRAYEFIKSS-PIEP-NKVVWRC--LLSGCKTHKDLVLGRYAAEKIL  575 (672)
Q Consensus       527 ~~~g~~~~A~~~~~~~-~~~p-~~~~~~~--l~~~~~~~g~~~~a~~~~~~~~  575 (672)
                      ...|++++|.+.+++. ...| +...+..  ....+...|++++|...+++..
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            6666666666665542 1222 2333322  2222555666666666666554

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.26  E-value=3e-06  Score=70.11  Aligned_cols=111  Identities=8%  Similarity=-0.087  Sum_probs=73.7

Q ss_pred             CHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHH
Q 005881          479 NDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLL  555 (672)
Q Consensus       479 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~  555 (672)
                      +...+..+...+...|++++|...|+.....   .| +...+..++.++...|++++|...+++. ...| +...|..+.
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   84 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITR---NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   84 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh---CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            3455666666666667777777666666532   23 4566666677777777777777766542 2234 566778888


Q ss_pred             HHHHhcCCHHHHHHHHHHHhcCCCC-----CCchHHHHHHHH
Q 005881          556 SGCKTHKDLVLGRYAAEKILSTDPE-----DTSAHIMLSNVY  592 (672)
Q Consensus       556 ~~~~~~g~~~~a~~~~~~~~~~~p~-----~~~~~~~l~~~~  592 (672)
                      ..+...|++++|...+++++++.|+     +......+..+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~  126 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAK  126 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHH
Confidence            8888889999999999999988886     444444444443

>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=98.26  E-value=2e-06  Score=70.04  Aligned_cols=103  Identities=10%  Similarity=-0.022  Sum_probs=57.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCch-HHHHHHHH
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRM-DHIASVVH  524 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~  524 (672)
                      .+..+...+.+.|++++|++.|++.++.  .|+. ..|..+..++...|++++|+..++..++.   .|+. ..+..+  
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~~--   82 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEV---GRETRADYKLI--   82 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---HHHTTCCHHHH--
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHh---CcccchhhHHH--
Confidence            4555555666666666666666666552  3332 34555555566666666666665555421   1110 000000  


Q ss_pred             HhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 005881          525 LFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDP  579 (672)
Q Consensus       525 ~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  579 (672)
                                             ..+|..+...+...|++++|+..|+++++..|
T Consensus        83 -----------------------a~~~~~lg~~~~~~~~~~~A~~~~~kal~~~~  114 (127)
T 4gcn_A           83 -----------------------AKAMSRAGNAFQKQNDLSLAVQWFHRSLSEFR  114 (127)
T ss_dssp             -----------------------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSC
T ss_pred             -----------------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc
Confidence                                   12455566667777888888888888887777

>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=98.23  E-value=6.3e-06  Score=80.18  Aligned_cols=65  Identities=8%  Similarity=-0.078  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          548 KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                      ...|..+...+...|++++|+..++++++++|+++.++..++.+|...|++++|.+.+++..+..
T Consensus       196 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~  260 (336)
T 1p5q_A          196 LASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY  260 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            46788888999999999999999999999999999999999999999999999999999987643

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.23  E-value=2e-06  Score=83.69  Aligned_cols=147  Identities=11%  Similarity=-0.038  Sum_probs=82.7

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHH
Q 005881          446 VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHL  525 (672)
Q Consensus       446 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  525 (672)
                      ..|..+...+.+.|++++|+..|++.+.  +.|+...       +...|+.+++...+.           ...|..+..+
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~--~~p~~~~-------~~~~~~~~~~~~~l~-----------~~~~~nla~~  239 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIA--YMGDDFM-------FQLYGKYQDMALAVK-----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHH--HSCHHHH-------HTCCHHHHHHHHHHH-----------THHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH--Hhccchh-------hhhcccHHHHHHHHH-----------HHHHHHHHHH
Confidence            4566777778888899999999988887  3565442       233444454443321           1367888899


Q ss_pred             hhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHH-HHhcCChHHHH
Q 005881          526 FACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNV-YAEANMWDETA  602 (672)
Q Consensus       526 ~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~-~~~~g~~~~a~  602 (672)
                      |.+.|++++|++.+++. ...| +...|..+..++...|++++|+..++++++++|+++.++..+..+ ....+..+++.
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~  319 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQK  319 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999988763 3445 667888888999999999999999999999999999999988888 44566777888


Q ss_pred             HHHHHHhhCC
Q 005881          603 KVRKIMKEKS  612 (672)
Q Consensus       603 ~~~~~~~~~~  612 (672)
                      +.+..|....
T Consensus       320 ~~~~~~l~~~  329 (338)
T 2if4_A          320 EMYKGIFKGK  329 (338)
T ss_dssp             ----------
T ss_pred             HHHHHhhCCC
Confidence            8888776543

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.22  E-value=2.8e-06  Score=68.43  Aligned_cols=95  Identities=13%  Similarity=0.090  Sum_probs=56.8

Q ss_pred             HHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc
Q 005881          485 GVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTH  561 (672)
Q Consensus       485 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~  561 (672)
                      .+...+.+.|++++|+..|+...+.   .| +...+..+..++...|++++|++.+++. .+.| +...|..+...+...
T Consensus        22 ~~g~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           22 EEGLSMLKLANLAEAALAFEAVCQK---EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            3444555566666666666655532   33 4455566666666666666666666542 2344 455677777778888


Q ss_pred             CCHHHHHHHHHHHhcCCCCCC
Q 005881          562 KDLVLGRYAAEKILSTDPEDT  582 (672)
Q Consensus       562 g~~~~a~~~~~~~~~~~p~~~  582 (672)
                      |++++|+..++++++++|+++
T Consensus        99 g~~~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A           99 HNANAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHHC------
T ss_pred             CCHHHHHHHHHHHHHhCcCCC
Confidence            888888888888888888654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.22  E-value=3.9e-06  Score=68.51  Aligned_cols=89  Identities=13%  Similarity=0.067  Sum_probs=55.1

Q ss_pred             HHHHhhccCChHHHHHHHHhC-CCCCC-H---HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC---CchHHHHHHHHH
Q 005881          522 VVHLFACRGQTRRAYEFIKSS-PIEPN-K---VVWRCLLSGCKTHKDLVLGRYAAEKILSTDPED---TSAHIMLSNVYA  593 (672)
Q Consensus       522 l~~~~~~~g~~~~A~~~~~~~-~~~p~-~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~  593 (672)
                      ++..+...|++++|.+.+++. ...|+ .   ..+..+...+...|++++|...++++++..|++   +.++..++.+|.
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~   87 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQY   87 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHH
Confidence            344445555555555555432 11221 1   355556666677777777777777777777766   555777777777


Q ss_pred             hcCChHHHHHHHHHHhh
Q 005881          594 EANMWDETAKVRKIMKE  610 (672)
Q Consensus       594 ~~g~~~~a~~~~~~~~~  610 (672)
                      ..|++++|.+.++.+.+
T Consensus        88 ~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           88 GEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            77777777777776654

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.21  E-value=5.3e-06  Score=81.65  Aligned_cols=136  Identities=12%  Similarity=0.048  Sum_probs=98.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHH
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHL  525 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~  525 (672)
                      .|..+...+.+.|++++|++.|++.++.  .|+..          .....       +...   ...| +...|..+..+
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~--~~~~~----------~~~~~-------~~~~---~~~~~~~~~~~nla~~  282 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRY--VEGSR----------AAAED-------ADGA---KLQPVALSCVLNIGAC  282 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHHH----------HHSCH-------HHHG---GGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHH--hhcCc----------cccCh-------HHHH---HHHHHHHHHHHHHHHH
Confidence            4556666666777777777777666651  11100          00000       0100   1223 45678888899


Q ss_pred             hhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHH
Q 005881          526 FACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAK  603 (672)
Q Consensus       526 ~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  603 (672)
                      |.+.|++++|++.+++ +...| +...|..+..++...|++++|+..++++++++|++...+..++.++...++.+++.+
T Consensus       283 ~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          283 KLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999876 34556 567888888999999999999999999999999999999999999999988887765


Q ss_pred             H
Q 005881          604 V  604 (672)
Q Consensus       604 ~  604 (672)
                      .
T Consensus       363 ~  363 (370)
T 1ihg_A          363 A  363 (370)
T ss_dssp             C
T ss_pred             H
Confidence            3

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.19  E-value=1.5e-06  Score=69.70  Aligned_cols=82  Identities=9%  Similarity=0.051  Sum_probs=56.4

Q ss_pred             cCChHHHHHHHHhC-CC---CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHH
Q 005881          529 RGQTRRAYEFIKSS-PI---EP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAK  603 (672)
Q Consensus       529 ~g~~~~A~~~~~~~-~~---~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  603 (672)
                      .|++++|++.|++. ..   .| +...|..+...+...|++++|+..++++++++|+++..+..++.+|...|++++|.+
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHH
Confidence            45555565555542 22   23 334566677777788888888888888888888888888888888888888888888


Q ss_pred             HHHHHhh
Q 005881          604 VRKIMKE  610 (672)
Q Consensus       604 ~~~~~~~  610 (672)
                      .+++..+
T Consensus        83 ~~~~al~   89 (117)
T 3k9i_A           83 LLLKIIA   89 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8877654

>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=98.17  E-value=9.8e-06  Score=76.58  Aligned_cols=109  Identities=7%  Similarity=-0.133  Sum_probs=86.9

Q ss_pred             CHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHH
Q 005881          479 NDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLL  555 (672)
Q Consensus       479 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~  555 (672)
                      +...+..+...+...|++++|...|+.....   .| +...+..++.+|.+.|++++|.+.+++ +...| +...+..+.
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg   79 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR---NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            4566778888889999999999999988743   45 678888899999999999999999876 45566 566788888


Q ss_pred             HHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHH
Q 005881          556 SGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSN  590 (672)
Q Consensus       556 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  590 (672)
                      .++...|++++|...++++++++|+++..+...+.
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~  114 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIP  114 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchhhHHHHHH
Confidence            88999999999999999999998876544443333

>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=98.16  E-value=2.1e-05  Score=69.85  Aligned_cols=62  Identities=16%  Similarity=0.038  Sum_probs=58.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          549 VVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       549 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ..|..+...+...|++++|+..++++++++|+++.++..++.+|...|++++|.+.+++..+
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  150 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAAS  150 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            67788888899999999999999999999999999999999999999999999999998865

>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=98.15  E-value=3e-06  Score=70.24  Aligned_cols=73  Identities=8%  Similarity=-0.028  Sum_probs=52.3

Q ss_pred             HHHHHHHHhhccCChHHHHHHHHh--------CCCCCCH-HHH----HHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCch
Q 005881          518 HIASVVHLFACRGQTRRAYEFIKS--------SPIEPNK-VVW----RCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSA  584 (672)
Q Consensus       518 ~~~~l~~~~~~~g~~~~A~~~~~~--------~~~~p~~-~~~----~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  584 (672)
                      .|..+..++.+.|++++|++.+++        ..+.|+. ..|    .....++...|++++|+..|+++++++|++...
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~  138 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGE  138 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHH
Confidence            455555555555555555555432        2347854 478    888899999999999999999999999988776


Q ss_pred             HHHHHH
Q 005881          585 HIMLSN  590 (672)
Q Consensus       585 ~~~l~~  590 (672)
                      ..-+..
T Consensus       139 ~~~~~~  144 (159)
T 2hr2_A          139 TPGKER  144 (159)
T ss_dssp             CTTHHH
T ss_pred             HHHHHH
Confidence            554433

>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=98.14  E-value=0.00064  Score=64.87  Aligned_cols=227  Identities=11%  Similarity=0.036  Sum_probs=145.7

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChHH-HHHHHHHHcCcC-chHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhc-C-CHH
Q 005881          356 ASCHYGEAIELLKDMLFEGHCPNLYT-YSNILNISSDIP-AIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKC-G-RLN  431 (672)
Q Consensus       356 ~~~~~~~A~~~~~~m~~~g~~p~~~t-~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g-~~~  431 (672)
                      +.+..++|++++++++..  .|+..| ++.--..+...+ .++++...++.+.....+ +..+|+.-...+.+. + +++
T Consensus        66 ~~e~se~AL~lt~~~L~~--nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~  142 (349)
T 3q7a_A           66 KEEKSERALELTEIIVRM--NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPV  142 (349)
T ss_dssp             TTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCH
T ss_pred             hCCCCHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChH
Confidence            344445667766666654  443332 333333333444 466677777666655432 344455444444444 5 788


Q ss_pred             HHHHHHhhCCC---CCchhHHHHHHHHHhcCChH--------HHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCc-----
Q 005881          432 DARKVFDHLSS---KNLVSWNTMLVGYAQHGLGR--------EALEIYSMMQENKIKPNDNTFIGVLSACVHIGL-----  495 (672)
Q Consensus       432 ~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~--------~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~-----  495 (672)
                      ++.++++.+.+   .|..+|+.-.-.+.+.|.++        ++++.++++++.. +-|...|+.....+.+.+.     
T Consensus       143 ~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~  221 (349)
T 3q7a_A          143 SEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSS  221 (349)
T ss_dssp             HHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccch
Confidence            99999998885   44557766655565556565        8999999999863 3455677777777777665     


Q ss_pred             --HHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCCh--------------------HHHHHHHHhCC-C-------
Q 005881          496 --VEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQT--------------------RRAYEFIKSSP-I-------  544 (672)
Q Consensus       496 --~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~--------------------~~A~~~~~~~~-~-------  544 (672)
                        ++++++.+++++.   ..| |...|..+-.++.+.|+.                    .+..++...+. .       
T Consensus       222 ~~~~eELe~~~~aI~---~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  298 (349)
T 3q7a_A          222 RSLQDELIYILKSIH---LIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTP  298 (349)
T ss_dssp             HHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCC
T ss_pred             HHHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccC
Confidence              7888998888873   356 667787777777776654                    23333333321 1       


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHh-cCCCCCCchHHHHH
Q 005881          545 EPNKVVWRCLLSGCKTHKDLVLGRYAAEKIL-STDPEDTSAHIMLS  589 (672)
Q Consensus       545 ~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~~p~~~~~~~~l~  589 (672)
                      .++...+..++..|...|+.++|..+++.+. +.+|-....|...+
T Consensus       299 ~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw~~~~  344 (349)
T 3q7a_A          299 LPVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYWEFRR  344 (349)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHHHHHH
Confidence            2578888899999999999999999999986 78886555554443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.14  E-value=2.4e-05  Score=79.45  Aligned_cols=187  Identities=10%  Similarity=-0.035  Sum_probs=129.0

Q ss_pred             HHHhcCCHHHHHHHHhhCCC--C---Cc---------------hhHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCCCHH
Q 005881          423 MYAKCGRLNDARKVFDHLSS--K---NL---------------VSWNTMLVGYAQHGLGREALEIYSMMQENK-IKPNDN  481 (672)
Q Consensus       423 ~~~~~g~~~~A~~~~~~~~~--~---~~---------------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~  481 (672)
                      .+.+.|++++|.+.|..+.+  +   +.               .++..++..|...|++++|.+.+.++...- -.++..
T Consensus        13 ~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~   92 (434)
T 4b4t_Q           13 RLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSK   92 (434)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchH
Confidence            34556777777776665541  1   00               136678888999999999999988876521 112221


Q ss_pred             ----HHHHHHHHhhccCcHHHHHHHHHHhHHh---hCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-------CCCC
Q 005881          482 ----TFIGVLSACVHIGLVEEGWHYFNSMIRD---HGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-------PIEP  546 (672)
Q Consensus       482 ----~~~~ll~~~~~~g~~~~a~~~~~~~~~~---~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p  546 (672)
                          ....+...+...|++++|..+++.....   .+..+ ....+..++..|...|++++|.+++++.       ..+|
T Consensus        93 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~  172 (434)
T 4b4t_Q           93 TVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKP  172 (434)
T ss_dssp             HHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCST
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccch
Confidence                2333444556678899999888876532   22233 3467888999999999999999998752       2233


Q ss_pred             C-HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC---C----CchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          547 N-KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPE---D----TSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       547 ~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~---~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      . ...+..++..|...|++++|...+++++...+.   .    ...+..++.++...|++++|.+.+....
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          173 SLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            3 346777788899999999999999999865432   1    2345677888899999999998887664

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.12  E-value=1.6e-05  Score=64.77  Aligned_cols=105  Identities=8%  Similarity=-0.034  Sum_probs=60.4

Q ss_pred             HHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhc
Q 005881          488 SACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEPN----KVVWRCLLSGCKTH  561 (672)
Q Consensus       488 ~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~  561 (672)
                      ..+...|++++|...|+.+.+...-.+ ....+..++.++.+.|++++|.+.+++. ...|+    ...+..+...+...
T Consensus        10 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~~~   89 (129)
T 2xev_A           10 FDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQYGE   89 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHT
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHc
Confidence            344445555555555555543211111 0134455555555566666665555432 12232    45566677778888


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCchHHHHHHHH
Q 005881          562 KDLVLGRYAAEKILSTDPEDTSAHIMLSNVY  592 (672)
Q Consensus       562 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  592 (672)
                      |++++|...++++++..|+++........+-
T Consensus        90 g~~~~A~~~~~~~~~~~p~~~~~~~a~~~l~  120 (129)
T 2xev_A           90 GKNTEAQQTLQQVATQYPGSDAARVAQERLQ  120 (129)
T ss_dssp             TCHHHHHHHHHHHHHHSTTSHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHCCCChHHHHHHHHHH
Confidence            9999999999999988887766555544443

>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=98.11  E-value=5e-05  Score=79.08  Aligned_cols=170  Identities=11%  Similarity=-0.005  Sum_probs=134.0

Q ss_pred             cCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCC----------hHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhcc
Q 005881          427 CGRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHGL----------GREALEIYSMMQENKIKPNDNTFIGVLSACVHI  493 (672)
Q Consensus       427 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  493 (672)
                      ...-++|.+.++.+..   .+...|+.--..+...|+          ++++++.++++.+.. +-+...|..-...+.+.
T Consensus        42 ~~~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           42 GELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRL  120 (567)
T ss_dssp             TCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC
T ss_pred             CCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            3445677888887763   344577776666666666          899999999999853 33445788777788888


Q ss_pred             C--cHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccC-ChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc------
Q 005881          494 G--LVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRG-QTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTH------  561 (672)
Q Consensus       494 g--~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g-~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~------  561 (672)
                      |  +++++++.++++.+.   .| +...|+.-..++.+.| .+++++++++++ ...| |..+|+.....+...      
T Consensus       121 ~~~~~~~el~~~~k~l~~---d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~  197 (567)
T 1dce_A          121 PEPNWARELELCARFLEA---DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDS  197 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCS
T ss_pred             ccccHHHHHHHHHHHHhh---ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccc
Confidence            8  779999999999843   45 6778888888888888 899999998864 5566 677888877776552      


Q ss_pred             --------CCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHH
Q 005881          562 --------KDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDE  600 (672)
Q Consensus       562 --------g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  600 (672)
                              +.++++.+.++++++++|++.++|..+..++.+.++.++
T Consensus       198 ~~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          198 GPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                    557999999999999999999999999999999988655

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.11  E-value=1.7e-05  Score=62.47  Aligned_cols=98  Identities=11%  Similarity=-0.006  Sum_probs=56.9

Q ss_pred             HHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-CCCC---CHHHHHHHHHHH
Q 005881          483 FIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP---NKVVWRCLLSGC  558 (672)
Q Consensus       483 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p---~~~~~~~l~~~~  558 (672)
                      +..+...+...|++++|...|++..+..  +.+...+..++.++...|++++|.+.+++. ...|   +...|..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~~   86 (112)
T 2kck_A            9 YYLEGVLQYDAGNYTESIDLFEKAIQLD--PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADAL   86 (112)
T ss_dssp             GGGHHHHHHSSCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHHH
Confidence            3344444555555555555555544221  113445555555555566666665555432 2223   355677777777


Q ss_pred             Hhc-CCHHHHHHHHHHHhcCCCCCC
Q 005881          559 KTH-KDLVLGRYAAEKILSTDPEDT  582 (672)
Q Consensus       559 ~~~-g~~~~a~~~~~~~~~~~p~~~  582 (672)
                      ... |++++|.+.++++++..|.++
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           87 RYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             TTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHhCCHHHHHHHHHHHhhcccCCC
Confidence            788 888888888888888877654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.10  E-value=8.4e-06  Score=69.73  Aligned_cols=78  Identities=13%  Similarity=-0.000  Sum_probs=60.5

Q ss_pred             hHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC-chHHHHHHHH
Q 005881          516 MDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDT-SAHIMLSNVY  592 (672)
Q Consensus       516 ~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~-~~~~~l~~~~  592 (672)
                      ...|..+..+|.+.|++++|+..+++ +.+.| +...|..+..++...|++++|...++++++++|+++ .....+..+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~~  142 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIVT  142 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            45677788888888888888888765 23445 566888888999999999999999999999999887 4454554444


Q ss_pred             H
Q 005881          593 A  593 (672)
Q Consensus       593 ~  593 (672)
                      .
T Consensus       143 ~  143 (162)
T 3rkv_A          143 E  143 (162)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=98.09  E-value=1e-05  Score=65.91  Aligned_cols=115  Identities=8%  Similarity=-0.090  Sum_probs=63.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHh
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLF  526 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  526 (672)
                      .|..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...++.+....   |+           
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~---~~-----------   70 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVG---RE-----------   70 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH---HH-----------
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhc---cc-----------
Confidence            34445555555555555555555555431 2233344444445555555555555555444211   00           


Q ss_pred             hccCChHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHh
Q 005881          527 ACRGQTRRAYEFIKSSPIEPN----KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAE  594 (672)
Q Consensus       527 ~~~g~~~~A~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  594 (672)
                                       ..++    ...|..+...+...|+++.|...++++++..| ++.....+..++..
T Consensus        71 -----------------~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~  124 (131)
T 1elr_A           71 -----------------NREDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAEKI  124 (131)
T ss_dssp             -----------------STTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHH
T ss_pred             -----------------cchhHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHHHH
Confidence                             0111    44566677777788888888888888888877 56666666555443

>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=98.09  E-value=0.00022  Score=67.79  Aligned_cols=177  Identities=11%  Similarity=0.053  Sum_probs=111.2

Q ss_pred             HHHHHHHHhhCC---CCCchhHHHHHHHHHhcC--ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCc-HHHHHHHH
Q 005881          430 LNDARKVFDHLS---SKNLVSWNTMLVGYAQHG--LGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGL-VEEGWHYF  503 (672)
Q Consensus       430 ~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~-~~~a~~~~  503 (672)
                      ++++..+++.+.   ..+..+|+.-...+...|  ++++++.+++++.+.. +-|...|+.-...+...|. ++++++.+
T Consensus        90 l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           90 VKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            455666666554   345566766666666666  3678888888887743 3344556655555566666 57788877


Q ss_pred             HHhHHhhCCCC-chHHHHHHHHHhhcc--------------CChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhc-----
Q 005881          504 NSMIRDHGISP-RMDHIASVVHLFACR--------------GQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTH-----  561 (672)
Q Consensus       504 ~~~~~~~~~~p-~~~~~~~l~~~~~~~--------------g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~-----  561 (672)
                      +.+++.   .| +...|+....++.+.              +.++++++++++ +...| |..+|+-+-..+...     
T Consensus       169 ~~~I~~---~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~  245 (331)
T 3dss_A          169 DSLITR---NFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCE  245 (331)
T ss_dssp             HHHHHH---CSCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGG
T ss_pred             HHHHHH---CCCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccc
Confidence            777743   34 556666665555443              456777777765 33445 666776555554444     


Q ss_pred             ------CCHHHHHHHHHHHhcCCCCCCchHHHHHHHH---HhcCChHHHHHHHHHHhh
Q 005881          562 ------KDLVLGRYAAEKILSTDPEDTSAHIMLSNVY---AEANMWDETAKVRKIMKE  610 (672)
Q Consensus       562 ------g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~---~~~g~~~~a~~~~~~~~~  610 (672)
                            +.++++++.++++++++|++.-.+..++.+.   ...|..++....+.++.+
T Consensus       246 ~~~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~  303 (331)
T 3dss_A          246 LSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKA  303 (331)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHH
Confidence                  3578888899999999997744443333222   235677778888877764

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.08  E-value=1.2e-05  Score=68.36  Aligned_cols=61  Identities=18%  Similarity=0.059  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC------CCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          550 VWRCLLSGCKTHKDLVLGRYAAEKILSTDPE------DTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       550 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      .+..+...+...|++++|...+++++++.+.      ....+..++.+|...|++++|.+.+++..+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            4555666677778888888888877765321      235677888899999999999998887654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.08  E-value=2.1e-05  Score=79.77  Aligned_cols=124  Identities=10%  Similarity=0.044  Sum_probs=89.7

Q ss_pred             hhccCcHHHHHHHHHHhHHhhC--CC---C-chHHHHHHHHHhhccCChHHHHHHHHhC--------C-CCCCHH-HHHH
Q 005881          490 CVHIGLVEEGWHYFNSMIRDHG--IS---P-RMDHIASVVHLFACRGQTRRAYEFIKSS--------P-IEPNKV-VWRC  553 (672)
Q Consensus       490 ~~~~g~~~~a~~~~~~~~~~~~--~~---p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~--------~-~~p~~~-~~~~  553 (672)
                      +...|++++|..++++..+...  +-   | ...+++.|+.+|...|++++|..++++.        | ..|+.. +++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            4456777777777766554322  11   2 1356777777777788887777776542        2 345443 6788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhc-----CCCCCCchH---HHHHHHHHhcCChHHHHHHHHHHhhCCC
Q 005881          554 LLSGCKTHKDLVLGRYAAEKILS-----TDPEDTSAH---IMLSNVYAEANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       554 l~~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~~~---~~l~~~~~~~g~~~~a~~~~~~~~~~~~  613 (672)
                      |...|..+|++++|+..++++++     ++|+++.+-   ..+..++.+.|++++|..++.+++++..
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~~  466 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAAL  466 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            88889999999999999999975     678776554   4788889999999999999999987543

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.06  E-value=1.5e-06  Score=68.78  Aligned_cols=93  Identities=9%  Similarity=-0.027  Sum_probs=72.5

Q ss_pred             chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC------CchHH
Q 005881          515 RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPED------TSAHI  586 (672)
Q Consensus       515 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~  586 (672)
                      +...+..++..+.+.|++++|.+.+++. ...| +...|..+...+...|++++|+..++++++++|++      ...+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~   82 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQY   82 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHH
Confidence            4456667777777888888888777652 2344 56778888888999999999999999999999988      77788


Q ss_pred             HHHHHHHhcCChHHHHHHHHH
Q 005881          587 MLSNVYAEANMWDETAKVRKI  607 (672)
Q Consensus       587 ~l~~~~~~~g~~~~a~~~~~~  607 (672)
                      .++.++...|++++|.+.+++
T Consensus        83 ~~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHHCCCCCSSSSSS
T ss_pred             HHHHHHHHHHhHhhhHhHHHH
Confidence            888888888877766655543

>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=98.05  E-value=1.4e-05  Score=65.18  Aligned_cols=94  Identities=12%  Similarity=0.047  Sum_probs=75.9

Q ss_pred             HHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC-------CchHHH
Q 005881          517 DHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPED-------TSAHIM  587 (672)
Q Consensus       517 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~~~  587 (672)
                      ..+..++..+...|++++|...+++. ...| +...+..+...+...|++++|...++++++..|++       +..+..
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            45566667777777777777777642 2223 56677788888889999999999999999988866       778999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhh
Q 005881          588 LSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       588 l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ++.+|...|++++|.+.+++..+
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHH
Confidence            99999999999999999998875

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.04  E-value=8.3e-06  Score=79.36  Aligned_cols=151  Identities=10%  Similarity=0.019  Sum_probs=77.6

Q ss_pred             cHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccC
Q 005881          415 VIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIG  494 (672)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g  494 (672)
                      ..+..+...+.+.|++++|...|++....+....     .+...|+..++...+.          ...|..+..++.+.|
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~-----~~~~~~~~~~~~~~l~----------~~~~~nla~~~~~~g  244 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDF-----MFQLYGKYQDMALAVK----------NPCHLNIAACLIKLK  244 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHH-----HHTCCHHHHHHHHHHH----------THHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccch-----hhhhcccHHHHHHHHH----------HHHHHHHHHHHHHcC
Confidence            4466778888899999999999998663222111     1222333344333221          136777888888899


Q ss_pred             cHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCCCHH-HHHHHHHH-HHhcCCHHHHHHH
Q 005881          495 LVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEPNKV-VWRCLLSG-CKTHKDLVLGRYA  570 (672)
Q Consensus       495 ~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~~l~~~-~~~~g~~~~a~~~  570 (672)
                      ++++|+..++...+.   .| +...+..+..+|...|++++|.+.|++. .+.|+.. .+..+... ....+..+.+...
T Consensus       245 ~~~~A~~~~~~al~~---~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~~~  321 (338)
T 2if4_A          245 RYDEAIGHCNIVLTE---EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQKEM  321 (338)
T ss_dssp             CCHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------------------
T ss_pred             CHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999888743   45 5678888899999999999999998764 4566433 44444444 3445778888999


Q ss_pred             HHHHhcCCCCCCc
Q 005881          571 AEKILSTDPEDTS  583 (672)
Q Consensus       571 ~~~~~~~~p~~~~  583 (672)
                      |.++++..|+++.
T Consensus       322 ~~~~l~~~p~~~~  334 (338)
T 2if4_A          322 YKGIFKGKDEGGA  334 (338)
T ss_dssp             -------------
T ss_pred             HHHhhCCCCCCCC
Confidence            9999999987653

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.03  E-value=0.00044  Score=65.65  Aligned_cols=192  Identities=9%  Similarity=0.000  Sum_probs=126.8

Q ss_pred             hHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcC--CHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCC-hHHHHHHH
Q 005881          395 IEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCG--RLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGL-GREALEIY  468 (672)
Q Consensus       395 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~-~~~A~~~~  468 (672)
                      ++.+..+++.+.....+ +..+|+.-.-.+.+.|  .++++..+++.+.   ..|..+|+.-.-.+...|. ++++++.+
T Consensus        90 l~~EL~~~~~~L~~~PK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           90 VKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            34555556655554322 4445554444555556  4788888888876   4566788877777778887 58999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHhhcc--------------CcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhcc----
Q 005881          469 SMMQENKIKPNDNTFIGVLSACVHI--------------GLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACR----  529 (672)
Q Consensus       469 ~~m~~~g~~p~~~~~~~ll~~~~~~--------------g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~----  529 (672)
                      +++++.. +-|...|+.....+.+.              +.++++++.+.....   ..| |...|+-+-..+.+.    
T Consensus       169 ~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~---~~P~d~SaW~Y~r~ll~~~~~~~  244 (331)
T 3dss_A          169 DSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFF---TDPNDQSAWFYHRWLLGAGSGRC  244 (331)
T ss_dssp             HHHHHHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHSSSCGG
T ss_pred             HHHHHHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHhccCcc
Confidence            9999853 33445555544444333              567888898888873   356 567777666666555    


Q ss_pred             -------CChHHHHHHHHhC-CCCCCHHHHHHHHHH-----HHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHH
Q 005881          530 -------GQTRRAYEFIKSS-PIEPNKVVWRCLLSG-----CKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVY  592 (672)
Q Consensus       530 -------g~~~~A~~~~~~~-~~~p~~~~~~~l~~~-----~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  592 (672)
                             +.++++++.++++ ...||. .|..+..+     ....|..++....+.++++++|...+.|..+..-+
T Consensus       245 ~~~~~~~~~l~~el~~~~elle~~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~~~~~  319 (331)
T 3dss_A          245 ELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKF  319 (331)
T ss_dssp             GCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHHHHhhCccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHHHHHH
Confidence                   4578888888764 456764 45432222     12457888999999999999998777776655443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.03  E-value=3.3e-06  Score=67.56  Aligned_cols=93  Identities=14%  Similarity=0.135  Sum_probs=55.8

Q ss_pred             cCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHH
Q 005881          493 IGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRY  569 (672)
Q Consensus       493 ~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~  569 (672)
                      .|++++|+..|++..+...-.| +...+..++.+|...|++++|.+.+++. ...| +...+..+..++...|++++|+.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHH
Confidence            3555566666665552100013 2355566666666666666666666542 2234 45567777777888888888888


Q ss_pred             HHHHHhcCCCCCCchH
Q 005881          570 AAEKILSTDPEDTSAH  585 (672)
Q Consensus       570 ~~~~~~~~~p~~~~~~  585 (672)
                      .++++++..|+++...
T Consensus        83 ~~~~al~~~p~~~~~~   98 (117)
T 3k9i_A           83 LLLKIIAETSDDETIQ   98 (117)
T ss_dssp             HHHHHHHHHCCCHHHH
T ss_pred             HHHHHHHhCCCcHHHH
Confidence            8888888888776543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.01  E-value=2.2e-05  Score=60.52  Aligned_cols=64  Identities=16%  Similarity=0.149  Sum_probs=60.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          547 NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       547 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +...|..+...+...|++++|+..++++++++|+++.+|..++.+|...|++++|.+.+++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5678888999999999999999999999999999999999999999999999999999998765

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.99  E-value=4.1e-05  Score=75.28  Aligned_cols=111  Identities=11%  Similarity=0.032  Sum_probs=83.6

Q ss_pred             HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCC-CHHHHHHHHHHHH
Q 005881          481 NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEP-NKVVWRCLLSGCK  559 (672)
Q Consensus       481 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~  559 (672)
                      ..+..+...+.+.|++++|+..|++..+..   +...          .....+++.      ...| +...|..+...+.
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~---~~~~----------~~~~~~~~~------~~~~~~~~~~~nla~~~~  284 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYV---EGSR----------AAAEDADGA------KLQPVALSCVLNIGACKL  284 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---HHHH----------HHSCHHHHG------GGHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHh---hcCc----------cccChHHHH------HHHHHHHHHHHHHHHHHH
Confidence            456677777888888888888887776321   1000          000111111      1233 4557888888899


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          560 THKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       560 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +.|++++|+..++++++++|+++.++..++.+|...|++++|.+.+++..+
T Consensus       285 ~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~  335 (370)
T 1ihg_A          285 KMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQE  335 (370)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999998875

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.96  E-value=2.9e-05  Score=79.07  Aligned_cols=65  Identities=9%  Similarity=0.003  Sum_probs=60.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          548 KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                      ...|..+..++.+.|++++|+..++++++++|+++.+|..++.+|...|++++|...+++..+..
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~  381 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  381 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            46788888889999999999999999999999999999999999999999999999999988643

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.96  E-value=3.2e-05  Score=65.71  Aligned_cols=133  Identities=11%  Similarity=-0.020  Sum_probs=77.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CCCH----HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc----hH
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMMQENKI-KPND----NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR----MD  517 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~  517 (672)
                      ++..+...+...|++++|++.+++..+..- .++.    .++..+...+...|++++|...++.......-.++    ..
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            344555555666666666666665554210 0111    24555666666677777777776665532211111    34


Q ss_pred             HHHHHHHHhhccCChHHHHHHHHhC-------CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 005881          518 HIASVVHLFACRGQTRRAYEFIKSS-------PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDP  579 (672)
Q Consensus       518 ~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  579 (672)
                      .+..++.++...|++++|.+.+++.       +..+ ....+..+...+...|++++|...+++++++..
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  160 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISR  160 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHH
Confidence            5666677777777777777766542       1111 133556667778888999999999888876543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.95  E-value=0.00015  Score=73.53  Aligned_cols=159  Identities=8%  Similarity=-0.001  Sum_probs=120.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCC----------------HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc
Q 005881          452 LVGYAQHGLGREALEIYSMMQENKIKPN----------------DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR  515 (672)
Q Consensus       452 i~~~~~~g~~~~A~~~~~~m~~~g~~p~----------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~  515 (672)
                      ...+...|++++|++.|.++.+..-...                ...+..+...|...|++++|.+.+..+....+..++
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            3456778999999999999988532211                124778899999999999999999988754443333


Q ss_pred             h----HHHHHHHHHhhccCChHHHHHHHHh-------CCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhcC------
Q 005881          516 M----DHIASVVHLFACRGQTRRAYEFIKS-------SPIEPN-KVVWRCLLSGCKTHKDLVLGRYAAEKILST------  577 (672)
Q Consensus       516 ~----~~~~~l~~~~~~~g~~~~A~~~~~~-------~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------  577 (672)
                      .    .+.+.+...+...|+.++|.++++.       .+..+. ..++..+...+...|++++|...+++++..      
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            2    2344556667778999999888754       233343 446778888899999999999999998753      


Q ss_pred             CCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          578 DPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       578 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      .|.....+..++.+|...|++++|...+++...
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            222346788999999999999999999988764

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.93  E-value=2.5e-05  Score=62.11  Aligned_cols=76  Identities=12%  Similarity=-0.005  Sum_probs=62.9

Q ss_pred             HHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          535 AYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       535 A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      |++.+++ +...| +...|..+...+...|++++|+..++++++++|+++..+..++.+|...|++++|.+.+++..+
T Consensus         4 a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4444443 23345 5667888888899999999999999999999999999999999999999999999999998765

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.89  E-value=3.7e-05  Score=57.86  Aligned_cols=81  Identities=19%  Similarity=0.245  Sum_probs=60.3

Q ss_pred             hHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHH
Q 005881          516 MDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYA  593 (672)
Q Consensus       516 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  593 (672)
                      ...+..+...+...|++++|.+.+++. ...| +...|..+...+...|++++|...++++++++|+++..+..++.++.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~   88 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQ   88 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            345666666677777777777776542 2233 55677778888888899999999999999999988888888888887


Q ss_pred             hcC
Q 005881          594 EAN  596 (672)
Q Consensus       594 ~~g  596 (672)
                      ..|
T Consensus        89 ~~g   91 (91)
T 1na3_A           89 KQG   91 (91)
T ss_dssp             HHC
T ss_pred             hcC
Confidence            654

>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=97.86  E-value=5.6e-06  Score=68.40  Aligned_cols=96  Identities=15%  Similarity=0.105  Sum_probs=66.3

Q ss_pred             ccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 005881          492 HIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYA  570 (672)
Q Consensus       492 ~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  570 (672)
                      +.+.+++|...++...+   +.| +.+.|..+..++...++++.+.+.++                      .+++|+..
T Consensus        14 r~~~feeA~~~~~~Ai~---l~P~~aea~~n~G~~l~~l~~~~~g~~al~----------------------~~~eAi~~   68 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYK---SNPLDADNLTRWGGVLLELSQFHSISDAKQ----------------------MIQEAITK   68 (158)
T ss_dssp             HHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHHSCHHHHHH----------------------HHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHhcccchhhhhHh----------------------HHHHHHHH
Confidence            34455666666655552   233 44555555555555544433332221                      36799999


Q ss_pred             HHHHhcCCCCCCchHHHHHHHHHhcC-----------ChHHHHHHHHHHhhCC
Q 005881          571 AEKILSTDPEDTSAHIMLSNVYAEAN-----------MWDETAKVRKIMKEKS  612 (672)
Q Consensus       571 ~~~~~~~~p~~~~~~~~l~~~~~~~g-----------~~~~a~~~~~~~~~~~  612 (672)
                      |+++++++|+++.+|..++.+|...|           ++++|.+.|++..+.+
T Consensus        69 le~AL~ldP~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~  121 (158)
T 1zu2_A           69 FEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQ  121 (158)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhCcCcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHhC
Confidence            99999999999999999999999875           8999999999987643

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.82  E-value=9e-05  Score=55.69  Aligned_cols=68  Identities=9%  Similarity=-0.019  Sum_probs=59.2

Q ss_pred             CCHHHHHHHHHHHHhcCC---HHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCC
Q 005881          546 PNKVVWRCLLSGCKTHKD---LVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       546 p~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  613 (672)
                      +++..+..+..++...++   .++|...++++++++|+++.+...++..+.+.|++++|...|+++.+...
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p   74 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSND   74 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            466777777777654444   79999999999999999999999999999999999999999999987655

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.74  E-value=9.3e-05  Score=58.09  Aligned_cols=66  Identities=2%  Similarity=-0.105  Sum_probs=60.9

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          546 PNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       546 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      ++...|..+...+...|++++|...++++++++|+++..+..++.+|...|++++|.+.+++..+.
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            355678888889999999999999999999999999999999999999999999999999998764

>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=97.73  E-value=1.9e-05  Score=65.22  Aligned_cols=103  Identities=10%  Similarity=0.165  Sum_probs=74.7

Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHhhccCcH----------HHHHHHHHHhHHhhCCCC-chHHHHHH
Q 005881          455 YAQHGLGREALEIYSMMQENKIKP-NDNTFIGVLSACVHIGLV----------EEGWHYFNSMIRDHGISP-RMDHIASV  522 (672)
Q Consensus       455 ~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~----------~~a~~~~~~~~~~~~~~p-~~~~~~~l  522 (672)
                      ..+.+.+++|++.+++..+.  .| +...|..+..++...+++          ++|+..|++.+   .+.| ....|..+
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL---~ldP~~~~A~~~L   86 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEAL---LIDPKKDEAVWCI   86 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHH---HHCTTCHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHH---HhCcCcHHHHHHH
Confidence            35667899999999999985  45 456788888888888765          47777777766   3455 34667777


Q ss_pred             HHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 005881          523 VHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTS  583 (672)
Q Consensus       523 ~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  583 (672)
                      ..+|...|.+            .|+...         ..|++++|+..|+++++++|++..
T Consensus        87 G~ay~~lg~l------------~P~~~~---------a~g~~~eA~~~~~kAl~l~P~~~~  126 (158)
T 1zu2_A           87 GNAYTSFAFL------------TPDETE---------AKHNFDLATQFFQQAVDEQPDNTH  126 (158)
T ss_dssp             HHHHHHHHHH------------CCCHHH---------HHHHHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHhccc------------Ccchhh---------hhccHHHHHHHHHHHHHhCCCCHH
Confidence            7777665543            344321         137899999999999999997743

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.68  E-value=0.00013  Score=74.02  Aligned_cols=115  Identities=8%  Similarity=-0.083  Sum_probs=85.9

Q ss_pred             HHhhccCChHHHHHHHHhC--------C-CCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHhc-----CCCCCCc---hH
Q 005881          524 HLFACRGQTRRAYEFIKSS--------P-IEPNK-VVWRCLLSGCKTHKDLVLGRYAAEKILS-----TDPEDTS---AH  585 (672)
Q Consensus       524 ~~~~~~g~~~~A~~~~~~~--------~-~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~---~~  585 (672)
                      ..+..+|++++|+.++++.        + ..|+. .+++.|...|...|++++|+.+++++++     +.|+++.   .+
T Consensus       317 ~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l  396 (490)
T 3n71_A          317 DKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAV  396 (490)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHH
Confidence            3456889999999888642        2 33433 3688899999999999999999999975     4666654   57


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhhCCCccCCceeEEEeCCEEEEEEeccccCCChHHHHHHHHHHHHHHH
Q 005881          586 IMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLF  656 (672)
Q Consensus       586 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  656 (672)
                      ..|+.+|...|++++|..++++..+-. ++.-|                 ..||.+.++...|.+...++.
T Consensus       397 ~nLa~~~~~~G~~~eA~~~~~~Al~i~-~~~lG-----------------~~Hp~~~~~~~~l~~~~~e~~  449 (490)
T 3n71_A          397 MRAGLTNWHAGHIEVGHGMICKAYAIL-LVTHG-----------------PSHPITKDLEAMRMQTEMELR  449 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHH-HHHTC-----------------TTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHH-HHHhC-----------------CCChHHHHHHHHHHHHHHHHH
Confidence            789999999999999999999886521 11112                 469988888777776554443

>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=97.68  E-value=0.00042  Score=72.13  Aligned_cols=151  Identities=13%  Similarity=0.087  Sum_probs=121.7

Q ss_pred             hcC-ChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHhhccCc----------HHHHHHHHHHhHHhhCCCC-chHHHHHHH
Q 005881          457 QHG-LGREALEIYSMMQENKIKPNDN-TFIGVLSACVHIGL----------VEEGWHYFNSMIRDHGISP-RMDHIASVV  523 (672)
Q Consensus       457 ~~g-~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~----------~~~a~~~~~~~~~~~~~~p-~~~~~~~l~  523 (672)
                      +.| ..++|++.++++..  +.|+.. .|+.--.++...|+          ++++++.++.+.+.   .| +...|..-.
T Consensus        40 ~~~~~~eeal~~~~~~l~--~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~---~pK~y~aW~hR~  114 (567)
T 1dce_A           40 QAGELDESVLELTSQILG--ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV---NPKSYGTWHHRC  114 (567)
T ss_dssp             HTTCCSHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHH--HCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh---CCCCHHHHHHHH
Confidence            344 45788999999999  567765 46655555666666          89999999999843   45 667888888


Q ss_pred             HHhhccC--ChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC-CHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhc---
Q 005881          524 HLFACRG--QTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHK-DLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEA---  595 (672)
Q Consensus       524 ~~~~~~g--~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~---  595 (672)
                      .++.+.|  ++++++++++++ ...| +..+|+.-.......| ..+++.+.++++++.+|.|.++|...+.++.+.   
T Consensus       115 w~l~~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~  194 (567)
T 1dce_A          115 WLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQ  194 (567)
T ss_dssp             HHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccc
Confidence            8888999  779999999874 3445 7889998888888888 899999999999999999999999999998874   


Q ss_pred             -----------CChHHHHHHHHHHhhCC
Q 005881          596 -----------NMWDETAKVRKIMKEKS  612 (672)
Q Consensus       596 -----------g~~~~a~~~~~~~~~~~  612 (672)
                                 ++++++.+.+++....+
T Consensus       195 ~~~~~~~~~~~~~~~eel~~~~~ai~~~  222 (567)
T 1dce_A          195 PDSGPQGRLPENVLLKELELVQNAFFTD  222 (567)
T ss_dssp             CCSSSCCSSCHHHHHHHHHHHHHHHHHC
T ss_pred             ccccccccccHHHHHHHHHHHHHHHhhC
Confidence                       56789999888776543

>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=97.67  E-value=0.0005  Score=56.48  Aligned_cols=89  Identities=10%  Similarity=0.004  Sum_probs=53.0

Q ss_pred             HHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHh---
Q 005881          522 VVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKT----HKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAE---  594 (672)
Q Consensus       522 l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~---  594 (672)
                      |..+|...+..++|.++|++.-...++..+..+...|..    .+|.++|...++++.+.  .++.++..|+.+|..   
T Consensus        31 lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~--g~~~a~~~Lg~~y~~G~g  108 (138)
T 1klx_A           31 LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGL--NDQDGCLILGYKQYAGKG  108 (138)
T ss_dssp             HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSS
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcC--CCHHHHHHHHHHHHCCCC
Confidence            444444444444455444432212344555555555555    56777777777777665  356777777777777   


Q ss_pred             -cCChHHHHHHHHHHhhCC
Q 005881          595 -ANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       595 -~g~~~~a~~~~~~~~~~~  612 (672)
                       .+++++|.+.+++..+.|
T Consensus       109 ~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A          109 VVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             SCCCHHHHHHHHHHHHHTT
T ss_pred             CCcCHHHHHHHHHHHHHCC
Confidence             677777777777766554

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.65  E-value=0.00012  Score=70.99  Aligned_cols=432  Identities=11%  Similarity=0.071  Sum_probs=260.0

Q ss_pred             CcchhhHHHHHHhcCCChhHHHHHhccCCCCCcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhc
Q 005881            9 NVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACAS   88 (672)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   88 (672)
                      .+.+|+.|.++..+.+++.+|++.|  ++..|+..|..+|.+..++|.+++-+..+...++..  -++..=+.|+-+|++
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsy--IkA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~ayAk  128 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSY--IKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAK  128 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSS--CCCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHHHHT
T ss_pred             CccHHHHHHHHHHccCchHHHHHHH--HhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHHHHh
Confidence            4568999999999999999998887  445577778899999999999999999998777653  344455688999999


Q ss_pred             CCChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCC------------------------CCccc
Q 005881           89 RGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLE------------------------RNSIS  144 (672)
Q Consensus        89 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~------------------------~~~~~  144 (672)
                      .+++.+-++++.       .||..-...+-+-|...|.++.|.-+|..+..                        .++.|
T Consensus       129 ~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~kt  201 (624)
T 3lvg_A          129 TNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRT  201 (624)
T ss_dssp             SCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCS
T ss_pred             hCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhH
Confidence            998887666543       46776667788888888999999888865432                        26789


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCC-CcHHHHHHHHHHhh
Q 005881          145 WVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALE-FDKFVAMGLINLYA  223 (672)
Q Consensus       145 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~  223 (672)
                      |-.+-.+|...+.+.-|.-.--.+.-   .|  .....++..|-..|.+++...+++..+  |.+ ....+++-|.-.|+
T Consensus       202 WKeV~~ACvd~~EfrLAqicGLniIv---ha--deL~elv~~YE~~G~f~ELIsLlEagl--glErAHmGmFTELaILYs  274 (624)
T 3lvg_A          202 WKEVCFACVDGKEFRLAQMCGLHIVV---HA--DELEELINYYQDRGYFEELITMLEAAL--GLERAHMGMFTELAILYS  274 (624)
T ss_dssp             HHHHTHHHHHSCTTTTTTHHHHHHHC---CS--SCCSGGGSSSSTTCCCTTSTTTHHHHT--TSTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCchHHHHHHHhcchhcc---cH--HHHHHHHHHHHhCCCHHHHHHHHHHHh--CCCchhHHHHHHHHHHHH
Confidence            99999999999988877655433332   12  223346667788888888887777665  333 45678888888888


Q ss_pred             cCCChhHHHHHHhcCC----C-------CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHhhccC
Q 005881          224 KCEKLDLASRVFSNIQ----L-------PDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLGAFADVK  292 (672)
Q Consensus       224 ~~g~~~~a~~~~~~~~----~-------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~  292 (672)
                      +-. +++..+-++..-    -       .....|.-++-.|.+-..++.|...   |.+.  .|+...-..+.....+..
T Consensus       275 KY~-PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~lt---Mi~h--~~~Aw~h~~Fkdii~KVa  348 (624)
T 3lvg_A          275 KFK-PQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT---MMNH--PTDAWKEGQFKDIITKVA  348 (624)
T ss_dssp             SSC-TTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHHT---TTSC--HHHHCCGGGGTTTGGGCS
T ss_pred             hcC-HHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHHH---HHhC--ChhhccHHHHHHHHHHcc
Confidence            863 444444433321    1       2345677788778877777766432   2221  011111111112222222


Q ss_pred             CchhHHHHHHHHHHhCCCCchHHHHHHHHH-------------HHccCChHHHHHHHhhCCCCCcccHH-HHHHHHHhcC
Q 005881          293 ETIGGRQLHSLIIKMGFSSFTFVANTVLDF-------------YSKCELLEESLKTFDEMDEHDVVSWN-ALIAGHLASC  358 (672)
Q Consensus       293 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-------------~~~~~~~~~a~~~~~~~~~~~~~~~~-~li~~~~~~~  358 (672)
                      +.+---+.....+    .-.+...+.|+..             +.+.|++.-....+..+...|...-| ++-..|....
T Consensus       349 N~EiyYKAi~FYL----~e~P~lL~DLL~vL~prlDh~RvV~~~~k~~~LpLIkpYL~~Vq~~N~~aVNeAln~L~IEEE  424 (624)
T 3lvg_A          349 NVELYYRAIQFYL----EFKPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLNNLFITEE  424 (624)
T ss_dssp             CSHHHHHHHHHHT----TSCCTTSHHHHHHHCTTCCSTTTHHHHHTTTCGGGGTGGGTSCCCSCCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHH----HhChHHHHHHHHhccccCChHHHHHHHHhcCCchhhHHHHHHHHHhhHHHHHHHHHHHHhhhh
Confidence            3222222222111    1112222334444             44444444444444444444443333 3334555555


Q ss_pred             ChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHh
Q 005881          359 HYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFD  438 (672)
Q Consensus       359 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  438 (672)
                      +++.                   ...-+..|.+-.....|.++    .++.   -...-..-...|.+.++++.+.++..
T Consensus       425 Dy~~-------------------LR~SId~ydNFD~i~LA~rL----EkHe---L~eFRrIAA~LYkkn~rw~qsi~l~K  478 (624)
T 3lvg_A          425 DYQA-------------------LRTSIDAYDNFDNISLAQRL----EKHE---LIEFRRIAAYLFKGNNRWKQSVELCK  478 (624)
T ss_dssp             CCHH-------------------HHHTTSSCCCSCTTHHHHHH----HTCS---SHHHHHHHHHHHHTTCHHHHHSSCSS
T ss_pred             hHHH-------------------HHHHHHHhccccHHHHHHHH----hhCc---hHHHHHHHHHHHHhcccHHHHHHHHH
Confidence            5442                   11122222222233323222    1111   01111223445777888888876654


Q ss_pred             hCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHH
Q 005881          439 HLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHY  502 (672)
Q Consensus       439 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~  502 (672)
                      +=.     .|.--|...+..|+.+-|.++++-..+.|   +..+|...+-.|...=+++-++++
T Consensus       479 kDk-----lykDAietAa~S~~~elaeeLL~yFv~~g---~~EcF~a~LytCYdLlrpDvVlEl  534 (624)
T 3lvg_A          479 KDS-----LYKDAMQYASESKDTELAEELLQWFLQEE---KRECFGACLFTCYDLLRPDVVLET  534 (624)
T ss_dssp             TTC-----CTTGGGTTTTTCCCTTHHHHHHHHHHHHC---STHHHHHHHHHTSSSSSCHHHHHH
T ss_pred             hcc-----cHHHHHHHHHHcCCHHHHHHHHHHHHHcC---chHHHHHHHHHHhhccChHHHHHH
Confidence            322     22233445567788899999999888854   456788888888887777777665

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.53  E-value=0.00025  Score=53.08  Aligned_cols=64  Identities=22%  Similarity=0.225  Sum_probs=59.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          547 NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       547 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +...|..+...+...|++++|+..++++++..|+++..+..++.+|...|++++|.+.+++..+
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            3457778888899999999999999999999999999999999999999999999999998875

>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=97.50  E-value=0.0015  Score=53.49  Aligned_cols=112  Identities=9%  Similarity=-0.076  Sum_probs=90.5

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhc----cCChHH
Q 005881          459 GLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFAC----RGQTRR  534 (672)
Q Consensus       459 g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~  534 (672)
                      +++++|++.|++..+.| .|+..    +...|...+.+++|.+.|++..+.    -++..+..|..+|..    .++.++
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHcCCCCCccHHH
Confidence            46789999999999987 45444    667777888889999999988742    466778888888887    889999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHhcCCC
Q 005881          535 AYEFIKSSPIEPNKVVWRCLLSGCKT----HKDLVLGRYAAEKILSTDP  579 (672)
Q Consensus       535 A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~p  579 (672)
                      |.++|++....-++..+..|...|..    .+|.++|...++++.+...
T Consensus        80 A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           80 AAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            99999875333577788888888888    8999999999999988853

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.48  E-value=0.00044  Score=69.05  Aligned_cols=115  Identities=10%  Similarity=0.122  Sum_probs=83.7

Q ss_pred             HHhhccCChHHHHHHHHhC--------C-CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhc-----CCCCCCc---hH
Q 005881          524 HLFACRGQTRRAYEFIKSS--------P-IEPN-KVVWRCLLSGCKTHKDLVLGRYAAEKILS-----TDPEDTS---AH  585 (672)
Q Consensus       524 ~~~~~~g~~~~A~~~~~~~--------~-~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~---~~  585 (672)
                      .-+.+.|++++|.+++++.        + ..|+ ..+++.+...|...|++++|+.+++++++     +.|+++.   .+
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            3345667777777776542        1 1222 23677788889999999999999998875     4566654   57


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhhCCCccCCceeEEEeCCEEEEEEeccccCCChHHHHHHHHHHHHHHH
Q 005881          586 IMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLF  656 (672)
Q Consensus       586 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  656 (672)
                      ..|+.+|...|++++|..++++..+- ..+.-|                 ..||...+++..|.+...+|+
T Consensus       375 ~nLa~~~~~~g~~~eA~~~~~~Al~i-~~~~lG-----------------~~Hp~~~~~~~~l~~~~~e~~  427 (429)
T 3qwp_A          375 MKVGKLQLHQGMFPQAMKNLRLAFDI-MRVTHG-----------------REHSLIEDLILLLEECDANIR  427 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH-HHHHTC-----------------TTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHH-HHHhcC-----------------CCChHHHHHHHHHHHHHHHHh
Confidence            78999999999999999999988652 111112                 469999999999888877775

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.42  E-value=0.00035  Score=55.23  Aligned_cols=79  Identities=18%  Similarity=0.166  Sum_probs=49.8

Q ss_pred             HHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 005881          499 GWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKIL  575 (672)
Q Consensus       499 a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  575 (672)
                      |+..|+...   ...| +...+..++.+|...|++++|.+.+++. ...| +...|..+...+...|++++|...+++++
T Consensus         4 a~~~~~~al---~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            4 ITERLEAML---AQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             HHHHHHHHH---TTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHH---HhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            444454444   2233 3455666666666666666666666542 2233 45567777777888888888888888888


Q ss_pred             cCCCC
Q 005881          576 STDPE  580 (672)
Q Consensus       576 ~~~p~  580 (672)
                      ++.|.
T Consensus        81 ~~~~~   85 (115)
T 2kat_A           81 AAAQS   85 (115)
T ss_dssp             HHHHH
T ss_pred             Hhccc
Confidence            87774

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.37  E-value=1.7e-05  Score=76.59  Aligned_cols=262  Identities=12%  Similarity=0.022  Sum_probs=172.0

Q ss_pred             CcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHH
Q 005881           40 NVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLIN  119 (672)
Q Consensus        40 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  119 (672)
                      .+..|+.|..+....+++.+|++-|-+.      -|+..|..++.++.+.|.+++-...+...++..  .++.+=+.|+-
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIkA------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~  124 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIF  124 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCCC------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHhC------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHH
Confidence            4567999999999999999998766432      467788999999999999999999887666653  35566789999


Q ss_pred             HHHhcCChHHHHHHhhccCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHH
Q 005881          120 MYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQI  199 (672)
Q Consensus       120 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~  199 (672)
                      +|++.+++.+..+++.   .+|+.-...+..-|...|.++.|.-+|..+..-                            
T Consensus       125 ayAk~~rL~elEefl~---~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~----------------------------  173 (624)
T 3lvg_A          125 ALAKTNRLAELEEFIN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNF----------------------------  173 (624)
T ss_dssp             HHHTSCSSSTTTSTTS---CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCC----------------------------
T ss_pred             HHHhhCcHHHHHHHHc---CCCcccHHHHHHHHHHccCHHHHHHHHHhCccH----------------------------
Confidence            9999999877655443   367777777888888888888776666544321                            


Q ss_pred             HHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChh
Q 005881          200 HSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSEV  279 (672)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  279 (672)
                                      ..|...+.+.|++..|.+.-+.  ..++.+|..+-.+|...+.+.-|.-.--.+.-   .|  .
T Consensus       174 ----------------akLAstLV~L~~yq~AVdaArK--Ans~ktWKeV~~ACvd~~EfrLAqicGLniIv---ha--d  230 (624)
T 3lvg_A          174 ----------------GRLASTLVHLGEYQAAVDGARK--ANSTRTWKEVCFACVDGKEFRLAQMCGLHIVV---HA--D  230 (624)
T ss_dssp             ----------------TTTSSSSSSCSGGGSSTTTTTT--CCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHC---CS--S
T ss_pred             ----------------HHHHHHHHHHHHHHHHHHHHHh--cCChhHHHHHHHHHhCchHHHHHHHhcchhcc---cH--H
Confidence                            1122223334444333322111  14677788888888888777655433322221   11  1


Q ss_pred             hHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCC-----------CCcccHH
Q 005881          280 TFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDE-----------HDVVSWN  348 (672)
Q Consensus       280 t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----------~~~~~~~  348 (672)
                      ....++..|...|.+++-..+++..... -.....+++-|.-.|+|- ++++.++-++..-.           .....|.
T Consensus       231 eL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~  308 (624)
T 3lvg_A          231 ELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWA  308 (624)
T ss_dssp             CCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHH
Confidence            2233455577777777777777665521 135677788888888775 44444444443322           2445788


Q ss_pred             HHHHHHHhcCChhHHHH
Q 005881          349 ALIAGHLASCHYGEAIE  365 (672)
Q Consensus       349 ~li~~~~~~~~~~~A~~  365 (672)
                      -++-.|++..+++.|..
T Consensus       309 ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          309 ELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             HHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHhcchhHHHHHH
Confidence            88888888888887653

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.36  E-value=0.00081  Score=51.31  Aligned_cols=53  Identities=21%  Similarity=0.291  Sum_probs=28.3

Q ss_pred             HHhcCCHHHHHHHHHHHhcCCCCCCc-hHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          558 CKTHKDLVLGRYAAEKILSTDPEDTS-AHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       558 ~~~~g~~~~a~~~~~~~~~~~p~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +...|++++|...++++++.+|+++. .+..++.+|...|++++|.+.+++..+
T Consensus        10 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A           10 LINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            44445555555555555555555555 555555555555555555555555443

>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=97.34  E-value=0.00035  Score=69.57  Aligned_cols=82  Identities=12%  Similarity=-0.002  Sum_probs=61.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhc-----CCCCCC---chHHHHHHHHHhcCChHHHHHHHHHHhhCCCccCCceeE
Q 005881          550 VWRCLLSGCKTHKDLVLGRYAAEKILS-----TDPEDT---SAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSW  621 (672)
Q Consensus       550 ~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  621 (672)
                      +++.+..+|...|++++|+.+++++++     +.|+++   ..+..|+.+|..+|++++|..++++..+-.. +.-|   
T Consensus       342 ~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al~i~~-~~lG---  417 (433)
T 3qww_A          342 MMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAIAIME-VAHG---  417 (433)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH-HHTC---
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHH-HHcC---
Confidence            677788888888888888888888875     456655   4577999999999999999999998865211 1111   


Q ss_pred             EEeCCEEEEEEeccccCCChHHHHHHHH
Q 005881          622 TELQNKMHYFSTSRFAQFQGIDLHEVMN  649 (672)
Q Consensus       622 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~  649 (672)
                                    ..||.+.+++..|+
T Consensus       418 --------------~~Hp~~~~l~~~l~  431 (433)
T 3qww_A          418 --------------KDHPYISEIKQEIE  431 (433)
T ss_dssp             --------------TTCHHHHHHHHHHH
T ss_pred             --------------CCChHHHHHHHHHh
Confidence                          46888887766554

>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=97.23  E-value=0.0068  Score=57.77  Aligned_cols=143  Identities=10%  Similarity=0.010  Sum_probs=73.7

Q ss_pred             CCCchhHHHHHHHHH--hcC---ChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc
Q 005881          442 SKNLVSWNTMLVGYA--QHG---LGREALEIYSMMQENKIKPNDN-TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR  515 (672)
Q Consensus       442 ~~~~~~~~~li~~~~--~~g---~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~  515 (672)
                      ..+...|...+.+..  ..+   +..+|..+|++.++  +.|+.. .+..+..++.-          .    ...+ ..+
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~--lDP~~a~A~A~la~a~~~----------~----~~~~-~~~  253 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQ--SSPEFTYARAEKALVDIV----------R----HSQH-PLD  253 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHH----------H----HHHS-CCC
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHH----------H----hccC-CCc
Confidence            446667777666543  333   34789999999998  577753 44444433330          0    0001 001


Q ss_pred             hHHHHHHHHHhhccCChHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHh
Q 005881          516 MDHIASVVHLFACRGQTRRAYEFIKSSPIE-PNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAE  594 (672)
Q Consensus       516 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  594 (672)
                      ......          ..++.+....+... .++.++..+...+...|++++|...++++++++| +...|..++.++.-
T Consensus       254 ~~~~~~----------l~~a~~a~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~-s~~a~~llG~~~~~  322 (372)
T 3ly7_A          254 EKQLAA----------LNTEIDNIVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEM-SWLNYVLLGKVYEM  322 (372)
T ss_dssp             HHHHHH----------HHHHHHHHHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHH
T ss_pred             hhhHHH----------HHHHHHHHHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHH
Confidence            110000          01222222222222 2444555555555555666666666666666665 34555666666666


Q ss_pred             cCChHHHHHHHHHHhhCC
Q 005881          595 ANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       595 ~g~~~~a~~~~~~~~~~~  612 (672)
                      .|++++|.+.+++....+
T Consensus       323 ~G~~~eA~e~~~~AlrL~  340 (372)
T 3ly7_A          323 KGMNREAADAYLTAFNLR  340 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHHHHhcC
Confidence            666666666666655443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.14  E-value=0.0015  Score=49.99  Aligned_cols=63  Identities=11%  Similarity=0.188  Sum_probs=42.4

Q ss_pred             CchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHH
Q 005881          444 NLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIR  508 (672)
Q Consensus       444 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  508 (672)
                      +...|..+...|...|++++|++.|++.++.  .|+ ...|..+..++...|++++|...|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVET--DPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3456666777777777777777777777764  333 34666677777777777777777776653

>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=97.12  E-value=0.0022  Score=61.04  Aligned_cols=111  Identities=8%  Similarity=-0.085  Sum_probs=65.6

Q ss_pred             CCCHHHHHHHHHHhh--cc---CcHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHH
Q 005881          477 KPNDNTFIGVLSACV--HI---GLVEEGWHYFNSMIRDHGISPR-MDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVV  550 (672)
Q Consensus       477 ~p~~~~~~~ll~~~~--~~---g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~  550 (672)
                      +.+...|..++++..  ..   ....+|..+|++.+   .+.|+ ...+..+..+|.       .  ....-+.  +...
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al---~lDP~~a~A~A~la~a~~-------~--~~~~~~~--~~~~  256 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIV---QSSPEFTYARAEKALVDI-------V--RHSQHPL--DEKQ  256 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHH---HHCTTCHHHHHHHHHHHH-------H--HHHHSCC--CHHH
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH---HhCCCCHHHHHHHHHHHH-------H--HhccCCC--chhh
Confidence            445555666665532  22   33577888888877   34665 345554444443       0  0111111  1111


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          551 WRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       551 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                      ...          ...+... ...+..+|.++.+|..++.++...|++++|...++++...+
T Consensus       257 ~~~----------l~~a~~a-~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln  307 (372)
T 3ly7_A          257 LAA----------LNTEIDN-IVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE  307 (372)
T ss_dssp             HHH----------HHHHHHH-HHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHH----------HHHHHHH-HHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            111          1222221 13456789999999999999988999999999999998765

>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=97.06  E-value=0.003  Score=62.89  Aligned_cols=94  Identities=10%  Similarity=0.025  Sum_probs=59.9

Q ss_pred             cCcHHHHHHHHHHhHHhhC--CCCc----hHHHHHHHHHhhccCChHHHHHHHHhC--------C-CCCCHH-HHHHHHH
Q 005881          493 IGLVEEGWHYFNSMIRDHG--ISPR----MDHIASVVHLFACRGQTRRAYEFIKSS--------P-IEPNKV-VWRCLLS  556 (672)
Q Consensus       493 ~g~~~~a~~~~~~~~~~~~--~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~--------~-~~p~~~-~~~~l~~  556 (672)
                      .|++++|..++++..+...  +-|+    ..+++.|+.+|...|++++|..++++.        | ..|+.. +++.|..
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            3566666666665543221  1221    255666677777777777776666542        2 345444 6788888


Q ss_pred             HHHhcCCHHHHHHHHHHHhc-----CCCCCCchHH
Q 005881          557 GCKTHKDLVLGRYAAEKILS-----TDPEDTSAHI  586 (672)
Q Consensus       557 ~~~~~g~~~~a~~~~~~~~~-----~~p~~~~~~~  586 (672)
                      .|..+|++++|+..++++++     ++|+++.+-.
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~  425 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIAIMEVAHGKDHPYISE  425 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHHH
Confidence            89999999999999998875     5677765443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.06  E-value=0.0024  Score=52.08  Aligned_cols=63  Identities=14%  Similarity=0.028  Sum_probs=33.2

Q ss_pred             CHHHHHHHHHHHHhcC---CHHHHHHHHHHHhcCC-C-CCCchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          547 NKVVWRCLLSGCKTHK---DLVLGRYAAEKILSTD-P-EDTSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       547 ~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      +..+...+..++.+.+   +.++|+.+++.+++.+ | ++...++.|+-.|.+.|++++|.+.++.+.
T Consensus        31 ~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL   98 (152)
T 1pc2_A           31 SKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLL   98 (152)
T ss_dssp             CHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            4444444444444444   3445555555555555 4 334555555555555555555555555554

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.96  E-value=0.0022  Score=48.75  Aligned_cols=79  Identities=10%  Similarity=0.121  Sum_probs=54.9

Q ss_pred             HHHHhhccCChHHHHHHHHhC-CCCC-CHH-HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCCh
Q 005881          522 VVHLFACRGQTRRAYEFIKSS-PIEP-NKV-VWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMW  598 (672)
Q Consensus       522 l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  598 (672)
                      .+..+.+.|++++|.+.+++. ...| +.. .|..+...+...|++++|+..++++++++|+++..+..        +.+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------~~~   77 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------KMV   77 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------HHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------HHH
Confidence            345566677777777777652 2344 455 77777888888999999999999999999988876632        445


Q ss_pred             HHHHHHHHHH
Q 005881          599 DETAKVRKIM  608 (672)
Q Consensus       599 ~~a~~~~~~~  608 (672)
                      .++...+++.
T Consensus        78 ~~a~~~~~~~   87 (99)
T 2kc7_A           78 MDILNFYNKD   87 (99)
T ss_dssp             HHHHHHHCCT
T ss_pred             HHHHHHHHHH
Confidence            5555555543

>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=96.91  E-value=0.0057  Score=61.02  Aligned_cols=98  Identities=6%  Similarity=-0.091  Sum_probs=56.2

Q ss_pred             hhccCcHHHHHHHHHHhHHhhC--CCCc----hHHHHHHHHHhhccCChHHHHHHHHhC---------CCCCCHH-HHHH
Q 005881          490 CVHIGLVEEGWHYFNSMIRDHG--ISPR----MDHIASVVHLFACRGQTRRAYEFIKSS---------PIEPNKV-VWRC  553 (672)
Q Consensus       490 ~~~~g~~~~a~~~~~~~~~~~~--~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~p~~~-~~~~  553 (672)
                      +.+.|++++|..++++......  +.|+    ..+++.++.+|...|++++|++++++.         +..|+.. +++.
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            3344555555555554442211  1111    244555555555566666655555431         2334433 5777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhc-----CCCCCCchHHH
Q 005881          554 LLSGCKTHKDLVLGRYAAEKILS-----TDPEDTSAHIM  587 (672)
Q Consensus       554 l~~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~~~~~  587 (672)
                      |...|..+|++++|+..++++++     ++|+++.+-..
T Consensus       377 La~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~  415 (429)
T 3qwp_A          377 VGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIEDL  415 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHHH
Confidence            88888888889989888888865     57777665443

>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=96.86  E-value=0.003  Score=57.48  Aligned_cols=86  Identities=12%  Similarity=0.068  Sum_probs=66.7

Q ss_pred             HHHHHHHHh-CCCCCC---HHHHHHHHHHHHh-----cCCHHHHHHHHHHHhcCCCCC-CchHHHHHHHHHhc-CChHHH
Q 005881          533 RRAYEFIKS-SPIEPN---KVVWRCLLSGCKT-----HKDLVLGRYAAEKILSTDPED-TSAHIMLSNVYAEA-NMWDET  601 (672)
Q Consensus       533 ~~A~~~~~~-~~~~p~---~~~~~~l~~~~~~-----~g~~~~a~~~~~~~~~~~p~~-~~~~~~l~~~~~~~-g~~~~a  601 (672)
                      .+|...+++ +.+.|+   ...|..+...|.+     -|+.++|++.|+++++++|+. ...++.+++.|+.. |+.++|
T Consensus       180 ~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a  259 (301)
T 3u64_A          180 HAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGF  259 (301)
T ss_dssp             HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHH
Confidence            344444443 234565   4567777777777     499999999999999999975 99999999999884 999999


Q ss_pred             HHHHHHHhhCCCccCCc
Q 005881          602 AKVRKIMKEKSLKKDTG  618 (672)
Q Consensus       602 ~~~~~~~~~~~~~~~~~  618 (672)
                      .+.+++.....++..|+
T Consensus       260 ~~~L~kAL~a~p~~~P~  276 (301)
T 3u64_A          260 DEALDRALAIDPESVPH  276 (301)
T ss_dssp             HHHHHHHHHCCGGGCSS
T ss_pred             HHHHHHHHcCCCCCCCC
Confidence            99999998866654444

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.82  E-value=0.12  Score=40.36  Aligned_cols=141  Identities=8%  Similarity=-0.052  Sum_probs=93.4

Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHH
Q 005881          456 AQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRA  535 (672)
Q Consensus       456 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  535 (672)
                      .-.|..++..++..+....   .+..-++.++--...+-+=+-..+.++.+-+-+.              +..+|++...
T Consensus        18 ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFD--------------is~C~NlKrV   80 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFD--------------LDKCQNLKSV   80 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSC--------------GGGCSCTHHH
T ss_pred             HHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhhcC--------------cHhhhcHHHH
Confidence            3456666777777666652   2333344444333333333444444444322111              2346677777


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCCcc
Q 005881          536 YEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKK  615 (672)
Q Consensus       536 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  615 (672)
                      ...+-.++.  +.......+.....+|+.++-..++..++..+|-+++....++.+|.+.|+..+|.+++.+.-++|++.
T Consensus        81 i~C~~~~n~--~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~kE  158 (172)
T 1wy6_A           81 VECGVINNT--LNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEKE  158 (172)
T ss_dssp             HHHHHHTTC--CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHhcc--hHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhHH
Confidence            766666542  334455667888899999999999999877776689999999999999999999999999999988853

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.54  E-value=0.013  Score=44.97  Aligned_cols=74  Identities=15%  Similarity=0.097  Sum_probs=52.0

Q ss_pred             hHHHHHHHHHhhccCChHHHHHHHHhC---------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHH
Q 005881          516 MDHIASVVHLFACRGQTRRAYEFIKSS---------PIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHI  586 (672)
Q Consensus       516 ~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  586 (672)
                      ...+..|+..+.+.|+++.|..+++..         +-.+....+..+..++.+.|+++.|...+++++++.|+++.+..
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~   84 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANG   84 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHh
Confidence            334445555555566666665555431         01235667888889999999999999999999999999877766


Q ss_pred             HHH
Q 005881          587 MLS  589 (672)
Q Consensus       587 ~l~  589 (672)
                      .+.
T Consensus        85 n~~   87 (104)
T 2v5f_A           85 NLK   87 (104)
T ss_dssp             HHH
T ss_pred             hHH
Confidence            554

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.39  E-value=0.023  Score=42.35  Aligned_cols=67  Identities=9%  Similarity=0.037  Sum_probs=51.7

Q ss_pred             CchHHHHHHHHHhhccCC---hHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 005881          514 PRMDHIASVVHLFACRGQ---TRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPE  580 (672)
Q Consensus       514 p~~~~~~~l~~~~~~~g~---~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  580 (672)
                      .+++.+..+..++...++   .++|..++++ +...| ++..+..+...+.+.|++++|+..++++++.+|.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            466777777777755444   6888888875 34556 5557777777889999999999999999999997

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.38  E-value=0.041  Score=44.83  Aligned_cols=39  Identities=18%  Similarity=0.129  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHH
Q 005881          548 KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHI  586 (672)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  586 (672)
                      ...+-.+.-++.+.|++++|++.++++++.+|+|..+..
T Consensus        71 rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~ieP~n~QA~~  109 (152)
T 1pc2_A           71 RDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQAKE  109 (152)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHH
Confidence            345566777889999999999999999999997755433

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.22  E-value=0.15  Score=42.70  Aligned_cols=129  Identities=16%  Similarity=0.126  Sum_probs=75.0

Q ss_pred             HHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHH
Q 005881          422 DMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWH  501 (672)
Q Consensus       422 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~  501 (672)
                      +....+|+++.|.++.+.+  .+...|..|.......|+++-|.+.|.+..+         |..+.-.|...|+.+.-..
T Consensus        13 ~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~k   81 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSK   81 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHH
Confidence            3345678888888877665  4566788888888888888888887777544         3344444555666655554


Q ss_pred             HHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005881          502 YFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKI  574 (672)
Q Consensus       502 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  574 (672)
                      +-+... ..|      -++.-...+.-.|+++++.+++.+.+.-|.      .......+|..+.|.++.+.+
T Consensus        82 la~iA~-~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~e------A~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           82 MQNIAQ-TRE------DFGSMLLNTFYNNSTKERSSIFAEGGSLPL------AYAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHH-HTT------CHHHHHHHHHHHTCHHHHHHHHHHTTCHHH------HHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHH-HCc------cHHHHHHHHHHcCCHHHHHHHHHHCCChHH------HHHHHHHcCcHHHHHHHHHHh
Confidence            433222 111      133344455567777777777766552221      112233455666666665544

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.16  E-value=0.093  Score=57.74  Aligned_cols=102  Identities=15%  Similarity=0.135  Sum_probs=59.2

Q ss_pred             HHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHH
Q 005881          423 MYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHY  502 (672)
Q Consensus       423 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~  502 (672)
                      .....|++++|.++.+.+.  +...|..+...+.+.|+++.|.+.|.++..         |..+...+...|+.+...++
T Consensus       661 ~~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~  729 (814)
T 3mkq_A          661 LALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTL  729 (814)
T ss_dssp             HHHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHH
T ss_pred             hhhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHH
Confidence            3456788888888877653  456888888888888888888888887644         23333344445555544443


Q ss_pred             HHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC
Q 005881          503 FNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS  542 (672)
Q Consensus       503 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  542 (672)
                      -+.... .+      .++.-..+|.+.|++++|.+++.++
T Consensus       730 ~~~a~~-~~------~~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          730 AKDAET-TG------KFNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHHHH-TT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHH-cC------chHHHHHHHHHcCCHHHHHHHHHHc
Confidence            332221 11      1222233444555555555555444

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=95.98  E-value=0.053  Score=59.76  Aligned_cols=153  Identities=12%  Similarity=0.012  Sum_probs=89.5

Q ss_pred             HHhcCCHHHHHH-HHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHH
Q 005881          424 YAKCGRLNDARK-VFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHY  502 (672)
Q Consensus       424 ~~~~g~~~~A~~-~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~  502 (672)
                      ....+++++|.+ ++..+..  ......++..+.+.|.+++|+++.+.       |+ .-    .......|++++|.++
T Consensus       609 ~~~~~~~~~a~~~~l~~i~~--~~~~~~~~~~l~~~~~~~~a~~~~~~-------~~-~~----f~~~l~~~~~~~A~~~  674 (814)
T 3mkq_A          609 LTLRGEIEEAIENVLPNVEG--KDSLTKIARFLEGQEYYEEALNISPD-------QD-QK----FELALKVGQLTLARDL  674 (814)
T ss_dssp             HHHTTCHHHHHHHTGGGCCC--HHHHHHHHHHHHHTTCHHHHHHHCCC-------HH-HH----HHHHHHHTCHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHhcCCc--hHHHHHHHHHHHhCCChHHheecCCC-------cc-hh----eehhhhcCCHHHHHHH
Confidence            345678888877 6544331  12226667777788888888776531       11 11    2234556888888887


Q ss_pred             HHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 005881          503 FNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDT  582 (672)
Q Consensus       503 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  582 (672)
                      .+.+       .+...|..++..+.+.|+++.|.+.|.+++   |   |..+...+...|+.+....+.+.+...+.   
T Consensus       675 ~~~~-------~~~~~W~~la~~al~~~~~~~A~~~y~~~~---d---~~~l~~l~~~~~~~~~~~~~~~~a~~~~~---  738 (814)
T 3mkq_A          675 LTDE-------SAEMKWRALGDASLQRFNFKLAIEAFTNAH---D---LESLFLLHSSFNNKEGLVTLAKDAETTGK---  738 (814)
T ss_dssp             HTTC-------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHT---C---HHHHHHHHHHTTCHHHHHHHHHHHHHTTC---
T ss_pred             HHhh-------CcHhHHHHHHHHHHHcCCHHHHHHHHHHcc---C---hhhhHHHHHHcCCHHHHHHHHHHHHHcCc---
Confidence            5432       356788888888888888888888888765   1   22333444445555555554444433221   


Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHH
Q 005881          583 SAHIMLSNVYAEANMWDETAKVRKIM  608 (672)
Q Consensus       583 ~~~~~l~~~~~~~g~~~~a~~~~~~~  608 (672)
                        +.....+|.+.|++++|.+++..+
T Consensus       739 --~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          739 --FNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             --HHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             --hHHHHHHHHHcCCHHHHHHHHHHc
Confidence              223333455555555555555544

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.85  E-value=0.059  Score=42.14  Aligned_cols=71  Identities=10%  Similarity=0.003  Sum_probs=37.7

Q ss_pred             CchHHHHHHHHHhhccCChHH---HHHHHHhCC-CC-C--CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCch
Q 005881          514 PRMDHIASVVHLFACRGQTRR---AYEFIKSSP-IE-P--NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSA  584 (672)
Q Consensus       514 p~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~-~~-p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  584 (672)
                      |+..+-..+..++.+..+..+   ++.+++.+- .. |  .....-.+.-++.+.|+++.|++.++.+++.+|+|..+
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~eP~n~QA  110 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQA  110 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHH
Confidence            555665566666666665544   555555431 11 2  12233344445666666666666666666666655443

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=95.61  E-value=2.6  Score=43.82  Aligned_cols=240  Identities=10%  Similarity=0.033  Sum_probs=115.3

Q ss_pred             HHHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcC
Q 005881          314 FVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIP  393 (672)
Q Consensus       314 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~  393 (672)
                      ..-+..+..+.+.+++.....++.. ...+...-.....+....|+..+|......+-..|. ........++..+.+.|
T Consensus        73 ~Lr~~~l~~l~~~~~w~~~l~~~~~-~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~~-~~p~~c~~l~~~~~~~g  150 (618)
T 1qsa_A           73 TLQSRFVNELARREDWRGLLAFSPE-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGK-SQPNACDKLFSVWRASG  150 (618)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHCCS-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSS-CCCTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCCCHHHHHHhccC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCCC-CCcHHHHHHHHHHHHCC
Confidence            3445556667777888877776665 333444445566677778887777777777665542 22333444444444333


Q ss_pred             chHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC---------------------------CCCch
Q 005881          394 AIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS---------------------------SKNLV  446 (672)
Q Consensus       394 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------------------------~~~~~  446 (672)
                      .+...                .++..+ ......|+...|..+...+.                           .++..
T Consensus       151 ~lt~~----------------~~~~R~-~~al~~~~~~~a~~l~~~l~~~~~~~a~~~~al~~~p~~~~~~~~~~~~~~~  213 (618)
T 1qsa_A          151 KQDPL----------------AYLERI-RLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNPNTVLTFARTTGATDF  213 (618)
T ss_dssp             CSCHH----------------HHHHHH-HHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGGGHHHHHHHSCCCHH
T ss_pred             CCCHH----------------HHHHHH-HHHHHCCCHHHHHHHHHhCCHHHHHHHHHHHHHHhChHhHHHHHhccCCChh
Confidence            22211                111111 11122233333333322221                           11111


Q ss_pred             h---HHHHHHHHHhcCChHHHHHHHHHHHHCC-CCCCHH--HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHH
Q 005881          447 S---WNTMLVGYAQHGLGREALEIYSMMQENK-IKPNDN--TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIA  520 (672)
Q Consensus       447 ~---~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~  520 (672)
                      .   +..-+.-+.+ .+.+.|..+|......+ +.+...  ....+.......+...++...+.....   ..++.....
T Consensus       214 ~~~~~~~~~~rlar-~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~e  289 (618)
T 1qsa_A          214 TRQMAAVAFASVAR-QDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIM---RSQSTSLIE  289 (618)
T ss_dssp             HHHHHHHHHHHHHH-HCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHH---TCCCHHHHH
T ss_pred             hHHHHHHHHHHHHh-cCHHHHHHHHHhhhhccCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccc---cCCChHHHH
Confidence            1   1111222222 36677777777765432 222221  222333344444534444444444321   123333333


Q ss_pred             HHHHHhhccCChHHHHHHHHhCCCCC-CHHHH-HHHHHHHHhcCCHHHHHHHHHHHhc
Q 005881          521 SVVHLFACRGQTRRAYEFIKSSPIEP-NKVVW-RCLLSGCKTHKDLVLGRYAAEKILS  576 (672)
Q Consensus       521 ~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~~  576 (672)
                      -.+....+.|+++.|...|+.++..+ +...| -=+..+....|+.++|..+|+++.+
T Consensus       290 ~~~r~Alr~~d~~~a~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          290 RRVRMALGTGDRRGLNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            34444456677877777777775433 21221 2233455667777777777777764

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=95.29  E-value=0.59  Score=37.21  Aligned_cols=91  Identities=8%  Similarity=-0.037  Sum_probs=53.5

Q ss_pred             CCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHhcCCCC-CCchHHHHHHHHHhcCChHHHHHHHHHHhhCCCccCCcee
Q 005881          545 EPNKVVWRCLLSGCKTHK---DLVLGRYAAEKILSTDPE-DTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCS  620 (672)
Q Consensus       545 ~p~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  620 (672)
                      .|+..+-..+..++.+..   +..+++.+++.++...|. .......|+-.+.+.|++++|.+..+.+.+          
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~----------  105 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE----------  105 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH----------
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh----------
Confidence            345555555555554443   344566666766666663 334555666667777777777777776654          


Q ss_pred             EEEeCCEEEEEEeccccCCChHHHHHHHHHHHHHHHhCCcc
Q 005881          621 WTELQNKMHYFSTSRFAQFQGIDLHEVMNQLSVHLFDGGYV  661 (672)
Q Consensus       621 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~g~~  661 (672)
                                      ..|...++.+.-.-+..++.+.|.+
T Consensus       106 ----------------~eP~n~QA~~Lk~~Ie~~i~kdGli  130 (144)
T 1y8m_A          106 ----------------HERNNKQVGALKSMVEDKIQKETLK  130 (144)
T ss_dssp             ----------------TCCCCHHHHHHHHHHHHHHHHTTTT
T ss_pred             ----------------cCCCcHHHHHHHHHHHHHHHHhchh
Confidence                            2444455554445555666666665

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.02  E-value=0.11  Score=54.88  Aligned_cols=55  Identities=7%  Similarity=-0.043  Sum_probs=51.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          555 LSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       555 ~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      ...|...|+++.|+.+.++++..-|.+..+|..|+.+|...|+|+.|+-.++.++
T Consensus       344 a~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          344 TNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            4557889999999999999999999999999999999999999999999999885

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=94.97  E-value=0.078  Score=40.49  Aligned_cols=64  Identities=17%  Similarity=-0.033  Sum_probs=53.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC-------CCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          547 NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTD-------PEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       547 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +..-...+...+...|++..|...++++++..       +..+..+..|+.+|.+.|++++|...+++..+
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            33445567788999999999999999998753       33456788999999999999999999998875

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=94.56  E-value=0.57  Score=42.80  Aligned_cols=110  Identities=11%  Similarity=0.066  Sum_probs=63.2

Q ss_pred             cCCHHHHHHHHhhCCCCCc--hhHHHHHHH-HHhc--CC------hHHHHHHHHHHHHCCCCCC---HHHHHHHHHHhhc
Q 005881          427 CGRLNDARKVFDHLSSKNL--VSWNTMLVG-YAQH--GL------GREALEIYSMMQENKIKPN---DNTFIGVLSACVH  492 (672)
Q Consensus       427 ~g~~~~A~~~~~~~~~~~~--~~~~~li~~-~~~~--g~------~~~A~~~~~~m~~~g~~p~---~~~~~~ll~~~~~  492 (672)
                      .++..+-.+.+.++.+.++  ..|..++.+ +...  |+      ...|...+++.++  +.|+   ...|..+...|..
T Consensus       134 ~~~~~~~~~~l~~~~~~dve~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~  211 (301)
T 3u64_A          134 SGDEQRLHKVLSRCTRVDVGTLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACD--LWPSYQEGAVWNVLTKFYAA  211 (301)
T ss_dssp             SSCHHHHHHHHTTCCGGGHHHHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHH
T ss_pred             hcchhhHHHHHHHcCccccHHHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHh
Confidence            3444555555666554333  356655543 3332  32      3566666777777  5666   3456666666666


Q ss_pred             c-----CcHHHHHHHHHHhHHhhCCCC--chHHHHHHHHHhhcc-CChHHHHHHHHh
Q 005881          493 I-----GLVEEGWHYFNSMIRDHGISP--RMDHIASVVHLFACR-GQTRRAYEFIKS  541 (672)
Q Consensus       493 ~-----g~~~~a~~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~-g~~~~A~~~~~~  541 (672)
                      .     |+.++|.++|++..   .+.|  +..++..+.+.|++. |+.++|.+.+++
T Consensus       212 vPp~~gGd~ekA~~~ferAL---~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~k  265 (301)
T 3u64_A          212 APESFGGGMEKAHTAFEHLT---RYCSAHDPDHHITYADALCIPLNNRAGFDEALDR  265 (301)
T ss_dssp             SCTTTTCCHHHHHHHHHHHH---HHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHH
T ss_pred             CCCccCCCHHHHHHHHHHHH---HhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            3     77777777777776   3344  255555566666553 566666665554

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.54  E-value=0.54  Score=36.75  Aligned_cols=85  Identities=9%  Similarity=0.025  Sum_probs=49.4

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHH---HHHHHHHhHHhhCCCC--chHHHHHHHHHhhccCChH
Q 005881          459 GLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEE---GWHYFNSMIRDHGISP--RMDHIASVVHLFACRGQTR  533 (672)
Q Consensus       459 g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~---a~~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~  533 (672)
                      .....+.+-|.+....| .|+..+-..+..++.+..+..+   ++.+++.+.+.  -.|  ..+..-.|.-++.+.|+++
T Consensus        15 ~~l~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~--~~p~~~Rd~lY~LAvg~yklg~Y~   91 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPK--GSKEEQRDYVFYLAVGNYRLKEYE   91 (126)
T ss_dssp             HHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTT--SCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHhhhHH
Confidence            33445555555555544 3566665566667776665554   67777666532  123  2344555666777777777


Q ss_pred             HHHHHHHhC-CCCC
Q 005881          534 RAYEFIKSS-PIEP  546 (672)
Q Consensus       534 ~A~~~~~~~-~~~p  546 (672)
                      +|.++++.+ ..+|
T Consensus        92 ~A~~~~~~lL~~eP  105 (126)
T 1nzn_A           92 KALKYVRGLLQTEP  105 (126)
T ss_dssp             HHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHhCC
Confidence            777777653 3445

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=93.39  E-value=0.19  Score=40.27  Aligned_cols=100  Identities=8%  Similarity=0.097  Sum_probs=50.5

Q ss_pred             CHHHHHHHHHHhhccCcH------HHHHHHHHHhHHhhCCCCch-HHHHHHHHH------hhccCChHHHHHHHHhC-C-
Q 005881          479 NDNTFIGVLSACVHIGLV------EEGWHYFNSMIRDHGISPRM-DHIASVVHL------FACRGQTRRAYEFIKSS-P-  543 (672)
Q Consensus       479 ~~~~~~~ll~~~~~~g~~------~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~------~~~~g~~~~A~~~~~~~-~-  543 (672)
                      |..+|...+...-+.|++      ++.+++|++...  .++|+. ..|...+..      +...++.++|.++|+.+ . 
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia--~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE--ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH--HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH--cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            345666666666666777      777777776664  345542 111111111      12235555555555432 0 


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 005881          544 IEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPE  580 (672)
Q Consensus       544 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  580 (672)
                      -+-=...|-.....-.++|++..|.+++.+++.+.|.
T Consensus        90 hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           90 CKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             CTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             hHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            0111444544444455556666666666666665553

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=93.30  E-value=11  Score=40.97  Aligned_cols=257  Identities=13%  Similarity=0.013  Sum_probs=129.2

Q ss_pred             HHhhcCCChhHHHHHHhcCCCC----Ccc--hHHHHHHHHHhcCChhHHHHHHHHHHHCCC--CCC---h-hhH-HHHHH
Q 005881          220 NLYAKCEKLDLASRVFSNIQLP----DLT--AWSALIGGYAQLGKACEAIDLFVKMFSSGL--MPS---E-VTF-SYVLG  286 (672)
Q Consensus       220 ~~~~~~g~~~~a~~~~~~~~~~----~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~---~-~t~-~~ll~  286 (672)
                      -+....|+.+++..+++.....    +..  .-..+.-+....|..+++..++.......-  .-+   . ... ..+--
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            4456678888888888776531    111  112233455666766677777766554311  000   1 111 11111


Q ss_pred             HhhccCC-chhHHHHHHHHHHhCCCCch--HHHHHHHHHHHccCChHHHHHHHhhCCC-CCccc--HHHHHHHHHhcCCh
Q 005881          287 AFADVKE-TIGGRQLHSLIIKMGFSSFT--FVANTVLDFYSKCELLEESLKTFDEMDE-HDVVS--WNALIAGHLASCHY  360 (672)
Q Consensus       287 ~~~~~~~-~~~a~~~~~~~~~~~~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~~--~~~li~~~~~~~~~  360 (672)
                      +.+..|. -+++...+..++...- +..  ...-+|...+.-.|+.+....++..+.+ .+...  .-.+.-++...|+.
T Consensus       462 Gla~~GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~  540 (963)
T 4ady_A          462 GLAAMGSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQ  540 (963)
T ss_dssp             HHHSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCG
T ss_pred             HHHhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCCh
Confidence            2222332 2344444444443221 111  1112233344556666666666655432 12222  22233355577888


Q ss_pred             hHHHHHHHHHHhCCCCCChHHHHH---HHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHH
Q 005881          361 GEAIELLKDMLFEGHCPNLYTYSN---ILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVF  437 (672)
Q Consensus       361 ~~A~~~~~~m~~~g~~p~~~t~~~---ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  437 (672)
                      +.+..+++.+...  .....-|..   +.-+|+..|+.....+++..+.... ..++.-...+.-++...|+.+.+.+++
T Consensus       541 e~~~~li~~L~~~--~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv  617 (963)
T 4ady_A          541 ELADDLITKMLAS--DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIV  617 (963)
T ss_dssp             GGGHHHHHHHHHC--SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHT
T ss_pred             HHHHHHHHHHHhC--CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHH
Confidence            8888888877653  222223332   2346778888888777888777542 122222223333444567777777777


Q ss_pred             hhCC-CCCchhH--HHHHHHHHhcCCh-HHHHHHHHHHHHCCCCCCHHHH
Q 005881          438 DHLS-SKNLVSW--NTMLVGYAQHGLG-REALEIYSMMQENKIKPNDNTF  483 (672)
Q Consensus       438 ~~~~-~~~~~~~--~~li~~~~~~g~~-~~A~~~~~~m~~~g~~p~~~~~  483 (672)
                      +.+. ..|+..-  -.+.-+....|.. .+|++++..+..   .+|...-
T Consensus       618 ~~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~---D~d~~Vr  664 (963)
T 4ady_A          618 QLLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK---DPVDFVR  664 (963)
T ss_dssp             TTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT---CSSHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc---CCCHHHH
Confidence            7554 3344332  2233344444444 578888888865   4555443

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=93.13  E-value=1.1  Score=35.96  Aligned_cols=97  Identities=13%  Similarity=0.239  Sum_probs=71.5

Q ss_pred             CCCchhHHHHHHHHHhcCCh------HHHHHHHHHHHHCCCCCCHH----HHHHHHH---HhhccCcHHHHHHHHHHhHH
Q 005881          442 SKNLVSWNTMLVGYAQHGLG------REALEIYSMMQENKIKPNDN----TFIGVLS---ACVHIGLVEEGWHYFNSMIR  508 (672)
Q Consensus       442 ~~~~~~~~~li~~~~~~g~~------~~A~~~~~~m~~~g~~p~~~----~~~~ll~---~~~~~g~~~~a~~~~~~~~~  508 (672)
                      ..|..+|-..+...-+.|++      ++..++|++.... ++|+..    .|..+.-   .+...+++++|.++|+.+..
T Consensus        10 p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~   88 (161)
T 4h7y_A           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARA   88 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            56777888888888888999      8889999998885 677642    1211111   12334899999999999975


Q ss_pred             hhCCCCchHHHHHHHHHhhccCChHHHHHHHHh
Q 005881          509 DHGISPRMDHIASVVHLFACRGQTRRAYEFIKS  541 (672)
Q Consensus       509 ~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  541 (672)
                      . +-.- ...|......-.|+|++..|.+++.+
T Consensus        89 ~-hKkF-AKiwi~~AqFEiRqgnl~kARkILg~  119 (161)
T 4h7y_A           89 N-CKKF-AFVHISFAQFELSQGNVKKSKQLLQK  119 (161)
T ss_dssp             H-CTTB-HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             H-hHHH-HHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            4 2222 67777778888899999999999965

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=92.71  E-value=0.69  Score=36.30  Aligned_cols=44  Identities=9%  Similarity=0.022  Sum_probs=19.5

Q ss_pred             HHHHHHHHHhcCCCC-CCchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          566 LGRYAAEKILSTDPE-DTSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       566 ~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      .++.+++.+++.+|. ....+..|+-.+.+.|++++|.+..+.+.
T Consensus        61 ~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL  105 (134)
T 3o48_A           61 LGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLF  105 (134)
T ss_dssp             HHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            344444444444442 23333444444444455555544444443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=92.41  E-value=4.3  Score=33.94  Aligned_cols=128  Identities=13%  Similarity=0.116  Sum_probs=83.9

Q ss_pred             HcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHH
Q 005881          389 SSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIY  468 (672)
Q Consensus       389 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  468 (672)
                      ....|+++.|.++.+.+      .+...|..|.+...+.|+++-|++.|.....     +..+.-.|.-.|+.++-.++-
T Consensus        15 AL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D-----~~~L~~Ly~~tg~~e~L~kla   83 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS-----FDKLSFLYLVTGDVNKLSKMQ   83 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC-----HHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC-----HHHHHHHHHHhCCHHHHHHHH
Confidence            33566777776665554      2566788999999999999999999988764     445555666778887777666


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCC
Q 005881          469 SMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSP  543 (672)
Q Consensus       469 ~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  543 (672)
                      +.....|-      ++.....+...|+++++.++|.+.    +.-|...      ......|..+.|.++.++++
T Consensus        84 ~iA~~~g~------~n~af~~~l~lGdv~~~i~lL~~~----~r~~eA~------~~A~t~g~~~~a~~~~~~~~  142 (177)
T 3mkq_B           84 NIAQTRED------FGSMLLNTFYNNSTKERSSIFAEG----GSLPLAY------AVAKANGDEAAASAFLEQAE  142 (177)
T ss_dssp             HHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHT----TCHHHHH------HHHHHTTCHHHHHHHHHHTT
T ss_pred             HHHHHCcc------HHHHHHHHHHcCCHHHHHHHHHHC----CChHHHH------HHHHHcCcHHHHHHHHHHhC
Confidence            66665541      344444566679999999988644    2222211      11122556677777777664

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=91.46  E-value=9.2  Score=35.81  Aligned_cols=133  Identities=8%  Similarity=-0.026  Sum_probs=79.5

Q ss_pred             hhhHHHHHHhcCCChhHHHHHhccCCCCCcchHHHHHHHHHcCCCchhHHHHH----HHhHhCCCCCCcccHHHHHHHHh
Q 005881           12 TYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYF----RLMVCCVLEPNYYTYVGAVSACA   87 (672)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~----~~m~~~~~~p~~~~~~~ll~~~~   87 (672)
                      +|-++..-|.+++++++|++++..           -...+.+.|....|-++-    +-+.+.++++|......++..+.
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~  105 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLR  105 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            455666667777777777776422           233455566666555444    44456678888877777777776


Q ss_pred             cCCCh-----hhHHHHHHHHHHhC--CCCChhHHHHHHHHHHhcCChHHHHHHhhccCCCCcccHHHHHHHHHhc
Q 005881           88 SRGDA-----RSGKEIHGRMYRSG--LELNSHVSNCLINMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQC  155 (672)
Q Consensus        88 ~~~~~-----~~a~~~~~~~~~~g--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~  155 (672)
                      ....-     .-..+...+-.+.|  ...|+.....+-..|.+.+++.+|+..|--...+++..+..++..+...
T Consensus       106 ~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~  180 (336)
T 3lpz_A          106 LFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQ  180 (336)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHT
T ss_pred             hCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHh
Confidence            55431     12223333444444  3457888888888888888888888887432222234554444444433

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=89.80  E-value=13  Score=34.64  Aligned_cols=168  Identities=9%  Similarity=0.047  Sum_probs=99.7

Q ss_pred             HHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHH----HHHHHhCCCCCChHHHHHHHHHHcC
Q 005881          316 ANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIEL----LKDMLFEGHCPNLYTYSNILNISSD  391 (672)
Q Consensus       316 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~----~~~m~~~g~~p~~~t~~~ll~~~~~  391 (672)
                      |.++..-|.+.+++++|.+++..           -...+.+.|+...|-++    ++-..+.+++++..+...++..+..
T Consensus        36 ~Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~~  104 (312)
T 2wpv_A           36 LRTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAE  104 (312)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            34666677888888888887643           23345666776665554    4555566888888888888877665


Q ss_pred             cCchH-HHHHHHHHHH----hcCC--CCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhc---CCh
Q 005881          392 IPAIE-WGKQTHCCIV----KPGF--DSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQH---GLG  461 (672)
Q Consensus       392 ~~~~~-~a~~~~~~~~----~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~---g~~  461 (672)
                      ...-+ .-..+...++    +.|-  .-++.....+...|.+.|++.+|+..|-.-...+...+..++.-+...   |..
T Consensus       105 ~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~~~  184 (312)
T 2wpv_A          105 LDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDIED  184 (312)
T ss_dssp             CCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCCCH
T ss_pred             CCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCCCc
Confidence            33211 2233333433    3322  236778888999999999999999877633222344444444433333   332


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHh
Q 005881          462 REALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRD  509 (672)
Q Consensus       462 ~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  509 (672)
                      .++--              ..-. .+--|...|++..|..+|+...+.
T Consensus       185 ~e~dl--------------f~~R-aVL~yL~l~n~~~A~~~~~~f~~~  217 (312)
T 2wpv_A          185 STVAE--------------FFSR-LVFNYLFISNISFAHESKDIFLER  217 (312)
T ss_dssp             HHHHH--------------HHHH-HHHHHHHTTBHHHHHHHHHHHHHH
T ss_pred             chHHH--------------HHHH-HHHHHHHhcCHHHHHHHHHHHHHH
Confidence            22111              1111 222345568899998888877643

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=89.50  E-value=1.7  Score=35.68  Aligned_cols=31  Identities=10%  Similarity=0.201  Sum_probs=20.5

Q ss_pred             chHHHHHHHHHhhccCChHHHHHHHHhCCCC
Q 005881          515 RMDHIASVVHLFACRGQTRRAYEFIKSSPIE  545 (672)
Q Consensus       515 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  545 (672)
                      +.+.--.+..+|...|++++|+..++.+|.+
T Consensus       121 e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k  151 (167)
T 3ffl_A          121 EIEVKYKLAECYTVLKQDKDAIAILDGIPSR  151 (167)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHTSCGG
T ss_pred             hHHHHHHHHHHHHHHCCHHHHHHHHhcCCch
Confidence            4455555667777777777777777776544

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=88.35  E-value=16  Score=33.94  Aligned_cols=129  Identities=10%  Similarity=0.111  Sum_probs=77.9

Q ss_pred             HHHHHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHH----HHHHHHCCCCCChhhHHHHHHHhhccC
Q 005881          217 GLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDL----FVKMFSSGLMPSEVTFSYVLGAFADVK  292 (672)
Q Consensus       217 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~----~~~m~~~~~~p~~~t~~~ll~~~~~~~  292 (672)
                      ++..=|.+.+++++|.+++..           -...+.+.|+...|.++    ++...+.+++++..+...++..+....
T Consensus        38 tl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~~~p  106 (312)
T 2wpv_A           38 TIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAELD  106 (312)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCC
Confidence            344446677777777776422           23345666776665554    555566788888888888887766533


Q ss_pred             C-chhHHHHHHHHHH----hC--CCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHh
Q 005881          293 E-TIGGRQLHSLIIK----MG--FSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLA  356 (672)
Q Consensus       293 ~-~~~a~~~~~~~~~----~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~  356 (672)
                      . ...-.++...+++    .|  -.-++.....+...|.+.+++.+|..-|-.-...|...+..++.-+..
T Consensus       107 ~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~  177 (312)
T 2wpv_A          107 PSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLC  177 (312)
T ss_dssp             TTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHH
T ss_pred             CCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHH
Confidence            2 1123344444443    32  224677788888899999999998887753322234445444444433

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=88.28  E-value=1.2  Score=43.57  Aligned_cols=67  Identities=7%  Similarity=-0.041  Sum_probs=54.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh-----CCCccCC
Q 005881          551 WRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE-----KSLKKDT  617 (672)
Q Consensus       551 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~  617 (672)
                      ...++..+...|+.+++...++.++..+|-+...+..++.+|.+.|+..+|.+.|+...+     .|+.+.+
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~  245 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGP  245 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCH
Confidence            344566778889999999999999999999888999999999999999999999887653     3555544

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=88.08  E-value=8.3  Score=30.35  Aligned_cols=64  Identities=13%  Similarity=-0.064  Sum_probs=36.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCC
Q 005881          145 WVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALE  209 (672)
Q Consensus       145 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  209 (672)
                      .+..+..+...|+-++-.+++..+.. ..+|++.....+-.+|.+.|+..++.+++.+.-+.|++
T Consensus        94 vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           94 VNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            44455556666666666666655432 24555666666666666666666666666666555543

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=87.39  E-value=0.71  Score=41.42  Aligned_cols=50  Identities=8%  Similarity=0.039  Sum_probs=25.1

Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          560 THKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       560 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      +.|++++++...+..++.+|.|+..-..|..+++-.|+|+.|.+-++...
T Consensus         9 ~~g~L~~al~~~~~~VR~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a   58 (273)
T 1zbp_A            9 SEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSI   58 (273)
T ss_dssp             TTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hCCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            44455555555555555555555555555555555555555554444443

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=87.09  E-value=4.3  Score=36.43  Aligned_cols=52  Identities=13%  Similarity=0.014  Sum_probs=26.8

Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhH
Q 005881          455 YAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMI  507 (672)
Q Consensus       455 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  507 (672)
                      ..+.|+.++|++....-++.. +-|...-..++..+|-.|++++|..-++...
T Consensus         7 ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a   58 (273)
T 1zbp_A            7 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSI   58 (273)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            344555555555555555542 3333344445555555666666655555444

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=87.03  E-value=38  Score=36.87  Aligned_cols=259  Identities=11%  Similarity=0.043  Sum_probs=121.4

Q ss_pred             HhhccCCchhHHHHHHHHHHhC--CCCchHHHHHHHHHHHccCChHHHHHHHhhCCC-CC--------c-c-cHHHHHHH
Q 005881          287 AFADVKETIGGRQLHSLIIKMG--FSSFTFVANTVLDFYSKCELLEESLKTFDEMDE-HD--------V-V-SWNALIAG  353 (672)
Q Consensus       287 ~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~--------~-~-~~~~li~~  353 (672)
                      +....|+.+++..++......+  -.+....-..+.-+...+|..+++..++..... ++        . + .-.++.-+
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            4456677777766665544321  111222333333445555655556665544332 22        1 1 11222223


Q ss_pred             HHhcCC-hhHHHHHHHHHHhCCCCCChHHHH--HHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHH--HHhcC
Q 005881          354 HLASCH-YGEAIELLKDMLFEGHCPNLYTYS--NILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDM--YAKCG  428 (672)
Q Consensus       354 ~~~~~~-~~~A~~~~~~m~~~g~~p~~~t~~--~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g  428 (672)
                      ++-.|. -+++.+.+..+....- +......  ++-..+...|+.+....++..+.+..   +..+...+..+  +...|
T Consensus       463 la~~GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g  538 (963)
T 4ady_A          463 LAAMGSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYG  538 (963)
T ss_dssp             HHSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTT
T ss_pred             HHhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCC
Confidence            333332 2456666666654321 1111111  12223456667677777776665432   12222223333  33556


Q ss_pred             CHHHHHHHHhhCC-CCCch-hHH---HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHH
Q 005881          429 RLNDARKVFDHLS-SKNLV-SWN---TMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYF  503 (672)
Q Consensus       429 ~~~~A~~~~~~~~-~~~~~-~~~---~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~  503 (672)
                      +.+.+..+.+.+. ..++. -|.   ++..+|+-.|+.....++++.+.... ..+......+.-++...|+.+.+.+++
T Consensus       539 ~~e~~~~li~~L~~~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv  617 (963)
T 4ady_A          539 RQELADDLITKMLASDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIV  617 (963)
T ss_dssp             CGGGGHHHHHHHHHCSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHT
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHH
Confidence            7666666666654 23332 232   23445667777766666887777631 112222222233344455555556666


Q ss_pred             HHhHHhhCCCCchHHHHHHHHHhhccCCh-HHHHHHHHhCCCCCCHHHHH
Q 005881          504 NSMIRDHGISPRMDHIASVVHLFACRGQT-RRAYEFIKSSPIEPNKVVWR  552 (672)
Q Consensus       504 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~p~~~~~~  552 (672)
                      +.+.+  ...|....-..+.-+....|.. .+|.+.+..+.-.+|..+-.
T Consensus       618 ~~L~~--~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D~d~~Vrq  665 (963)
T 4ady_A          618 QLLSK--SHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFVRQ  665 (963)
T ss_dssp             TTGGG--CSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTCSSHHHHH
T ss_pred             HHHHh--cCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccCCCHHHHH
Confidence            54442  1234444444444444445543 56666766654455555443

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=86.61  E-value=4.8  Score=33.04  Aligned_cols=121  Identities=8%  Similarity=0.041  Sum_probs=58.3

Q ss_pred             CCCCCHH--HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc-------hHHHHHHHHHhhccCChHHHHHHHHhC---
Q 005881          475 KIKPNDN--TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR-------MDHIASVVHLFACRGQTRRAYEFIKSS---  542 (672)
Q Consensus       475 g~~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~---  542 (672)
                      |+.|...  ++..-+..+...|.++.|+-+...+....+..|+       ..++..+++++...|++.+|...|++.   
T Consensus        13 ~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~   92 (167)
T 3ffl_A           13 GLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQ   92 (167)
T ss_dssp             --------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHH
Confidence            4445443  2334455566667777777666554433222333       135566677777777777777776541   


Q ss_pred             ----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          543 ----PIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       543 ----~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                          .-.|+.  ..++. .          ......-..+ +.+.+.-..++.+|.+.|++++|..+++.+.
T Consensus        93 ~k~l~k~~s~--~~~~~-~----------~ss~p~s~~~-~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip  149 (167)
T 3ffl_A           93 KKALSKTSKV--RPSTG-N----------SASTPQSQCL-PSEIEVKYKLAECYTVLKQDKDAIAILDGIP  149 (167)
T ss_dssp             HHCC---------------------------------CC-CCHHHHHHHHHHHHHHTTCHHHHHHHHHTSC
T ss_pred             HHHHhcCCCc--ccccc-c----------cCCCcccccc-cchHHHHHHHHHHHHHHCCHHHHHHHHhcCC
Confidence                111111  10010 0          0000000111 2234566678888888888888888888753

>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=86.25  E-value=4.6  Score=39.38  Aligned_cols=70  Identities=9%  Similarity=0.064  Sum_probs=50.8

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHH----hhCCCCchHHH
Q 005881          449 NTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIR----DHGISPRMDHI  519 (672)
Q Consensus       449 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~~~~p~~~~~  519 (672)
                      ..++..+...|++++|+..+..+.... +-+...+..++.++...|+..+|++.|+.+.+    ..|+.|+..+-
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            345666777888888888888877642 44666788888888888888888888877643    45777776553

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=85.86  E-value=4.8  Score=29.65  Aligned_cols=63  Identities=11%  Similarity=0.114  Sum_probs=47.1

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHH
Q 005881          460 LGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVH  524 (672)
Q Consensus       460 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  524 (672)
                      +.-+..+-++.+....+-|++....+.+.||.+.+++..|.++|+.+..+.+..  ..+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~--~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPH--KEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTC--TTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCc--hhhHHHHHH
Confidence            334566667777777789999999999999999999999999998887554333  445665544

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=85.57  E-value=8.8  Score=28.09  Aligned_cols=62  Identities=13%  Similarity=0.003  Sum_probs=47.6

Q ss_pred             HHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHH
Q 005881          319 VLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYS  383 (672)
Q Consensus       319 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~  383 (672)
                      -+..+...|++++|..+.+...-||...|-+|-.  .+.|..+++..-+.++..+| .|....|.
T Consensus        45 R~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~sg-~p~~q~Fa  106 (115)
T 2uwj_G           45 RISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLGGSS-DPALADFA  106 (115)
T ss_dssp             HHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHTCS-SHHHHHHH
T ss_pred             HHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHhCC-CHHHHHHH
Confidence            3445677899999999999999999999977755  47788888888887887776 45544443

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=85.41  E-value=8.7  Score=30.14  Aligned_cols=39  Identities=8%  Similarity=0.226  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHH
Q 005881          548 KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHI  586 (672)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  586 (672)
                      ...+--+.-++.+.|+++.|++..+.+++.+|+|..+..
T Consensus        78 Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~QA~~  116 (134)
T 3o48_A           78 RECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGA  116 (134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHHHHH
Confidence            335556777889999999999999999999997755433

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=85.39  E-value=12  Score=29.70  Aligned_cols=35  Identities=9%  Similarity=0.265  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCch
Q 005881          550 VWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSA  584 (672)
Q Consensus       550 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  584 (672)
                      ..-.+.-++.+.|+++.|++..+.+++.+|+|..+
T Consensus        79 cLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~QA  113 (144)
T 1y8m_A           79 CLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  113 (144)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHH
Confidence            44456677999999999999999999999977543

>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=85.03  E-value=9.4  Score=27.98  Aligned_cols=62  Identities=15%  Similarity=0.087  Sum_probs=46.9

Q ss_pred             HHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHH
Q 005881          319 VLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYS  383 (672)
Q Consensus       319 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~  383 (672)
                      -+..+...|++++|..+.+...-||...|-+|-.  .+.|..+++..-+.++..+| .|....|.
T Consensus        46 R~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~sg-~p~~q~Fa  107 (116)
T 2p58_C           46 RLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLARSQ-DPRIQTFV  107 (116)
T ss_dssp             HHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHTTCC-CHHHHHHH
T ss_pred             HHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHhCC-CHHHHHHH
Confidence            3445677899999999999999999999987765  36777888888777777765 45444443

>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=83.92  E-value=9.5  Score=28.13  Aligned_cols=64  Identities=16%  Similarity=0.045  Sum_probs=47.4

Q ss_pred             CchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHH
Q 005881           56 MPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINM  120 (672)
Q Consensus        56 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  120 (672)
                      +.-+..+-++.+....+-|++....+.+++|-+.+++..|.++++-++..- .....+|..+++-
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lqE   88 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQE   88 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHHH
Confidence            334566667777777788999999999999999999999999998887653 2334567666653

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=83.58  E-value=29  Score=32.47  Aligned_cols=166  Identities=12%  Similarity=0.035  Sum_probs=98.9

Q ss_pred             HHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHH----HHHHhCCCCCChHHHHHHHHHHcCc
Q 005881          317 NTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELL----KDMLFEGHCPNLYTYSNILNISSDI  392 (672)
Q Consensus       317 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~----~~m~~~g~~p~~~t~~~ll~~~~~~  392 (672)
                      .++..-|.+.+++++|.+++..           -...+.+.|+...|-++-    +-..+.++++|..+...++..+...
T Consensus        39 RTi~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~  107 (336)
T 3lpz_A           39 RLVAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLF  107 (336)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhC
Confidence            4566667888888888887543           233455667766554443    5555668888888888888777665


Q ss_pred             CchH-HHHHHHHHHH----hcC--CCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHH
Q 005881          393 PAIE-WGKQTHCCIV----KPG--FDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREAL  465 (672)
Q Consensus       393 ~~~~-~a~~~~~~~~----~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  465 (672)
                      ..-+ .-..+.+.++    +.|  ..-++.....+...|.+.+++.+|+..|-.-..+.+..+..++.-+...+...+  
T Consensus       108 ~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~~~~e--  185 (336)
T 3lpz_A          108 QPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQDESHT--  185 (336)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTSCGGG--
T ss_pred             CCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHhcCCcc--
Confidence            5322 2233333333    333  234677788899999999999999988843223333555544444433332111  


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHH
Q 005881          466 EIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIR  508 (672)
Q Consensus       466 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  508 (672)
                                  +|...-. .+--|...+++..|..+++...+
T Consensus       186 ------------~dlfiaR-aVL~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          186 ------------APLYCAR-AVLPYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             ------------HHHHHHH-HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ------------HHHHHHH-HHHHHHHhCCHHHHHHHHHHHHH
Confidence                        1111222 22235556788888887766653

>2qx5_A Nucleoporin NIC96; mRNA transport, nuclear pore complex, nucleus, protein transport, translocation, transport, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2rfo_A

Probab=82.21  E-value=52  Score=34.36  Aligned_cols=22  Identities=9%  Similarity=-0.014  Sum_probs=17.9

Q ss_pred             hccCChHHHHHHHHhCCCCCCH
Q 005881          527 ACRGQTRRAYEFIKSSPIEPNK  548 (672)
Q Consensus       527 ~~~g~~~~A~~~~~~~~~~p~~  548 (672)
                      ...|++++|++.++++++-|..
T Consensus       549 ~~~g~~~~AL~~i~~L~llPl~  570 (661)
T 2qx5_A          549 YFNKQWQETLSQMELLDLLPFS  570 (661)
T ss_dssp             HHTTCHHHHHHHHHHTSCSCC-
T ss_pred             HHcCCHHHHHHHHHhCCCCCCC
Confidence            6789999999999998777743

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=81.98  E-value=15  Score=38.94  Aligned_cols=53  Identities=9%  Similarity=-0.022  Sum_probs=42.5

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcC
Q 005881          543 PIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEAN  596 (672)
Q Consensus       543 ~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  596 (672)
                      ..+-...-|..|...+.+.++.++|..+|+..+... -++.++..|..+|.+.+
T Consensus       608 ~~kks~lEWEiLGlla~RL~h~~EA~~a~~~~l~~R-Fs~ka~~kLLeiY~~~~  660 (754)
T 4gns_B          608 DEKHSGLEWELLGLIMLRTWHWEDAVACLRTSIVAR-FDPVSCQQLLKIYLQPP  660 (754)
T ss_dssp             SCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-CCHHHHHHHHHHHHSCC
T ss_pred             hcccCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCHHHHHHHHHHHHhcC
Confidence            344567788888888888889999999999988765 37778888888888876

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=81.77  E-value=23  Score=40.34  Aligned_cols=164  Identities=8%  Similarity=-0.014  Sum_probs=94.7

Q ss_pred             HHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchH
Q 005881          317 NTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIE  396 (672)
Q Consensus       317 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~  396 (672)
                      ..++..+.+.+..+.+..+..-.+. +...--.+..+|...|++++|.+.|.+... |+..+....          ....
T Consensus       816 ~~l~~~l~~~~~~~~~~~l~~~~~~-~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~----------~~~~  883 (1139)
T 4fhn_B          816 TELVEKLFLFKQYNACMQLIGWLNS-DPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQF----------AVLR  883 (1139)
T ss_dssp             HHHHHHHHHHSCTTHHHHHHHHSCC-CHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSC----------SSHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhccC-CcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhh----------hhhc
Confidence            3466667777888777776655543 333334455678889999999999987532 222111100          0000


Q ss_pred             HHHHHHHHHHhc-CC-CCcccHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCc----hhHHHHHHHHHhcCChHHHHH
Q 005881          397 WGKQTHCCIVKP-GF-DSNVVIGSALVDMYAKCGRLNDARKVFDHLS----SKNL----VSWNTMLVGYAQHGLGREALE  466 (672)
Q Consensus       397 ~a~~~~~~~~~~-~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~li~~~~~~g~~~~A~~  466 (672)
                      .    +..+... .. ..-..-|.-++..+.+.+.++.+.++-....    ..+.    ..|..+..++...|++++|..
T Consensus       884 ~----~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~  959 (1139)
T 4fhn_B          884 E----FQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHV  959 (1139)
T ss_dssp             H----HHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGH
T ss_pred             c----cccccccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHH
Confidence            0    0111111 00 1112235566667777777776665544322    2221    257888889999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHhhccCcHHH
Q 005881          467 IYSMMQENKIKPNDNTFIGVLSACVHIGLVEE  498 (672)
Q Consensus       467 ~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~  498 (672)
                      .+-.+.....  -...+..|+..++..|..+.
T Consensus       960 aL~~~pd~~~--r~~cLr~LV~~lce~~~~~~  989 (1139)
T 4fhn_B          960 ALMVLSTTPL--KKSCLLDFVNQLTKQGKINQ  989 (1139)
T ss_dssp             HHHHHHHSSS--CHHHHHHHHHHHHHHCCHHH
T ss_pred             HHHhCCCHHH--HHHHHHHHHHHHHhCCChhh
Confidence            8888876533  34566777777776666544

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=80.64  E-value=24  Score=31.92  Aligned_cols=47  Identities=11%  Similarity=0.046  Sum_probs=23.3

Q ss_pred             cCCchhHHHHHHHHHHhCCCCchH--HHHHHHHHHHccCChHHHHHHHh
Q 005881          291 VKETIGGRQLHSLIIKMGFSSFTF--VANTVLDFYSKCELLEESLKTFD  337 (672)
Q Consensus       291 ~~~~~~a~~~~~~~~~~~~~~~~~--~~~~li~~~~~~~~~~~a~~~~~  337 (672)
                      .++.....++.+.+.+.|..++..  ...+.+...++.|+.+-+..+++
T Consensus       192 ~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~  240 (285)
T 1wdy_A          192 SSDDSDVEAITHLLLDHGADVNVRGERGKTPLILAVEKKHLGLVQRLLE  240 (285)
T ss_dssp             CSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHHHHHHTTCHHHHHHHHH
T ss_pred             ccccchHHHHHHHHHHcCCCCCCcCCCCCcHHHHHHHcCCHHHHHHHHh
Confidence            444444455666666666544322  11223344445566665555555

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=80.55  E-value=23  Score=32.02  Aligned_cols=118  Identities=14%  Similarity=0.159  Sum_probs=61.4

Q ss_pred             hHHHHHHhcCCChhHHHHHhccCCCCCcc---hHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCccc--HHHHHHHHhc
Q 005881           14 NHLLLMYVKFSRINDAQKLFDEMPERNVI---SWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYT--YVGAVSACAS   88 (672)
Q Consensus        14 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~--~~~ll~~~~~   88 (672)
                      ++.+...++.|+++.+..+++.-..++..   .-.+.+...+..|+.+    +++.+.+.|..|+...  -.+.+...+.
T Consensus         6 ~~~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~~g~t~L~~A~~~g~~~----~v~~Ll~~g~~~~~~~~~g~t~L~~A~~   81 (285)
T 1wdy_A            6 NHLLIKAVQNEDVDLVQQLLEGGANVNFQEEEGGWTPLHNAVQMSRED----IVELLLRHGADPVLRKKNGATPFLLAAI   81 (285)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTTCCCHHHHHHHTTCHH----HHHHHHHTTCCTTCCCTTCCCHHHHHHH
T ss_pred             chHHHHHHHcCCHHHHHHHHHcCCCcccccCCCCCcHHHHHHHcCCHH----HHHHHHHcCCCCcccCCCCCCHHHHHHH
Confidence            44566667788888888888765443221   1123344445556643    4445555565554321  1233444445


Q ss_pred             CCChhhHHHHHHHHHHhCCCCChhH--HHHHHHHHHhcCChHHHHHHhhccCC
Q 005881           89 RGDARSGKEIHGRMYRSGLELNSHV--SNCLINMYGKCGLLSSAQFVFDASLE  139 (672)
Q Consensus        89 ~~~~~~a~~~~~~~~~~g~~~~~~~--~~~li~~~~~~g~~~~a~~~~~~~~~  139 (672)
                      .|+.+    +.+.+.+.|..++...  -.+.+...+..|+.+-+..+++....
T Consensus        82 ~~~~~----~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~  130 (285)
T 1wdy_A           82 AGSVK----LLKLFLSKGADVNECDFYGFTAFMEAAVYGKVKALKFLYKRGAN  130 (285)
T ss_dssp             HTCHH----HHHHHHHTTCCTTCBCTTCCBHHHHHHHTTCHHHHHHHHHTTCC
T ss_pred             cCCHH----HHHHHHHcCCCCCccCcccCCHHHHHHHhCCHHHHHHHHHhCCC
Confidence            55544    4445555665443221  11234445566777777777665443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=80.34  E-value=15  Score=26.93  Aligned_cols=86  Identities=15%  Similarity=0.089  Sum_probs=54.5

Q ss_pred             chHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 005881          394 AIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQE  473 (672)
Q Consensus       394 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  473 (672)
                      ..++|..|-+.+...+.  ...+--.-+..+...|++++|..+.+....||...|-+|..  .+.|-.+++..-+.++..
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~   96 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLGG   96 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            34455555555444432  11111111234567899999999999999999999877644  467777787777778777


Q ss_pred             CCCCCCHHHHH
Q 005881          474 NKIKPNDNTFI  484 (672)
Q Consensus       474 ~g~~p~~~~~~  484 (672)
                      +| .|....|.
T Consensus        97 sg-~p~~q~Fa  106 (115)
T 2uwj_G           97 SS-DPALADFA  106 (115)
T ss_dssp             CS-SHHHHHHH
T ss_pred             CC-CHHHHHHH
Confidence            76 55555554

---

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	672
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	4e-05
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	6e-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 = 44.3 bits (103), Expect = 4e-05
 Identities = 47/391 (12%), Positives = 111/391 (28%), Gaps = 19/391 (4%)

Query: 217 GLINL---YAKCEKLDLASRVFSNI--QLPD-LTAWSALIGGYAQLGKACEAIDLFVKMF 270
           G + L     +    + A R    +  Q PD       L   + Q  +   +        
Sbjct: 1   GPMELAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAI 60

Query: 271 SSGLMPSEVTFSYVLG-AFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELL 329
                P        LG  + +  +     + +   +++         N      +  ++ 
Sbjct: 61  K--QNPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDME 118

Query: 330 EESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNIS 389
                    +  +  +       G+L              +      PN     + L   
Sbjct: 119 GAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCV 178

Query: 390 SDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDH---LSSKNLV 446
            +     W    H         + +     L ++  +    + A   +     LS  + V
Sbjct: 179 FNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAV 238

Query: 447 SWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNS 505
               +   Y + GL   A++ Y   +  +++P+  + +  + +A    G V E    +N+
Sbjct: 239 VHGNLACVYYEQGLIDLAIDTYR--RAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNT 296

Query: 506 MIRDHGISPRMDHIASVVHLFACRGQTRRAYE-FIKSSPIEPNKVVWRCLLSGC-KTHKD 563
            +R         +  +  ++   +G    A   + K+  + P        L+   +    
Sbjct: 297 ALRLCPTHADSLNNLA--NIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGK 354

Query: 564 LVLGRYAAEKILSTDPEDTSAHIMLSNVYAE 594
           L       ++ +   P    A+  + N   E
Sbjct: 355 LQEALMHYKEAIRISPTFADAYSNMGNTLKE 385

>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 = 40.4 bits (93), Expect = 6e-04
 Identities = 41/357 (11%), Positives = 84/357 (23%), Gaps = 17/357 (4%)

Query: 253 YAQLGKACEAIDLFVKMFSSGLMPSEVTFSYVLG-AFADVKETIGGRQLHSLIIKMGFSS 311
             Q G    A    ++++     P       +L       +         +L IK     
Sbjct: 9   EYQAGDFEAAERHCMQLWR--QEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLL 66

Query: 312 FTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDML 371
               +N    +  + +L E        +          +               +   + 
Sbjct: 67  AEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVS 126

Query: 372 FEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLN 431
              + P+LY   + L             +           +  V  S L  ++   G + 
Sbjct: 127 ALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIW 186

Query: 432 DARKVFDH---LSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLS 488
            A   F+    L    L ++  +     +  +   A+  Y                 +  
Sbjct: 187 LAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAV-VHGNLAC 245

Query: 489 ACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNK 548
                GL++     +   I    + P      +  +L     +     E           
Sbjct: 246 VYYEQGLIDLAIDTYRRAIE---LQP--HFPDAYCNLANALKEKGSVAEAEDCYNTALRL 300

Query: 549 VVWRCLLSGCKTHKDLVLGRY-----AAEKILSTDPEDTSAHIMLSNVYAEANMWDE 600
                       +     G          K L   PE  +AH  L++V  +     E
Sbjct: 301 CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQE 357

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	672
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.89
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.88
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.58
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.45
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.07
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.06
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.0
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.99
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.96
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.93
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.93
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.92
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.88
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.72
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.7
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.69
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.66
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.65
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.61
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.59
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.57
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.54
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.54
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.52
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.51
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.46
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.35
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.34
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.33
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.26
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.26
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.24
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.18
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.14
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.11
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.11
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.07
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.06
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.04
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.93
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.84
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.83
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.82
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.78
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.72
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.69
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.63
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.55
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.49
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.45
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.39
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.25
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.25
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.21
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.73
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.4
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.27
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.05
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	93.97
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.13
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	86.31
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	86.07
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	84.53
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	82.12

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=1.1e-19  Score=180.91  Aligned_cols=372  Identities=14%  Similarity=0.081  Sum_probs=250.2

Q ss_pred             HHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCC---CCcchHHHHHHHHHhcCChhH
Q 005881          185 GACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQL---PDLTAWSALIGGYAQLGKACE  261 (672)
Q Consensus       185 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~  261 (672)
                      ..+.+.|++++|.+.++.+++..+ .+...+..+...|.+.|++++|...|+...+   .+..+|..+...|.+.|++++
T Consensus         7 ~~~~~~G~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~~   85 (388)
T d1w3ba_           7 HREYQAGDFEAAERHCMQLWRQEP-DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccccc
Confidence            344566777777777777766532 2455556666666666666666666665432   233455556666666666666


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCC
Q 005881          262 AIDLFVKMFSSGLMPSEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDE  341 (672)
Q Consensus       262 a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  341 (672)
                      |+..+......... +...............................                                .
T Consensus        86 A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------------------------~  132 (388)
T d1w3ba_          86 AIEHYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQYN--------------------------------P  132 (388)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC--------------------------------T
T ss_pred             cccccccccccccc-cccccccccccccccccccccccccccccccc--------------------------------c
Confidence            66666665553211 11111112222222222222222222221111                                1


Q ss_pred             CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC-ChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHH
Q 005881          342 HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCP-NLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSAL  420 (672)
Q Consensus       342 ~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  420 (672)
                      ................+....+...+.+....  .| +...+..+...+...++.+.|...+....+.. +.+...+..+
T Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l  209 (388)
T d1w3ba_         133 DLYCVRSDLGNLLKALGRLEEAKACYLKAIET--QPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINL  209 (388)
T ss_dssp             TCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             ccccccccccccccccchhhhhHHHHHHhhcc--CcchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence            22233333444445555556666655555543  23 33444455556666677777777766666543 2244566778


Q ss_pred             HHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcH
Q 005881          421 VDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLV  496 (672)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~  496 (672)
                      ...+...|++++|...++...   ..+...+..+...+.+.|++++|++.|++..+.  .|+ ..++..+...+...|++
T Consensus       210 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~  287 (388)
T d1w3ba_         210 GNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSV  287 (388)
T ss_dssp             HHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCH
T ss_pred             hhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCH
Confidence            888888999999999888765   345567888889999999999999999999984  555 46788899999999999


Q ss_pred             HHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005881          497 EEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKI  574 (672)
Q Consensus       497 ~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~  574 (672)
                      ++|...++.....  .+.+...+..++.++...|++++|++.+++ +...| +..+|..+...+...|++++|+..++++
T Consensus       288 ~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a  365 (388)
T d1w3ba_         288 AEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEA  365 (388)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHhhhcc--CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999999988743  244678888999999999999999999986 56677 4667888889999999999999999999


Q ss_pred             hcCCCCCCchHHHHHHHHHhcCC
Q 005881          575 LSTDPEDTSAHIMLSNVYAEANM  597 (672)
Q Consensus       575 ~~~~p~~~~~~~~l~~~~~~~g~  597 (672)
                      ++++|+++.++..++.+|.+.||
T Consensus       366 l~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         366 IRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHhCCCCHHHHHHHHHHHHHcCC
Confidence            99999999999999999998886

>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=99.88  E-value=2e-19  Score=179.04  Aligned_cols=351  Identities=13%  Similarity=0.079  Sum_probs=269.8

Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCC-ChhhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCCh
Q 005881          251 GGYAQLGKACEAIDLFVKMFSSGLMP-SEVTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELL  329 (672)
Q Consensus       251 ~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  329 (672)
                      ..+.+.|++++|.+.++++.+.  .| +...+..+...+...|++++|...++.+++.. +.+..++..+..+|.+.|++
T Consensus         7 ~~~~~~G~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           7 HREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccc
Confidence            4456677777887777777664  24 34455566667777788888888887777664 33456777888888888999


Q ss_pred             HHHHHHHhhCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHH
Q 005881          330 EESLKTFDEMDE---HDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIV  406 (672)
Q Consensus       330 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~  406 (672)
                      ++|...+....+   .+...+..........+....+............ ................+....+...+....
T Consensus        84 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (388)
T d1w3ba_          84 QEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNP-DLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCT-TCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccccccchhhhhHHHHHHhh
Confidence            999888887764   2333344444555556666666666665554432 333334444555666777777777777666


Q ss_pred             hcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHH
Q 005881          407 KPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTF  483 (672)
Q Consensus       407 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  483 (672)
                      ... +.+...+..+...+...|++++|...++...   ..+...|..+...+...|++++|+..+++....+ +.+...+
T Consensus       163 ~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  240 (388)
T d1w3ba_         163 ETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVH  240 (388)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHH
T ss_pred             ccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHH
Confidence            554 2345667778888999999999999998765   3455688899999999999999999999998853 4455678


Q ss_pred             HHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHh
Q 005881          484 IGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-P-IEPNKVVWRCLLSGCKT  560 (672)
Q Consensus       484 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~  560 (672)
                      ..+...+.+.|++++|...|+++.+   +.| +...+..++.++...|++++|.+.++.. . ...+...+..+...+..
T Consensus       241 ~~l~~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  317 (388)
T d1w3ba_         241 GNLACVYYEQGLIDLAIDTYRRAIE---LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKRE  317 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH---TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHH
Confidence            8888999999999999999998873   456 5688999999999999999999999763 2 23467788888889999


Q ss_pred             cCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          561 HKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       561 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      .|++++|+..++++++++|+++.++..++.+|.+.|++++|.+.+++..+
T Consensus       318 ~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  367 (388)
T d1w3ba_         318 QGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             TTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999998864

>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=99.58  E-value=1.4e-13  Score=132.32  Aligned_cols=224  Identities=15%  Similarity=0.102  Sum_probs=155.6

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCC-hHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhc
Q 005881          349 ALIAGHLASCHYGEAIELLKDMLFEGHCPN-LYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKC  427 (672)
Q Consensus       349 ~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  427 (672)
                      .....+.+.|++++|+..|+++++.  .|+ ...|.                                   .+..+|...
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~-----------------------------------~lg~~~~~~   66 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQ--DPKHMEAWQ-----------------------------------YLGTTQAEN   66 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHH-----------------------------------HHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHH-----------------------------------HHHHHHHHc
Confidence            3455677888888888888888765  443 33343                                   444444455


Q ss_pred             CCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH----------------HHHHHHH
Q 005881          428 GRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDN----------------TFIGVLS  488 (672)
Q Consensus       428 g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----------------~~~~ll~  488 (672)
                      |++++|...|++..   ..+...|..+...|...|++++|.+.+++....  .|+..                .....+.
T Consensus        67 ~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~  144 (323)
T d1fcha_          67 EQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRY--TPAYAHLVTPAEEGAGGAGLGPSKRILG  144 (323)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--STTTGGGCC---------------CTTH
T ss_pred             CChHHHHHHHHhhhccccccccccccccccccccccccccccchhhHHHh--ccchHHHHHhhhhhhhhcccccchhhHH
Confidence            55555555554433   223344555555555566666666666555542  22211                1111222


Q ss_pred             HhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHH
Q 005881          489 ACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVL  566 (672)
Q Consensus       489 ~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~  566 (672)
                      .+...+...+|...|....+...-.++...+..++..+...|++++|.+.+++. ...| +...|..+...+...|++++
T Consensus       145 ~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~  224 (323)
T d1fcha_         145 SLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEE  224 (323)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchh
Confidence            334456678888888887754333446778888999999999999999999863 3445 56788889999999999999


Q ss_pred             HHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          567 GRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       567 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      |+..++++++++|+++.++..++.+|.+.|++++|.+.|++..+.
T Consensus       225 A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         225 AVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999988763

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=8.1e-13  Score=126.94  Aligned_cols=262  Identities=11%  Similarity=-0.039  Sum_probs=173.4

Q ss_pred             HHHHHccCChHHHHHHHhhCCC--C-CcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC-ChHHHHHHHHHHcCcCch
Q 005881          320 LDFYSKCELLEESLKTFDEMDE--H-DVVSWNALIAGHLASCHYGEAIELLKDMLFEGHCP-NLYTYSNILNISSDIPAI  395 (672)
Q Consensus       320 i~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~~~~  395 (672)
                      ...+.+.|++++|...|+++.+  | +..+|..+..++...|++++|+..|.+..+.  .| +...+..+...+...|++
T Consensus        26 g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~  103 (323)
T d1fcha_          26 GLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLEL--KPDNQTALMALAVSFTNESLQ  103 (323)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcc--ccccccccccccccccccccc
Confidence            4456677888888888877654  2 4556777788888888888888888887764  34 344455555566666666


Q ss_pred             HHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 005881          396 EWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENK  475 (672)
Q Consensus       396 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  475 (672)
                      +.|.+.+..+........ .......... .               ..+.......+..+...+.+.+|.+.|.+.....
T Consensus       104 ~~A~~~~~~~~~~~~~~~-~~~~~~~~~~-~---------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~  166 (323)
T d1fcha_         104 RQACEILRDWLRYTPAYA-HLVTPAEEGA-G---------------GAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLD  166 (323)
T ss_dssp             HHHHHHHHHHHHTSTTTG-GGCC-------------------------------CTTHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             cccccchhhHHHhccchH-HHHHhhhhhh-h---------------hcccccchhhHHHHHHhhHHHHHHHHHHHHHHHh
Confidence            666666666554322110 0000000000 0               0000111112223345566788888888887632


Q ss_pred             C-CCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHH
Q 005881          476 I-KPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVW  551 (672)
Q Consensus       476 ~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~  551 (672)
                      . .++...+..+...+...|++++|+..|+.....   .| +...|..++.+|...|++++|.+.+++ +...| +..+|
T Consensus       167 p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~  243 (323)
T d1fcha_         167 PTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV---RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSR  243 (323)
T ss_dssp             TTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             hcccccccchhhHHHHHHHHHHhhhhccccccccc---ccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHH
Confidence            1 234567778888899999999999999988743   45 568888999999999999999999976 34456 56689


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCch-----------HHHHHHHHHhcCChHHHHH
Q 005881          552 RCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSA-----------HIMLSNVYAEANMWDETAK  603 (672)
Q Consensus       552 ~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-----------~~~l~~~~~~~g~~~~a~~  603 (672)
                      ..+...|...|++++|+..|+++++++|++...           +..+..++...|+.+.+..
T Consensus       244 ~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~  306 (323)
T d1fcha_         244 YNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGA  306 (323)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999999999999999999987654           3456666766777665543

>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=99.07  E-value=1.7e-08  Score=97.49  Aligned_cols=193  Identities=10%  Similarity=0.004  Sum_probs=132.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCC-------CCC----chhHHHHHHHHHhcCChHHHHHHHHHHHHCCC----CCCHHH
Q 005881          418 SALVDMYAKCGRLNDARKVFDHLS-------SKN----LVSWNTMLVGYAQHGLGREALEIYSMMQENKI----KPNDNT  482 (672)
Q Consensus       418 ~~l~~~~~~~g~~~~A~~~~~~~~-------~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~----~p~~~~  482 (672)
                      ..+...+...|++..+...+....       .+.    ...+..+...+...|+++.+...+.......-    .....+
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  174 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  174 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHH
Confidence            344555666777777766665543       111    12445566777888899999888888776321    122235


Q ss_pred             HHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc-----hHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-----CHHHH
Q 005881          483 FIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR-----MDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-----NKVVW  551 (672)
Q Consensus       483 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-----~~~~~  551 (672)
                      +......+...++..++...+............     ...+..+...+...|++++|.+.+++. ...|     ....+
T Consensus       175 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  254 (366)
T d1hz4a_         175 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  254 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHH
Confidence            556666777888888888887766543322221     234566677788899999999998763 2222     23455


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhc------CCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          552 RCLLSGCKTHKDLVLGRYAAEKILS------TDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       552 ~~l~~~~~~~g~~~~a~~~~~~~~~------~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ..+...+...|+++.|...+++++.      ..|....++..++.+|...|++++|.+.+++..+
T Consensus       255 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         255 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            6677788899999999999998873      4455667888999999999999999999987654

>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=99.06  E-value=9.8e-10  Score=103.73  Aligned_cols=184  Identities=9%  Similarity=0.072  Sum_probs=86.0

Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcC-ChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccC
Q 005881          420 LVDMYAKCGRLNDARKVFDHLSS---KNLVSWNTMLVGYAQHG-LGREALEIYSMMQENKIKPND-NTFIGVLSACVHIG  494 (672)
Q Consensus       420 l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g  494 (672)
                      +...+.+.+..++|.+.++.+.+   .+...|+....++...| ++++|++.+++.++.  .|+. .+|..+...+.+.|
T Consensus        49 ~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~--~p~~~~a~~~~~~~~~~l~  126 (315)
T d2h6fa1          49 FRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE--QPKNYQVWHHRRVLVEWLR  126 (315)
T ss_dssp             HHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--HHhhhhHHHHHhHHHHhhc
Confidence            33344444555555555555441   22234444444444443 245555555555442  3332 34444555555555


Q ss_pred             cHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCC------HH
Q 005881          495 LVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKD------LV  565 (672)
Q Consensus       495 ~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~------~~  565 (672)
                      ++++|+..++.+.+   +.| +...|..++.++...|++++|++.+++ +.+.| +...|+.+...+...+.      ++
T Consensus       127 ~~~eAl~~~~kal~---~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~~~~~~  203 (315)
T d2h6fa1         127 DPSQELEFIADILN---QDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAVLE  203 (315)
T ss_dssp             CCTTHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHHHHH
T ss_pred             cHHHHHHHHhhhhh---hhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccchhhhhH
Confidence            55555555555542   233 344555555555555555555555543 22333 33344444333333222      34


Q ss_pred             HHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          566 LGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       566 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      +|...+.++++++|++..++..++.++...| .+++.+.++...
T Consensus       204 ~ai~~~~~al~~~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~  246 (315)
T d2h6fa1         204 REVQYTLEMIKLVPHNESAWNYLKGILQDRG-LSKYPNLLNQLL  246 (315)
T ss_dssp             HHHHHHHHHHHHSTTCHHHHHHHHHHHTTTC-GGGCHHHHHHHH
T ss_pred             HhHHHHHHHHHhCCCchHHHHHHHHHHHhcC-hHHHHHHHHHHH
Confidence            5555555555555555555555555443332 344444444443

>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=99.00  E-value=5.1e-09  Score=98.68  Aligned_cols=219  Identities=13%  Similarity=0.141  Sum_probs=144.2

Q ss_pred             cHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHH
Q 005881          346 SWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYA  425 (672)
Q Consensus       346 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  425 (672)
                      .++.+...+.+.+.+++|+++++++++.  .|+..+                                  .|+....++.
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~l--nP~~~~----------------------------------a~~~r~~~l~   88 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYT----------------------------------VWHFRRVLLK   88 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHH----------------------------------HHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHH--CCCChH----------------------------------HHHHHHHHHH
Confidence            3455556667777888888888888764  554332                                  2344444555


Q ss_pred             hcC-CHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHHHH
Q 005881          426 KCG-RLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEEGW  500 (672)
Q Consensus       426 ~~g-~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~  500 (672)
                      ..| ++++|.+.++...   ..+..+|+.+...+...|++++|++.++++.+.  .|+ ...|..+...+.+.|++++|+
T Consensus        89 ~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~~Al  166 (315)
T d2h6fa1          89 SLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNEL  166 (315)
T ss_dssp             HTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHH
T ss_pred             HhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHhhccHHHHHHHHhhhhhh--hhcchHHHHHHHHHHHHHHhhHHHH
Confidence            544 4677777777664   345567777777888888888888888888874  444 467777888888888888888


Q ss_pred             HHHHHhHHhhCCCC-chHHHHHHHHHhhccCC------hHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHH
Q 005881          501 HYFNSMIRDHGISP-RMDHIASVVHLFACRGQ------TRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAA  571 (672)
Q Consensus       501 ~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~------~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~  571 (672)
                      ..++.+++   +.| +...|+.+..++.+.+.      +++|++.+.+ +...| +...|..+...+. ....+++...+
T Consensus       167 ~~~~~al~---~~p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~-~~~~~~~~~~~  242 (315)
T d2h6fa1         167 QYVDQLLK---EDVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQ-DRGLSKYPNLL  242 (315)
T ss_dssp             HHHHHHHH---HCTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHT-TTCGGGCHHHH
T ss_pred             HHHHHHHH---HCCccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHH-hcChHHHHHHH
Confidence            88888773   345 45667766666655554      5677777654 34456 5667777666554 44467888899


Q ss_pred             HHHhcCCCCCCc--hHHHHHHHHHhc--CChHHHHHHHH
Q 005881          572 EKILSTDPEDTS--AHIMLSNVYAEA--NMWDETAKVRK  606 (672)
Q Consensus       572 ~~~~~~~p~~~~--~~~~l~~~~~~~--g~~~~a~~~~~  606 (672)
                      ++++++.|+...  .+..++.+|...  +..+.+...++
T Consensus       243 ~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~  281 (315)
T d2h6fa1         243 NQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDILN  281 (315)
T ss_dssp             HHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHH
T ss_pred             HHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            999888886544  345667776543  44344444433

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.99  E-value=4.1e-08  Score=92.30  Aligned_cols=182  Identities=7%  Similarity=0.080  Sum_probs=84.9

Q ss_pred             HHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCC--C-C-chhHHHHHHHHHhcCChHHHHHHHHHH
Q 005881          396 EWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSS--K-N-LVSWNTMLVGYAQHGLGREALEIYSMM  471 (672)
Q Consensus       396 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~-~~~~~~li~~~~~~g~~~~A~~~~~~m  471 (672)
                      +.+..+++..++...+.+...+..++..+.+.|+++.|..+|+.+.+  | + ...|...+..+.+.|+.+.|.++|+++
T Consensus        81 ~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~a  160 (308)
T d2onda1          81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKA  160 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            44555555555443333444455555555555666666655555431  1 1 124555555555555555565665555


Q ss_pred             HHCCCCCCHHHHHHHHH-HhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhC----CCCC
Q 005881          472 QENKIKPNDNTFIGVLS-ACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSS----PIEP  546 (672)
Q Consensus       472 ~~~g~~p~~~~~~~ll~-~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p  546 (672)
                      ++.+ +.+...|..... -+...|+.+.|..+|+.+....  +.+...|...++.+.+.|+.++|..+|++.    +..|
T Consensus       161 l~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~--p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~  237 (308)
T d2onda1         161 REDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPP  237 (308)
T ss_dssp             HTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCG
T ss_pred             HHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh--hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCh
Confidence            5532 112222222221 1223355555555555555321  223444555555555555555555555431    2222


Q ss_pred             C--HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 005881          547 N--KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPE  580 (672)
Q Consensus       547 ~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  580 (672)
                      +  ...|...+..-..+|+.+.+..+++++.++.|.
T Consensus       238 ~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~  273 (308)
T d2onda1         238 EKSGEIWARFLAFESNIGDLASILKVEKRRFTAFRE  273 (308)
T ss_dssp             GGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcc
Confidence            1  234444444444455555555555555444443

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.96  E-value=3e-09  Score=97.72  Aligned_cols=186  Identities=13%  Similarity=0.014  Sum_probs=94.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhc
Q 005881          417 GSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVH  492 (672)
Q Consensus       417 ~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~  492 (672)
                      +..+..+|.+.|++++|.+.|++..   ..++.+|+.+..+|...|++++|++.|+++.+.  .|+ ..++..+..++..
T Consensus        40 ~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~  117 (259)
T d1xnfa_          40 LYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYY  117 (259)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHH--HhhhhhhHHHHHHHHHH
Confidence            3445556666666666666666654   234456666666666666666666666666663  343 3455666666666


Q ss_pred             cCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHH---hCCCCCCHHHHHHHHHHHHh----cCCH
Q 005881          493 IGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIK---SSPIEPNKVVWRCLLSGCKT----HKDL  564 (672)
Q Consensus       493 ~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~---~~~~~p~~~~~~~l~~~~~~----~g~~  564 (672)
                      .|++++|...|+...+.   .| +......+...+.+.+..+.+..+..   ...  +....+. ++..+..    .+..
T Consensus       118 ~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~-~~~~~~~~~~~~~~~  191 (259)
T d1xnfa_         118 GGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD--KEQWGWN-IVEFYLGNISEQTLM  191 (259)
T ss_dssp             TTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC--CCSTHHH-HHHHHTTSSCHHHHH
T ss_pred             HhhHHHHHHHHHHHHhh---ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc--hhhhhhh-HHHHHHHHHHHHHHH
Confidence            66666666666666532   23 23333333333344443333333222   221  1111111 1111111    1223


Q ss_pred             HHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          565 VLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       565 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +.+...+.......|....++..++.+|...|++++|.+.+++...
T Consensus       192 ~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  237 (259)
T d1xnfa_         192 ERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA  237 (259)
T ss_dssp             HHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3333333333444455555666667777777777777777766654

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.93  E-value=7.7e-10  Score=106.07  Aligned_cols=230  Identities=8%  Similarity=-0.030  Sum_probs=161.2

Q ss_pred             hcCChhHHHHHHHHHHhCCCCC-ChHHHHHHHHHHcC--cCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHH
Q 005881          356 ASCHYGEAIELLKDMLFEGHCP-NLYTYSNILNISSD--IPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLND  432 (672)
Q Consensus       356 ~~~~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  432 (672)
                      ..|++++|+..++...+.  .| +...+.....++..  .++.+.+...+..+.+.........+......+...+..+.
T Consensus        85 ~~~~~~~al~~~~~~l~~--~pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (334)
T d1dcea1          85 SAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAE  162 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHH
T ss_pred             HHHHHHHHHHHHHHHHHh--CCCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHH
Confidence            344567888888888765  45 33344444444444  44577888888888776544333333455567778899999


Q ss_pred             HHHHHhhCCC---CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHh
Q 005881          433 ARKVFDHLSS---KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRD  509 (672)
Q Consensus       433 A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  509 (672)
                      |...++.+.+   .+...|+.+...+...|++++|...+.+..+  +.|+..   .+...+...+..+++...+......
T Consensus       163 Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~---~~~~~~~~l~~~~~a~~~~~~~l~~  237 (334)
T d1dcea1         163 ELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPEN--VLLKEL---ELVQNAFFTDPNDQSAWFYHRWLLG  237 (334)
T ss_dssp             HHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHH--HHHHHH---HHHHHHHHHCSSCSHHHHHHHHHHS
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHH--hHHHHH---HHHHHHHHhcchhHHHHHHHHHHHh
Confidence            9999998874   3456888899999999999888766655444  223322   2223344556666777777766532


Q ss_pred             hCCCCchHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHH
Q 005881          510 HGISPRMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIM  587 (672)
Q Consensus       510 ~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  587 (672)
                        .+++...+..++..+...|+.++|.+.+.+ ....| +...|..+...+...|+.++|...++++++++|.+...|..
T Consensus       238 --~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~  315 (334)
T d1dcea1         238 --RAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDD  315 (334)
T ss_dssp             --CCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHH
T ss_pred             --CcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHH
Confidence              233455566677788888999999998876 45566 44577778888999999999999999999999998888888


Q ss_pred             HHHHHHh
Q 005881          588 LSNVYAE  594 (672)
Q Consensus       588 l~~~~~~  594 (672)
                      |+..+.-
T Consensus       316 L~~~~~~  322 (334)
T d1dcea1         316 LRSKFLL  322 (334)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhH
Confidence            8877764

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.93  E-value=1e-08  Score=93.93  Aligned_cols=197  Identities=8%  Similarity=-0.047  Sum_probs=125.9

Q ss_pred             HHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhc
Q 005881          382 YSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLS---SKNLVSWNTMLVGYAQH  458 (672)
Q Consensus       382 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~  458 (672)
                      +..+-.++.+.|++++|...++..++.. +.++.+++.+..+|.+.|++++|.+.|+++.   +.+..+|..+...|...
T Consensus        40 ~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  118 (259)
T d1xnfa_          40 LYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYG  118 (259)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHHHHHHHH
Confidence            3334445566666666666666666543 2256677888899999999999999999886   34456888899999999


Q ss_pred             CChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCC----hH
Q 005881          459 GLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQ----TR  533 (672)
Q Consensus       459 g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~----~~  533 (672)
                      |++++|.+.|++..+.  .|+ ......+..++.+.+..+.+..+......   ..+....+. ++..+.....    .+
T Consensus       119 g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~-~~~~~~~~~~~~~~~~  192 (259)
T d1xnfa_         119 GRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK---SDKEQWGWN-IVEFYLGNISEQTLME  192 (259)
T ss_dssp             TCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH---SCCCSTHHH-HHHHHTTSSCHHHHHH
T ss_pred             hhHHHHHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc---cchhhhhhh-HHHHHHHHHHHHHHHH
Confidence            9999999999999885  444 34444444455555555555555544432   222222222 2233222222    22


Q ss_pred             HHHHHHHh-CCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchH
Q 005881          534 RAYEFIKS-SPIEPN-KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAH  585 (672)
Q Consensus       534 ~A~~~~~~-~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  585 (672)
                      .+...+.. ....|+ ..+|..+...+...|++++|...|++++..+|++...|
T Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  246 (259)
T d1xnfa_         193 RLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEH  246 (259)
T ss_dssp             HHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHH
T ss_pred             HHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHH
Confidence            22222111 011232 23566778889999999999999999999999875444

>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=98.92  E-value=6.5e-08  Score=93.19  Aligned_cols=284  Identities=8%  Similarity=-0.067  Sum_probs=168.0

Q ss_pred             HHHHccCChHHHHHHHhhCCC--CC------cccHHHHHHHHHhcCChhHHHHHHHHHHhCCCC-CC----hHHHHHHHH
Q 005881          321 DFYSKCELLEESLKTFDEMDE--HD------VVSWNALIAGHLASCHYGEAIELLKDMLFEGHC-PN----LYTYSNILN  387 (672)
Q Consensus       321 ~~~~~~~~~~~a~~~~~~~~~--~~------~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~-p~----~~t~~~ll~  387 (672)
                      ..+...|++++|...+++..+  |+      ...++.+...|...|++++|+..|++....... ++    ...+..+..
T Consensus        20 ~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   99 (366)
T d1hz4a_          20 QVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE   99 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHH
Confidence            344455555555555554321  11      123444555666666666666666665442111 11    122333444


Q ss_pred             HHcCcCchHHHHHHHHHHHhc----CCCC---cccHHHHHHHHHHhcCCHHHHHHHHhhCCC--------CCchhHHHHH
Q 005881          388 ISSDIPAIEWGKQTHCCIVKP----GFDS---NVVIGSALVDMYAKCGRLNDARKVFDHLSS--------KNLVSWNTML  452 (672)
Q Consensus       388 ~~~~~~~~~~a~~~~~~~~~~----~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~li  452 (672)
                      .+...+++..+...+......    ....   ....+..+...+...|+++.+...+.....        .....+..+.
T Consensus       100 ~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (366)
T d1hz4a_         100 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  179 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHH
Confidence            555666666666666554421    1111   112344566777788888888888776541        1123455566


Q ss_pred             HHHHhcCChHHHHHHHHHHHHC--CCCCCH----HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC--chHHHHHHHH
Q 005881          453 VGYAQHGLGREALEIYSMMQEN--KIKPND----NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP--RMDHIASVVH  524 (672)
Q Consensus       453 ~~~~~~g~~~~A~~~~~~m~~~--g~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p--~~~~~~~l~~  524 (672)
                      ..+...++...+...+.+....  ......    ..+..+...+...|++++|...++.........+  ....+..+..
T Consensus       180 ~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~  259 (366)
T d1hz4a_         180 QCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIAR  259 (366)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHH
Confidence            6777888888888887766542  111111    2355566677888999999998887653211111  2345666888


Q ss_pred             HhhccCChHHHHHHHHhC-------CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC--C-------chHHH
Q 005881          525 LFACRGQTRRAYEFIKSS-------PIEPN-KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPED--T-------SAHIM  587 (672)
Q Consensus       525 ~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~--~-------~~~~~  587 (672)
                      ++...|++++|.+.+++.       +..|+ ...+..+...+...|++++|...+++++++.+..  .       .....
T Consensus       260 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~  339 (366)
T d1hz4a_         260 AQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAMAQ  339 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHH
Confidence            899999999998887652       44443 3366777778999999999999999998865421  1       22334


Q ss_pred             HHHHHHhcCChHHHHHH
Q 005881          588 LSNVYAEANMWDETAKV  604 (672)
Q Consensus       588 l~~~~~~~g~~~~a~~~  604 (672)
                      +...+...++.+++.+-
T Consensus       340 ~~~~l~~~~~l~e~e~~  356 (366)
T d1hz4a_         340 QLRQLIQLNTLPELEQH  356 (366)
T ss_dssp             HHHHHHHTTCSCHHHHH
T ss_pred             HHHHHHhcCCChHHHHH
Confidence            44456666777776553

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.88  E-value=1.1e-07  Score=89.24  Aligned_cols=182  Identities=9%  Similarity=-0.001  Sum_probs=143.2

Q ss_pred             CCHHHHHHHHhhCC----CCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHH
Q 005881          428 GRLNDARKVFDHLS----SKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYF  503 (672)
Q Consensus       428 g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~  503 (672)
                      +..++|..+|++..    ..+...|...+..+...|+++.|..+|+++++.........|..++..+.+.|+.+.|.++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            45678888888754    34556788888999999999999999999998532222346888999999999999999999


Q ss_pred             HHhHHhhCCCC-chHHHHHHHHHh-hccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 005881          504 NSMIRDHGISP-RMDHIASVVHLF-ACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDP  579 (672)
Q Consensus       504 ~~~~~~~~~~p-~~~~~~~l~~~~-~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  579 (672)
                      +.+.+   ..| +...|...+... ...|+.+.|..+|+.. ...| +...|...+..+...|+.+.|+.+|++++...|
T Consensus       158 ~~al~---~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~  234 (308)
T d2onda1         158 KKARE---DARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  234 (308)
T ss_dssp             HHHHT---STTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSS
T ss_pred             HHHHH---hCCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC
Confidence            99873   344 455665555543 4568999999999763 2223 677899999999999999999999999999887


Q ss_pred             CCCc----hHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          580 EDTS----AHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       580 ~~~~----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                      .++.    .|......-...|+.+.+.++.+++.+.-
T Consensus       235 ~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~  271 (308)
T d2onda1         235 LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAF  271 (308)
T ss_dssp             SCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHT
T ss_pred             CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            6543    67777887788999999999999887643

>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=98.72  E-value=4.6e-08  Score=76.39  Aligned_cols=103  Identities=13%  Similarity=0.153  Sum_probs=64.1

Q ss_pred             HHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCC
Q 005881          487 LSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKD  563 (672)
Q Consensus       487 l~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~  563 (672)
                      ...+...|++++|+..|+..++.   .| +...|..++.+|...|++++|++.+++. .+.| ++..|..+..++...|+
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKL---DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhc---CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccC
Confidence            34455666666666666666532   33 4455666666666666666666666542 2233 55566666667777777


Q ss_pred             HHHHHHHHHHHhcCCCCCCchHHHHHHHH
Q 005881          564 LVLGRYAAEKILSTDPEDTSAHIMLSNVY  592 (672)
Q Consensus       564 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  592 (672)
                      +++|+..++++++++|+++.++..+.++.
T Consensus        87 ~~~A~~~~~~a~~~~p~~~~~~~~l~~l~  115 (117)
T d1elwa_          87 FEEAKRTYEEGLKHEANNPQLKEGLQNME  115 (117)
T ss_dssp             HHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHh
Confidence            77777777777777777776666666554

>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=98.70  E-value=3.9e-08  Score=85.99  Aligned_cols=105  Identities=9%  Similarity=-0.069  Sum_probs=56.3

Q ss_pred             CCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHH
Q 005881          478 PNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCL  554 (672)
Q Consensus       478 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l  554 (672)
                      |+...+......+.+.|++++|+..|+.++..   .| +...|..++.+|.+.|++++|++.+++ +.+.| +..+|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~---~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR---NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHH
Confidence            45555555566666666666666666655522   33 345555555555555555555555543 33444 33455555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCCCchH
Q 005881          555 LSGCKTHKDLVLGRYAAEKILSTDPEDTSAH  585 (672)
Q Consensus       555 ~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  585 (672)
                      ..++...|++++|...++++++++|++...+
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~l~p~~~~~~  109 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYSLAKEQRLNF  109 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCcccHHHH
Confidence            5555555555555555555555555444333

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.69  E-value=1.4e-08  Score=97.02  Aligned_cols=245  Identities=8%  Similarity=-0.055  Sum_probs=158.5

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChHHH----HHHHHHHc-------CcCchHHHHHHHHHHHhcCCCCcccHHHHHHHHH
Q 005881          356 ASCHYGEAIELLKDMLFEGHCPNLYTY----SNILNISS-------DIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDMY  424 (672)
Q Consensus       356 ~~~~~~~A~~~~~~m~~~g~~p~~~t~----~~ll~~~~-------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  424 (672)
                      ..+..++|++++++..+.  .|+..+.    ..++....       ..+.++.+...++.+.+... .+...+..+..++
T Consensus        41 ~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~p-k~~~~~~~~~~~~  117 (334)
T d1dcea1          41 AGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP-KSYGTWHHRCWLL  117 (334)
T ss_dssp             TTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCC-CcHHHHHHhhHHH
Confidence            334457888888888764  6765442    12222222       23446677777777776542 2444555555555


Q ss_pred             HhcC--CHHHHHHHHhhCC---CCCchhHHH-HHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHH
Q 005881          425 AKCG--RLNDARKVFDHLS---SKNLVSWNT-MLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEE  498 (672)
Q Consensus       425 ~~~g--~~~~A~~~~~~~~---~~~~~~~~~-li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~  498 (672)
                      ...+  +.++|...++.+.   .++...|.. ....+...+.+++|+..++++++.. +-+...|..+...+...|++++
T Consensus       118 ~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~  196 (334)
T d1dcea1         118 SRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPD  196 (334)
T ss_dssp             HTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCC
T ss_pred             HHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHH
Confidence            5544  4778888887765   334445543 3456667788888888888887743 2334567777777778887777


Q ss_pred             HHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 005881          499 GWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILS  576 (672)
Q Consensus       499 a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  576 (672)
                      |...+......   .|.   ...+...+...+..+++...+.. ....| +...+..+...+...|+..+|...+.++++
T Consensus       197 A~~~~~~~~~~---~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  270 (334)
T d1dcea1         197 SGPQGRLPENV---LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCKELQELEP  270 (334)
T ss_dssp             SSSCCSSCHHH---HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHhHHh---HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            76555444321   121   11222334445555566655543 11222 333455566667778999999999999999


Q ss_pred             CCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          577 TDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       577 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      .+|++..++..++.+|...|++++|.+.+++..+
T Consensus       271 ~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~  304 (334)
T d1dcea1         271 ENKWCLLTIILLMRALDPLLYEKETLQYFSTLKA  304 (334)
T ss_dssp             TCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH
T ss_pred             hCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999875

>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=98.66  E-value=7.7e-08  Score=75.08  Aligned_cols=91  Identities=11%  Similarity=0.068  Sum_probs=81.9

Q ss_pred             HHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCCh
Q 005881          521 SVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMW  598 (672)
Q Consensus       521 ~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  598 (672)
                      .-+..+...|++++|+..|++. ...| +...|..+..++...|++++|+..++++++++|+++.+|..++.+|...|++
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCH
Confidence            3467788999999999999863 4456 6778999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhC
Q 005881          599 DETAKVRKIMKEK  611 (672)
Q Consensus       599 ~~a~~~~~~~~~~  611 (672)
                      ++|...+++..+.
T Consensus        88 ~~A~~~~~~a~~~  100 (117)
T d1elwa_          88 EEAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998753

>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=2e-07  Score=80.09  Aligned_cols=96  Identities=7%  Similarity=-0.003  Sum_probs=47.0

Q ss_pred             chHHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC----------
Q 005881          515 RMDHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDT----------  582 (672)
Q Consensus       515 ~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~----------  582 (672)
                      ++..|..++.+|...|++++|++.|++ +.+.| +...|..+..++.+.|++++|...|+++++..|.+.          
T Consensus        35 ~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~  114 (192)
T d1hh8a_          35 HSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQ  114 (192)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBC
T ss_pred             CHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHHHHHHHHHHhCccCchHHHHHhhhh
Confidence            334444444444444444444444433 12223 333455555555555555555555555554433322          


Q ss_pred             ------chHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          583 ------SAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       583 ------~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                            ..+..++.+|.+.|++++|.+.++...+
T Consensus       115 ~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~  148 (192)
T d1hh8a_         115 FKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  148 (192)
T ss_dssp             CEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence                  2344556666666666666666665543

>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=98.61  E-value=7.5e-07  Score=76.39  Aligned_cols=140  Identities=7%  Similarity=-0.108  Sum_probs=100.1

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHH
Q 005881          421 VDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEG  499 (672)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a  499 (672)
                      ...+...|+++.|.+.|..+..++..+|..+..+|...|++++|++.|++.++.  .|+. ..|..+..++.+.|++++|
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l--dp~~~~a~~~~g~~~~~~g~~~~A   89 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQTEKYDLA   89 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH--hhhhhhhHHHHHHHHHhhccHHHH
Confidence            344667789999999999888888888888889999999999999999998884  4554 5788888888889999999


Q ss_pred             HHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC
Q 005881          500 WHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPN-KVVWRCLLSGCKTHKDLVLGRYAAEKILSTD  578 (672)
Q Consensus       500 ~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  578 (672)
                      ...|++.....  +++...      .+...|           +..+++ ..++..+...+...|++++|.+.+++++++.
T Consensus        90 ~~~~~kAl~~~--~~n~~~------~~~~~~-----------~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          90 IKDLKEALIQL--RGNQLI------DYKILG-----------LQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHHHHTT--TTCSEE------ECGGGT-----------BCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhC--ccCchH------HHHHhh-----------hhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            88888776321  111100      000000           001111 2345566777888999999999999999988


Q ss_pred             CCC
Q 005881          579 PED  581 (672)
Q Consensus       579 p~~  581 (672)
                      |+.
T Consensus       151 ~~~  153 (192)
T d1hh8a_         151 SEP  153 (192)
T ss_dssp             CSG
T ss_pred             CCc
Confidence            864

>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=98.59  E-value=6.3e-08  Score=74.86  Aligned_cols=89  Identities=15%  Similarity=0.065  Sum_probs=78.0

Q ss_pred             HHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCC
Q 005881          520 ASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANM  597 (672)
Q Consensus       520 ~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  597 (672)
                      -.++..+.+.|++++|...|++. ...| +...|..+...+.+.|++++|+..++++++++|+++.++..++.+|...|+
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCC
Confidence            34566777888888888888763 3456 577888899999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHH
Q 005881          598 WDETAKVRKIM  608 (672)
Q Consensus       598 ~~~a~~~~~~~  608 (672)
                      +++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999999875

>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=98.57  E-value=9.1e-08  Score=83.51  Aligned_cols=95  Identities=5%  Similarity=-0.128  Sum_probs=71.5

Q ss_pred             CCchhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHH
Q 005881          443 KNLVSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIAS  521 (672)
Q Consensus       443 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~  521 (672)
                      |+...+......|.+.|++++|+..|++.++.. +-+...|..+..+|.+.|++++|+..|+..+   .+.| +...|..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al---~l~p~~~~a~~~   77 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRAL---ELDGQSVKAHFF   77 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHT---TSCTTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHH---HhCCCcHHHHHH
Confidence            455556666777888888888888888887742 3344567778888888888888888888776   5566 4677888


Q ss_pred             HHHHhhccCChHHHHHHHHh
Q 005881          522 VVHLFACRGQTRRAYEFIKS  541 (672)
Q Consensus       522 l~~~~~~~g~~~~A~~~~~~  541 (672)
                      ++.+|.+.|++++|+..|++
T Consensus        78 lg~~~~~l~~~~~A~~~~~~   97 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQR   97 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHH
Confidence            88888888888888888765

>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=98.54  E-value=4.2e-07  Score=75.47  Aligned_cols=104  Identities=8%  Similarity=0.009  Sum_probs=53.2

Q ss_pred             HHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc
Q 005881          485 GVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEP-NKVVWRCLLSGCKTH  561 (672)
Q Consensus       485 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~  561 (672)
                      .....|.+.|++++|+..|+++.+.   .| +...|..++.+|...|++++|.+.|++. .+.| +..+|..+..++...
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~   91 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMAL   91 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHhhhcccc---chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHc
Confidence            3344555556666666666555522   23 3455555555555555555555555432 2233 334555555555555


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCchHHHHHHH
Q 005881          562 KDLVLGRYAAEKILSTDPEDTSAHIMLSNV  591 (672)
Q Consensus       562 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  591 (672)
                      |++++|...++++++++|+++.++..+..+
T Consensus        92 g~~~eA~~~~~~a~~~~p~~~~~~~~l~~~  121 (159)
T d1a17a_          92 GKFRAALRDYETVVKVKPHDKDAKMKYQEC  121 (159)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            555555555555555555555554444433

>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=98.54  E-value=2.6e-07  Score=76.83  Aligned_cols=89  Identities=13%  Similarity=0.026  Sum_probs=60.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHH
Q 005881          448 WNTMLVGYAQHGLGREALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHL  525 (672)
Q Consensus       448 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~  525 (672)
                      +......|.+.|++++|+..|++.++.  .|+. ..|..+..++...|++++|+..|+.+++   +.| +...|..++.+
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~---~~p~~~~a~~~~g~~   87 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIE---LDKKYIKGYYRRAAS   87 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHH---HcccchHHHHHHHHH
Confidence            344455667777777777777777774  3443 4566677777777777777777777663   244 45677777777


Q ss_pred             hhccCChHHHHHHHHh
Q 005881          526 FACRGQTRRAYEFIKS  541 (672)
Q Consensus       526 ~~~~g~~~~A~~~~~~  541 (672)
                      +...|++++|.+.+++
T Consensus        88 ~~~~g~~~eA~~~~~~  103 (159)
T d1a17a_          88 NMALGKFRAALRDYET  103 (159)
T ss_dssp             HHHTTCHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHH
Confidence            7777777777777765

>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=98.52  E-value=2.3e-07  Score=72.41  Aligned_cols=106  Identities=13%  Similarity=0.057  Sum_probs=78.8

Q ss_pred             HHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCCh---HHHHHHHHhC-CCCCCH---HHHHHHHH
Q 005881          485 GVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQT---RRAYEFIKSS-PIEPNK---VVWRCLLS  556 (672)
Q Consensus       485 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~---~~A~~~~~~~-~~~p~~---~~~~~l~~  556 (672)
                      .+++.+...+++++|.+.|++...   ..| ++.++..++.+|.+.++.   ++|++++++. ...|++   .+|..+..
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~---~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKA---AGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH---HSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHh---hCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            466677777888888888887773   244 567777788888765544   4577777763 344543   26777888


Q ss_pred             HHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHH
Q 005881          557 GCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYA  593 (672)
Q Consensus       557 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  593 (672)
                      +|.+.|++++|+..++++++++|++..+...+..+..
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I~~  117 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLIDK  117 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHHHHH
Confidence            8999999999999999999999999887776655543

>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=98.51  E-value=1.5e-06  Score=80.53  Aligned_cols=191  Identities=12%  Similarity=-0.041  Sum_probs=129.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCCC-----CC----chhHHHHHHHHHhcCChHHHHHHHHHHHHCCC---CCC--HHHH
Q 005881          418 SALVDMYAKCGRLNDARKVFDHLSS-----KN----LVSWNTMLVGYAQHGLGREALEIYSMMQENKI---KPN--DNTF  483 (672)
Q Consensus       418 ~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~~~  483 (672)
                      ....+.|...|++++|.+.|.+...     .+    ..+|+.+..+|.+.|++++|++.+++..+.-.   .+.  ..++
T Consensus        41 ~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~  120 (290)
T d1qqea_          41 VQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFK  120 (290)
T ss_dssp             HHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHH
Confidence            4456678888888888888877652     22    24788889999999999999999988765210   111  2356


Q ss_pred             HHHHHHhh-ccCcHHHHHHHHHHhHHhhC---CCC-chHHHHHHHHHhhccCChHHHHHHHHhCC-CC-------CCH-H
Q 005881          484 IGVLSACV-HIGLVEEGWHYFNSMIRDHG---ISP-RMDHIASVVHLFACRGQTRRAYEFIKSSP-IE-------PNK-V  549 (672)
Q Consensus       484 ~~ll~~~~-~~g~~~~a~~~~~~~~~~~~---~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-------p~~-~  549 (672)
                      ..+...|. ..|++++|.+.++...+-..   ..+ -..++..++..|...|++++|.+.+++.. ..       ... .
T Consensus       121 ~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~  200 (290)
T d1qqea_         121 FELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKD  200 (290)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHH
T ss_pred             HHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHH
Confidence            66666664 46999999999988764321   122 13567889999999999999999997631 11       111 1


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCch-----HHHHHHHHHh--cCChHHHHHHHHHH
Q 005881          550 VWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSA-----HIMLSNVYAE--ANMWDETAKVRKIM  608 (672)
Q Consensus       550 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-----~~~l~~~~~~--~g~~~~a~~~~~~~  608 (672)
                      .+...+..+...|+.+.|...++++.+++|..+..     ...++.++..  .+++++|...|+.+
T Consensus       201 ~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~  266 (290)
T d1qqea_         201 YFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (290)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            23344455678899999999999999999864432     3455556555  34688888888654

>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=98.46  E-value=1.2e-06  Score=73.50  Aligned_cols=86  Identities=13%  Similarity=0.007  Sum_probs=72.6

Q ss_pred             HHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHh
Q 005881          517 DHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAE  594 (672)
Q Consensus       517 ~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  594 (672)
                      ..|..+..+|.+.|++++|+..+++ +.+.| ++.+|..+..++...|++++|+..|+++++++|+++.+...+..++.+
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~  142 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQR  142 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            3567788889999999999998875 34566 677888899999999999999999999999999999999999999877


Q ss_pred             cCChHHHH
Q 005881          595 ANMWDETA  602 (672)
Q Consensus       595 ~g~~~~a~  602 (672)
                      .+...+..
T Consensus       143 ~~~~~~~e  150 (170)
T d1p5qa1         143 IRRQLARE  150 (170)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            76665543

>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=98.35  E-value=3.7e-06  Score=77.74  Aligned_cols=174  Identities=6%  Similarity=-0.050  Sum_probs=129.8

Q ss_pred             CCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCCCH-HHHHHHHHHhhccCcHHHHHHH
Q 005881          428 GRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQEN----KIKPND-NTFIGVLSACVHIGLVEEGWHY  502 (672)
Q Consensus       428 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~~-~~~~~ll~~~~~~g~~~~a~~~  502 (672)
                      +++++|.++|.+           ....|...|++++|.+.|.+..+.    +-+++. .+|..+..+|.+.|++++|.+.
T Consensus        31 ~~~~~Aa~~y~~-----------aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~   99 (290)
T d1qqea_          31 YKFEEAADLCVQ-----------AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDS   99 (290)
T ss_dssp             HHHHHHHHHHHH-----------HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ccHHHHHHHHHH-----------HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            346777766544           577899999999999999988762    222222 4788899999999999999999


Q ss_pred             HHHhHHhhCCCCc----hHHHHHHHHHhhc-cCChHHHHHHHHhC-------CCCC-CHHHHHHHHHHHHhcCCHHHHHH
Q 005881          503 FNSMIRDHGISPR----MDHIASVVHLFAC-RGQTRRAYEFIKSS-------PIEP-NKVVWRCLLSGCKTHKDLVLGRY  569 (672)
Q Consensus       503 ~~~~~~~~~~~p~----~~~~~~l~~~~~~-~g~~~~A~~~~~~~-------~~~p-~~~~~~~l~~~~~~~g~~~~a~~  569 (672)
                      ++...+-..-..+    ...+..++..|.. .|++++|.+.+++.       +..+ -..++..+...+...|++++|..
T Consensus       100 ~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~  179 (290)
T d1qqea_         100 LENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASD  179 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHH
Confidence            9987643221222    3556677777754 69999999998753       2111 13356777888999999999999


Q ss_pred             HHHHHhcCCCCCCc-------hHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          570 AAEKILSTDPEDTS-------AHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       570 ~~~~~~~~~p~~~~-------~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                      .+++++...|.+..       .+...+.++...|+++.|.+.+++..+..
T Consensus       180 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         180 IYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             HHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             HHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            99999998886643       34567778889999999999999886543

>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=98.34  E-value=6.1e-06  Score=68.92  Aligned_cols=111  Identities=5%  Similarity=-0.054  Sum_probs=80.5

Q ss_pred             HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 005881          482 TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTH  561 (672)
Q Consensus       482 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~  561 (672)
                      .+......+.+.|++++|+..|+..+......+....               .-......+    ...+|..+...|.+.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~---------------~~~~~~~~~----~~~~~~nla~~y~k~   75 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSN---------------EEAQKAQAL----RLASHLNLAMCHLKL   75 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCS---------------HHHHHHHHH----HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccch---------------HHHhhhchh----HHHHHHHHHHHHHhh
Confidence            4455566777888888888888877643222221100               000000000    123566677788999


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          562 KDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       562 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      |++++|+..++++++++|+++.++..++.+|...|++++|...++...+.
T Consensus        76 ~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          76 QAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999998763

>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=98.33  E-value=1.1e-06  Score=68.42  Aligned_cols=91  Identities=10%  Similarity=0.029  Sum_probs=75.3

Q ss_pred             HHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcC---CHHHHHHHHHHHhcCCCCC--CchHHHHHHHH
Q 005881          520 ASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHK---DLVLGRYAAEKILSTDPED--TSAHIMLSNVY  592 (672)
Q Consensus       520 ~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~  592 (672)
                      ..++..+...+++++|.+.|++ +...| ++.++..+..++.+.+   +.++|+..++++++.+|.+  ..++..++.+|
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            4577788899999999999986 34455 6678888888877644   5567999999999998854  34789999999


Q ss_pred             HhcCChHHHHHHHHHHhh
Q 005881          593 AEANMWDETAKVRKIMKE  610 (672)
Q Consensus       593 ~~~g~~~~a~~~~~~~~~  610 (672)
                      .+.|++++|.+.++++.+
T Consensus        83 ~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHH
Confidence            999999999999999875

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.26  E-value=8e-06  Score=68.08  Aligned_cols=92  Identities=12%  Similarity=0.087  Sum_probs=73.9

Q ss_pred             HHHHHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHh
Q 005881          517 DHIASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAE  594 (672)
Q Consensus       517 ~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  594 (672)
                      ..|..+..+|.+.|++++|+..+++ +.+.| +..+|..+..++...|++++|+..++++++++|+++.+...+..+...
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~  144 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKK  144 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            3466788889999999999999876 33445 677888889999999999999999999999999999999999888877


Q ss_pred             cCChHH-HHHHHHHH
Q 005881          595 ANMWDE-TAKVRKIM  608 (672)
Q Consensus       595 ~g~~~~-a~~~~~~~  608 (672)
                      .+...+ ..+++..|
T Consensus       145 ~~~~~e~~kk~~~~~  159 (168)
T d1kt1a1         145 AKEHNERDRRTYANM  159 (168)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHH
Confidence            765543 44444444

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.26  E-value=1e-05  Score=66.11  Aligned_cols=132  Identities=11%  Similarity=0.003  Sum_probs=90.1

Q ss_pred             HHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 005881          482 TFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTH  561 (672)
Q Consensus       482 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~  561 (672)
                      .+..-...+.+.|++.+|+..|..+.......+...              -.........    ....++..+...+.+.
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~--------------~~~~~~~~~~----~~~~~~~Nla~~~~~l   80 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWD--------------DQILLDKKKN----IEISCNLNLATCYNKN   80 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCC--------------CHHHHHHHHH----HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhh--------------hHHHHHhhhh----HHHHHHhhHHHHHHHh
Confidence            344555667777888888877777663221111100              0000000000    0123566778888999


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCCccCCceeEEEeCCEEEEEEeccccCCCh
Q 005881          562 KDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLKKDTGCSWTELQNKMHYFSTSRFAQFQG  641 (672)
Q Consensus       562 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  641 (672)
                      |++++|+..++++++++|++..+|..++.+|...|++++|...|++..+                          .+|..
T Consensus        81 ~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~--------------------------l~P~n  134 (153)
T d2fbna1          81 KDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAAS--------------------------LNPNN  134 (153)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--------------------------HSTTC
T ss_pred             cccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH--------------------------hCCCC
Confidence            9999999999999999999999999999999999999999999998765                          24566


Q ss_pred             HHHHHHHHHHHHHHHh
Q 005881          642 IDLHEVMNQLSVHLFD  657 (672)
Q Consensus       642 ~~~~~~l~~~~~~~~~  657 (672)
                      .++...+..+..++.+
T Consensus       135 ~~~~~~l~~~~~kl~~  150 (153)
T d2fbna1         135 LDIRNSYELCVNKLKE  150 (153)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            6666666666666554

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.24  E-value=5.8e-06  Score=69.11  Aligned_cols=109  Identities=11%  Similarity=0.024  Sum_probs=75.5

Q ss_pred             HHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCC-CHHHHHHHHHHHHhc
Q 005881          483 FIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEP-NKVVWRCLLSGCKTH  561 (672)
Q Consensus       483 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~  561 (672)
                      +......+...|++++|+..|.++.+..   +          .........+      ...+.| +...|..+...+.+.
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~---~----------~~~~~~~~~~------~~~~~~~~~~~~~nla~~~~~~   90 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYV---E----------GSRAAAEDAD------GAKLQPVALSCVLNIGACKLKM   90 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHH---H----------HHHHHSCHHH------HGGGHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhh---h----------hhhhhhhhHH------HHHhChhhHHHHHHHHHHHHhh
Confidence            4445556667777877777776655210   0          0000000000      011223 344667777778889


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          562 KDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       562 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      |++++|+..++++++++|+++.+|..++.+|...|++++|.+.+++..+
T Consensus        91 ~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~  139 (169)
T d1ihga1          91 SDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQE  139 (169)
T ss_dssp             TCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999998875

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.18  E-value=6.3e-06  Score=68.88  Aligned_cols=133  Identities=12%  Similarity=0.066  Sum_probs=97.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHH
Q 005881          447 SWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHL  525 (672)
Q Consensus       447 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~  525 (672)
                      .+......+...|++++|++.|.++++.  .+.          ........+.          ..+.| ....+..+..+
T Consensus        29 ~~~~~~~~~~~~~~y~~Ai~~y~~al~~--~~~----------~~~~~~~~~~----------~~~~~~~~~~~~nla~~   86 (169)
T d1ihga1          29 DLKNIGNTFFKSQNWEMAIKKYTKVLRY--VEG----------SRAAAEDADG----------AKLQPVALSCVLNIGAC   86 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHH----------HHHHSCHHHH----------GGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--hhh----------hhhhhhhHHH----------HHhChhhHHHHHHHHHH
Confidence            3455667788999999999999887651  110          0000011110          01123 45677888999


Q ss_pred             hhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHH
Q 005881          526 FACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDET  601 (672)
Q Consensus       526 ~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  601 (672)
                      +.+.|++++|+..+++ +.+.| +...|..+..++...|+++.|+..|+++++++|+++.+...+..++.+.....++
T Consensus        87 ~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~~l~~~~~~  164 (169)
T d1ihga1          87 KLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDK  164 (169)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999976 45566 6668999999999999999999999999999999999998888887665554443

>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=98.14  E-value=2.9e-06  Score=67.02  Aligned_cols=91  Identities=11%  Similarity=0.055  Sum_probs=71.8

Q ss_pred             HHHHHHhhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCch-------HHHHHH
Q 005881          520 ASVVHLFACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSA-------HIMLSN  590 (672)
Q Consensus       520 ~~l~~~~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-------~~~l~~  590 (672)
                      ..++..+.+.|++++|++.|++ +.+.| +..+|..+..++.+.|+++.|+..++++++++|+++..       |..++.
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            3466677777888888777764 23345 57788888889999999999999999999999987654       556677


Q ss_pred             HHHhcCChHHHHHHHHHHhh
Q 005881          591 VYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       591 ~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ++...+++++|.+.+++...
T Consensus        88 ~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHh
Confidence            78888899999999987653

>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=98.11  E-value=0.00028  Score=63.64  Aligned_cols=225  Identities=11%  Similarity=-0.028  Sum_probs=134.7

Q ss_pred             cccHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChHHHHHHHHHHcCcCchHHHHHHHHHHHhcCCCCcccHHHHHHHH
Q 005881          344 VVSWNALIAGHLASCHYGEAIELLKDMLFEGHCPNLYTYSNILNISSDIPAIEWGKQTHCCIVKPGFDSNVVIGSALVDM  423 (672)
Q Consensus       344 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  423 (672)
                      +..+..|...+.+.+++++|++.|++..+.|-   ...+..                                   |..+
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g~---~~A~~~-----------------------------------Lg~~   43 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLKE---NSGCFN-----------------------------------LGVL   43 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC---HHHHHH-----------------------------------HHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCC---HHHHHH-----------------------------------HHHH
Confidence            44556666667777888888888888776652   222211                                   2222


Q ss_pred             HHh----cCCHHHHHHHHhhCCC-CCchhHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH--hhc
Q 005881          424 YAK----CGRLNDARKVFDHLSS-KNLVSWNTMLVGYAQ----HGLGREALEIYSMMQENKIKPNDNTFIGVLSA--CVH  492 (672)
Q Consensus       424 ~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~--~~~  492 (672)
                      |..    ..+...|...+..... .+......+...+..    .++.+.|...+++....|..+. .........  ...
T Consensus        44 y~~G~~~~~d~~~a~~~~~~a~~~~~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a-~~~l~~~~~~~~~~  122 (265)
T d1ouva_          44 YYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEG-CASLGGIYHDGKVV  122 (265)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHH-HHHHHHHHHHCSSS
T ss_pred             HHcCCCcchhHHHHHHhhcccccccccchhhccccccccccccchhhHHHHHHHhhhhhhhhhhH-HHhhcccccCCCcc
Confidence            222    2344555555544432 223333333333332    3466777888887777653222 111111111  223


Q ss_pred             cCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhc----cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCH
Q 005881          493 IGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFAC----RGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKT----HKDL  564 (672)
Q Consensus       493 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~  564 (672)
                      ......+...+.....    ..+...+..|...|..    ..+...+..+++...-..+..+...+...+..    ..|+
T Consensus       123 ~~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~  198 (265)
T d1ouva_         123 TRDFKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNF  198 (265)
T ss_dssp             CCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCH
T ss_pred             cchhHHHHHHhhhhhc----ccccchhhhhhhhhccCCCcccccccchhhhhccccccccccccchhhhcccCcccccch
Confidence            4456667776665442    3355666667777664    45666777777654323466666666655554    5689


Q ss_pred             HHHHHHHHHHhcCCCCCCchHHHHHHHHHh----cCChHHHHHHHHHHhhCCC
Q 005881          565 VLGRYAAEKILSTDPEDTSAHIMLSNVYAE----ANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       565 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~  613 (672)
                      +.|...|+++.+.+  ++.++..|+.+|..    ..+.++|.+.|++..+.|.
T Consensus       199 ~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         199 KEALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             hhhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            99999999998875  67888999999986    4489999999998876554

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.11  E-value=7.7e-06  Score=66.87  Aligned_cols=128  Identities=9%  Similarity=-0.098  Sum_probs=93.4

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHH
Q 005881          446 VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHL  525 (672)
Q Consensus       446 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  525 (672)
                      ..+......+.+.|++.+|+..|.+.+..  -|...           .............        .....+..++.+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~--~~~~~-----------~~~~~~~~~~~~~--------~~~~~~~Nla~~   76 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHTE-----------EWDDQILLDKKKN--------IEISCNLNLATC   76 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTCT-----------TCCCHHHHHHHHH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh--Ccchh-----------hhhhHHHHHhhhh--------HHHHHHhhHHHH
Confidence            35666778889999999999999998873  11110           0000000010011        123467778899


Q ss_pred             hhccCChHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHh
Q 005881          526 FACRGQTRRAYEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAE  594 (672)
Q Consensus       526 ~~~~g~~~~A~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  594 (672)
                      |.+.|++++|++.+++ +.+.| +..+|..+..++...|++++|+..|+++++++|+++.+...+..+..+
T Consensus        77 ~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~k  147 (153)
T d2fbna1          77 YNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNK  147 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            9999999999999876 34556 677999999999999999999999999999999999888877766544

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.07  E-value=4.9e-05  Score=63.10  Aligned_cols=112  Identities=7%  Similarity=-0.042  Sum_probs=78.6

Q ss_pred             HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 005881          481 NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKT  560 (672)
Q Consensus       481 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~  560 (672)
                      ..+......+.+.|++++|...|+.........+....              +. ......+    ....|..+..++..
T Consensus        16 ~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~--------------~~-~~~~~~~----~~~~~~Nla~~~~~   76 (168)
T d1kt1a1          16 AIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSE--------------KE-SKASESF----LLAAFLNLAMCYLK   76 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCH--------------HH-HHHHHHH----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccch--------------hh-hhhcchh----HHHHHHhHHHHHHH
Confidence            34555666677777777777777665532222111100              00 0000000    12345566777899


Q ss_pred             cCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhC
Q 005881          561 HKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEK  611 (672)
Q Consensus       561 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  611 (672)
                      .|++++|+..++++++++|++..++..++.+|...|++++|.+.++++.+.
T Consensus        77 l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          77 LREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             hhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999999998763

>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=98.06  E-value=0.0018  Score=59.33  Aligned_cols=217  Identities=17%  Similarity=0.129  Sum_probs=116.5

Q ss_pred             CCcchhhHHHHHHhcCCChhHHHHHhccCCCCCcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHh
Q 005881            8 PNVITYNHLLLMYVKFSRINDAQKLFDEMPERNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACA   87 (672)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~   87 (672)
                      ||..--..+.+.|-+.|.++.|..+|..+..     |..++..+.+.++++.|.+++.+.      -+..+|..+...|.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d-----~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~   80 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN-----FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACV   80 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC-----HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC-----HHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHH
Confidence            4444444556666678888888888877665     777888888888888887777654      24557777777777


Q ss_pred             cCCChhhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHhhccCC---CCcccHHHHHHHHHhcCChHHHHHH
Q 005881           88 SRGDARSGKEIHGRMYRSGLELNSHVSNCLINMYGKCGLLSSAQFVFDASLE---RNSISWVSLLSSYCQCGEHVHGLKI  164 (672)
Q Consensus        88 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~  164 (672)
                      +......+     .+...+...++.....++..|-..|.++....+++....   .+...++.++..|++.+ .++..+.
T Consensus        81 ~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~-~~kl~e~  154 (336)
T d1b89a_          81 DGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK-PQKMREH  154 (336)
T ss_dssp             HTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTC-HHHHHHH
T ss_pred             hCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhC-hHHHHHH
Confidence            66655433     222233344555566778888888888888888876432   35556777777777654 3343343


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCcc
Q 005881          165 FLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLT  244 (672)
Q Consensus       165 ~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  244 (672)
                      +....      +......+++.|...+-+.                      .++..|.+.|.++.|..+.-.-+ ++..
T Consensus       155 l~~~s------~~y~~~k~~~~c~~~~l~~----------------------elv~Ly~~~~~~~~A~~~~i~~~-~~~~  205 (336)
T d1b89a_         155 LELFW------SRVNIPKVLRAAEQAHLWA----------------------ELVFLYDKYEEYDNAIITMMNHP-TDAW  205 (336)
T ss_dssp             HHHHS------TTSCHHHHHHHHHTTTCHH----------------------HHHHHHHHTTCHHHHHHHHHHST-TTTC
T ss_pred             HHhcc------ccCCHHHHHHHHHHcCChH----------------------HHHHHHHhcCCHHHHHHHHHHcc-hhhh
Confidence            33321      1122334445554444433                      34455556666666655443222 2222


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHH
Q 005881          245 AWSALIGGYAQLGKACEAIDLFVKMF  270 (672)
Q Consensus       245 ~~~~li~~~~~~~~~~~a~~~~~~m~  270 (672)
                      .....+..+.+..+++...+++....
T Consensus       206 ~~~~f~e~~~k~~N~e~~~~~i~~yL  231 (336)
T d1b89a_         206 KEGQFKDIITKVANVELYYRAIQFYL  231 (336)
T ss_dssp             CHHHHHHHHHHCSSTHHHHHHHHHHH
T ss_pred             hHHHHHHHHHccCChHHHHHHHHHHH
Confidence            23344555555555555444444433

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.04  E-value=1.2e-06  Score=87.96  Aligned_cols=146  Identities=9%  Similarity=-0.075  Sum_probs=70.6

Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHh--hccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHH
Q 005881          461 GREALEIYSMMQENKIKPNDNTFIGVLSAC--VHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYE  537 (672)
Q Consensus       461 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~--~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~  537 (672)
                      +..+.+.++...+..-.++..-....+..+  ...+.++.|+..+...   .++.| +...+..+...+.+.|+.++|..
T Consensus        65 y~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~---~~l~~~~~~~~~~lg~~~~~~~~~~~A~~  141 (497)
T d1ya0a1          65 FKNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTV---FNVDLPCRVKSSQLGIISNKQTHTSAIVK  141 (497)
T ss_dssp             THHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC---------------------------------
T ss_pred             HHHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HCCChhhHHHHHHhHHHHHhCCCHHHHHH
Confidence            345556666655543334432222211111  1234455555444322   24444 34566677777777888777776


Q ss_pred             HHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          538 FIKSSPIEPN-KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       538 ~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      .++..- .++ ..++..+...+...|++++|+..|+++++++|++...|..|+.+|...|+..+|...+.+...
T Consensus       142 ~~~~al-~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~  214 (497)
T d1ya0a1         142 PQSSSC-SYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIA  214 (497)
T ss_dssp             -CCHHH-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHS
T ss_pred             HHHHHh-CCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            654321 122 235666777778888888888888888888888888888888888888888888888887654

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.93  E-value=1.9e-05  Score=60.39  Aligned_cols=86  Identities=8%  Similarity=0.007  Sum_probs=51.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhc
Q 005881          451 MLVGYAQHGLGREALEIYSMMQENKIKPN-DNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFAC  528 (672)
Q Consensus       451 li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~  528 (672)
                      +...+.+.|++++|+..|++.+..  .|+ ...|..+..++.+.|++++|+..|+...+   +.| +...+..++..|..
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~---~~p~~~~a~~~la~~y~~   96 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARM---LDPKDIAVHAALAVSHTN   96 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccc--ccccchhhhhhhhhhhhhhhHHHhhcccccccc---cccccccchHHHHHHHHH
Confidence            445566666666666666666663  343 34566666666666666666666666652   234 34556666666666


Q ss_pred             cCChHHHHHHHHh
Q 005881          529 RGQTRRAYEFIKS  541 (672)
Q Consensus       529 ~g~~~~A~~~~~~  541 (672)
                      .|++++|.+.+++
T Consensus        97 ~g~~~~A~~~l~~  109 (112)
T d1hxia_          97 EHNANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHH
Confidence            6666666665553

>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=6e-05  Score=62.92  Aligned_cols=116  Identities=7%  Similarity=-0.096  Sum_probs=81.6

Q ss_pred             HHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 005881          483 FIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHK  562 (672)
Q Consensus       483 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g  562 (672)
                      ...........|++++|.+.|.....-   .+....     .-+....-......-++..    ....+..+...+...|
T Consensus        14 ~~~~g~~~~~~g~~e~A~~~~~~AL~l---~rG~~l-----~~~~~~~w~~~~r~~l~~~----~~~a~~~la~~~~~~g   81 (179)
T d2ff4a2          14 EKTAGVHAAAAGRFEQASRHLSAALRE---WRGPVL-----DDLRDFQFVEPFATALVED----KVLAHTAKAEAEIACG   81 (179)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTT---CCSSTT-----GGGTTSTTHHHHHHHHHHH----HHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhh---Cccccc-----ccCcchHHHHHHHHHHHHH----HHHHHHHHHHHHHHCC
Confidence            334455678889999999999888732   222100     0000000011111111111    2346777888899999


Q ss_pred             CHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          563 DLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       563 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      ++++|...++++++++|.+...|..++.+|...|++++|.+.|+++..
T Consensus        82 ~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~  129 (179)
T d2ff4a2          82 RASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKT  129 (179)
T ss_dssp             CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999998754

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.83  E-value=4.8e-06  Score=67.25  Aligned_cols=125  Identities=10%  Similarity=0.140  Sum_probs=72.9

Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhcc----------CcHHHHHHHHHHhHHhhCCCC-chHHHHHH
Q 005881          455 YAQHGLGREALEIYSMMQENKIKPND-NTFIGVLSACVHI----------GLVEEGWHYFNSMIRDHGISP-RMDHIASV  522 (672)
Q Consensus       455 ~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~----------g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l  522 (672)
                      |-+.+.+++|++.|++..+.  .|+. ..+..+..++...          +.+++|+..|++.+   .+.| +...|..+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~--~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl---~l~P~~~~a~~~l   81 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEAL---LIDPKKDEAVWCI   81 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHH---HHCTTCHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhh--CCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHH---HhcchhhHHHhhH
Confidence            44556677778888777773  4544 4566666665543          33455666666555   2344 34555555


Q ss_pred             HHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHH
Q 005881          523 VHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETA  602 (672)
Q Consensus       523 ~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  602 (672)
                      +.+|...|++.            ++...         ..++++.|...|+++++++|++...+..|....       +|.
T Consensus        82 G~~y~~~g~~~------------~~~~~---------~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~~-------ka~  133 (145)
T d1zu2a1          82 GNAYTSFAFLT------------PDETE---------AKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTA-------KAP  133 (145)
T ss_dssp             HHHHHHHHHHC------------CCHHH---------HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH-------THH
T ss_pred             HHHHHHcccch------------hhHHH---------HHHhHHHhhhhhhcccccCCCHHHHHHHHHHHH-------HHH
Confidence            55554433211            11111         112468899999999999999887777776654       445


Q ss_pred             HHHHHHhhCC
Q 005881          603 KVRKIMKEKS  612 (672)
Q Consensus       603 ~~~~~~~~~~  612 (672)
                      +++.+..+.+
T Consensus       134 ~~~~e~~k~~  143 (145)
T d1zu2a1         134 QLHAEAYKQG  143 (145)
T ss_dssp             HHHHHHHHSS
T ss_pred             HHHHHHHHHh
Confidence            5555554444

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.82  E-value=0.011  Score=53.89  Aligned_cols=249  Identities=8%  Similarity=-0.030  Sum_probs=134.3

Q ss_pred             CCcchHHHHHHHHHcCCCchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHH
Q 005881           39 RNVISWSALISGFSQIGMPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLI  118 (672)
Q Consensus        39 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  118 (672)
                      ||..--..+..-|-+.|.++.|..+|..+..         |..++..+.+.+++..|.++..   +.+   +..+|..+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~---k~~---~~~~~k~~~   76 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGAR---KAN---STRTWKEVC   76 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHH---HHT---CHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHH---HcC---CHHHHHHHH
Confidence            5555555667777788888888888886654         6777777788888777766554   332   566777777


Q ss_pred             HHHHhcCChHHHHHHhhccCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHH
Q 005881          119 NMYGKCGLLSSAQFVFDASLERNSISWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQ  198 (672)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~  198 (672)
                      ..+.+......|.- .......+......++..|-..|.+++...+++..... -.++...++.++..+++.+.    .+
T Consensus        77 ~~l~~~~e~~la~i-~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~~----~k  150 (336)
T d1b89a_          77 FACVDGKEFRLAQM-CGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFKP----QK  150 (336)
T ss_dssp             HHHHHTTCHHHHHH-TTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTCH----HH
T ss_pred             HHHHhCcHHHHHHH-HHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhCh----HH
Confidence            77777665544422 22112224444556777777778888777777765432 23445556666666665432    12


Q ss_pred             HHHHHHHhcCCCcHHHHHHHHHHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh
Q 005881          199 IHSLVFKCALEFDKFVAMGLINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGLMPSE  278 (672)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  278 (672)
                      +.+.+...+.                .=+++.+.++.++     ...|..++-.|.+.|.+++|..++-.   .  .++.
T Consensus       151 l~e~l~~~s~----------------~y~~~k~~~~c~~-----~~l~~elv~Ly~~~~~~~~A~~~~i~---~--~~~~  204 (336)
T d1b89a_         151 MREHLELFWS----------------RVNIPKVLRAAEQ-----AHLWAELVFLYDKYEEYDNAIITMMN---H--PTDA  204 (336)
T ss_dssp             HHHHHHHHST----------------TSCHHHHHHHHHT-----TTCHHHHHHHHHHTTCHHHHHHHHHH---S--TTTT
T ss_pred             HHHHHHhccc----------------cCCHHHHHHHHHH-----cCChHHHHHHHHhcCCHHHHHHHHHH---c--chhh
Confidence            3333322111                1122333333322     22355566667777888877665432   2  3455


Q ss_pred             hhHHHHHHHhhccCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhh
Q 005881          279 VTFSYVLGAFADVKETIGGRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDE  338 (672)
Q Consensus       279 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  338 (672)
                      ......+..+.+..+.+...++.....+.    ++...+.|+......-+..+..+.+++
T Consensus       205 ~~~~~f~e~~~k~~N~e~~~~~i~~yL~~----~p~~i~~lL~~v~~~~d~~r~V~~~~k  260 (336)
T d1b89a_         205 WKEGQFKDIITKVANVELYYRAIQFYLEF----KPLLLNDLLMVLSPRLDHTRAVNYFSK  260 (336)
T ss_dssp             CCHHHHHHHHHHCSSTHHHHHHHHHHHHH----CGGGHHHHHHHHGGGCCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHccCChHHHHHHHHHHHHc----CHHHHHHHHHHhccCCCHHHHHHHHHh
Confidence            55566667777778887777777666653    233345566665555566665555544

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.78  E-value=0.0053  Score=54.76  Aligned_cols=97  Identities=7%  Similarity=-0.161  Sum_probs=60.0

Q ss_pred             hHHHHHHHHHHHccCChHHHHHHHhhCCC-CCcccHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCChHHHHHH-H
Q 005881          313 TFVANTVLDFYSKCELLEESLKTFDEMDE-HDVVSWNALIAGHLA----SCHYGEAIELLKDMLFEGHCPNLYTYSNI-L  386 (672)
Q Consensus       313 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~A~~~~~~m~~~g~~p~~~t~~~l-l  386 (672)
                      +..+..|-..+.+.+++++|.+.|++..+ .+...+..|...|..    ..++..|...+......+...-...+..+ .
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~~~a~~~l~~~~~   81 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYY   81 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccccchhhccccccc
Confidence            45566677778889999999999998764 455566566666665    55777888888877766532221111111 1


Q ss_pred             HHHcCcCchHHHHHHHHHHHhcC
Q 005881          387 NISSDIPAIEWGKQTHCCIVKPG  409 (672)
Q Consensus       387 ~~~~~~~~~~~a~~~~~~~~~~~  409 (672)
                      .......+.+.+...++...+.|
T Consensus        82 ~~~~~~~~~~~a~~~~~~a~~~g  104 (265)
T d1ouva_          82 SGQGVSQNTNKALQYYSKACDLK  104 (265)
T ss_dssp             HTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             cccccchhhHHHHHHHhhhhhhh
Confidence            11223445566666666665554

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.72  E-value=6.6e-05  Score=55.10  Aligned_cols=75  Identities=15%  Similarity=0.057  Sum_probs=54.3

Q ss_pred             HHHHHHHHhhccCChHHHHHHHHhC--------CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHH
Q 005881          518 HIASVVHLFACRGQTRRAYEFIKSS--------PIEPN-KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIML  588 (672)
Q Consensus       518 ~~~~l~~~~~~~g~~~~A~~~~~~~--------~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  588 (672)
                      .+-.++..+.+.|++++|.+.|++.        ...++ ..++..+..++.+.|++++|+..++++++++|+++.++..+
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl   86 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNL   86 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHH
Confidence            3344555666666666666655431        11222 45788889999999999999999999999999999988887


Q ss_pred             HHHH
Q 005881          589 SNVY  592 (672)
Q Consensus       589 ~~~~  592 (672)
                      ..+.
T Consensus        87 ~~~~   90 (95)
T d1tjca_          87 KYFE   90 (95)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6543

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.69  E-value=0.00019  Score=56.16  Aligned_cols=59  Identities=12%  Similarity=-0.032  Sum_probs=38.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhH
Q 005881          448 WNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMI  507 (672)
Q Consensus       448 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  507 (672)
                      +..+...+.+.|++++|++.|++.++.+ +.+...+..+..+|.+.|++++|+..++.++
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al   65 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAI   65 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHH
Confidence            3345566677777777777777777642 2234566667777777777777777777665

>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=97.63  E-value=1.3e-05  Score=64.72  Aligned_cols=96  Identities=15%  Similarity=0.120  Sum_probs=67.1

Q ss_pred             hhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 005881          490 CVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGR  568 (672)
Q Consensus       490 ~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~  568 (672)
                      |-+.+.+++|+..|+...+   +.| +...+..++.+|...+++..+.+                      ..+.+++|+
T Consensus         7 ~~r~~~fe~A~~~~e~al~---~~P~~~~~~~~~g~~l~~~~~~~~~~e----------------------~~~~~~~Ai   61 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYK---SNPLDADNLTRWGGVLLELSQFHSISD----------------------AKQMIQEAI   61 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHHSCHHH----------------------HHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHh---hCCcchHHHHHHHHHHHHhhhhhhhhH----------------------HHHHHHHHH
Confidence            3445566777777776652   244 45566666666555444433332                      224467899


Q ss_pred             HHHHHHhcCCCCCCchHHHHHHHHHhcCC-----------hHHHHHHHHHHhh
Q 005881          569 YAAEKILSTDPEDTSAHIMLSNVYAEANM-----------WDETAKVRKIMKE  610 (672)
Q Consensus       569 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~-----------~~~a~~~~~~~~~  610 (672)
                      ..++++++++|+++.+|..++.+|...|+           +++|.+.|++..+
T Consensus        62 ~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~  114 (145)
T d1zu2a1          62 TKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD  114 (145)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccc
Confidence            99999999999999999999999988764           6788888887765

>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=97.55  E-value=0.00015  Score=59.09  Aligned_cols=62  Identities=15%  Similarity=-0.070  Sum_probs=49.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC-----------CchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          549 VVWRCLLSGCKTHKDLVLGRYAAEKILSTDPED-----------TSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       549 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      .+|+.+..++...|++++|...+++++++.|..           ..++..++.+|...|++++|.+.|++..+
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            467777788888899888888888887654421           23577899999999999999999998875

>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=97.49  E-value=0.00011  Score=65.71  Aligned_cols=126  Identities=12%  Similarity=-0.013  Sum_probs=82.4

Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHhhccCChHH
Q 005881          456 AQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR-MDHIASVVHLFACRGQTRR  534 (672)
Q Consensus       456 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~  534 (672)
                      .+.|++++|+..+++.++.. +-|...+..+...++..|++++|...++...+   +.|+ ...+..+..++...+..++
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~---l~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK---LFPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHhccccHH
Confidence            45688888888888888852 33446788888888888888888888888773   3564 3455555555555555544


Q ss_pred             HHHHHHh--CCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchH
Q 005881          535 AYEFIKS--SPIEPN-KVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAH  585 (672)
Q Consensus       535 A~~~~~~--~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  585 (672)
                      +..-...  ....|+ ...+......+...|+.++|...++++.++.|+.+..+
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~  136 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLA  136 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEE
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCccc
Confidence            4333222  112232 22333344557778899999999999888888766543

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.45  E-value=0.00038  Score=50.83  Aligned_cols=61  Identities=20%  Similarity=-0.024  Sum_probs=52.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC-------CchHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          550 VWRCLLSGCKTHKDLVLGRYAAEKILSTDPED-------TSAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       550 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      .+-.+...+.+.|+++.|...+++++++.|.+       ..++..|+.+|.+.|++++|.+.++++.+
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~   74 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH
Confidence            34467778999999999999999999876643       35688999999999999999999999876

>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=97.39  E-value=0.00012  Score=73.02  Aligned_cols=132  Identities=11%  Similarity=-0.008  Sum_probs=71.6

Q ss_pred             cCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHhhccCChHHH
Q 005881          458 HGLGREALEIYSMMQENKIKPND-NTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPR-MDHIASVVHLFACRGQTRRA  535 (672)
Q Consensus       458 ~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A  535 (672)
                      .+.++.|+..+.....  +.|+. ..+..+...+.+.|+.++|...++....     ++ ...+..+++++...|++++|
T Consensus        99 ~~~Y~~ai~~l~~~~~--l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~-----~~~~~~~~~LG~l~~~~~~~~~A  171 (497)
T d1ya0a1          99 SGFYTQLLQELCTVFN--VDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCS-----YICQHCLVHLGDIARYRNQTSQA  171 (497)
T ss_dssp             HHHHHHHHHHHTC---------------------------------CCHHHH-----HHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHHC--CChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhC-----CCHHHHHHHHHHHHHHcccHHHH
Confidence            3445555554444433  33433 4566667777777888887776665442     22 25677788888888888888


Q ss_pred             HHHHHh-CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcC
Q 005881          536 YEFIKS-SPIEP-NKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEAN  596 (672)
Q Consensus       536 ~~~~~~-~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  596 (672)
                      ...+++ ..+.| +...|+.+...+...|+..+|...|.+++.++|..+.++.+|..++.+..
T Consensus       172 ~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         172 ESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhh
Confidence            888865 34456 45578888888888888888888888888888888888888877776543

>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=97.25  E-value=0.0018  Score=53.56  Aligned_cols=72  Identities=8%  Similarity=0.083  Sum_probs=54.8

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHH----hhCCCCchHH
Q 005881          446 VSWNTMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIR----DHGISPRMDH  518 (672)
Q Consensus       446 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~~~~p~~~~  518 (672)
                      ..+..+...+...|++++|+..+++++... +-+...|..++.++...|+.++|++.|+++.+    ..|+.|...+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            456777888888888888888888888842 33446788888888888888888888887643    3577777654

>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=97.25  E-value=0.001  Score=53.91  Aligned_cols=33  Identities=6%  Similarity=-0.202  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 005881          550 VWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDT  582 (672)
Q Consensus       550 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  582 (672)
                      .+..+..++...|++++|...|++++++.|...
T Consensus       102 a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~~  134 (156)
T d2hr2a1         102 AVYSRALALDGLGRGAEAMPEFKKVVEMIEERK  134 (156)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCC
T ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHhh
Confidence            456677889999999999999999998876443

>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=97.21  E-value=0.00012  Score=65.38  Aligned_cols=120  Identities=15%  Similarity=0.124  Sum_probs=85.5

Q ss_pred             hhccCcHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHhhccCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHH
Q 005881          490 CVHIGLVEEGWHYFNSMIRDHGISP-RMDHIASVVHLFACRGQTRRAYEFIKSS-PIEPN-KVVWRCLLSGCKTHKDLVL  566 (672)
Q Consensus       490 ~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~  566 (672)
                      ..+.|++++|+..+++.++   ..| +...+..++.+|+..|++++|.+.++.. ...|+ ...+..+...+...+..++
T Consensus         6 aL~~G~l~eAl~~l~~al~---~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIK---ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHH---TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHH
Confidence            4567999999999999884   356 7799999999999999999999999864 45674 4455555555544444443


Q ss_pred             HHHHHHHHhc-CCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 005881          567 GRYAAEKILS-TDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKS  612 (672)
Q Consensus       567 a~~~~~~~~~-~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  612 (672)
                      +.....+... .+|++...+...+.++...|+.++|.+.++++.+..
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            3332222222 234444556677888999999999999999887643

>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=95.73  E-value=0.23  Score=36.35  Aligned_cols=141  Identities=8%  Similarity=-0.039  Sum_probs=92.7

Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhccCChHH
Q 005881          455 YAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFACRGQTRR  534 (672)
Q Consensus       455 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  534 (672)
                      +...|..++..++..+....   .+..-|+.++--....-+-+-..+.++.+-+-+.+              ..++++..
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDl--------------s~C~Nlk~   74 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL--------------DKCQNLKS   74 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG--------------GGCSCTHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCc--------------hhhhcHHH
Confidence            34457777777777776652   23334444444444444444455555544322222              23455555


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHhhCCCc
Q 005881          535 AYEFIKSSPIEPNKVVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMKEKSLK  614 (672)
Q Consensus       535 A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  614 (672)
                      ....+-.+.  .+.......++...++|+-+.-..+++.+++.+.-+|+....++.+|.+.|...++.+++.+.-++|++
T Consensus        75 vv~C~~~~n--~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          75 VVECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            555554443  233345566778889999999999999988876668899999999999999999999999999888875

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.40  E-value=0.067  Score=39.76  Aligned_cols=48  Identities=13%  Similarity=0.045  Sum_probs=27.3

Q ss_pred             CHHHHHHHHHHHhcCCCCCC-chHHHHHHHHHhcCChHHHHHHHHHHhh
Q 005881          563 DLVLGRYAAEKILSTDPEDT-SAHIMLSNVYAEANMWDETAKVRKIMKE  610 (672)
Q Consensus       563 ~~~~a~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~  610 (672)
                      +.+.|+.+++.+++.+|.+. ..+..|+-.|.+.|++++|.+.++.+.+
T Consensus        53 d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          53 DERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            34555666666665555432 4555666666666666666666665543

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=95.27  E-value=1.3  Score=42.02  Aligned_cols=265  Identities=9%  Similarity=-0.021  Sum_probs=117.1

Q ss_pred             HHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCC-CCChHHHHHHHHHHcCcCch
Q 005881          317 NTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGH-CPNLYTYSNILNISSDIPAI  395 (672)
Q Consensus       317 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~~~~~~~~~  395 (672)
                      ...+..+.+.++++.....+..-+ .+...-.....+....|+..+|.+.+..+-..|. .|+.                
T Consensus        76 ~~~l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~~----------------  138 (450)
T d1qsaa1          76 SRFVNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPNA----------------  138 (450)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCTH----------------
T ss_pred             HHHHHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCchH----------------
Confidence            344556677777776665443321 2333344566777788888888888877766543 2221                


Q ss_pred             HHHHHHHHHHHhcCCCCcccHHHHHHHHHHhcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 005881          396 EWGKQTHCCIVKPGFDSNVVIGSALVDMYAKCGRLNDARKVFDHLSSKNLVSWNTMLVGYAQHGLGREALEIYSMMQENK  475 (672)
Q Consensus       396 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  475 (672)
                        ...++....+.|.. +...+-.-+......|+...|..+...+...........+.....   ...+....   ..  
T Consensus       139 --c~~l~~~~~~~~~l-t~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~---p~~~~~~~---~~--  207 (450)
T d1qsaa1         139 --CDKLFSVWRASGKQ-DPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANN---PNTVLTFA---RT--  207 (450)
T ss_dssp             --HHHHHHHHHHTTCS-CHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHC---GGGHHHHH---HH--
T ss_pred             --HHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhC---hHhHHHHH---hc--
Confidence              12223333333222 222222333444455677777776666553333333333332221   11111111   11  


Q ss_pred             CCCCHHHHHHHHHHhhc--cCcHHHHHHHHHHhHHhhCCCCch--HHHHHHHHHhhccCChHHHHHHHHhCC-CCCCHHH
Q 005881          476 IKPNDNTFIGVLSACVH--IGLVEEGWHYFNSMIRDHGISPRM--DHIASVVHLFACRGQTRRAYEFIKSSP-IEPNKVV  550 (672)
Q Consensus       476 ~~p~~~~~~~ll~~~~~--~g~~~~a~~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~~~~  550 (672)
                      ..++......+..++.+  ..+.+.|..++........+.++.  .....+...+...+..+.|...+.... ...+...
T Consensus       208 ~~~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~  287 (450)
T d1qsaa1         208 TGATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSL  287 (450)
T ss_dssp             SCCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHH
T ss_pred             CCCChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHH
Confidence            12222222222222222  234555555555554332222211  111122222333444555555544321 1112222


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHHHHHHh
Q 005881          551 WRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKVRKIMK  609 (672)
Q Consensus       551 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  609 (672)
                      ..-.+......++...+...++.+-.-....+...+-++..+...|+.++|...+....
T Consensus       288 ~~w~~~~al~~~~~~~~~~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a  346 (450)
T d1qsaa1         288 IERRVRMALGTGDRRGLNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLM  346 (450)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCChHHHHHHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHHHHHHh
Confidence            22233333444566655555554422222233444555666666666666666665543

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.05  E-value=0.16  Score=38.89  Aligned_cols=50  Identities=14%  Similarity=0.007  Sum_probs=34.7

Q ss_pred             CCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHh----cCChHHHHHHHHHHhhCCC
Q 005881          562 KDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAE----ANMWDETAKVRKIMKEKSL  613 (672)
Q Consensus       562 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~  613 (672)
                      .|.++|...++++.+..  ++.+...|+.+|..    ..+.++|.+.+++..+.|.
T Consensus        73 ~d~~~A~~~~~~aa~~g--~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          73 KDLRKAAQYYSKACGLN--DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             CCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             hhhHHHHHHHhhhhccC--cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            46677777777776654  46667777777776    4577788888877766554

>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=93.97  E-value=0.49  Score=35.91  Aligned_cols=111  Identities=9%  Similarity=-0.038  Sum_probs=69.4

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHHhhc----cCChHHH
Q 005881          460 LGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHLFAC----RGQTRRA  535 (672)
Q Consensus       460 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A  535 (672)
                      |+++|+++|++..+.| .|..  ...|  +.....+.++|..++++..+ .+   ++.....|...|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g-~~~a--~~~l--~~~~~~~~~~a~~~~~~aa~-~g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELN-EMFG--CLSL--VSNSQINKQKLFQYLSKACE-LN---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTH--HHHH--HTCTTSCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCC-Chhh--hhhh--ccccccCHHHHHHHHhhhhc-cc---chhhhhhHHHhhhhccccchhhHHH
Confidence            5677888888877766 2222  2222  23445677888888877653 22   44555556666543    4567888


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHhcCCC
Q 005881          536 YEFIKSSPIEPNKVVWRCLLSGCKT----HKDLVLGRYAAEKILSTDP  579 (672)
Q Consensus       536 ~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~p  579 (672)
                      .++|++....-++.....|...|..    ..|.++|...++++.++..
T Consensus        79 ~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          79 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            8888764222355555555555554    4588899999998887764

>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=93.13  E-value=0.39  Score=35.49  Aligned_cols=71  Identities=6%  Similarity=0.094  Sum_probs=44.5

Q ss_pred             hHHHHHHHHHhhccC---ChHHHHHHHHhC-CCCC-CH-HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHH
Q 005881          516 MDHIASVVHLFACRG---QTRRAYEFIKSS-PIEP-NK-VVWRCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHI  586 (672)
Q Consensus       516 ~~~~~~l~~~~~~~g---~~~~A~~~~~~~-~~~p-~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  586 (672)
                      ..+--..+.++.+..   +.++++.+++++ ...| +. ..+-.|.-+|.+.|+++.|+..++++++++|+|..+..
T Consensus        35 ~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA~~  111 (124)
T d2pqrb1          35 IQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGA  111 (124)
T ss_dssp             HHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             cchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHHHH
Confidence            334444444444433   233445554432 1123 32 46667778899999999999999999999998765543

>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=86.31  E-value=13  Score=34.57  Aligned_cols=350  Identities=10%  Similarity=-0.021  Sum_probs=179.8

Q ss_pred             HHHHhhcCCChhHHHHHHhcCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCC-CCChhhHHHHHHHhhccCCchh
Q 005881          218 LINLYAKCEKLDLASRVFSNIQLPDLTAWSALIGGYAQLGKACEAIDLFVKMFSSGL-MPSEVTFSYVLGAFADVKETIG  296 (672)
Q Consensus       218 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~t~~~ll~~~~~~~~~~~  296 (672)
                      .+..+.+.++.+.....+...+ .+...-.....+....|+.++|...+...-..|. .|+                  .
T Consensus        78 ~l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~------------------~  138 (450)
T d1qsaa1          78 FVNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPN------------------A  138 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCT------------------H
T ss_pred             HHHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCch------------------H
Confidence            3445566677766665554322 2333334566777788888888887777655442 222                  2


Q ss_pred             HHHHHHHHHHhCCCCchHHHHHHHHHHHccCChHHHHHHHhhCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhCCCC
Q 005881          297 GRQLHSLIIKMGFSSFTFVANTVLDFYSKCELLEESLKTFDEMDEHDVVSWNALIAGHLASCHYGEAIELLKDMLFEGHC  376 (672)
Q Consensus       297 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~  376 (672)
                      ...++..+.+.|. .+...+-.-+......|+...|..+...+...........+.....   +..+......   .  .
T Consensus       139 c~~l~~~~~~~~~-lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~---p~~~~~~~~~---~--~  209 (450)
T d1qsaa1         139 CDKLFSVWRASGK-QDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANN---PNTVLTFART---T--G  209 (450)
T ss_dssp             HHHHHHHHHHTTC-SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHC---GGGHHHHHHH---S--C
T ss_pred             HHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhC---hHhHHHHHhc---C--C
Confidence            2334444444432 2233333444555666888888888777665443334444443322   2222211111   1  1


Q ss_pred             CChHHHHHHHHHHcC--cCchHHHHHHHHHHHhcCCCCcccH---HHHHHHHHHhcCCHHHHHHHHhhCC--CCCchhHH
Q 005881          377 PNLYTYSNILNISSD--IPAIEWGKQTHCCIVKPGFDSNVVI---GSALVDMYAKCGRLNDARKVFDHLS--SKNLVSWN  449 (672)
Q Consensus       377 p~~~t~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~  449 (672)
                      ++......+..+..+  ..+.+.+..++..............   ...+...+...+..+.+...+....  ..+.....
T Consensus       210 ~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  289 (450)
T d1qsaa1         210 ATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIE  289 (450)
T ss_dssp             CCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHH
T ss_pred             CChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHH
Confidence            222222222222222  2355566666655544322211111   1112222233455566666555443  22333223


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHHH-hhc
Q 005881          450 TMLVGYAQHGLGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVHL-FAC  528 (672)
Q Consensus       450 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~-~~~  528 (672)
                      -.+......+++..+...+..|.... .-...-.--+..++...|+.++|...|..+..    .++  -|..|... ++.
T Consensus       290 w~~~~al~~~~~~~~~~~~~~l~~~~-~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~----~~~--fYG~LAa~~Lg~  362 (450)
T d1qsaa1         290 RRVRMALGTGDRRGLNTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQ----QRG--FYPMVAAQRIGE  362 (450)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT----SCS--HHHHHHHHHTTC
T ss_pred             HHHHHHHHcCChHHHHHHHHhcCccc-ccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc----CCC--hHHHHHHHHcCC
Confidence            33444556678888888887764321 11223334566778888888888888887651    233  34433322 111


Q ss_pred             cCChHHHHHHHHhCCCCCCH-HHH---HHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhcCChHHHHHH
Q 005881          529 RGQTRRAYEFIKSSPIEPNK-VVW---RCLLSGCKTHKDLVLGRYAAEKILSTDPEDTSAHIMLSNVYAEANMWDETAKV  604 (672)
Q Consensus       529 ~g~~~~A~~~~~~~~~~p~~-~~~---~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  604 (672)
                      .-.+.     ....+..+.. ..-   ..-+..+...|....|...+..+.+..  ++.-...++.+..+.|.++.|+..
T Consensus       363 ~~~~~-----~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~~aI~a  435 (450)
T d1qsaa1         363 EYELK-----IDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWDLSVQA  435 (450)
T ss_dssp             CCCCC-----CCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCCCC-----cCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCChhHHHHH
Confidence            10000     0001111111 111   112344678899999999998887543  456777889999999999999988


Q ss_pred             HHHHh
Q 005881          605 RKIMK  609 (672)
Q Consensus       605 ~~~~~  609 (672)
                      ..+..
T Consensus       436 ~~~~~  440 (450)
T d1qsaa1         436 TIAGK  440 (450)
T ss_dssp             HHHTT
T ss_pred             HHHHH
Confidence            77664

>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=86.07  E-value=4.8  Score=29.30  Aligned_cols=64  Identities=13%  Similarity=-0.069  Sum_probs=39.2

Q ss_pred             cHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhcC
Q 005881          144 SWVSLLSSYCQCGEHVHGLKIFLLSRKSGVAISEFSCASVLGACAVLGNLKVGMQIHSLVFKCAL  208 (672)
Q Consensus       144 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  208 (672)
                      -.+..+..+.++|+-+.-.++++.+.+. -+|++.....+..+|.+.|+..++.+++.+.-+.|.
T Consensus        88 ~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          88 HVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            3445566666666666666666665553 355666666666666677766666666666666554

>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=84.53  E-value=4.2  Score=27.99  Aligned_cols=64  Identities=16%  Similarity=0.045  Sum_probs=48.0

Q ss_pred             CchhHHHHHHHhHhCCCCCCcccHHHHHHHHhcCCChhhHHHHHHHHHHhCCCCChhHHHHHHHH
Q 005881           56 MPEVALNYFRLMVCCVLEPNYYTYVGAVSACASRGDARSGKEIHGRMYRSGLELNSHVSNCLINM  120 (672)
Q Consensus        56 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  120 (672)
                      +.-+..+-++.+....+-|++....+.+++|-+.+++..|.++++-++... .++..+|..+++-
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yilqe   84 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQE   84 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHHHH
Confidence            334566667777777788999999999999999999999999998887553 3345566666543

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=82.12  E-value=4.2  Score=27.99  Aligned_cols=63  Identities=13%  Similarity=0.172  Sum_probs=47.2

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCcHHHHHHHHHHhHHhhCCCCchHHHHHHHH
Q 005881          460 LGREALEIYSMMQENKIKPNDNTFIGVLSACVHIGLVEEGWHYFNSMIRDHGISPRMDHIASVVH  524 (672)
Q Consensus       460 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  524 (672)
                      +.-++.+-++.+....+.|++....+.+.||.+.+++..|.++|+....+.+  ++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~--~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CcHHHHHHHHH
Confidence            3445666677777777899999999999999999999999999988765443  33455655543